Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168448.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_66, 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: 135078
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
File 1 of 4
Found at i:584 original size:19 final size:20
Alignment explanation
Indices: 557--597 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
547 TATTTATTTA
*
557 ATTATCTATTACTTAT-TAAT
1 ATTATCTA-TAATTATATAAT
577 ATTA-CTATAATTATATAAT
1 ATTATCTATAATTATATAAT
596 AT
1 AT
598 AATTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATCTATAATTATATAAT
Found at i:797 original size:24 final size:24
Alignment explanation
Indices: 752--798 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
742 TATAGTTTTG
*
752 TTAATAATTATTGTTAATATTTAT
1 TTAATAATTATTGTCAATATTTAT
*
776 TTAATTATTATT-TCAATAATTTA
1 TTAATAATTATTGTCAAT-ATTTA
799 AATATAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTAATAATTATTGTCAATATTTAT
Found at i:860 original size:23 final size:22
Alignment explanation
Indices: 826--877 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
816 TATTTGATAT
*
826 ATATTATTAAATTAAT-ATAGTTA
1 ATATTATCAAA-TAATAATA-TTA
849 ATATTATCAAATAATAATATTA
1 ATATTATCAAATAATAATATTA
871 ATTATTA
1 A-TATTA
878 ATATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTATCAAATAATAATATTA
Found at i:898 original size:15 final size:17
Alignment explanation
Indices: 810--906 Score: 59
Period size: 16 Copynumber: 6.1 Consensus size: 17
800 ATATAGTTTC
*
810 TATTAATATT-TGATATA
1 TATTAATATTATTA-ATA
* *
827 TATTATTA-AATTAATA
1 TATTAATATTATTAATA
*
843 TAGTTAATATTA-TCA-A
1 TA-TTAATATTATTAATA
*
859 -A-TAATAATATTAAT-
1 TATTAATATTATTAATA
873 TATTAATATTATTAATA
1 TATTAATATTATTAATA
*
890 T-TTAA-ATTAATAATA
1 TATTAATATTATTAATA
905 TA
1 TA
907 ATTTATTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.11
14 2 0.03
15 12 0.20
16 22 0.36
17 17 0.28
18 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTAATATTATTAATA
Found at i:1009 original size:19 final size:20
Alignment explanation
Indices: 963--1027 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
953 ACTATATAAT
* **
963 ATAAATAT-ATTAGTAACAA
1 ATAAATATAATTAATAATTA
982 ATAAAATATAATTAAT-ATTA
1 AT-AAATATAATTAATAATTA
*
1002 ATAAATATTATTAATAAATTA
1 ATAAATATAATTAAT-AATTA
1023 ATAAA
1 ATAAA
1028 ATATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 14 0.37
20 10 0.26
21 14 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAATATAATTAATAATTA
Found at i:1032 original size:19 final size:21
Alignment explanation
Indices: 981--1033 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
971 ATTAGTAACA
981 AATAAAATA-TAATTAATATT
1 AATAAAATATTAATTAATATT
1001 AAT-AAATATT-ATTAATAAATT
1 AATAAAATATTAATTAAT--ATT
1022 AATAAAATATTA
1 AATAAAATATTA
1034 TTTTGTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 6 0.21
22 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAATATTAATTAATATT
Found at i:1127 original size:18 final size:18
Alignment explanation
Indices: 1089--1132 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1079 TGCTGTCAGT
*
1089 ATTAATAATTAATAAATA
1 ATTAATAATTAATAAACA
* *
1107 ATTAATAATTATTTAACA
1 ATTAATAATTAATAAACA
1125 ATTTAATA
1 A-TTAATA
1133 TATAATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAATAATTAATAAACA
Found at i:1137 original size:23 final size:25
Alignment explanation
Indices: 1111--1173 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
1101 TAAATAATTA
*
1111 ATAATTATTTAACA-ATTTAATA-T
1 ATAATTATTTAACATAATTAATATT
*
1134 ATAA-TA-TTAATATAATTAATATT
1 ATAATTATTTAACATAATTAATATT
*
1157 ATAATT-TTTAATATAAT
1 ATAATTATTTAACATAAT
1174 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.15
22 9 0.26
23 9 0.26
24 11 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATTATTTAACATAATTAATATT
Found at i:1167 original size:15 final size:15
Alignment explanation
Indices: 1149--1184 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1139 ATTAATATAA
*
1149 TTAATATTATAATTT
1 TTAATATAATAATTT
1164 TTAATATAATAATTT
1 TTAATATAATAATTT
*
1179 TAAATA
1 TTAATA
1185 ATCAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATATAATAATTT
Found at i:1181 original size:14 final size:14
Alignment explanation
Indices: 1149--1191 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1139 ATTAATATAA
*
1149 TTAATATTATAATTT
1 TTAATATAATAA-TT
1164 TTAATATAATAATT
1 TTAATATAATAATT
1178 TTAA-ATAATCAATT
1 TTAATATAAT-AATT
1192 AAATCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 10 0.38
15 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATATAATAATT
Found at i:1477 original size:8 final size:8
Alignment explanation
Indices: 1466--1507 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
1456 TCATAACTTG
1466 ATAATATT
1 ATAATATT
1474 ATAACTATT
1 ATAA-TATT
1483 ATAATATT
1 ATAATATT
*
1491 ATTAT-TT
1 ATAATATT
1498 GATAATATT
1 -ATAATATT
1507 A
1 A
1508 ACTATAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 2 0.07
8 17 0.59
9 10 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (8 bp):
ATAATATT
Found at i:1479 original size:16 final size:16
Alignment explanation
Indices: 1458--1507 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1448 TAATAGTATC
1458 ATAACTTGATAATATT
1 ATAACTTGATAATATT
*
1474 ATAACTATTATAATATT
1 ATAACT-TGATAATATT
* *
1491 ATTATTTGATAATATT
1 ATAACTTGATAATATT
1507 A
1 A
1508 ACTATAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (16 bp):
ATAACTTGATAATATT
Found at i:1712 original size:13 final size:13
Alignment explanation
Indices: 1696--1752 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
1686 ATTATGATAA
1696 TAATTAATATTAT
1 TAATTAATATTAT
*
1709 TAATTAATATTTT
1 TAATTAATATTAT
1722 ATAATTAAT-TTA-
1 -TAATTAATATTAT
*
1734 TAATTTATATTAT
1 TAATTAATATTAT
*
1747 AAATTA
1 TAATTA
1753 TTAAATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 7 0.19
12 3 0.08
13 18 0.50
14 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTAATATTAT
Found at i:1740 original size:80 final size:76
Alignment explanation
Indices: 1655--1806 Score: 171
Period size: 80 Copynumber: 1.9 Consensus size: 76
1645 TATAAGTAAC
* * * *
1655 AATTTATAGTATGACTAGAAT-AATATAATATATTATGATAATAATTAATATTATTAATTAATAT
1 AATTTATAGTATAAAT-GAATAAATATAATATATTATGAT--TAATTAATAATA-TAATTAAAAT
*
1719 TTTATAATTAATTTAT
62 ATT-TAATTAATTTAT
* * * *
1735 AATTTATATTATAAATTATTAAATATAATATATTATGATTTATTAATAATATAATTAAAATATTT
1 AATTTATAGTATAAATGAATAAATATAATATATTATGATTAATTAATAATATAATTAAAATATTT
1800 AATTAAT
66 AATTAAT
1807 AATTAGTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
76 8 0.13
77 11 0.18
78 10 0.16
79 2 0.03
80 31 0.50
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (76 bp):
AATTTATAGTATAAATGAATAAATATAATATATTATGATTAATTAATAATATAATTAAAATATTT
AATTAATTTAT
Found at i:1763 original size:26 final size:28
Alignment explanation
Indices: 1673--1790 Score: 74
Period size: 26 Copynumber: 4.4 Consensus size: 28
1663 GTATGACTAG
*
1673 AATAATATAA--TATATTATGATAATAATT
1 AATAATATAATTTATATTAT-A-AATTATT
* * * *
1701 AATATTATTAATTAATATT-T-TATAATT
1 AATAATA-TAATTTATATTATAAATTATT
*
1728 AAT-TTATAATTTATATTATAAATTATT
1 AATAATATAATTTATATTATAAATTATT
* *
1755 -A-AATATAA--TATATTATGATTTATT
1 AATAATATAATTTATATTATAAATTATT
1779 AATAATATAATT
1 AATAATATAATT
1791 AAAATATTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
24 14 0.20
25 11 0.15
26 17 0.24
27 14 0.20
28 6 0.08
29 3 0.04
30 1 0.01
31 5 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AATAATATAATTTATATTATAAATTATT
Found at i:1766 original size:24 final size:26
Alignment explanation
Indices: 1703--1789 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 26
1693 TAATAATTAA
* *
1703 TATTATTAAT-TAATATTTTAT-AAT
1 TATTAATAATATAATATATTATAAAT
*
1727 TAATTTATAAT-T--TATATTATAAAT
1 T-ATTAATAATATAATATATTATAAAT
* *
1751 TATT-A-AATATAATATATTATGATT
1 TATTAATAATATAATATATTATAAAT
1775 TATTAATAATATAAT
1 TATTAATAATATAAT
1790 TAAAATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.06
22 2 0.04
23 10 0.20
24 19 0.37
25 9 0.18
26 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
TATTAATAATATAATATATTATAAAT
Found at i:7649 original size:564 final size:564
Alignment explanation
Indices: 6581--7709 Score: 2197
Period size: 564 Copynumber: 2.0 Consensus size: 564
6571 ATATACAAAA
6581 TATATCTCAAACATTAAACACAATATCAACAAGCATGAGGAATATATTAAAATCATACATTCAAA
1 TATATCTCAAACATTAAACACAATATCAACAAGCATGAGGAATATATTAAAATCATACATTCAAA
6646 GAATAAATAAACGCATACTTAACTCAAGCTCACATTTTCTCAAGATCATGCAACACAAGTCTTGT
66 GAATAAATAAACGCATACTTAACTCAAGCTCACATTTTCTCAAGATCATGCAACACAAGTCTTGT
6711 AATCAATGTCAACCAAATTTTGCATAATCAATCAAGCTTTCAAATTTCATCAAGAATAGGTAACC
131 AATCAATGTCAACCAAATTTTGCATAATCAATCAAGCTTTCAAATTTCATCAAGAATAGGTAACC
*
6776 AAATTCAAATTCTCTTCAAATAAAAGTTTAGAGGTTACCCATCTCCATTGTGTGTTTAGAGTATT
196 AAATTCAAATTCTCTTCAAATAAAAGTTTAGAGGTTACCCATCTCCATTGTGTGTCTAGAGTATT
6841 TAATCTTCAATCCCACATCCTTTTCAAAGGAATGCAAGACTCTTTTATGCACATTGTCATTCATT
261 TAATCTTCAATCCCACATCCTTTTCAAAGGAATGCAAGACTCTTTTATGCACATTGTCATTCATT
6906 CATTATCATTTCAAATTATGACAATTATAATGCAATCAGACATTTTCTCAATTTATTTTTAAGGA
326 CATTATCATTTCAAATTATGACAATTATAATGCAATCAGACATTTTCTCAATTTATTTTTAAGGA
6971 TCTAAGAATAAAATAGCACATGGTGAATTAGGAGAAAGGCAATCAATGAAGAGCGAGTTTGGTAC
391 TCTAAGAATAAAATAGCACATGGTGAATTAGGAGAAAGGCAATCAATGAAGAGCGAGTTTGGTAC
7036 AAAAACAAATAGGGAAAGAAACAAGTTGGATGAATGGTATATCTAAACAATGAATATTCAGACAA
456 AAAAACAAATAGGGAAAGAAACAAGTTGGATGAATGGTATATCTAAACAATGAATATTCAGACAA
7101 TTTTAAACATTAATTCAAGATTCTTTTTCAAAAACTCATTCCAT
521 TTTTAAACATTAATTCAAGATTCTTTTTCAAAAACTCATTCCAT
* *
7145 TATATCTCAAGCATTAAACACAATATCAACAAGCATGAGTAATATATTAAAATCATACATTCAAA
1 TATATCTCAAACATTAAACACAATATCAACAAGCATGAGGAATATATTAAAATCATACATTCAAA
7210 GAATAAATAAACGCATACTTAACTCAAGCTCACATTTTCTCAAGATCATGCAACACAAGTCTTGT
66 GAATAAATAAACGCATACTTAACTCAAGCTCACATTTTCTCAAGATCATGCAACACAAGTCTTGT
7275 AATCAATGTCAACCAAATTTTGCATAATCAATCAAGCTTTCAAATTTCATCAAGAATAGGTAACC
131 AATCAATGTCAACCAAATTTTGCATAATCAATCAAGCTTTCAAATTTCATCAAGAATAGGTAACC
7340 AAATTCAAATTCTCTTCAAATAAAAGTTTAGAGGTTACCCATCTCCA-TGATGTGTCTAGAGTAT
196 AAATTCAAATTCTCTTCAAATAAAAGTTTAGAGGTTACCCATCTCCATTG-TGTGTCTAGAGTAT
* *
7404 TTAATCTTCAATCTCACATTCTTTTCAAAGGAATGCAAGACTCTTTTATGCACATTGTCATTCAT
260 TTAATCTTCAATCCCACATCCTTTTCAAAGGAATGCAAGACTCTTTTATGCACATTGTCATTCAT
7469 TCATTATCATTTCAAATTATGACAATTATAATGCAATCAGACATTTTCTCAATTTATTTTTAAGG
325 TCATTATCATTTCAAATTATGACAATTATAATGCAATCAGACATTTTCTCAATTTATTTTTAAGG
7534 ATCTAAGAATAAAATAGCACATGGTGAATTAGGAGAAAGGCAATCAATGAAGAGCGAGTTTGGTA
390 ATCTAAGAATAAAATAGCACATGGTGAATTAGGAGAAAGGCAATCAATGAAGAGCGAGTTTGGTA
7599 CAAAAACAAATAGGGAAAGAAACAAGTTGGATGAATGGTATATCTAAACAATGAATATTCAGACA
455 CAAAAACAAATAGGGAAAGAAACAAGTTGGATGAATGGTATATCTAAACAATGAATATTCAGACA
7664 ATTTTAAACATTAATTCAAGATTCTTTTTCAAAAACTCATTCCAT
520 ATTTTAAACATTAATTCAAGATTCTTTTTCAAAAACTCATTCCAT
7709 T
1 T
7710 GACTGTCAAA
Statistics
Matches: 559, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
563 2 0.00
564 557 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (564 bp):
TATATCTCAAACATTAAACACAATATCAACAAGCATGAGGAATATATTAAAATCATACATTCAAA
GAATAAATAAACGCATACTTAACTCAAGCTCACATTTTCTCAAGATCATGCAACACAAGTCTTGT
AATCAATGTCAACCAAATTTTGCATAATCAATCAAGCTTTCAAATTTCATCAAGAATAGGTAACC
AAATTCAAATTCTCTTCAAATAAAAGTTTAGAGGTTACCCATCTCCATTGTGTGTCTAGAGTATT
TAATCTTCAATCCCACATCCTTTTCAAAGGAATGCAAGACTCTTTTATGCACATTGTCATTCATT
CATTATCATTTCAAATTATGACAATTATAATGCAATCAGACATTTTCTCAATTTATTTTTAAGGA
TCTAAGAATAAAATAGCACATGGTGAATTAGGAGAAAGGCAATCAATGAAGAGCGAGTTTGGTAC
AAAAACAAATAGGGAAAGAAACAAGTTGGATGAATGGTATATCTAAACAATGAATATTCAGACAA
TTTTAAACATTAATTCAAGATTCTTTTTCAAAAACTCATTCCAT
Found at i:8160 original size:21 final size:21
Alignment explanation
Indices: 8134--8177 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8124 TACGACTTTT
*
8134 TAATAATTATTAAAATATTAA
1 TAATAATTAATAAAATATTAA
*
8155 TAATAATTAATAAATTATTAA
1 TAATAATTAATAAAATATTAA
8176 TA
1 TA
8178 TAAACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATAATTAATAAAATATTAA
Found at i:8171 original size:18 final size:18
Alignment explanation
Indices: 8133--8177 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
8123 TTACGACTTT
*
8133 TTAATAATTATTAAAATA
1 TTAATAATAATTAAAATA
8151 TTAATAATAATTAATAA-A
1 TTAATAATAATTAA-AATA
*
8169 TTATTAATA
1 TTAATAATA
8178 TAAACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATAATAATTAAAATA
Found at i:9384 original size:4 final size:4
Alignment explanation
Indices: 9375--9413 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
9365 AGTATCAACT
*
9375 ATTA ATTA ATAA ATTA A-TA ATTA ATTA TATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATTA ATTA ATT
9414 TAGTTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:9526 original size:14 final size:15
Alignment explanation
Indices: 9507--9535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9497 TAATTATTAA
9507 TTTTTATTAT-ATAT
1 TTTTTATTATGATAT
9521 TTTTTATTATGATAT
1 TTTTTATTATGATAT
9536 ATAGTTATTA
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:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTATTATGATAT
Found at i:9722 original size:25 final size:25
Alignment explanation
Indices: 9692--9745 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9682 ATTGTTCAAA
9692 TATATAATATTATAATATAAA-T-AAT
1 TATATAA-ATTATAAT-TAAATTAAAT
*
9717 TATATAAATTGTAATTAAATTAAAT
1 TATATAAATTATAATTAAATTAAAT
9742 TATA
1 TATA
9746 ATTAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.15
24 8 0.31
25 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATATAAATTATAATTAAATTAAAT
Found at i:9742 original size:16 final size:16
Alignment explanation
Indices: 9712--9756 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9702 TATAATATAA
*
9712 ATAATTATA-TAAATT
1 ATAATTAAATTAAATT
*
9727 GTAATTAAATTAAATT
1 ATAATTAAATTAAATT
*
9743 ATAATTAATTTAAA
1 ATAATTAAATTAAA
9757 AATTATCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAATTAAATTAAATT
Found at i:9800 original size:14 final size:14
Alignment explanation
Indices: 9781--9839 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
9771 TAATTTACAA
9781 TTATAATATTAATT
1 TTATAATATTAATT
9795 TTATAATATTAATT
1 TTATAATATTAATT
*
9809 ATA-ATATATTACAATAT
1 TTATA-ATATT--AAT-T
9826 TTATAAT-TTAATT
1 TTATAATATTAATT
9839 T
1 T
9840 AACTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
13 3 0.08
14 24 0.63
16 5 0.13
17 5 0.13
18 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATATTAATT
Found at i:9891 original size:21 final size:19
Alignment explanation
Indices: 9843--9884 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9833 TTAATTTAAC
*
9843 TAATATAAAAATAATATTT
1 TAATATAAAAATAATATTA
9862 TAATATAAAAATAATA-TA
1 TAATATAAAAATAATATTA
9880 TAATA
1 TAATA
9885 ATCTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATATAAAAATAATATTA
Found at i:9963 original size:22 final size:23
Alignment explanation
Indices: 9895--9963 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 23
9885 ATCTAAATTA
*
9895 TATTCAATATTATTAT-ATTAAACT
1 TATT-AAT-TTATTATAATTAAAAT
* * *
9919 TATTCATTTATAATTAAAT-AAAT
1 TATTAATTTATTA-TAATTAAAAT
9942 TA-TAATTTATTATAATTAAAAT
1 TATTAATTTATTATAATTAAAAT
9964 AAAATAATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
21 4 0.11
22 17 0.49
23 8 0.23
24 6 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTAATTTATTATAATTAAAAT
Found at i:9978 original size:27 final size:25
Alignment explanation
Indices: 9926--9982 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
9916 ACTTATTCAT
*
9926 TTATAATTAAATAAATTATAATTTA
1 TTATAATTAAATAAATAATAATTTA
9951 TTATAATTAAAATAAAATAATCAA-TTA
1 TTATAATT-AAAT-AAATAAT-AATTTA
9978 TTATA
1 TTATA
9983 TATATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.29
26 4 0.14
27 14 0.50
28 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TTATAATTAAATAAATAATAATTTA
Found at i:10040 original size:24 final size:24
Alignment explanation
Indices: 9995--10049 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
9985 TATTTAAATT
* *
9995 ATAAATA--TTAATAATTATTTTA
1 ATAAATATTTTAATAATCAATTTA
*
10017 ATGAATATTTTAATAATCAATTTA
1 ATAAATATTTTAATAATCAATTTA
*
10041 TTAAATATT
1 ATAAATATT
10050 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 6 0.23
24 20 0.77
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATAAATATTTTAATAATCAATTTA
Found at i:11211 original size:33 final size:33
Alignment explanation
Indices: 11134--11217 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
11124 TCAATATTAC
*
11134 AATAATTATAATAATATTTAATCTTCATTTATA
1 AATAATTATAATAATATCTAATCTTCATTTATA
*
11167 AATATAGTATAATAATATCTAAT-TT-A-TTAGTTA
1 AATA-ATTATAATAATATCTAATCTTCATTTA--TA
11200 AATTAATTATAATAATAT
1 AA-TAATTATAATAATAT
11218 GTAAATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
31 3 0.07
32 1 0.02
33 22 0.50
34 18 0.41
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (33 bp):
AATAATTATAATAATATCTAATCTTCATTTATA
Found at i:11266 original size:19 final size:19
Alignment explanation
Indices: 11244--11284 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11234 ATAATTTTCA
* *
11244 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
11263 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
11282 AAA
1 AAA
11285 CAACAATTAT
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:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:11558 original size:30 final size:31
Alignment explanation
Indices: 11481--11558 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 31
11471 AATTATAATA
11481 ATTATAATATAATATTACAAAAGGATTAAGTT
1 ATTATAAT-TAATATTACAAAAGGATTAAGTT
* * *
11513 ATTATATTTATTATTAGAACAA-G-TTAA-TT
1 ATTATAATTAATATTACAA-AAGGATTAAGTT
11542 ACTTATAATTAATATTA
1 A-TTATAATTAATATTA
11559 TTTATAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.08
30 17 0.44
31 10 0.26
32 9 0.23
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTATAATTAATATTACAAAAGGATTAAGTT
Found at i:12252 original size:182 final size:180
Alignment explanation
Indices: 11747--12319 Score: 617
Period size: 182 Copynumber: 3.2 Consensus size: 180
11737 TTAATAAGAC
* * * * * * *
11747 AATTAATATGTAAA-ATATTTAAAAAATAAATCTATTTATCGAACAAATTCAAATCGTTATGACT
1 AATTAATAAGTAAAGA-ATTAAAAAAATAAATATGTTTATCAAACAAGTTCAAATAGTTATGACT
* * * *
11811 ATTTGAATAATTATTTATTTTAAATTC-TTATGACTTTTTTGTTTT-TTCATAAAACAATTGTTT
65 ATTTGAATAATTATCTATTTCAAA-TCATTATAAC-ATTTTGTTTTGTT-ATAAAACAATTGTTT
* * * * * * * *
11874 CCATCCATACATGCTTATTCGAATTAAAATAATATTGATTTATTAATATTTCAAC
127 CAATTCATTCAAGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTTCAAA
* * *
11929 AATTAATAAGTAAAAGATTTTAAAAAAAT--A-A-GTTTACCAAACAAGTTCAAATAGTCATGAC
1 AATTAATAAGT-AAAGA-ATTAAAAAAATAAATATGTTTATCAAACAAGTTCAAATAGTTATGAC
* * *
11990 TATTTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAATTGTTTCA
64 TATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTTATAAAACAATTGTTTCA
*
12055 ATTCATGT-TAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
129 ATTCAT-TCAAGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTTCAAA
* *
12108 AATTAAAAAGTAAGAGAATTAAAAAAATAAATATGTTTATCAAATAAGTTCAAATAGTTATGACT
1 AATTAATAAGTAA-AGAATTAAAAAAATAAATATGTTTATCAAACAAGTTCAAATAGTTATGACT
* * * * * *
12173 ATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTTATAAAATAATTGGTTCT
65 AT-TTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTTATAAAACAATTGTTTCA
* * *
12237 ATTCATTCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATGTTCCAAA
129 ATTCATTCAAGCTTATTTGAAATAAAATAATAT-AATTTATTAATATTTCAAA
**
12290 AATTAATAAGTAAA-AATTTTAAAAATAAAT
1 AATTAATAAGTAAAGAATTAAAAAAATAAAT
12320 TTATTTAAAA
Statistics
Matches: 330, Mismatches: 48, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
178 12 0.04
179 83 0.25
180 67 0.20
181 4 0.01
182 148 0.45
183 5 0.02
184 11 0.03
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (180 bp):
AATTAATAAGTAAAGAATTAAAAAAATAAATATGTTTATCAAACAAGTTCAAATAGTTATGACTA
TTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTTATAAAACAATTGTTTCAAT
TCATTCAAGCTTATTTGAAATAAAATAATATAATTTATTAATATTTCAAA
Found at i:13278 original size:179 final size:178
Alignment explanation
Indices: 12868--13348 Score: 454
Period size: 181 Copynumber: 2.7 Consensus size: 178
12858 GTTTTAAAAA
* * * *
12868 ATTAATTTTTGAAACATTAATAAATTTATATTATTTT-ATTTGAAATAAGCTTGAATGAATAGAA
1 ATTAATTTTTGAAATATTAATAAATTAATATTATTTTAATTCG-AATAAGC-TAAATGAATAGAA
* ** *
12932 CCAATTGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAGATAATTATTAAGATAGTCA
64 ACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTAAGATAGTCA
* * * *
12997 TAAGTATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAATTCTCTTACTT
129 TAACTATTTGAACTTGTTAGATAAAC--A-TTATTTTTTAAAATCTCTTACTT
* * * * * *
13050 TTTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTAACATGAATTGAAA
1 ATTAATTTTTGAAATATTAATAAATTAATATTATTTTAATTCGAATAAGCTAA-ATGAATAGAAA
* * *
13115 CAATTG-TTTATTACAACAA-AAAATGTTACAATGATTTGAAGTAGATAATTATTCAA-ATAGTC
65 CAATTGTTTTATGACAA-AACAAAAGGTTACAATGATTTGAAATAGATAATTATT-AAGATAGTC
* * *
13177 ATGACTATTTTAACTTGTTTAG-TAAAC-TTATTTTTTAAAAAATCTTTTACTT
128 ATAACTATTTGAACTTG-TTAGATAAACATTATTTTTT--AAAATCTCTTACTT
* * * ** * **
13229 ATTAATTGTTGAAATATTAATAAATCAATATTATTTTAATCCGAATAAGCTTGTATGGACGGAAA
1 ATTAATTTTTGAAATATTAATAAATTAATATTATTTTAATTCGAATAAGC-TAAATGAATAGAAA
* * * * *
13294 CAATTGTTTTATGATAAAACAAAAAAGTCATAA-GAATTTGAAATAAATAATTATT
65 CAATTGTTTTATGACAAAAC-AAAAGGTTACAATG-ATTTGAAATAGATAATTATT
13349 CAATAATGAT
Statistics
Matches: 243, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
177 9 0.04
179 69 0.28
180 10 0.04
181 92 0.38
182 61 0.25
183 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (178 bp):
ATTAATTTTTGAAATATTAATAAATTAATATTATTTTAATTCGAATAAGCTAAATGAATAGAAAC
AATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTAAGATAGTCATA
ACTATTTGAACTTGTTAGATAAACATTATTTTTTAAAATCTCTTACTT
Found at i:13679 original size:15 final size:15
Alignment explanation
Indices: 13659--13688 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13649 TCTTTTGTAA
13659 TATTATAATTATAAT
1 TATTATAATTATAAT
13674 TATTATAATTATAAT
1 TATTATAATTATAAT
13689 AGATTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATTATAAT
Found at i:13898 original size:19 final size:18
Alignment explanation
Indices: 13871--13910 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13861 ATAATTGTTG
*
13871 TTTATAATAGTAAATATTA
1 TTTAAAATAGTAAATA-TA
*
13890 TTTAAAATAGTTAATATA
1 TTTAAAATAGTAAATATA
13908 TTT
1 TTT
13911 TGAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTAAAATAGTAAATATA
Found at i:14007 original size:20 final size:19
Alignment explanation
Indices: 13984--14024 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
13974 TTATTATACT
13984 ATATTATAAATGAAGATTAA
1 ATATTATAAATGAA-ATTAA
* *
14004 ATATTATTAATTAAATTAA
1 ATATTATAAATGAAATTAA
14023 AT
1 AT
14025 TAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATTATAAATGAAATTAA
Found at i:14011 original size:23 final size:22
Alignment explanation
Indices: 13985--14035 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
13975 TATTATACTA
13985 TATTA-TAAATGAAGATTAAATAT
1 TATTATTAAATGAA-ATT-AATAT
*
14008 TATTAATTAAATTAAATTAATAT
1 TATT-ATTAAATGAAATTAATAT
14031 TATTA
1 TATTA
14036 AATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 13 0.52
24 4 0.16
25 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
TATTATTAAATGAAATTAATAT
Found at i:14090 original size:17 final size:16
Alignment explanation
Indices: 14068--14113 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
14058 ATTATTTTAA
14068 TATTGATATATTATTAT
1 TATTGATATATTATT-T
14085 TATTGATA-ATTAATTT
1 TATTGATATATT-ATTT
*
14101 TATAG-TATATTAT
1 TATTGATATATTAT
14114 GAAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
TATTGATATATTATTT
Found at i:14377 original size:19 final size:19
Alignment explanation
Indices: 14338--14377 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14328 ATTTTATATT
* *
14338 TTGTATATAAATATTTGAA
1 TTGTATATAAATAATTAAA
*
14357 TTGTATATAATTAATTAAA
1 TTGTATATAAATAATTAAA
14376 TT
1 TT
14378 AGTTAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTGTATATAAATAATTAAA
Found at i:15101 original size:15 final size:15
Alignment explanation
Indices: 15081--15109 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15071 TACTTAGAAA
15081 TTAATTATTTAAATT
1 TTAATTATTTAAATT
15096 TTAATTATTTAAAT
1 TTAATTATTTAAAT
15110 CAATTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTATTTAAATT
Found at i:15138 original size:15 final size:14
Alignment explanation
Indices: 15098--15138 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15088 TTTAAATTTT
15098 AATTATTTA--AATC
1 AATTATTTATTAA-C
15111 AATTATTTATTAAC
1 AATTATTTATTAAC
15125 AATTATTATATTAA
1 AATTATT-TATTAA
15139 AAAATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 8 0.32
15 8 0.32
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTATTTATTAAC
Found at i:15870 original size:24 final size:25
Alignment explanation
Indices: 15816--15870 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
15806 TACATCACAA
*
15816 TTTA-TAATTTAACTTATTATAAAT
1 TTTATTAATATAACTTATTATAAAT
** *
15840 TAAATTAATATAA-TTATTATATAT
1 TTTATTAATATAACTTATTATAAAT
15864 TTTATTA
1 TTTATTA
15871 TTGTTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATTAATATAACTTATTATAAAT
Found at i:16007 original size:13 final size:13
Alignment explanation
Indices: 15991--16016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15981 ATCAATATAT
15991 TATTATTAATTAA
1 TATTATTAATTAA
16004 TATTATTAATTAA
1 TATTATTAATTAA
16017 ATAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTAATTAA
Found at i:16065 original size:10 final size:11
Alignment explanation
Indices: 16021--16069 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
16011 AATTAAATAA
16021 ATAATATAATT
1 ATAATATAATT
*
16032 AT-ATATAGTT
1 ATAATATAATT
16042 ATATATATAA--
1 ATA-ATATAATT
16052 ATAA-ATAATT
1 ATAATATAATT
16062 ATAATATA
1 ATAATATA
16070 TTTAGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
8 4 0.13
9 1 0.03
10 16 0.52
11 5 0.16
12 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
ATAATATAATT
Found at i:16105 original size:27 final size:28
Alignment explanation
Indices: 16047--16105 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 28
16037 TAGTTATATA
*
16047 TATAAATAAATAATTATAATATATTTAG
1 TATAAATAAACAATTATAATATATTTAG
*
16075 -ATAAAT-AACAA-TATATTATATTTAAG
1 TATAAATAAACAATTATAATATATTT-AG
16101 TATAA
1 TATAA
16106 TAGTTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 11 0.41
26 6 0.22
27 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
TATAAATAAACAATTATAATATATTTAG
Found at i:16453 original size:25 final size:25
Alignment explanation
Indices: 16401--16475 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 25
16391 CTATATATTA
*
16401 AATTAATTAAGTAATATATTATTACTAT
1 AATT-ATTAA-TAATAT-TTAATACTAT
**
16429 TTTTATTAATAATATTTAATACTAT
1 AATTATTAATAATATTTAATACTAT
16454 AATTATATAA-AATATTTGAATA
1 AATTAT-TAATAATATTT-AATA
16476 AATTCATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 20 0.50
26 13 0.32
27 5 0.12
28 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
AATTATTAATAATATTTAATACTAT
Found at i:17647 original size:31 final size:31
Alignment explanation
Indices: 17612--17759 Score: 85
Period size: 31 Copynumber: 4.7 Consensus size: 31
17602 TATGGATAAA
*
17612 AATTAACT-ATTTTTAATTTATTTAAATTAAT
1 AATTAA-TAATTTTTAATTTAATTAAATTAAT
* * *
17643 AATTAATAATTTTTTATTTAATTATATTACT
1 AATTAATAATTTTTAATTTAATTAAATTAAT
* * *
17674 -ATTAATAA-CTATAA-TT-ATTATATTAAT
1 AATTAATAATTTTTAATTTAATTAAATTAAT
*
17701 CAA--AATAAGTTATTTAATATTAATATTAAATTTAT
1 -AATTAATAA-TT-TTTAAT-TT-A-ATTAAATTAAT
* *
17736 TATTAATAATTATTAATATTAATT
1 AATTAATAATTTTTAAT-TTAATT
17760 TCAATTTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
27 15 0.17
28 2 0.02
29 4 0.04
30 13 0.14
31 25 0.28
32 5 0.06
33 1 0.01
34 9 0.10
35 11 0.12
36 5 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.52
Consensus pattern (31 bp):
AATTAATAATTTTTAATTTAATTAAATTAAT
Found at i:17757 original size:34 final size:36
Alignment explanation
Indices: 17704--17771 Score: 97
Period size: 34 Copynumber: 1.9 Consensus size: 36
17694 TATTAATCAA
17704 AATAAGTTATTTAATATTAATATT-AAATTTATTATT
1 AATAAGTTATTTAATATTAAT-TTCAAATTTATTATT
*
17740 AATAA-TTA-TTAATATTAATTTCAATTTTATTA
1 AATAAGTTATTTAATATTAATTTCAAATTTATTA
17772 ACAAAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 2 0.07
34 20 0.67
35 3 0.10
36 5 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
AATAAGTTATTTAATATTAATTTCAAATTTATTATT
Found at i:17964 original size:15 final size:15
Alignment explanation
Indices: 17944--17974 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17934 TAATGAACAT
*
17944 AATTAATTTAATTAA
1 AATTAATTAAATTAA
17959 AATTAATTAAATTAA
1 AATTAATTAAATTAA
17974 A
1 A
17975 TGTATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAATTAAATTAA
Found at i:18024 original size:15 final size:16
Alignment explanation
Indices: 17993--18025 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17983 ATACTAAATG
17993 TTAATATTTAATATAA
1 TTAATATTTAATATAA
*
18009 TTAATA-TTAATTTAA
1 TTAATATTTAATATAA
18024 TT
1 TT
18026 GTATTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATATTTAATATAA
Found at i:18164 original size:16 final size:15
Alignment explanation
Indices: 18116--18165 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18106 TTATTAAATC
*
18116 TTATAATATATTAAA
1 TTATAATATATTTAA
18131 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
18146 TTATAATATATTTATA
1 TTATAATATATTTA-A
18162 TTAT
1 TTAT
18166 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:18382 original size:22 final size:23
Alignment explanation
Indices: 18348--18416 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 23
18338 TATAAAAGCT
18348 TATAATATTTATAACAATATTATA
1 TATAATA-TTATAACAATATTATA
*
18372 TATAATA-TATAACTATATTA-A
1 TATAATATTATAACAATATTATA
* *
18393 TAATCATATTAGTAATAAT-TTATA
1 T-ATAATATTA-TAACAATATTATA
18417 ATTTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.05
22 17 0.46
23 5 0.14
24 13 0.35
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (23 bp):
TATAATATTATAACAATATTATA
Found at i:19404 original size:14 final size:13
Alignment explanation
Indices: 19356--19438 Score: 51
Period size: 14 Copynumber: 5.9 Consensus size: 13
19346 ATACTAATAA
19356 AATTAATTTATTAT
1 AATTAA-TTATTAT
** *
19370 AATTAAAGATAAT
1 AATTAATTATTAT
19383 AAATTTAATTATTAT
1 -AA-TTAATTATTAT
*
19398 GAATTAATAATTAT
1 -AATTAATTATTAT
*
19412 AACCTAATTAAGTTAT
1 AA-TTAATT-A-TTAT
19428 AA-TAATTATTA
1 AATTAATTATTA
19439 ACAATATTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.06
13 7 0.13
14 27 0.50
15 11 0.20
16 6 0.11
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (13 bp):
AATTAATTATTAT
Found at i:19413 original size:29 final size:29
Alignment explanation
Indices: 19334--19413 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
19324 TTATTGAAAA
*
19334 TATTATAATATAATACTAATAAAATTAATT
1 TATTATAAT-TAATAATAATAAAATTAATT
*
19364 TATTATAATTAA-AGATAATAAATTTAA-T
1 TATTATAATTAATA-ATAATAAAATTAATT
*
19392 TATTATGAATTAATAATTATAA
1 TATTAT-AATTAATAATAATAA
19414 CCTAATTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.18
29 26 0.59
30 10 0.23
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
TATTATAATTAATAATAATAAAATTAATT
Found at i:19710 original size:17 final size:18
Alignment explanation
Indices: 19688--19721 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19678 AATATTTAAT
19688 TATTAAATAT-AATTATA
1 TATTAAATATAAATTATA
*
19705 TATTAAGTATAAATTAT
1 TATTAAATATAAATTAT
19722 TAAACTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TATTAAATATAAATTATA
Found at i:19904 original size:14 final size:14
Alignment explanation
Indices: 19885--19919 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
19875 GTTTATTAGT
19885 TATATAATTATTTA
1 TATATAATTATTTA
19899 TATATAATTATTTA
1 TATATAATTATTTA
19913 TAATATA
1 T-ATATA
19920 TTGAGTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATATAATTATTTA
Found at i:20174 original size:10 final size:11
Alignment explanation
Indices: 20159--20190 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
20149 CTAATATATC
20159 ATAATTTAATT
1 ATAATTTAATT
20170 A-AATTT-ATT
1 ATAATTTAATT
20179 ATAATTTAATT
1 ATAATTTAATT
20190 A
1 A
20191 CTTATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.21
10 10 0.53
11 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATTTAATT
Found at i:20307 original size:25 final size:25
Alignment explanation
Indices: 20253--20308 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
20243 TACATGCATA
* *
20253 TTAATTATTAATATTTAATAATTTGT
1 TTAA-TATTAATATTTAATAATTAGC
*
20279 TTAATATTAATATTTATCTAA-TAGC
1 TTAATATTAATATTTA-ATAATTAGC
20304 TTAAT
1 TTAAT
20309 TATATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TTAATATTAATATTTAATAATTAGC
Found at i:20326 original size:19 final size:21
Alignment explanation
Indices: 20304--20374 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 21
20294 ATCTAATAGC
20304 TTAATTAT-ATT-ATAAATAA
1 TTAATTATAATTAATAAATAA
20323 TTAATTATAATTAAATATAATAA
1 TTAATTATAATT-AATA-AATAA
20346 TTAATAGTATAATTAATAAAT-A
1 TTAAT--TATAATTAATAAATAA
20368 TTAATTA
1 TTAATTA
20375 CTTTAATATT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.17
20 5 0.11
22 9 0.20
23 13 0.28
24 4 0.09
25 7 0.15
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
TTAATTATAATTAATAAATAA
Found at i:20357 original size:12 final size:11
Alignment explanation
Indices: 20319--20372 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
20309 TATATTATAA
20319 ATAATTAAT-T
1 ATAATTAATAT
20329 ATAATTAAATAT
1 ATAATT-AATAT
20341 AATAATTAATAGT
1 -ATAATTAATA-T
*
20354 ATAATTAATAA
1 ATAATTAATAT
20365 AT-ATTAAT
1 ATAATTAAT
20373 TACTTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 12 0.31
11 5 0.13
12 15 0.38
13 7 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
ATAATTAATAT
Found at i:22782 original size:16 final size:17
Alignment explanation
Indices: 22751--22811 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
22741 ATGAAAAATG
*
22751 AGAAAGAAAAAGTGAAA
1 AGAAAGAAAAAATGAAA
22768 AGAAA-AAAAAATG-AA
1 AGAAAGAAAAAATGAAA
* **
22783 AGAATGGGAAAATGTAAAA
1 AGAAAGAAAAAATG--AAA
22802 AGAAAGAAAA
1 AGAAAGAAAA
22812 GGAAAACTCG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 6 0.18
16 13 0.39
17 5 0.15
19 9 0.27
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.08
Consensus pattern (17 bp):
AGAAAGAAAAAATGAAA
Found at i:23719 original size:125 final size:126
Alignment explanation
Indices: 23541--23905 Score: 416
Period size: 125 Copynumber: 2.9 Consensus size: 126
23531 GCAATGGACA
* * *
23541 AAATTTGTTATAGAATGGCTAGTGTTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAAA
1 AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAGAAGATAAA
* * * *
23606 ATTTGTT-TAAAACTGCTAATGCTAAGAAGCTTGTGAGTGGTGACCAAATGATGACAGA-AG
66 ATTTGTTCTAAAA-TGCTAGTGCTAAGAAGCTTATGAGTGGTGACCAAATGATAAAAGATAG
* * * * *
23666 AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGTCTATGAGTGTTGATCAAGTGATAGAAAATAGA
1 AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAGAAGATAAA
** * * *
23731 ATTTGTTCTGGAATGACTAGTGCTAAGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAG
66 ATTTGTTCTAAAATG-CTAGTGCTAAGAAGCTTATGAGTGGTGACCAAATGATAAAAGATAG
* * * * * * * *
23793 -AATTTGTCTTAAAAT-GATTGTGCTAAGAAGCCTGTGAGTGATGACCAAATGATA-AATGATGA
1 AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAGAA-GATAA
* *
23855 AATTTGTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTGGTGACCAAAT
65 AATTTGTTCTAAAAT-GCTAGTGCTAAGAAGCTTATGAGTGGTGACCAAAT
23906 TATGGAGGAC
Statistics
Matches: 199, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
124 2 0.01
125 142 0.71
126 53 0.27
127 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (126 bp):
AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAGAAGATAAA
ATTTGTTCTAAAATGCTAGTGCTAAGAAGCTTATGAGTGGTGACCAAATGATAAAAGATAG
Found at i:23734 original size:63 final size:63
Alignment explanation
Indices: 23542--23903 Score: 351
Period size: 63 Copynumber: 5.8 Consensus size: 63
23532 CAATGGACAA
* * * * *
23542 AATTTGTTATAGAATGGCTAGTGTTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAA
1 AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAG
* * * *
23605 AATTTG-TTTAAAACT-GCTAATGCTAAGAAGCTTGTGAGTGGTGACCAAATGAT-GACAGA-AG
1 AATTTGTTTTAAAA-TGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGA-AGATAG
* * * * * *
23666 AAATTTGTTTTAGAATGGCTAGTGCTGAGAAGTCTATGAGTGTTGATCAAGTGATAGAAAATAG
1 -AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAG
* ** * * * * *
23730 AATTTGTTCTGGAATGACTAGTGCTAAGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAG
1 AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAG
* * * * * *
23793 AATTTGTCTTAAAAT-GATTGTGCTAAGAAGCCTGTGAGTGATGACCAAATGATA-AATGAT-G
1 AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAA-GATAG
* *
23854 AAATTTGTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTGGTGACCAA
1 -AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAA
23904 ATTATGGAGG
Statistics
Matches: 238, Mismatches: 51, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
61 6 0.03
62 93 0.39
63 135 0.57
64 4 0.02
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (63 bp):
AATTTGTTTTAAAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAG
Found at i:23859 original size:188 final size:188
Alignment explanation
Indices: 23542--23895 Score: 478
Period size: 188 Copynumber: 1.9 Consensus size: 188
23532 CAATGGACAA
* * * * *
23542 AATTTGTTATAGAATGGCTAGTGTTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAAAA
1 AATTTGTTATAGAATGACTAGTGCTAAGAAGCCTATGAATGGTGACCAAGTGATAAAAGATAAAA
* * * *
23607 TTTGTTTAAAACTGCTAATGCTAAGAAGCTTGTGAGTGGTGACCAAATGATGACAGAAGAAATTT
66 TTTGTTTAAAACTGATAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAAAGAAGAAATTT
* * * **
23672 GTTTTAGAATGGCTAGTGCTGAGAAGTCTATGAGTGTTGATCAAGTGATAGAAAATAG
131 GTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTGTTGATCAAGTGATAGAAAATAG
* * * * *
23730 AATTTGTTCTGGAATGACTAGTGCTAAGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAGAA
1 AATTTGTTATAGAATGACTAGTGCTAAGAAGCCTATGAATGGTGACCAAGTGATAAAAGATAAAA
** *
23795 TTTGTCTTAAAA-TGATTGTGCTAAGAAGCCTGTGAGTGATGACCAAATGAT-AAATGATGAAAT
66 TTTGT-TTAAAACTGATAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAAA-GAAGAAAT
23858 TTGTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTG
129 TTGTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTG
23896 GTGACCAAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
187 2 0.01
188 134 0.94
189 6 0.04
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (188 bp):
AATTTGTTATAGAATGACTAGTGCTAAGAAGCCTATGAATGGTGACCAAGTGATAAAAGATAAAA
TTTGTTTAAAACTGATAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAAAGAAGAAATTT
GTTCTAAAATGGCTAGTGCTAAGAAACCTATGAGTGTTGATCAAGTGATAGAAAATAG
Found at i:23945 original size:188 final size:188
Alignment explanation
Indices: 23568--23975 Score: 432
Period size: 188 Copynumber: 2.2 Consensus size: 188
23558 GCTAGTGTTG
* * * * *
23568 AGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATAAAATTTGTTTAAAACTGCTAATGCTAAGA
1 AGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAAAATTTGTTTAAAACTGATAATGCTAAGA
* * * * * * *
23633 AGCTTGTGAGTGGTGACCAAATGATGACAGAAGAAATTTGTTTTAGAATGGCTAGTGCTGAGAAG
66 AGCCTGTGAGTGATGACCAAATGATGAAAGAAGAAATTTGTTCTAAAATGGCTAGTGCTAAGAAA
* * * * * * * *
23698 TCTATGAGTGTTGATCAAGTGATAGAAAATAGAATTTGTTCTGGAATGACTAGTGCTA
131 CCTATGAGTGGTGACCAAATGATAGAAAAGAGAACTTGGTCTGGAATGACTAATGCTA
* **
23756 AGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAGAATTTGTCTTAAAA-TGATTGTGCTAAG
1 AGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAAAATTTGT-TTAAAACTGATAATGCTAAG
*
23820 AAGCCTGTGAGTGATGACCAAATGAT-AAATGATGAAATTTGTTCTAAAATGGCTAGTGCTAAGA
65 AAGCCTGTGAGTGATGACCAAATGATGAAA-GAAGAAATTTGTTCTAAAATGGCTAGTGCTAAGA
* * * * *
23884 AACCTATGAGTGGTGACCAAATTATGGAGGACGA-AACTTGGTCT-GAACTTG-GTAATGCTA
129 AACCTATGAGTGGTGACCAAATGATAGA-AAAGAGAACTTGGTCTGGAA--TGACTAATGCTA
* * *
23944 AGAAGCTTGTGAATGATGA-TCAAATGATAAAA
1 AGAAGCTTATGAATGGTGACT-AAGTGATAAAA
23976 ATGATGAGGA
Statistics
Matches: 182, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
187 6 0.03
188 166 0.91
189 10 0.05
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (188 bp):
AGAAGCTTATGAATGGTGACTAAGTGATAAAAGATAAAATTTGTTTAAAACTGATAATGCTAAGA
AGCCTGTGAGTGATGACCAAATGATGAAAGAAGAAATTTGTTCTAAAATGGCTAGTGCTAAGAAA
CCTATGAGTGGTGACCAAATGATAGAAAAGAGAACTTGGTCTGGAATGACTAATGCTA
Found at i:24467 original size:22 final size:22
Alignment explanation
Indices: 24373--24501 Score: 129
Period size: 22 Copynumber: 5.9 Consensus size: 22
24363 TTGTGAACCC
* * *
24373 TCAAATGAGAATTTTTTAGTCT
1 TCAAATGAGAATCTTTGAATCT
*
24395 T--AATGAGAATCTTTGAGTCT
1 TCAAATGAGAATCTTTGAATCT
*
24415 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATGAGAATCTTT--G-AATCT
*
24439 TCAAATGAGAATCTTTGAATTT
1 TCAAATGAGAATCTTTGAATCT
* * *
24461 TCAAATGAGAATATTTGAGTTT
1 TCAAATGAGAATCTTTGAATCT
24483 TCAAATGAGAATCTTTGAA
1 TCAAATGAGAATCTTTGAA
24502 CTCGAATAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.20
21 13 0.14
22 41 0.45
23 2 0.02
24 4 0.04
25 14 0.15
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAATCT
Found at i:24478 original size:68 final size:67
Alignment explanation
Indices: 24371--24498 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 67
24361 AATTGTGAAC
* * * *
24371 CCTCAAATGAGAATTTTTTAGTCTTAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAGAA
1 CCTCAAATGAGAATCTTTGAATCTTAATGAGAATATTTGAGTCTTCAAATGAGAATCTTTAAGAA
24435 AT
66 AT
* *
24437 CCTCAAATGAGAATCTTTGAATTTTCAAATGAGAATATTTGAGTTTTCAAATGAGAATCTTT
1 CCTCAAATGAGAATCTTTGAATCTT--AATGAGAATATTTGAGTCTTCAAATGAGAATCTTT
24499 GAACTCGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
66 21 0.40
68 18 0.34
69 14 0.26
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (67 bp):
CCTCAAATGAGAATCTTTGAATCTTAATGAGAATATTTGAGTCTTCAAATGAGAATCTTTAAGAA
AT
Found at i:24633 original size:47 final size:47
Alignment explanation
Indices: 24496--24633 Score: 164
Period size: 44 Copynumber: 3.0 Consensus size: 47
24486 AATGAGAATC
24496 TTTGAACTCGAATAAGAAGCTTTGAACTTTTGGATGTGAATCTCTAAAA
1 TTTGAACTCGAAT-AGAAGCTTTGAACTTTTGGATGTGAATCTCT-AAA
* *
24545 TTTGAA-T-GAA-A-AAGC-TTAAACTTTTTGGATGTGAA-CCCTAAA
1 TTTGAACTCGAATAGAAGCTTTGAAC-TTTTGGATGTGAATCTCTAAA
*
24587 TTT-AACTCGAATGAGAAGCTTTGAACTTTTGGATGTAAATCTCTAAA
1 TTTGAACTCGAAT-AGAAGCTTTGAACTTTTGGATGTGAATCTCTAAA
24634 ATTCAAATGA
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
41 2 0.03
42 7 0.09
43 11 0.14
44 17 0.22
45 2 0.03
46 16 0.21
47 14 0.18
48 1 0.01
49 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (47 bp):
TTTGAACTCGAATAGAAGCTTTGAACTTTTGGATGTGAATCTCTAAA
Found at i:25585 original size:35 final size:33
Alignment explanation
Indices: 25546--25617 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 33
25536 ATACTGTATT
* *
25546 TAATTAATTTGAACTTGTATTAATATTAATAA-AAA
1 TAATTAA-TT-AACTTAT-TTAATAGTAATAATAAA
25581 TAATTAATTAACTTATTTAATAGTAATAATAAA
1 TAATTAATTAACTTATTTAATAGTAATAATAAA
25614 TAAT
1 TAAT
25618 AATATTATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 12 0.35
33 13 0.38
34 2 0.06
35 7 0.21
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (33 bp):
TAATTAATTAACTTATTTAATAGTAATAATAAA
Found at i:25844 original size:20 final size:20
Alignment explanation
Indices: 25807--25844 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25797 TTATAATATA
*
25807 ATTGATTATATATTTTAACT
1 ATTGATTATATATATTAACT
25827 ATTGATTA-ATATAATTAA
1 ATTGATTATATAT-ATTAA
25845 TTCTTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTGATTATATATATTAACT
Found at i:26152 original size:22 final size:20
Alignment explanation
Indices: 26127--26178 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
26117 ATTATATTGG
26127 ATTAATATATTAAATATAATAA
1 ATTAATA-ATTAAATA-AATAA
*
26149 ATTAATAATT-TATAAATAA
1 ATTAATAATTAAATAAATAA
*
26168 TTTAATAATTA
1 ATTAATAATTA
26179 TTAGTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 3 0.11
22 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAATAATTAAATAAATAA
Found at i:26192 original size:14 final size:14
Alignment explanation
Indices: 26173--26246 Score: 66
Period size: 14 Copynumber: 5.4 Consensus size: 14
26163 AATAATTTAA
*
26173 TAATTATTAGTAAC
1 TAATTATTAGTAAT
26187 TAATTATTA-TAAT
1 TAATTATTAGTAAT
*
26200 TAATTAGGTAGT-AT
1 TAATTA-TTAGTAAT
*
26214 TAATATATTA-TAAA
1 TAAT-TATTAGTAAT
*
26228 TAATAATTAGTAA-
1 TAATTATTAGTAAT
26241 TAATTA
1 TAATTA
26247 AATAAAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
13 19 0.39
14 27 0.55
15 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATTATTAGTAAT
Found at i:26336 original size:24 final size:24
Alignment explanation
Indices: 26304--26377 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
26294 AATTAATTAT
*
26304 TATTA-ATTAATAATATTTTTAAA
1 TATTATATTAATAATAATTTTAAA
*
26327 TATTATATTAAAAATAATTTTAAA
1 TATTATATTAATAATAATTTTAAA
* * * *
26351 AATTATAATAATACTAATTGT-AA
1 TATTATATTAATAATAATTTTAAA
26374 TATT
1 TATT
26378 CAAATAGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 10 0.24
24 32 0.76
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
TATTATATTAATAATAATTTTAAA
Found at i:26446 original size:19 final size:20
Alignment explanation
Indices: 26422--26463 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
26412 ATTAATAATG
*
26422 ATATTATTATTAATATTA-A
1 ATATTATTACTAATATTATA
26441 ATATTATTACTAATATTATA
1 ATATTATTACTAATATTATA
26461 ATA
1 ATA
26464 ATTTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATTACTAATATTATA
Found at i:26462 original size:42 final size:42
Alignment explanation
Indices: 26416--26501 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
26406 AGTATCATTA
*
26416 ATAATGATATTATTATTAAT-AT-TAAATATTATTACTAATATT
1 ATAATAATATTA-TATTAATAATATAAATA-TATTACTAATATT
* * * *
26458 ATAATAATTTTATATTTATAATATAAATATATTAGTTATATT
1 ATAATAATATTATATTAATAATATAAATATATTACTAATATT
26500 AT
1 AT
26502 TTATTAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 6 0.16
42 25 0.68
43 6 0.16
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (42 bp):
ATAATAATATTATATTAATAATATAAATATATTACTAATATT
Found at i:26488 original size:28 final size:30
Alignment explanation
Indices: 26451--26520 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
26441 ATATTATTAC
*
26451 TAATATTATAATAATTTTA-TATTTA-TAATA
1 TAATA-TATAATAATTATATTATTTATTAA-A
* *
26481 TAA-ATATATTAGTTATATTATTTATTAAA
1 TAATATATAATAATTATATTATTTATTAAA
26510 TAATATATAAT
1 TAATATATAAT
26521 TTGGTCATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 10 0.30
29 11 0.33
30 12 0.36
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TAATATATAATAATTATATTATTTATTAAA
Found at i:26621 original size:18 final size:18
Alignment explanation
Indices: 26600--26641 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
26590 TATTATAAGG
26600 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
26618 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
26635 TTTTTAA
1 ATTTTAA
26642 CATTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:26660 original size:14 final size:14
Alignment explanation
Indices: 26643--26689 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
26633 TATTTTTAAC
26643 ATTA-TAATTTTTA
1 ATTACTAATTTTTA
* *
26656 TATTAGTAATATTTA
1 -ATTACTAATTTTTA
26671 ATTACTAATTTTATA
1 ATTACTAATTTT-TA
26686 ATTA
1 ATTA
26690 AATAGTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
ATTACTAATTTTTA
Found at i:26687 original size:15 final size:13
Alignment explanation
Indices: 26601--26689 Score: 60
Period size: 15 Copynumber: 6.7 Consensus size: 13
26591 ATTATAAGGA
*
26601 TTTTAATTTTAA-
1 TTTTAATTATAAT
*
26613 TATTAATT-TAAT
1 TTTTAATTATAAT
*
26625 TATTAATT-T-AT
1 TTTTAATTATAAT
26636 TTTTAACATTATAAT
1 TTTT-A-ATTATAAT
26651 TTTTATATTAGTAAT
1 TTTTA-ATTA-TAAT
*
26666 ATTTAATTACTAAT
1 TTTTAATTA-TAAT
26680 TTTATAATTA
1 TTT-TAATTA
26690 AATAGTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.12
12 17 0.27
13 3 0.05
14 16 0.25
15 20 0.31
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (13 bp):
TTTTAATTATAAT
Found at i:27308 original size:18 final size:19
Alignment explanation
Indices: 27279--27329 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
27269 AATGGTAAAA
27279 TAATTATAAATAT-TTAATT
1 TAATT-TAAATATGTTAATT
* *
27298 TATTTTAAATATGTTATTT
1 TAATTTAAATATGTTAATT
27317 TAATTTAATATAT
1 TAATTTAA-ATAT
27330 ATACAAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTAAATATGTTAATT
Found at i:27892 original size:22 final size:22
Alignment explanation
Indices: 27867--27909 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27857 CAATTATTTT
*
27867 TAATAATTATTATATATATTAC
1 TAATAATTAATATATATATTAC
27889 TAATAATTAATATATATATTA
1 TAATAATTAATATATATATTA
27910 GTTAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATAATTAATATATATATTAC
Found at i:28807 original size:18 final size:18
Alignment explanation
Indices: 28781--28864 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 18
28771 ATATTATTAT
28781 AATTCATAATTTATAAATA
1 AATT-ATAATTTATAAATA
*
28800 AATTATAATAGTA-AAATA
1 AATTATAAT-TTATAAATA
**
28818 AATTAT-ATAAATAAATA
1 AATTATAATTTATAAATA
*
28835 TA-TATAATTATAATAAATA
1 AATTATAATT-T-ATAAATA
*
28854 TTATTATAATT
1 -AATTATAATT
28865 ATTTAATCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 16 0.31
19 13 0.25
20 2 0.04
21 7 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (18 bp):
AATTATAATTTATAAATA
Found at i:28829 original size:13 final size:14
Alignment explanation
Indices: 28792--28841 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 14
28782 ATTCATAATT
28792 TATAAATAAATTATAA
1 TATAAATAAA-TAT-A
28808 TAGTAAAATAAAT-TA
1 TA-T-AAATAAATATA
28823 TATAAATAAATATA
1 TATAAATAAATATA
28837 TATAA
1 TATAA
28842 TTATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.26
14 8 0.26
15 3 0.10
16 3 0.10
17 2 0.06
18 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TATAAATAAATATA
Found at i:28851 original size:19 final size:21
Alignment explanation
Indices: 28827--28866 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
28817 AAATTATATA
28827 AATAAATA-TA-TATAATTAT
1 AATAAATATTATTATAATTAT
28846 AATAAATATTATTATAATTAT
1 AATAAATATTATTATAATTAT
28867 TTAATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAAATATTATTATAATTAT
Found at i:28889 original size:19 final size:19
Alignment explanation
Indices: 28856--28893 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
28846 AATAAATATT
28856 ATTATAATTATTTAATCTA
1 ATTATAATTATTTAATCTA
28875 ATTATTAATTA-TTAATCTA
1 ATTA-TAATTATTTAATCTA
28894 TTCAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATTATTTAATCTA
Found at i:28954 original size:23 final size:21
Alignment explanation
Indices: 28927--28977 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
28917 TAATCGATAC
*
28927 TATTACTTTATAAAATAATATTT
1 TATTAATTTAT-AAATAATA-TT
28950 TATTAATTTATAAATAATATT
1 TATTAATTTATAAATAATATT
28971 TATTAAT
1 TATTAAT
28978 ATTAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.33
22 8 0.30
23 10 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAATTTATAAATAATATT
Found at i:29090 original size:15 final size:16
Alignment explanation
Indices: 29070--29115 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
29060 TAAATAAATT
*
29070 ATATTATTAAT-TTAA
1 ATATTAATAATATTAA
29085 ATATTAATAATATT-A
1 ATATTAATAATATTAA
29100 ATAATTAATAATATTA
1 AT-ATTAATAATATTA
29116 TTTGATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATATTAA
Found at i:29098 original size:9 final size:9
Alignment explanation
Indices: 29084--29115 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
29074 TATTAATTTA
29084 AATATTAAT
1 AATATTAAT
29093 AATATTAAT
1 AATATTAAT
29102 -A-ATTAAT
1 AATATTAAT
29109 AATATTA
1 AATATTA
29116 TTTGATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATTAAT
Found at i:29295 original size:14 final size:15
Alignment explanation
Indices: 29257--29312 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
29247 GACTAGAATA
*
29257 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
29272 ATAATAATTAATTATT
1 AT-ATAATTAATTATT
29288 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
29301 TTATAATTAATT
1 ATATAATTAATT
29313 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 3 0.09
16 11 0.31
17 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:29304 original size:18 final size:19
Alignment explanation
Indices: 29273--29333 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
29263 TATATTATGA
29273 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
*
29294 TAAT-ATTTTATAATTAAT
1 TAATAATTTTATTATTAAT
* *
29312 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
29332 TA
1 TA
29334 TTAAATATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 12 0.36
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:29391 original size:26 final size:26
Alignment explanation
Indices: 29343--29396 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
29333 ATTAAATATG
* * *
29343 ATATAATATATTATTATTTATTACTA
1 ATATAATATATAAATATTTATTAATA
29369 ATATAATA-ATAAATATTTAATTAATA
1 ATATAATATATAAATATTT-ATTAATA
29395 AT
1 AT
29397 TAGTTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATAATATATAAATATTTATTAATA
Found at i:29413 original size:16 final size:17
Alignment explanation
Indices: 29370--29417 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
29360 TTATTACTAA
*
29370 TATAA-TAATAAATA-T
1 TATAATTAATAATTAGT
29385 T-TAATTAATAATTAGT
1 TATAATTAATAATTAGT
29401 TATAATT-ATAATTAGT
1 TATAATTAATAATTAGT
29417 T
1 T
29418 TTATGAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 9 0.31
16 12 0.41
17 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TATAATTAATAATTAGT
Found at i:29742 original size:10 final size:11
Alignment explanation
Indices: 29721--29760 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
29711 ATGTTTAACA
*
29721 TAATTCATAAT
1 TAATTAATAAT
29732 TAATT-ATAAT
1 TAATTAATAAT
29742 TAATTAATAA-
1 TAATTAATAAT
29752 T-ATTAATAA
1 TAATTAATAA
29761 ATAAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:29758 original size:13 final size:12
Alignment explanation
Indices: 29729--29781 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
29719 CATAATTCAT
29729 AATTAATT-AT-
1 AATTAATTAATA
29739 AATTAATTAATA
1 AATTAATTAATA
*
29751 ATATTAATAAATA
1 A-ATTAATTAATA
*
29764 AATTATTTATATA
1 AATTAATTA-ATA
29777 AATTA
1 AATTA
29782 TTTGATAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 8 0.22
11 2 0.06
12 7 0.19
13 19 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATTAATA
Found at i:29944 original size:20 final size:20
Alignment explanation
Indices: 29919--29958 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
29909 AAATTTAATT
29919 TATAATAC-TTCATATTATTA
1 TATAATACTTTCA-ATTATTA
*
29939 TATAATTCTTTCAATTATTA
1 TATAATACTTTCAATTATTA
29959 AAATGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATACTTTCAATTATTA
Found at i:30267 original size:20 final size:20
Alignment explanation
Indices: 30230--30267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30220 ATAAATTTTA
*
30230 TAATTTATTATTTGTAATGG
1 TAATTTATTATATGTAATGG
30250 TAATTTATATATAT-TAAT
1 TAATTTAT-TATATGTAAT
30268 TAATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TAATTTATTATATGTAATGG
Found at i:30455 original size:21 final size:20
Alignment explanation
Indices: 30420--30465 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
30410 AAATTTCTAT
30420 AATAA-TAGTAATATTAGTTA
1 AATAATTAGTAATATTA-TTA
* *
30440 AATAATTAGTATTATTATTT
1 AATAATTAGTAATATTATTA
30460 AATAAT
1 AATAAT
30466 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
AATAATTAGTAATATTATTA
Found at i:31002 original size:44 final size:44
Alignment explanation
Indices: 30919--31004 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
30909 ATAATTTATA
*
30919 ATAATTTATTAATATTTGAATAAAATCAAATATATTAATCAAAT
1 ATAATTTATTAATATTTGAATAAAATCAAATATAATAATCAAAT
30963 ATAA-TTATATAATATTTGAATAACAAT-AAACT-TAATAATCAA
1 ATAATTTAT-TAATATTTGAATAA-AATCAAA-TATAATAATCAA
31005 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 4 0.11
44 30 0.79
45 4 0.11
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (44 bp):
ATAATTTATTAATATTTGAATAAAATCAAATATAATAATCAAAT
Found at i:31030 original size:16 final size:16
Alignment explanation
Indices: 30976--31032 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
30966 ATTATATAAT
30976 ATTTGAATAACAA-TAA
1 ATTT-AATAACAATTAA
* *
30992 ACTTAATAATCAATT-T
1 ATTTAATAA-CAATTAA
*
31008 ATCTAATAACAATTAA
1 ATTTAATAACAATTAA
31024 ATTTAATAA
1 ATTTAATAA
31033 ATTACTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
15 10 0.31
16 21 0.66
17 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTTAATAACAATTAA
Found at i:31065 original size:30 final size:31
Alignment explanation
Indices: 31021--31080 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
31011 TAATAACAAT
31021 TAAATTTAATAAATTACTTA-TTAAACTTTAA
1 TAAATTTAATAAATTACTTATTTAAA-TTTAA
* *
31052 TAAA-TTAGTAAATTATTTATTTAAATTTA
1 TAAATTTAATAAATTACTTATTTAAATTTA
31081 TCCAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAATTTAATAAATTACTTATTTAAATTTAA
Found at i:31395 original size:22 final size:22
Alignment explanation
Indices: 31353--31396 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31343 TTTAACTAAT
* **
31353 ATATATTAATTATTAGTAATAA
1 ATATAATAATTATTAACAATAA
31375 ATATAATAATTATTAACAATAA
1 ATATAATAATTATTAACAATAA
31397 TTGAGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATAATAATTATTAACAATAA
Found at i:31770 original size:18 final size:18
Alignment explanation
Indices: 31749--31799 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
31739 TGATAAACTA
*
31749 TATTATTATCTTAATTAT
1 TATTATTATATTAATTAT
* *
31767 TATTAATA-ATAACATTAT
1 TATTATTATATTA-ATTAT
*
31785 TATTATTATGTTAAT
1 TATTATTATATTAAT
31800 AATAACAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
TATTATTATATTAATTAT
Found at i:32050 original size:2 final size:2
Alignment explanation
Indices: 32025--32084 Score: 56
Period size: 2 Copynumber: 32.0 Consensus size: 2
32015 TTTATATTTA
* * *
32025 AT AT AT AA AT AT A- AT -T AT AA AT AT AT CT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
32064 AT AT AT GT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
32085 TATTTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32064 original size:44 final size:43
Alignment explanation
Indices: 31944--32065 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 43
31934 GATTTAGTTG
31944 TATAATTTATAATATAATTATAGTATTATTATATTTAATACTTAATA
1 TATAATTTA-AATAT-ATTATA-TA-TATTATATTTAATACTTAATA
*
31991 TATTATTTAAGCATATATTAT-TA-ATTTATATTTAATA-TATAA-A
1 TATAATTTAA--ATATATTATATATA-TTATATTTAATACT-TAATA
32034 TATAATTATAAATATATCTATATATATTATAT
1 TATAATT-TAAATATAT-TATATATATTATAT
32066 ATATGTATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
42 6 0.09
43 12 0.18
44 26 0.40
45 3 0.05
46 1 0.02
47 13 0.20
48 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (43 bp):
TATAATTTAAATATATTATATATATTATATTTAATACTTAATA
Found at i:32067 original size:17 final size:16
Alignment explanation
Indices: 31955--32087 Score: 63
Period size: 15 Copynumber: 8.7 Consensus size: 16
31945 ATAATTTATA
31955 ATATA-ATTATAGTATT
1 ATATATATTATA-TATT
31971 AT-TATATT-TAATACTT
1 ATATATATTAT-ATA-TT
* **
31987 A-ATATATTATTTAAGC
1 ATATATATTATAT-ATT
32003 ATATATTATTA-AT-TT
1 ATATA-TATTATATATT
* * *
32018 ATATTTAATATATA-A
1 ATATATATTATATATT
*
32033 ATATA-ATTATA-AAT
1 ATATATATTATATATT
*
32047 ATATCTA-TATATATT
1 ATATATATTATATATT
*
32062 ATATATA-TGTATATT
1 ATATATATTATATATT
32077 ATATATATTAT
1 ATATATATTAT
32088 TTATAAAATA
Statistics
Matches: 86, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
13 1 0.01
14 17 0.20
15 38 0.44
16 19 0.22
17 6 0.07
18 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATATTATATATT
Found at i:32079 original size:13 final size:13
Alignment explanation
Indices: 32003--32092 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 13
31993 TTATTTAAGC
32003 ATATAT-TATTA-
1 ATATATATATTAT
*
32014 ATTTATAT-TTAAT
1 ATATATATATT-AT
* *
32027 ATATAAATATAATT
1 ATATATATATTA-T
*
32041 ATAAATATATCTAT
1 ATATATATAT-TAT
32055 ATATAT-TA-TAT
1 ATATATATATTAT
*
32066 ATATGTATATTAT
1 ATATATATATTAT
32079 ATATAT-TATT-T
1 ATATATATATTAT
32090 ATA
1 ATA
32093 AAATAATAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
11 19 0.31
12 8 0.13
13 17 0.28
14 16 0.26
15 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (13 bp):
ATATATATATTAT
Found at i:32441 original size:17 final size:18
Alignment explanation
Indices: 32402--32454 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
32392 ACAATTGTCT
*
32402 TTATTTAGTAATAATTTAAA
1 TTATTTATTAATAA-TT-AA
32422 TTATTTATTAATAATT-A
1 TTATTTATTAATAATTAA
*
32439 TTATATATTAATAATT
1 TTATTTATTAATAATT
32455 TTTAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
19 2 0.06
20 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATTTATTAATAATTAA
Found at i:32481 original size:39 final size:37
Alignment explanation
Indices: 32410--32485 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
32400 CTTTATTTAG
32410 TAATAATTTAAATTATTTATTAATAATTATTATATAT
1 TAATAATTTAAATTATTTATTAATAATTATTATATAT
*
32447 TAATAATTTTTAATTAATTT-TTAA-ATATTAATTATATAT
1 TAATAA-TTTAAATT-ATTTATTAATA-ATT-ATTATATAT
32486 AATTTGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 7 0.21
38 14 0.41
39 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
TAATAATTTAAATTATTTATTAATAATTATTATATAT
Found at i:32488 original size:28 final size:28
Alignment explanation
Indices: 32420--32489 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
32410 TAATAATTTA
*
32420 AATTATTTATTAA-TAATTATTATATATT
1 AATTATTTA-TAATTAATTATTAAATATT
* * *
32448 AATAATTTTTAATTAATTTTTAAATATT
1 AATTATTTATAATTAATTATTAAATATT
*
32476 AATTATATATAATT
1 AATTATTTATAATT
32490 TGATTATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATTTATAATTAATTATTAAATATT
Found at i:33704 original size:21 final size:22
Alignment explanation
Indices: 33675--33722 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
33665 ATTATTTTAA
33675 AATAATTTAAAGAATTAAAT-T
1 AATAATTTAAAGAATTAAATAT
* *
33696 AATACTTTAAAGAATTATATAT
1 AATAATTTAAAGAATTAAATAT
33718 AATAA
1 AATAA
33723 AATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AATAATTTAAAGAATTAAATAT
Found at i:34292 original size:180 final size:178
Alignment explanation
Indices: 33914--34855 Score: 715
Period size: 180 Copynumber: 5.2 Consensus size: 178
33904 TTTGTGAACT
* * *
33914 AAAACAATTGTTTTATGACAAAACAAAA-ATTCACAATGATTTTAAATAGATAATTGTTCA-AAT
1 AAAACAATTGTTTTATGACAAAACAAAAGA-TCAAAATGATTTGAAATAGATAATTATT-ATAAT
* * ** * *
33977 AGTCATAACCATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTTAAATATCCTGCTTATTAATC
64 AGTCATAACTATTTGAA-TTGATTGACAAACAAATTTA-TTTTTTAAATATCTTACTTATTAAT-
* * * * * *
34042 TTTCAAA-AGTAAATAAATTAGTATTATTTTCTTTTGAATAAGCTTGTATGTACT
126 TTTGAAATA-TTAATAAATTAGTATTATTTT-ATCTAAATAAGCTTGTATGTACA
* * ** * * *
34096 GAAACAATTATTTTATGATTAAACAAAAGATCAAAACGATTTGAAATAGATAGTTATTATAATAA
1 AAAACAATTGTTTTATGACAAAACAAAAGATCAAAATGATTTGAAATAGATAATTATTATAATAG
* * * *
34161 TCTTAACTATTTGAATTGATTGACAAACACATTTATTTTTTCAATTTCTTACTTATTAATTTTGA
66 TCATAACTATTTGAATTGATTGACAAACAAATTTATTTTTTAAATATCTTACTTATTAATTTTG-
* *
34226 AAATATTATTAAATTAGTATTATTTTTATCTAAATAAGCTTATATGATA-A
130 AAATATTAATAAATTAGTATTA-TTTTATCTAAATAAGCTTGTATG-TACA
* * * *
34276 AAAATAATTGTTTTATGACAAAAC-AAAGATCATAATGATTTGAGATTA-ATATTTATTCA-AAT
1 AAAACAATTGTTTTATGACAAAACAAAAGATCAAAATGATTTGA-AATAGATAATTATT-ATAAT
* * * * ** * * *
34338 AGTCATAACTATTAGAACTGCTTTGAAAAACAGTTTTAGTTTTTAAATCTCTTACTTAATAATTT
64 AGTCATAACTATTTGAATTG-ATTGACAAACAAATTTATTTTTTAAATATCTTACTTATTAA-TT
* * * * *
34403 TTGAAATATTAATAAAGTAGTATTATTTTATTTCAAATAAGTTTTTAT-TAACT
127 TTGAAATATTAATAAATTAGTATTATTTTATCT-AAATAAGCTTGTATGT-ACA
* * * *
34456 AAAACAATTATTTTATGACAAAACAAAATG-TCAAAATAATTTTAAATAGATAATTGTT-TAAAT
1 AAAACAATTGTTTTATGACAAAACAAAA-GATCAAAATGATTTGAAATAGATAATTATTAT-AAT
* * * * * *
34519 AGTAATATCTATTTGAAATTG-TTCAGTAAACAAATTTATTTTTTTAAATCTCTTGC-T-TTAAT
64 AGTCATAACTATTTG-AATTGATTGA-CAAACAAATTTA-TTTTTTAAATATCTTACTTATTAA-
* * * *
34581 TTTTTG-AATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGAACT
125 -TTTTGAAATATTAATAAATTAGTATTATTTTA-TCTAAATAAGCTTGTATGTACA
* * * * * *
34636 AAAATAATTGTTTTATGACTAAACAAAAGGAT-AGAATGATTTAAAATAGATAATTATTCTGATA
1 AAAACAATTGTTTTATGACAAAACAAAA-GATCAAAATGATTTGAAATAGATAATTATTATAATA
* * * * * *
34700 GTCTTAACTCTTTGAACT-AGTTTAGCTAACATATTTATTTTTT-AA-ATC-T-CTTATTAATTT
65 GTCATAACTATTTGAATTGA-TTGA-CAAACAAATTTATTTTTTAAATATCTTACTTATTAA-TT
* ** ** *
34760 TTGAAATATTATTAAATTAGTATCGTTTTAATCCGAGTAAGCTTGTATG-A-A
127 TTGAAATATTAATAAATTAGTATTATTTT-ATCTAAATAAGCTTGTATGTACA
* **
34811 ACGAAACAATTGTTGTATGACAAAA-AAAAGATCATTATGATTTGA
1 A--AAACAATTGTTTTATGACAAAACAAAAGATCAAAATGATTTGA
34856 TTATAATTAT
Statistics
Matches: 612, Mismatches: 113, Indels: 76
0.76 0.14 0.09
Matches are distributed among these distances:
175 5 0.01
176 22 0.04
177 62 0.10
178 4 0.01
179 64 0.10
180 286 0.47
181 84 0.14
182 84 0.14
183 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (178 bp):
AAAACAATTGTTTTATGACAAAACAAAAGATCAAAATGATTTGAAATAGATAATTATTATAATAG
TCATAACTATTTGAATTGATTGACAAACAAATTTATTTTTTAAATATCTTACTTATTAATTTTGA
AATATTAATAAATTAGTATTATTTTATCTAAATAAGCTTGTATGTACA
Found at i:34469 original size:360 final size:362
Alignment explanation
Indices: 33853--34694 Score: 859
Period size: 360 Copynumber: 2.3 Consensus size: 362
33843 TTTAAATCTC
* * * **** * * * *
33853 TTAATTTTCAAAATATTAAGAAAAGTAGTATTATTTTATTTTGGATAAACTTTTGTGAACTAAAA
1 TTAATTTTGAAAATATTAA-TAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAAAAA
* * *
33918 CAATTGTTTTATGACAAAACAAAAATTCACAATGATTTTAAATAGATAATTGTTCAAATAGTCAT
65 TAATTGTTTTATGACAAAACAAAAATTCACAATGATTTGAAATAGATAATTATTCAAATAGTCAT
* ** * *
33983 AACCATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTTAAATATCCTGCTTATTAATCTTTCAA
130 AACCATTAGAACTTGTTTGAAAAACAAATTTAGTTTTTTAAATATCCTACTTAATAATCTTTCAA
* * ** *
34048 AAGTAAATAAATTAGTATTATTTTCTTTTGAATAAGCTTGTATGTACTGAAACAATTATTTTATG
195 AAGTAAATAAAGTAGTATTATTTTATTTCAAATAAGCTTGTATGTACTAAAACAATTATTTTATG
** * * **
34113 ATTAAACAAAA-GATCAAAACGATTTGAAATAGATAGTTA-TTATAATAATCTTAACTATTTG-A
260 ACAAAACAAAATG-TCAAAACAATTTGAAATAGATAATTATTTA-AATAATAATAACTATTTGAA
* * * *
34175 ATTGATTGA-CAAACACATTTA-TTTTTTCAATTTCTTACTT
323 ATTG-TTCAGCAAACAAATTTATTTTTTTAAATCTCTTAC-T
* *
34215 ATTAATTTTGAAAATATTATTAAATTAGTATTATTTT-TATCTAAATAAGCTTATATGATA-AAA
1 -TTAATTTTGAAAATATTAATAAATTAGTATTATTTTAT-TCCAAATAAGCTTATATGA-ACAAA
* * * *
34278 AATAATTGTTTTATGACAAAACAAAGA-TCATAATGATTTGAGATTA-ATATTTATTCAAATAGT
63 AATAATTGTTTTATGACAAAACAAAAATTCACAATGATTTGA-AATAGATAATTATTCAAATAGT
* ** * * *
34341 CATAACTATTAGAAC-TGCTTTGAAAAACAGTTTTAG-TTTTTAAATCTCTTACTTAATAATTTT
127 CATAACCATTAGAACTTG-TTTGAAAAACAAATTTAGTTTTTTAAATATCCTACTTAATAATCTT
* * * *
34404 TGAAATA-TTAATAAAGTAGTATTATTTTATTTCAAATAAGTTTTTAT-TAACTAAAACAATTAT
191 TCAAA-AGTAAATAAAGTAGTATTATTTTATTTCAAATAAGCTTGTATGT-ACTAAAACAATTAT
* * * * *
34467 TTTATGACAAAACAAAATGTCAAAATAATTTTAAATAGATAATTGTTTAAATAGTAATATCTATT
254 TTTATGACAAAACAAAATGTCAAAACAATTTGAAATAGATAATTATTTAAATAATAATAACTATT
* *
34532 TGAAATTGTTCAGTAAACAAATTTATTTTTTTAAATCTCTTGCT
319 TGAAATTGTTCAGCAAACAAATTTATTTTTTTAAATCTCTTACT
*** * * *
34576 TTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTAAAAT
1 TTAATTTTGAAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAAAAAT
* * *
34641 AATTGTTTTATGACTAAACAAAAGGA-T-AGAATGATTTAAAATAGATAATTATTC
66 AATTGTTTTATGACAAAACAAAA--ATTCACAATGATTTGAAATAGATAATTATTC
34695 TGATAGTCTT
Statistics
Matches: 394, Mismatches: 69, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
359 2 0.01
360 204 0.52
361 96 0.24
362 74 0.19
363 18 0.05
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (362 bp):
TTAATTTTGAAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAAAAAT
AATTGTTTTATGACAAAACAAAAATTCACAATGATTTGAAATAGATAATTATTCAAATAGTCATA
ACCATTAGAACTTGTTTGAAAAACAAATTTAGTTTTTTAAATATCCTACTTAATAATCTTTCAAA
AGTAAATAAAGTAGTATTATTTTATTTCAAATAAGCTTGTATGTACTAAAACAATTATTTTATGA
CAAAACAAAATGTCAAAACAATTTGAAATAGATAATTATTTAAATAATAATAACTATTTGAAATT
GTTCAGCAAACAAATTTATTTTTTTAAATCTCTTACT
Found at i:34903 original size:23 final size:24
Alignment explanation
Indices: 34857--34914 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
34847 ATGATTTGAT
* *
34857 TATAATTA-TAATAAATATATTAA
1 TATAATTATTATTAAATATAATAA
* *
34880 TTTATTTATTATTAAATA-AATAA
1 TATAATTATTATTAAATATAATAA
34903 TATAATTATTAT
1 TATAATTATTAT
34915 AATTTAATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TATAATTATTATTAAATATAATAA
Found at i:35325 original size:20 final size:21
Alignment explanation
Indices: 35289--35332 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
35279 TTTAATATAG
*
35289 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
35309 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
35330 TTT
1 TTT
35333 TTCATTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:35470 original size:15 final size:14
Alignment explanation
Indices: 35441--35470 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35431 TTAATATTTT
35441 AAATTAAATATTAA
1 AAATTAAATATTAA
35455 AAATTAAATGATTAA
1 AAATTAAAT-ATTAA
35470 A
1 A
35471 CTATTTGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAATTAAATATTAA
Found at i:35565 original size:19 final size:17
Alignment explanation
Indices: 35509--35583 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 17
35499 TAGATTTTTA
35509 TAAAAATTAATTTAAGAT
1 TAAAAATTAATTTAA-AT
35527 ATAAAAATTTAA-TTATAAT
1 -TAAAAA-TTAATTTA-AAT
35546 TAAATTAATTAATTTAAAT
1 TAAA--AATTAATTTAAAT
**
35565 TTGAAA-T-ATTTAAAT
1 TAAAAATTAATTTAAAT
35580 TAAA
1 TAAA
35584 TGAATAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
15 10 0.21
16 1 0.02
17 2 0.04
18 4 0.09
19 20 0.43
20 10 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAAAATTAATTTAAAT
Found at i:35903 original size:25 final size:23
Alignment explanation
Indices: 35859--35904 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
35849 ATTAAGTAAG
35859 ATAAATTTAATCTAATAATATTT
1 ATAAATTTAATCTAATAATATTT
*
35882 ATAAATTATAATTTAAATAATAT
1 ATAAATT-TAATCT-AATAATAT
35905 ACCTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATTTAATCTAATAATATTT
Found at i:36757 original size:15 final size:16
Alignment explanation
Indices: 36725--36765 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
36715 TTATTAAAAA
36725 ATAATTAATAATTATT
1 ATAATTAATAATTATT
*
36741 ATATTTAATAA-TATT
1 ATAATTAATAATTATT
36756 ATAATTAATA
1 ATAATTAATA
36766 TAATCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATTAATAATTATT
Found at i:36975 original size:23 final size:22
Alignment explanation
Indices: 36936--36984 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
36926 AATTAATAGT
*
36936 TATTTATAGTATTACTTATATGA
1 TATTTATAGTATCACTTA-ATGA
*
36959 TATTTATA-TATACACTTAATTA
1 TATTTATAGTAT-CACTTAATGA
36981 TATT
1 TATT
36985 AATTAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (22 bp):
TATTTATAGTATCACTTAATGA
Found at i:37022 original size:36 final size:36
Alignment explanation
Indices: 36982--37050 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
36972 ACTTAATTAT
*
36982 ATTAA-TTAAGAAGATAGTATATAATAAATATTACTA
1 ATTAATTTAAGAA-ATAATATATAATAAATATTACTA
* * *
37018 ATTAATTTAATAATTAATATATAATATATATTA
1 ATTAATTTAAGAAATAATATATAATAAATATTA
37051 ATAGTAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 22 0.79
37 6 0.21
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (36 bp):
ATTAATTTAAGAAATAATATATAATAAATATTACTA
Done.