Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, 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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 65
Found at i:1794774 original size:21 final size:20
Alignment explanation
Indices: 1794750--1794818 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
1794740 AAAACAACGA
*
1794750 AGGGATCAATCATTTCTTTAG
1 AGGGATCGATCATTTCTTT-G
* *
1794771 AGGGATCGATCTTTTTCCTTG
1 AGGGATCGATC-ATTTCTTTG
* *
1794792 AGGGATCGATCCTTTCTCCTG
1 AGGGATCGATCATTTCT-TTG
1794813 AGGGAT
1 AGGGAT
1794819 TGATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 4 0.10
21 30 0.75
22 6 0.15
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
AGGGATCGATCATTTCTTTG
Found at i:1794806 original size:22 final size:20
Alignment explanation
Indices: 1794770--1794818 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
1794760 CATTTCTTTA
*
1794770 GAGGGATCGATCTTTTTCCTT
1 GAGGGATCGATCTTTCTCC-T
1794791 GAGGGATCGATCCTTTCTCCT
1 GAGGGATCGAT-CTTTCTCCT
1794812 GAGGGAT
1 GAGGGAT
1794819 TGATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (20 bp):
GAGGGATCGATCTTTCTCCT
Found at i:1800001 original size:17 final size:17
Alignment explanation
Indices: 1799968--1800003 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1799958 TACAAATGAT
*
1799968 AAAAAATGAAATAAAAC
1 AAAAAATGAAAGAAAAC
*
1799985 AAAAAATGAAAGGAAAC
1 AAAAAATGAAAGAAAAC
1800002 AA
1 AA
1800004 GTTATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAATGAAAGAAAAC
Found at i:1802488 original size:26 final size:27
Alignment explanation
Indices: 1802445--1802508 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
1802435 CTAATAATAA
1802445 TATATAATAATATGTATATATT-AAAAAC
1 TATATAAT-ATATGTATAT-TTCAAAAAC
1802473 TATATAATATAT-TATATTTCAAAAAC
1 TATATAATATATGTATATTTCAAAAAC
*
1802499 AATATAATAT
1 TATATAATAT
1802509 GTTTTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.06
26 20 0.59
27 4 0.12
28 8 0.24
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (27 bp):
TATATAATATATGTATATTTCAAAAAC
Found at i:1802502 original size:21 final size:22
Alignment explanation
Indices: 1802478--1802534 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
1802468 AAAACTATAT
1802478 AATATATTATATTTCAAAAA-C
1 AATATATTATATTTCAAAAATC
* * *
1802499 AATATAATATGTTTTCAAAAATT
1 AATATATTAT-ATTTCAAAAATC
1802522 ACATATATTATAT
1 A-ATATATTATAT
1802535 ATGTTTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 9 0.32
22 9 0.32
23 2 0.07
24 8 0.29
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATATTATATTTCAAAAATC
Found at i:1802589 original size:21 final size:21
Alignment explanation
Indices: 1802565--1802664 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 21
1802555 AAAAAAACTA
* *
1802565 TATATTATACATTTTCAAAAT
1 TATATTATATATTTTCAAAAC
* *
1802586 TATATAATATGTTTTCAAAAAC
1 TATATTATATATTTTC-AAAAC
1802608 TATATTATATATTTTCAAAAAATC
1 TATATTATATATTTTC--AAAA-C
*
1802632 TATATATTATATATTTTTAAAA-
1 --TATATTATATATTTTCAAAAC
1802654 -ATATTATATAT
1 TATATTATATAT
1802665 ATATATATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
19 11 0.16
21 13 0.19
22 18 0.27
23 5 0.07
24 5 0.07
26 15 0.22
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (21 bp):
TATATTATATATTTTCAAAAC
Found at i:1802596 original size:87 final size:84
Alignment explanation
Indices: 1802467--1802628 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 84
1802457 TGTATATATT
*
1802467 AAAAACTATATAATATATTATATTTCAAAAACAATATAATATGTTTTCAAAAATTACATATATTA
1 AAAAACTATATAATATATCATATTTCAAAAACAATATAATATGTTTTC-AAAA--AC-TATATTA
1802532 TATATGTTTTCAAAAACCGTTTTAA
62 TATA--TTTTCAAAAACCGTTTTAA
* **
1802557 AAAAACTATATATTATA-CAT-TTTC-AAAATTATATAATATGTTTTCAAAAACTATATTATATA
1 AAAAACTATATAATATATCATATTTCAAAAACAATATAATATGTTTTCAAAAACTATATTATATA
1802619 TTTTCAAAAA
66 TTTTCAAAAA
1802629 ATCTATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
81 10 0.15
83 11 0.16
84 2 0.03
86 4 0.06
87 19 0.28
88 4 0.06
89 2 0.03
90 16 0.24
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (84 bp):
AAAAACTATATAATATATCATATTTCAAAAACAATATAATATGTTTTCAAAAACTATATTATATA
TTTTCAAAAACCGTTTTAA
Found at i:1802611 original size:22 final size:22
Alignment explanation
Indices: 1802557--1802668 Score: 93
Period size: 23 Copynumber: 4.8 Consensus size: 22
1802547 ACCGTTTTAA
*
1802557 AAAAACTATATATTATACATTTTC
1 AAAAACTATATA--ATATATTTTC
* *
1802581 -AAAATTATATAATATGTTTTC
1 AAAAACTATATAATATATTTTC
*
1802602 AAAAACTATATTATATATTTTC
1 AAAAACTATATAATATATTTTC
*
1802624 AAAAAATCTATATATTATATATTTTT
1 -AAAAA-CTATATA--ATATATTTTC
1802650 AAAAA-TATTATATATATAT
1 AAAAACTA-TATA-ATATAT
1802669 ATATATATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.11
22 18 0.24
23 24 0.32
24 10 0.14
25 5 0.07
26 9 0.12
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (22 bp):
AAAAACTATATAATATATTTTC
Found at i:1802637 original size:2 final size:2
Alignment explanation
Indices: 1802632--1802703 Score: 62
Period size: 2 Copynumber: 37.0 Consensus size: 2
1802622 TCAAAAAATC
* * * *
1802632 TA TA TA T- TA TA TA TT TT TA AA AA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1802672 TA TA TA TA T- TA TCA TA TA TA CTA TA TA -A TA TA
1 TA TA TA TA TA TA T-A TA TA TA -TA TA TA TA TA TA
1802704 AAAAATGTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
1 4 0.07
2 52 0.87
3 4 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1802676 original size:19 final size:19
Alignment explanation
Indices: 1802632--1802703 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
1802622 TCAAAAAATC
* *
1802632 TATATATTATATATTTTTA
1 TATATATTATATATATATA
* *
1802651 AAAATATTATATATATATA
1 TATATATTATATATATATA
1802670 TATATA-TATATTATCATATA
1 TATATATTATA-TAT-ATATA
*
1802690 TACTATATAATATA
1 TA-TATATTATATA
1802704 AAAAATGTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 4 0.10
19 22 0.52
20 7 0.17
21 6 0.14
22 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTATATATATATA
Found at i:1803531 original size:2 final size:2
Alignment explanation
Indices: 1803524--1803549 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1803514 TTGTTCATAG
1803524 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1803550 TTGACAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1804071 original size:23 final size:23
Alignment explanation
Indices: 1804017--1804071 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
1804007 TAAGCTACCG
1804017 AAAGGTAGAGAAAAACATGCCAC
1 AAAGGTAGAGAAAAACATGCCAC
** * * * *
1804040 AAACATAGAGATAAACGTGTCAT
1 AAAGGTAGAGAAAAACATGCCAC
1804063 AAAGGTAGA
1 AAAGGTAGA
1804072 TAACATGTCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.22, T:0.15
Consensus pattern (23 bp):
AAAGGTAGAGAAAAACATGCCAC
Found at i:1804097 original size:3 final size:3
Alignment explanation
Indices: 1804089--1804132 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1804079 TCACAAAGAC
1804089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1804133 ATAAAATCGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1804308 original size:4 final size:4
Alignment explanation
Indices: 1804294--1804865 Score: 1135
Period size: 4 Copynumber: 143.0 Consensus size: 4
1804284 GCTATAGTTT
*
1804294 CATC TATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804342 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804390 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804438 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804486 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804534 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804582 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804630 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804678 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804726 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804774 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804822 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1804866 TATCTATCTA
Statistics
Matches: 566, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 566 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:1807032 original size:15 final size:15
Alignment explanation
Indices: 1807011--1807045 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1807001 CAACGGTTAA
1807011 CGGGTCGGGTCAAAC
1 CGGGTCGGGTCAAAC
*
1807026 TGGGTCGGGTCAAAC
1 CGGGTCGGGTCAAAC
1807041 CGGGT
1 CGGGT
1807046 GACTTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (15 bp):
CGGGTCGGGTCAAAC
Found at i:1808331 original size:15 final size:15
Alignment explanation
Indices: 1808311--1808346 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1808301 TCTCCTAGAT
1808311 TTGGTGTTGAGAATG
1 TTGGTGTTGAGAATG
1808326 TTGGTGTTGAGAATG
1 TTGGTGTTGAGAATG
1808341 TTGGTG
1 TTGGTG
1808347 AGATGCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
TTGGTGTTGAGAATG
Found at i:1810625 original size:13 final size:13
Alignment explanation
Indices: 1810607--1810640 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1810597 TAAGATTTTC
*
1810607 TTTGAAAATCATT
1 TTTGAAAATCAAT
1810620 TTTG-AAATCAAT
1 TTTGAAAATCAAT
1810632 TTTGAAAAT
1 TTTGAAAAT
1810641 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:1812807 original size:20 final size:20
Alignment explanation
Indices: 1812782--1812834 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1812772 ACCCGACGAG
1812782 TGTATCGATACACTCCTGAT
1 TGTATCGATACACTCCTGAT
1812802 TGTATCGATACACTCCTGAT
1 TGTATCGATACACTCCTGAT
1812822 TGTATCGATACAC
1 TGTATCGATACAC
1812835 ATTCAAGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (20 bp):
TGTATCGATACACTCCTGAT
Found at i:1812852 original size:23 final size:21
Alignment explanation
Indices: 1812822--1812877 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1812812 CACTCCTGAT
*
1812822 TGTATCGATACACATTCAAGGAG
1 TGTATCGATACACA-GCAAGG-G
* *
1812845 TGTATCGATACATAGCGAGGG
1 TGTATCGATACACAGCAAGGG
1812866 TGTATCGATACA
1 TGTATCGATACA
1812878 TAAGTATCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 4 0.13
23 13 0.43
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (21 bp):
TGTATCGATACACAGCAAGGG
Found at i:1820121 original size:2 final size:2
Alignment explanation
Indices: 1820114--1820146 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1820104 CACCCGTATG
1820114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1820147 GGATCAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1821172 original size:22 final size:20
Alignment explanation
Indices: 1821140--1821297 Score: 81
Period size: 22 Copynumber: 7.7 Consensus size: 20
1821130 TTGAACTATG
* *
1821140 TATAAACTATATGGTTTATTAA
1 TATAAATTATATAGTTTA-T-A
*
1821162 TATAAATTATATAGTTTATG
1 TATAAATTATATAGTTTATA
*
1821182 TATAAATTATATATGAATTATA
1 TATAAATTATATA-G-TTTATA
* *
1821204 TATAAATTATACAATTTATA
1 TATAAATTATATAGTTTATA
* * *
1821224 TTTATA-TAT-TA-TGTATAA
1 TATAAATTATATAGTTTAT-A
* * * *
1821242 TTATAAATAATATA-TACTGTG
1 -TATAAATTATATAGT-TTATA
1821263 TATAAATTATATAGTTTATTAA
1 TATAAATTATATAGTTTA-T-A
*
1821285 TATAAACTATATA
1 TATAAATTATATA
1821298 TAAACTATAT
Statistics
Matches: 103, Mismatches: 23, Indels: 20
0.71 0.16 0.14
Matches are distributed among these distances:
17 4 0.04
18 2 0.02
19 7 0.07
20 37 0.36
21 7 0.07
22 46 0.45
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (20 bp):
TATAAATTATATAGTTTATA
Found at i:1821191 original size:11 final size:11
Alignment explanation
Indices: 1821157--1821214 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
1821147 TATATGGTTT
1821157 ATTA-ATATAA
1 ATTATATATAA
1821167 ATTATATAGT--
1 ATTATATA-TAA
*
1821177 -TTATGTATAA
1 ATTATATATAA
*
1821187 ATTATATATGA
1 ATTATATATAA
1821198 ATTATATATAA
1 ATTATATATAA
1821209 ATTATA
1 ATTATA
1821215 CAATTTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 4 0.10
11 27 0.69
12 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (11 bp):
ATTATATATAA
Found at i:1821193 original size:42 final size:40
Alignment explanation
Indices: 1821136--1821298 Score: 118
Period size: 42 Copynumber: 4.0 Consensus size: 40
1821126 ACTATTGAAC
*
1821136 TATGTATAAACTATATGGTTTATTAATATAAATTATATAGTT
1 TATGTATAAATTATAT-GTTTATTAATATAAATTATATA-TT
* ** *
1821178 TATGTATAAATTATATATGAATTATATATAAATTATACAATT
1 TATGTATAAATTATATGTTTATTA-ATATAAATTATA-TATT
* * * * *
1821220 TATATTTATA-TATTATG--TA-TAATTATAAATAATATATAC
1 TATGTATAAATTA-TATGTTTATTAA-TATAAATTATATAT-T
* *
1821259 TGTGTATAAATTATATAGTTTATTAATATAAACTATATAT
1 TATGTATAAATTATAT-GTTTATTAATATAAATTATATAT
1821299 AAACTATATA
Statistics
Matches: 92, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
38 3 0.03
39 21 0.23
40 4 0.04
41 7 0.08
42 53 0.58
43 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.47
Consensus pattern (40 bp):
TATGTATAAATTATATGTTTATTAATATAAATTATATATT
Found at i:1821222 original size:20 final size:20
Alignment explanation
Indices: 1821089--1821224 Score: 78
Period size: 22 Copynumber: 6.6 Consensus size: 20
1821079 CTGAAATAAC
* *
1821089 TATAATATATATATATATATA
1 TATAATTTATATATAAAT-TA
** *
1821110 TATAAACTATATATAAACTA
1 TATAATTTATATATAAATTA
* * *
1821130 T-TGAA-CTATGTATAAACTA
1 TAT-AATTTATATATAAATTA
**
1821149 TATGGTTTATTAATATAAATTA
1 TATAATTTA-T-ATATAAATTA
* *
1821171 TATAGTTTATGTATAAATTA
1 TATAATTTATATATAAATTA
*
1821191 TATATGAATTATATATAAATTA
1 TATA--ATTTATATATAAATTA
*
1821213 TACAATTTATAT
1 TATAATTTATAT
1821225 TTATATATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
19 15 0.16
20 28 0.31
21 16 0.18
22 32 0.35
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (20 bp):
TATAATTTATATATAAATTA
Found at i:1821286 original size:33 final size:32
Alignment explanation
Indices: 1821248--1821329 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 32
1821238 ATAATTATAA
* * *
1821248 ATAATATATACTGTGTATAAATTATATAGTTT
1 ATAATATATACTATATATAAACTATATAGTTT
*
1821280 ATTAATATAAACTATATATAAACTATATAGTTT
1 A-TAATATATACTATATATAAACTATATAGTTT
*
1821313 AT-ATATATAGTATATAT
1 ATAATATATACTATATAT
1821330 GGTTTAGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
31 13 0.30
32 2 0.05
33 28 0.65
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (32 bp):
ATAATATATACTATATATAAACTATATAGTTT
Found at i:1821300 original size:11 final size:11
Alignment explanation
Indices: 1821284--1821308 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1821274 TAGTTTATTA
1821284 ATATAAACTAT
1 ATATAAACTAT
1821295 ATATAAACTAT
1 ATATAAACTAT
1821306 ATA
1 ATA
1821309 GTTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAACTAT
Found at i:1821422 original size:30 final size:30
Alignment explanation
Indices: 1821388--1821447 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1821378 AGATAGTAGT
1821388 ATTTAAACTATATATAAACAATATATACTA
1 ATTTAAACTATATATAAACAATATATACTA
* * *
1821418 ATTTATACTATATGTAAACTATATATACTA
1 ATTTAAACTATATATAAACAATATATACTA
1821448 TATAGTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTTAAACTATATATAAACAATATATACTA
Found at i:1821446 original size:20 final size:20
Alignment explanation
Indices: 1821421--1821506 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 20
1821411 TATACTAATT
1821421 TATACTATATGTAAACTATA
1 TATACTATATGTAAACTATA
**
1821441 TATACTATATAGTTTAC-ATA
1 TATACTATAT-GTAAACTATA
1821461 TGA-ACTATATGTATAAACTATA
1 T-ATACTATATG--TAAACTATA
1821483 TATA-TAAACTATGTAAACTATA
1 TATACT--A-TATGTAAACTATA
1821505 TA
1 TA
1821507 ATATATATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
19 1 0.02
20 21 0.40
21 10 0.19
22 16 0.30
23 1 0.02
24 4 0.08
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (20 bp):
TATACTATATGTAAACTATA
Found at i:1821481 original size:13 final size:13
Alignment explanation
Indices: 1821396--1821494 Score: 63
Period size: 13 Copynumber: 7.1 Consensus size: 13
1821386 GTATTTAAAC
*
1821396 TATATATAAACAA
1 TATATATAAACTA
**
1821409 TATATACTAATTTA
1 TATATA-TAAACTA
1821423 TACTATATGTAAACTA
1 TA-TATA--TAAACTA
* *
1821439 TATATACTATATAGTT
1 TATATA-TA-A-ACTA
* *
1821455 TACATATGAACTA
1 TATATATAAACTA
*
1821468 TATGTATAAACTA
1 TATATATAAACTA
1821481 TATATATAAACTA
1 TATATATAAACTA
1821494 T
1 T
1821495 GTAAACTATA
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
13 31 0.48
14 9 0.14
15 10 0.16
16 14 0.22
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1821644 original size:20 final size:20
Alignment explanation
Indices: 1821621--1821771 Score: 80
Period size: 20 Copynumber: 7.5 Consensus size: 20
1821611 TTTTTATAGC
*
1821621 ATATAATACATATATAAACT
1 ATATAATATATATATAAACT
* * *
1821641 ATATAGTTTACATATAAACT
1 ATATAATATATATATAAACT
*
1821661 ATATATTATATATAT-AACT
1 ATATAATATATATATAAACT
*
1821680 -TATATATAGTATATAGTATA-T
1 ATATA-ATA-TATATA-TAAACT
* * * *
1821701 AGTATAGTTTACATATGAACT
1 A-TATAATATATATATAAACT
* *
1821722 ATATATAAAAACTATATAAACT
1 ATATA-ATATA-TATATAAACT
1821744 ATAGT--T-TATATATAAACT
1 ATA-TAATATATATATAAACT
*
1821762 ATATACTATA
1 ATATAATATA
1821772 GTTGATATTT
Statistics
Matches: 96, Mismatches: 22, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
17 1 0.01
18 17 0.18
19 8 0.08
20 42 0.44
21 10 0.10
22 13 0.14
23 5 0.05
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATAATATATATATAAACT
Found at i:1821784 original size:27 final size:25
Alignment explanation
Indices: 1821723--1821805 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 25
1821713 ATATGAACTA
*
1821723 TATATAAAAACTATATAAACTATAGTT
1 TATATATAAACTATAT--ACTATAGTT
1821750 TATATATAAACTATATACTATAGTT
1 TATATATAAACTATATACTATAGTT
* * * *
1821775 GATATTTATATACTATATAATATAATT
1 --TATATATAAACTATATACTATAGTT
1821802 TATA
1 TATA
1821806 CTTACATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.25
27 36 0.75
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
TATATATAAACTATATACTATAGTT
Found at i:1821816 original size:15 final size:16
Alignment explanation
Indices: 1821796--1821831 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1821786 ACTATATAAT
1821796 ATAATTTATACT-TAC
1 ATAATTTATACTATAC
1821811 ATAATTTATACTATAC
1 ATAATTTATACTATAC
1821827 A-AATT
1 ATAATT
1821832 CAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTATACTATAC
Found at i:1821923 original size:20 final size:20
Alignment explanation
Indices: 1821898--1821954 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1821888 ATTTGTATAG
1821898 TATATACTACA-TATATAGTT
1 TATATA-TACACTATATAGTT
*
1821918 TATATATATACTATATAGTT
1 TATATATACACTATATAGTT
*
1821938 TACATATGA-ACTATATA
1 TATATAT-ACACTATATA
1821955 TAAAAACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 29 0.88
21 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATATACACTATATAGTT
Found at i:1821964 original size:13 final size:13
Alignment explanation
Indices: 1821946--1821979 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1821936 TTTACATATG
1821946 AACTATATATAAA
1 AACTATATATAAA
*
1821959 AACTATATATACA
1 AACTATATATAAA
*
1821972 AAGTATAT
1 AACTATAT
1821980 GGTATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:1822007 original size:16 final size:15
Alignment explanation
Indices: 1821982--1822024 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
1821972 AAGTATATGG
1821982 TATATATATAGTTTA
1 TATATATATAGTTTA
1821997 TATATTATATAGTTTA
1 TATA-TATATAGTTTA
1822013 TTAGTATATATA
1 -TA-TATATATA
1822025 AACTATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 8 0.32
18 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATATATAGTTTA
Found at i:1822055 original size:51 final size:53
Alignment explanation
Indices: 1821964--1822083 Score: 172
Period size: 51 Copynumber: 2.3 Consensus size: 53
1821954 ATAAAAACTA
* * ** * *
1821964 TATATACAAAGTATATGGTATATATATAGTTTATATATTATATAGTTTATTAG
1 TATATATAAACTATATGGTATATATATAGACTATACATTATATAGTTCATTAG
1822017 TATATATAAACTATATGGTATATATA-A-ACTATACATTATATAGTTCATTAG
1 TATATATAAACTATATGGTATATATATAGACTATACATTATATAGTTCATTAG
1822068 TATATATAAACTATAT
1 TATATATAAACTATAT
1822084 ATTATATAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 36 0.59
52 1 0.02
53 24 0.39
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (53 bp):
TATATATAAACTATATGGTATATATATAGACTATACATTATATAGTTCATTAG
Found at i:1822071 original size:33 final size:33
Alignment explanation
Indices: 1822034--1822120 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
1822024 AAACTATATG
*
1822034 GTATATATAAACTATACATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
1822067 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
* *
1822100 ATATATATAACCTATATATTA
1 GTATATATAAACTATATATTA
1822121 ATTTATTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (33 bp):
GTATATATAAACTATATATTATATAGTTCATTA
Found at i:1822091 original size:18 final size:18
Alignment explanation
Indices: 1822014--1822091 Score: 74
Period size: 18 Copynumber: 4.5 Consensus size: 18
1822004 TATAGTTTAT
1822014 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
1822032 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* **
1822050 CA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
1822065 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
1822083 TATTATATA
1 TAGTATATA
1822092 GTTCATTAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
15 3 0.07
16 8 0.17
17 8 0.17
18 27 0.59
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:1822116 original size:31 final size:31
Alignment explanation
Indices: 1822035--1822135 Score: 107
Period size: 33 Copynumber: 3.2 Consensus size: 31
1822025 AACTATATGG
* *
1822035 TATATATAAACTATACATTATATAGTTCATTAG
1 TATATATAACCTAT--ATTATATAGTTCATTAA
*
1822068 TATATATAAACTATATATTATATAGTTCATTAA
1 TATATAT-AAC-CTATATTATATAGTTCATTAA
* *
1822101 TATATATAACCTATA-TAT-TAATTTATTAA
1 TATATATAACCTATATTATATAGTTCATTAA
1822130 TATATA
1 TATATA
1822136 CATATATATA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 15 0.25
30 3 0.05
31 4 0.07
32 3 0.05
33 30 0.50
34 2 0.03
35 3 0.05
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (31 bp):
TATATATAACCTATATTATATAGTTCATTAA
Found at i:1822266 original size:61 final size:61
Alignment explanation
Indices: 1822201--1822321 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
1822191 ATTGTATAAA
** * *
1822201 TTTTAAATATGAAA-CTTAAATTAATAAATTGTAACATTTAATTTGGATTAAATTGAACAAG
1 TTTTAAATAT-AAATCTTAAATTAATAAATTACAACATTAAATTTGGACTAAATTGAACAAG
* *
1822262 TTTTAAATATAAATCTTAAATTAATATATTACATCATTAAATTTGGACTAAATTGAACAA
1 TTTTAAATATAAATCTTAAATTAATAAATTACAACATTAAATTTGGACTAAATTGAACAA
1822322 ATTTAAAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 3 0.06
61 50 0.94
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (61 bp):
TTTTAAATATAAATCTTAAATTAATAAATTACAACATTAAATTTGGACTAAATTGAACAAG
Found at i:1822856 original size:110 final size:111
Alignment explanation
Indices: 1822645--1822847 Score: 261
Period size: 109 Copynumber: 1.8 Consensus size: 111
1822635 TTGATCCCAA
* * * *
1822645 AAACCCTTCTTTGATCTTCACAAACACCAAAACCCAAACTATTTCGTGTTTTTTATCAAACACCC
1 AAACCATTATTTGATCTTCACAAACACCAAAACCCAAACCATTTCCTGTTTTTTATCAAACACCC
* *
1822710 AAAAAAATCAACCCTTGTTCATCTGTGTTCATCCCAATTCTTCCCC
66 AAAAAAATAAACCCTTATTCATCTGTGTTCATCCCAATTCTTCCCC
* *
1822756 AAACCATTATTTGATCTTCAC-AACACCAAAACCTAGACCCA-TTCCT-TTTTTTAATCAAACAC
1 AAACCATTATTTGATCTTCACAAACACCAAAACCCA-AACCATTTCCTGTTTTTT-ATCAAACAC
** *
1822818 CC-AAAAGTTAAACCCTTATTCATTTGTGTT
64 CCAAAAAAATAAACCCTTATTCATCTGTGTT
1822848 ATTCCCCAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
109 29 0.37
110 28 0.35
111 22 0.28
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (111 bp):
AAACCATTATTTGATCTTCACAAACACCAAAACCCAAACCATTTCCTGTTTTTTATCAAACACCC
AAAAAAATAAACCCTTATTCATCTGTGTTCATCCCAATTCTTCCCC
Found at i:1823937 original size:66 final size:66
Alignment explanation
Indices: 1823831--1823960 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 66
1823821 TAGGTCCATA
** *
1823831 AGGAATTACCAGTCAGTGTTGAACCTATAAAAGGAGTTACCAATAGCGACTGAACCTGCCAGAGA
1 AGGAATTACCAGTCAGTGCAGAACCTATAAAAGGAATTACCAATAGCGACTGAACCTGCCAGAGA
1823896 T
66 T
* * **
1823897 AGGAATTACCAGTCGGTGCAGAACCTATACAAGGAATTACCTGTAGCGACTGAACCTGCCAGAG
1 AGGAATTACCAGTCAGTGCAGAACCTATAAAAGGAATTACCAATAGCGACTGAACCTGCCAGAG
1823961 TCTTAATACC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (66 bp):
AGGAATTACCAGTCAGTGCAGAACCTATAAAAGGAATTACCAATAGCGACTGAACCTGCCAGAGA
T
Found at i:1825754 original size:19 final size:19
Alignment explanation
Indices: 1825730--1825769 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1825720 GTCAACGTCC
1825730 AATAATCCATTAGACGCCA
1 AATAATCCATTAGACGCCA
1825749 AATAATCCATTAGACGCCA
1 AATAATCCATTAGACGCCA
1825768 AA
1 AA
1825770 CAACCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (19 bp):
AATAATCCATTAGACGCCA
Found at i:1827137 original size:2 final size:2
Alignment explanation
Indices: 1827132--1827159 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1827122 GTATATGCTT
1827132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1827160 AAATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1829490 original size:20 final size:20
Alignment explanation
Indices: 1829465--1829542 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1829455 CAATAGTTGT
1829465 TTGATTCTGCTTGATATTGC
1 TTGATTCTGCTTGATATTGC
* * *
1829485 TTGATTCTGTTTTATATTGT
1 TTGATTCTGCTTGATATTGC
* *
1829505 TTGCTTCTGTTTGATATTGC
1 TTGATTCTGCTTGATATTGC
*
1829525 TTGATTCTACTTGATATT
1 TTGATTCTGCTTGATATT
1829543 TGTAAGGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.56
Consensus pattern (20 bp):
TTGATTCTGCTTGATATTGC
Found at i:1829542 original size:40 final size:40
Alignment explanation
Indices: 1829461--1829542 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
1829451 GAAGCAATAG
** *
1829461 TTGTTTGATTCTGCTTGATATTGCTTGATTCTGTTTTATA
1 TTGTTTGATTCTGCTTGATATTGCTTGATTCTACTTGATA
* *
1829501 TTGTTTGCTTCTGTTTGATATTGCTTGATTCTACTTGATA
1 TTGTTTGATTCTGCTTGATATTGCTTGATTCTACTTGATA
1829541 TT
1 TT
1829543 TGTAAGGGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (40 bp):
TTGTTTGATTCTGCTTGATATTGCTTGATTCTACTTGATA
Found at i:1841156 original size:18 final size:19
Alignment explanation
Indices: 1841133--1841171 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1841123 TCTATCGTCA
1841133 TTATCATCATCAAT-ATTC
1 TTATCATCATCAATAATTC
*
1841151 TTATCATTATCAATAATTC
1 TTATCATCATCAATAATTC
1841170 TT
1 TT
1841172 TTTATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATCATCATCAATAATTC
Found at i:1841413 original size:23 final size:23
Alignment explanation
Indices: 1841396--1841468 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
1841386 TGAAGGACCC
1841396 CATAGGTTTGCACCGAAGTGCCA
1 CATAGGTTTGCACCGAAGTGCCA
*
1841419 CATAGGTTTGCACAGAAGTGCCA
1 CATAGGTTTGCACCGAAGTGCCA
*
1841442 CATAAGTTTGCACCGAAGTGCCA
1 CATAGGTTTGCACCGAAGTGCCA
1841465 CATA
1 CATA
1841469 ATTGTCCCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGGTTTGCACCGAAGTGCCA
Found at i:1845362 original size:21 final size:23
Alignment explanation
Indices: 1845338--1845395 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1845328 TAATTTGCAT
1845338 CGAAGTG-CCACATA-TCTGTCC
1 CGAAGTGACCACATAGTCTGTCC
*
1845359 CGAAG-GACCACATAGTTTTGTCC
1 CGAAGTGACCACATAG-TCTGTCC
1845382 CGAA-TGACCACATA
1 CGAAGTGACCACATA
1845396 AAACCCTCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
23 19 0.59
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (23 bp):
CGAAGTGACCACATAGTCTGTCC
Found at i:1847668 original size:2 final size:2
Alignment explanation
Indices: 1847661--1847705 Score: 56
Period size: 2 Copynumber: 22.0 Consensus size: 2
1847651 CTCATGTAAC
*
1847661 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TC TCA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA
1847704 TA
1 TA
1847706 CGCATAAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 1 0.03
2 34 0.89
3 3 0.08
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1851078 original size:12 final size:12
Alignment explanation
Indices: 1851061--1851087 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1851051 CTGGCTGACT
1851061 TCTACCTCTTCC
1 TCTACCTCTTCC
1851073 TCTACCTCTTCC
1 TCTACCTCTTCC
1851085 TCT
1 TCT
1851088 CTGAGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.48, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTACCTCTTCC
Found at i:1852901 original size:30 final size:31
Alignment explanation
Indices: 1852865--1852953 Score: 108
Period size: 32 Copynumber: 2.9 Consensus size: 31
1852855 ATGACCTATT
* * *
1852865 CATATGTTCCGAAAAACATAGGTAA-GTGTC
1 CATATGTCCCGAAAGACATAGGTAACCTGTC
* *
1852895 CATATGTCCCGAAGGACATAAGTAATCCTGTC
1 CATATGTCCCGAAAGACATAGGTAA-CCTGTC
*
1852927 GATATGTCCCGAAAGACATAGGTAACC
1 CATATGTCCCGAAAGACATAGGTAACC
1852954 CTCAACTCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 21 0.43
31 2 0.04
32 26 0.53
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (31 bp):
CATATGTCCCGAAAGACATAGGTAACCTGTC
Found at i:1858285 original size:19 final size:20
Alignment explanation
Indices: 1858242--1858285 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
1858232 CAACAATATT
* * *
1858242 GATACTGACCCTTGGGTATC
1 GATACTCACCCTTGAGTAAC
1858262 GATACTCACCC-TGAGTAAC
1 GATACTCACCCTTGAGTAAC
1858281 GATAC
1 GATAC
1858286 CAAAAATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (20 bp):
GATACTCACCCTTGAGTAAC
Found at i:1861259 original size:2 final size:2
Alignment explanation
Indices: 1861252--1861289 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1861242 TGAAATTTTA
1861252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1861290 TTATTATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1867342 original size:3 final size:3
Alignment explanation
Indices: 1867334--1867379 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
1867324 GTCCCGACAC
*
1867334 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1867380 TTGTGTAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1869479 original size:130 final size:130
Alignment explanation
Indices: 1869321--1869636 Score: 386
Period size: 130 Copynumber: 2.4 Consensus size: 130
1869311 CGAAATTGAG
* * * * *
1869321 AATAGTAATATCTTTTCATTTTGGTTGGAGTAATAAATGACCGCTTTAAGGCATGAGAAATCATT
1 AATAGTGATATCTTTTCATTTCGATTGGAGTAATAAATGACTGATTTAAGGCATGAGAAATCATT
** ** *
1869386 TATTCTCGATCGAAAAT-AATTTGATATTACCATTTTCTCTCAAAT-AATATTGATTTTTAAGAC
66 TATTCTCGATCGAAAATCAA-TAAATATTACCATTTTAACTCAAATCAATATTGA-ATTTAAGAC
1869449 -A
129 GA
* * **
1869450 TAATAGTGATATATCTTCATTTCGATTGGAGTAATAAATGACTGATTTAAGGCATGAGATGTCAT
1 -AATAGTGATATCTTTTCATTTCGATTGGAGTAATAAATGACTGATTTAAGGCATGAGAAATCAT
* * * *
1869515 TTATTCTCGATTGGAAATCAATAAATATTATCATTTTAACTCGAATCAATATTGAATTTAAGACG
65 TTATTCTCGATCGAAAATCAATAAATATTACCATTTTAACTCAAATCAATATTGAATTTAAGACG
1869580 A
130 A
* * * *
1869581 AATATTGATATCTTTTCATTTCAATTGGGGTAATAAATGACTGTTTTAAGGCATGA
1 AATAGTGATATCTTTTCATTTCGATTGGAGTAATAAATGACTGATTTAAGGCATGA
1869637 AAGGTTATTT
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 148 0.93
131 11 0.07
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (130 bp):
AATAGTGATATCTTTTCATTTCGATTGGAGTAATAAATGACTGATTTAAGGCATGAGAAATCATT
TATTCTCGATCGAAAATCAATAAATATTACCATTTTAACTCAAATCAATATTGAATTTAAGACGA
Found at i:1870897 original size:21 final size:18
Alignment explanation
Indices: 1870835--1870908 Score: 112
Period size: 18 Copynumber: 3.9 Consensus size: 18
1870825 ACTGTATATC
1870835 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1870853 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
1870871 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
1870890 TTTGTCCCGAAGGACCACT
1 --TGTCCCGAAGGACCACT
1870909 CCTTAAGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
18 33 0.65
19 1 0.02
21 17 0.33
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1878850 original size:2 final size:2
Alignment explanation
Indices: 1878843--1878871 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1878833 TGATTGTTTA
1878843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1878872 AGATCTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1881061 original size:34 final size:34
Alignment explanation
Indices: 1881018--1881087 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
1881008 CAACAAACCA
1881018 ACTTGTCGTCTTCATCTCAAAACCCGTCTGACAC
1 ACTTGTCGTCTTCATCTCAAAACCCGTCTGACAC
1881052 ACTTGTCGTCTTCATCTCAAAACCCGTCTGACAC
1 ACTTGTCGTCTTCATCTCAAAACCCGTCTGACAC
1881086 AC
1 AC
1881088 CTGGTTACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.36, G:0.11, T:0.29
Consensus pattern (34 bp):
ACTTGTCGTCTTCATCTCAAAACCCGTCTGACAC
Found at i:1883259 original size:14 final size:14
Alignment explanation
Indices: 1883240--1883266 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1883230 CCAAGTGACG
1883240 ATTATTATATATAC
1 ATTATTATATATAC
1883254 ATTATTATATATA
1 ATTATTATATATA
1883267 ATAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTATATATAC
Found at i:1883405 original size:21 final size:22
Alignment explanation
Indices: 1883344--1883406 Score: 103
Period size: 22 Copynumber: 2.9 Consensus size: 22
1883334 GATAATTTGG
1883344 GAGCCCGATTACAAAGGCACGC
1 GAGCCCGATTACAAAGGCACGC
1883366 GAGCCCGATTACAAAGGCACGC
1 GAGCCCGATTACAAAGGCACGC
1883388 -AGGCCCGATTAC-AAGGCAC
1 GA-GCCCGATTACAAAGGCAC
1883407 ATAAGCCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 8 0.20
22 32 0.80
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.10
Consensus pattern (22 bp):
GAGCCCGATTACAAAGGCACGC
Found at i:1884681 original size:23 final size:24
Alignment explanation
Indices: 1884652--1884699 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1884642 AGGTTTATTA
1884652 TTATATA-TAATATATAATT-TAAT
1 TTATATAGTAATAT-TAATTATAAT
1884675 TTATATAGTTAATATTAATTATAAT
1 TTATATAG-TAATATTAATTATAAT
1884700 AATAGGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
24 5 0.23
25 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATATAGTAATATTAATTATAAT
Found at i:1891978 original size:21 final size:21
Alignment explanation
Indices: 1891949--1891990 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1891939 TTATGGGCTG
1891949 TGTGCATCGATGCACATTCAA
1 TGTGCATCGATGCACATTCAA
* *
1891970 TGTGTATCGATGCACTTTCAA
1 TGTGCATCGATGCACATTCAA
1891991 ATAAATGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTGCATCGATGCACATTCAA
Found at i:1892484 original size:2 final size:2
Alignment explanation
Indices: 1892477--1892523 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
1892467 AATAATATGA
1892477 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1892518 AT AT AT
1 AT AT AT
1892524 CTAATTCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1893509 original size:18 final size:18
Alignment explanation
Indices: 1893488--1893551 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 18
1893478 ACAATGGTCT
1893488 TTCGGGACATAGTGGTTC
1 TTCGGGACATAGTGGTTC
** *
1893506 TTCGAAACAATCAGTGGTCC
1 TTCGGGAC-AT-AGTGGTTC
1893526 TTCGGGACATAGTGG-TC
1 TTCGGGACATAGTGGTTC
*
1893543 GTCGGGACA
1 TTCGGGACA
1893552 AATATTCAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 4 0.11
20 13 0.35
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (18 bp):
TTCGGGACATAGTGGTTC
Found at i:1898433 original size:20 final size:20
Alignment explanation
Indices: 1898410--1898505 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
1898400 GAGGGATTAT
1898410 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
*
1898430 CAGTGGTCCTTAGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * * *
1898448 TAGTGGTTCTTCAGAACAAT
1 CAGTGGTCCTTCGGGACAAA
1898468 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
1898486 TAGTGGTCCATCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
1898506 TATTCAGTGC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 28 0.48
20 30 0.52
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:1898454 original size:38 final size:38
Alignment explanation
Indices: 1898411--1898505 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 38
1898401 AGGGATTATC
1898411 AGTGGTCCTTCGGGACAAACAGTGGTCCTTAGGGACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTAGGGACAT
* * * * *
1898449 AGTGGTTCTTCAGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTAGGGACAT
*
1898487 AGTGGTCCATCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
1898506 TATTCAGTGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (38 bp):
AGTGGTCCTTCGGGACAAACAGTGGTCCTTAGGGACAT
Found at i:1898499 original size:18 final size:18
Alignment explanation
Indices: 1898411--1898503 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
1898401 AGGGATTATC
*
1898411 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
1898431 AGTGGTCCTTAGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1898449 AGTGGTTCTTCAGAACAAT
1 AGTGGTCCTTCGGGAC-AT
1898468 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
1898487 AGTGGTCCATCGGGACA
1 AGTGGTCCTTCGGGACA
1898504 AATATTCAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
18 29 0.48
19 4 0.07
20 28 0.46
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1908645 original size:13 final size:13
Alignment explanation
Indices: 1908627--1908651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1908617 AAACTTGTAG
1908627 TTTAGAGGAACCA
1 TTTAGAGGAACCA
1908640 TTTAGAGGAACC
1 TTTAGAGGAACC
1908652 GATTCAGGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (13 bp):
TTTAGAGGAACCA
Found at i:1908986 original size:32 final size:31
Alignment explanation
Indices: 1908933--1909013 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
1908923 ATAACACATT
* * **
1908933 GGGGCCTAAGATCCTAACCAAGGGAGCATATC
1 GGGG-CTAAGAGCCTACCCAAGAAAGCATATC
1908965 GGGGACTAAGAGCCTACCCAAGAAAGCATATC
1 GGGG-CTAAGAGCCTACCCAAGAAAGCATATC
*
1908997 AGGGCGTAAGAGCCTAC
1 GGGGC-TAAGAGCCTAC
1909014 GCAAAGGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 1 0.02
32 41 0.98
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGGCTAAGAGCCTACCCAAGAAAGCATATC
Found at i:1913432 original size:32 final size:32
Alignment explanation
Indices: 1913349--1913468 Score: 152
Period size: 32 Copynumber: 3.8 Consensus size: 32
1913339 AAGGTAATTC
* * ** *
1913349 CTTGGGGCCTTAGAGGCTACCCAA-GGAATAC
1 CTTGGGGCCTAAGAGCCTACCCAAGGGAGCAT
* * *
1913380 CTTGGGGCCTTACAGTCTACCCAAGGGAGCAT
1 CTTGGGGCCTAAGAGCCTACCCAAGGGAGCAT
*
1913412 CTTGGGGTCTAAGAGCCTACCCAAGGGAGCAT
1 CTTGGGGCCTAAGAGCCTACCCAAGGGAGCAT
1913444 CTTGGGGCCTAAGAGCCTACCCAAG
1 CTTGGGGCCTAAGAGCCTACCCAAG
1913469 TGTCATTAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 22 0.28
32 56 0.72
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.19
Consensus pattern (32 bp):
CTTGGGGCCTAAGAGCCTACCCAAGGGAGCAT
Found at i:1927295 original size:27 final size:27
Alignment explanation
Indices: 1927261--1927319 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
1927251 TTCTCTAAAA
1927261 TTTTCTTTTCACCTTCTTCTTCTCTCT
1 TTTTCTTTTCACCTTCTTCTTCTCTCT
*
1927288 TTTTCTTTTCATCTTCTTCTTCTCTCT
1 TTTTCTTTTCACCTTCTTCTTCTCTCT
1927315 TTTTC
1 TTTTC
1927320 CTCCATAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTCTTTTCACCTTCTTCTTCTCTCT
Found at i:1927302 original size:21 final size:21
Alignment explanation
Indices: 1927278--1927317 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1927268 TTCACCTTCT
*
1927278 TCTTCTCTCTT-TTTCTTTTCA
1 TCTTCT-TCTTCTCTCTTTTCA
1927299 TCTTCTTCTTCTCTCTTTT
1 TCTTCTTCTTCTCTCTTTT
1927318 TCCTCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (21 bp):
TCTTCTTCTTCTCTCTTTTCA
Found at i:1932821 original size:11 final size:10
Alignment explanation
Indices: 1932796--1932820 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1932786 ATGATTGTTC
1932796 TTTTTCTATG
1 TTTTTCTATG
1932806 TTTTTCTATG
1 TTTTTCTATG
1932816 TTTTT
1 TTTTT
1932821 TTTATGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTCTATG
Found at i:1938126 original size:63 final size:64
Alignment explanation
Indices: 1938034--1938175 Score: 191
Period size: 64 Copynumber: 2.2 Consensus size: 64
1938024 TGCACAACCC
*
1938034 ATGCATCGATACACAAATCACTTTCGATGTTTTCA-TTTTAAGGGGTGCATCGATGCACTCCTT
1 ATGCATCGATACACAAATCACTTTCGATGTTTCCATTTTTAAGGGGTGCATCGATGCACTCCTT
* * * *
1938097 ATGCATCGATGCACTAATTGCA-TTT-GATGTTTCCATTTTTAATGGGTGCATCGATGCACTTCT
1 ATGCATCGATACAC-AAAT-CACTTTCGATGTTTCCATTTTTAAGGGGTGCATCGATGCACTCCT
1938160 T
64 T
*
1938161 GTGCATCGATACACA
1 ATGCATCGATACACA
1938176 CTGAGCAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
63 23 0.33
64 44 0.64
65 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (64 bp):
ATGCATCGATACACAAATCACTTTCGATGTTTCCATTTTTAAGGGGTGCATCGATGCACTCCTT
Found at i:1941495 original size:22 final size:22
Alignment explanation
Indices: 1941467--1941526 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
1941457 GTCTCGAAAG
1941467 ACCACTGGATACGTCCAAAACA
1 ACCACTGGATACGTCCAAAACA
*
1941489 ACCACTGGATACGTCCAAAAGA
1 ACCACTGGATACGTCCAAAACA
1941511 ACCACTGGATACGTCC
1 ACCACTGGATACGTCC
1941527 CGAAGGACTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (22 bp):
ACCACTGGATACGTCCAAAACA
Found at i:1942588 original size:15 final size:17
Alignment explanation
Indices: 1942558--1942589 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1942548 AATAAAATGA
1942558 ATAAATAAATTATTTTG
1 ATAAATAAATTATTTTG
1942575 ATAAA-AAA-TATTTTG
1 ATAAATAAATTATTTTG
1942590 GGAGTCGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATAAATAAATTATTTTG
Found at i:1942899 original size:2 final size:2
Alignment explanation
Indices: 1942894--1942925 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1942884 TATATTAATT
1942894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1942926 AGATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1944522 original size:23 final size:23
Alignment explanation
Indices: 1944499--1944548 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1944489 CCTGTAAATA
*
1944499 AATAAAATTA-TTTAATAATAAT
1 AATAAAATAATTTTAATAATAAT
*
1944521 AATAAAATAATTTTAATTATAAT
1 AATAAAATAATTTTAATAATAAT
*
1944544 TATAA
1 AATAA
1944549 TTATCATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAAAATAATTTTAATAATAAT
Found at i:1945203 original size:40 final size:40
Alignment explanation
Indices: 1945148--1945251 Score: 201
Period size: 40 Copynumber: 2.6 Consensus size: 40
1945138 AAGTTGAACA
1945148 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1945188 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1945228 AGTTCTTCTCATTATGAAC-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
1945252 CCGTAATGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.08
40 59 0.92
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.47
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:1945390 original size:112 final size:111
Alignment explanation
Indices: 1945188--1945508 Score: 507
Period size: 112 Copynumber: 2.9 Consensus size: 111
1945178 TCTTCAGATG
1945188 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
1 AGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
* * * *
1945253 CGTAATGTTGATCGATCGAGTGATGAATTCGAGCAAAAGGTTGAACA
65 GGCAATGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACA
*
1945300 AGTTCTTCTCATTATGAACTTCTTCTTACTTCTTCAGATGAGTTCTTCCCATTATGAACTCTTCC
1 AGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
* * * *
1945365 GGCAATGCTGGTCCATCGAGCGATGAATTCGAGCAAAAGGTTTAGCA
65 GGCAATGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACA
* * *
1945412 AGTTCTTCTCATTATGAACATCTTCTTCTTTCTTCAGATGATTTCTTCTCATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
1945477 GGCAATGCTGATCCATCGAGTGATGAATTCGA
65 GGCAATGCTGATCCATCGAGTGATGAATTCGA
1945509 ATCGTTGCTG
Statistics
Matches: 192, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
111 1 0.01
112 191 0.99
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (111 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCG
GCAATGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACA
Found at i:1946360 original size:54 final size:54
Alignment explanation
Indices: 1946269--1946477 Score: 287
Period size: 54 Copynumber: 3.9 Consensus size: 54
1946259 TAATCACTAA
**
1946269 TTCGTAAAACATTTGACAACACATTCATTTTTTCCTGTGGCTTCTGCTCAGATG
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATG
* *
1946323 TTCGTAAAACATTTGACTACACATTCAT-CTTTCCCTGTGGTTTCTGCTCAGATG
1 TTCGTAAAACATTTGACAACACATTCATCCTTT-CCTGTGGCTTCTGCTCAGATG
* * * *
1946377 TTCCTAAAACATTTGACAACACATTTATCCTTTCTTGTGGCTTCTG-TACAGATA
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCT-CAGATG
* * *
1946431 TTAGTAAAACATTTGACAACACATTTATCCTTTCTTGTGGCTTCTGC
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1946478 ACAAATTTCT
Statistics
Matches: 140, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
53 4 0.03
54 132 0.94
55 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (54 bp):
TTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATG
Found at i:1949991 original size:8 final size:7
Alignment explanation
Indices: 1949987--1950036 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 7
1949977 ATTTTTTCCT
1949987 TTTTTTCC
1 TTTTTT-C
1949995 TTTTTT-
1 TTTTTTC
1950001 TTTCTTT-
1 TTT-TTTC
1950008 TTTTTTC
1 TTTTTTC
1950015 TTTTTTTC
1 -TTTTTTC
1950023 TTTTTTCC
1 TTTTTT-C
1950031 TTTTTT
1 TTTTTT
1950037 TTGATGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.16
7 12 0.32
8 20 0.53
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:1950038 original size:10 final size:9
Alignment explanation
Indices: 1949978--1950037 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
1949968 TTGATTCAAA
1949978 TTTTTTCCT
1 TTTTTTCCT
1949987 TTTTTTCCTTT
1 TTTTTTCC--T
*
1949998 TTTTTTCTT
1 TTTTTTCCT
*
1950007 TTTTTTTCT
1 TTTTTTCCT
1950016 TTTTTT-C-
1 TTTTTTCCT
1950023 TTTTTTCCT
1 TTTTTTCCT
1950032 TTTTTT
1 TTTTTT
1950038 TGATGAATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
7 6 0.14
8 2 0.05
9 28 0.64
11 8 0.18
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:1950329 original size:2 final size:2
Alignment explanation
Indices: 1950322--1950357 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1950312 ACAACAAGGG
1950322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1950358 CTGAAAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1953418 original size:43 final size:43
Alignment explanation
Indices: 1953336--1953422 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
1953326 CCGTGCATCA
**
1953336 AACAAAACTTTTACATGTAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATG-AGGGGACAACTTTCACACCTAACTTC
* * *
1953380 AACAAAACTTTATATATG-GGGGATAACTTTCCCACCTAACTTC
1 AACAAAACTTT-TACATGAGGGGACAACTTTCACACCTAACTTC
1953423 TCTAAATCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 21 0.57
44 11 0.30
45 5 0.14
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (43 bp):
AACAAAACTTTTACATGAGGGGACAACTTTCACACCTAACTTC
Found at i:1955205 original size:2 final size:2
Alignment explanation
Indices: 1955198--1955228 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1955188 TTTTAAGAAA
1955198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1955229 AGATATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1956848 original size:3 final size:3
Alignment explanation
Indices: 1956840--1956907 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
1956830 TAAAATTATT
* * * *
1956840 TAA TAA TAA TAA TAA TAA -AA TAA TTA TAA TTA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1956887 AAA TAA AAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1956908 AACTGGGATA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1957560 original size:63 final size:63
Alignment explanation
Indices: 1957448--1957608 Score: 198
Period size: 63 Copynumber: 2.5 Consensus size: 63
1957438 TTCCCTTGAA
* * * *
1957448 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAAGGG
* * ** *
1957511 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCAATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAAGGG
*
1957575 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
1957609 CTGAACAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 2 0.02
63 43 0.52
64 35 0.42
65 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAAGGG
Found at i:1961503 original size:26 final size:26
Alignment explanation
Indices: 1961464--1961517 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1961454 CAACACTTGA
*
1961464 ATAGAATTTGGGAATCATAATAACAT
1 ATAGAATTTCGGAATCATAATAACAT
1961490 ATAGAATTTCGGAATCATAATAACAT
1 ATAGAATTTCGGAATCATAATAACAT
1961516 AT
1 AT
1961518 TCATTTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATAGAATTTCGGAATCATAATAACAT
Found at i:1968950 original size:21 final size:20
Alignment explanation
Indices: 1968922--1968961 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1968912 CATTGTAGGA
1968922 ATTTATGGCCTCAATAAAAG
1 ATTTATGGCCTCAATAAAAG
* *
1968942 ATTTCATGGCTTTAATAAAA
1 ATTT-ATGGCCTCAATAAAA
1968962 ACCTTGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTTATGGCCTCAATAAAAG
Found at i:1977368 original size:15 final size:15
Alignment explanation
Indices: 1977348--1977379 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1977338 AAGTGCTCTG
1977348 TGTTAAGTCTGAATA
1 TGTTAAGTCTGAATA
1977363 TGTTAAGTCTGAATA
1 TGTTAAGTCTGAATA
1977378 TG
1 TG
1977380 CAAGGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (15 bp):
TGTTAAGTCTGAATA
Found at i:1978898 original size:23 final size:23
Alignment explanation
Indices: 1978868--1978912 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1978858 TCCTATAATG
1978868 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACGTAGAATTA
* *
1978891 CACCGAAGTGTCGCGTAGAATT
1 CACCGAAGTGCCACGTAGAATT
1978913 GCACTGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTA
Found at i:1985768 original size:23 final size:23
Alignment explanation
Indices: 1985741--1985799 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
1985731 CGTATAAATC
1985741 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACGTAGAATTA
* * * * *
1985764 TACCGAATTGTCGCGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTA
*
1985787 CACCGTAGTGCCA
1 CACCGAAGTGCCA
1985800 TATAAGATTG
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTA
Found at i:1987319 original size:29 final size:29
Alignment explanation
Indices: 1987287--1987345 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1987277 ATCAATTCTT
* *
1987287 TGAACTTTTAATTTATC-CAATTTGGTCAC
1 TGAACTTTTAA-ATATCACAATTTGATCAC
*
1987316 TGAATTTTTAAATATCACAATTTGATCAC
1 TGAACTTTTAAATATCACAATTTGATCAC
1987345 T
1 T
1987346 AACCCTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.44
Consensus pattern (29 bp):
TGAACTTTTAAATATCACAATTTGATCAC
Found at i:1996603 original size:20 final size:20
Alignment explanation
Indices: 1996574--1996612 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1996564 AGAGCTCACA
*
1996574 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1996594 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1996613 ATGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:2001984 original size:21 final size:21
Alignment explanation
Indices: 2001959--2001998 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2001949 AAGACTCTAT
2001959 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
2001980 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
2001999 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:2004142 original size:23 final size:23
Alignment explanation
Indices: 2004101--2004161 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
2004091 TAGGGCAGAC
* *
2004101 GGAATCGATACCCCC-TTGAAGG
1 GGAACCGATTCCCCCTTTGAAGG
2004123 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCTTTGAAGG
2004146 GGAACCGATTCCCCCT
1 GGAACCGATTCCCCCT
2004162 AGAGGAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.20
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAGG
Found at i:2006934 original size:21 final size:21
Alignment explanation
Indices: 2006885--2006937 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2006875 CACTTAGGGA
*
2006885 ACCGATTCCACATGAGGGGGT
1 ACCGATTCCCCATGAGGGGGT
*
2006906 ACCAATTCCCCATGAGGGGGT
1 ACCGATTCCCCATGAGGGGGT
*
2006927 AGCGATTCCCC
1 ACCGATTCCCC
2006938 CCACGCTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (21 bp):
ACCGATTCCCCATGAGGGGGT
Found at i:2012991 original size:5 final size:5
Alignment explanation
Indices: 2012981--2013007 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2012971 AAATAAAACA
2012981 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
2013008 TATATTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2023390 original size:10 final size:10
Alignment explanation
Indices: 2023375--2023416 Score: 57
Period size: 11 Copynumber: 3.9 Consensus size: 10
2023365 CATGTTATTG
2023375 AAAATGAAAA
1 AAAATGAAAA
2023385 AAAATGAAATAA
1 AAAATG-AA-AA
2023397 AAAATGATAAA
1 AAAATGA-AAA
2023408 AAAATGAAA
1 AAAATGAAA
2023417 TTGTGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.28
11 12 0.41
12 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:2023401 original size:22 final size:23
Alignment explanation
Indices: 2023375--2023417 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2023365 CATGTTATTG
2023375 AAAATGA-AAAAAAATGAAATAA
1 AAAATGATAAAAAAATGAAATAA
2023397 AAAATGATAAAAAAATGAAAT
1 AAAATGATAAAAAAATGAAAT
2023418 TGTGAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AAAATGATAAAAAAATGAAATAA
Found at i:2029374 original size:23 final size:20
Alignment explanation
Indices: 2029344--2029387 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
2029334 CAATTAAATG
*
2029344 AAAAATTAATAAAATATATTTT
1 AAAAATT-A-AAAATAAATTTT
2029366 AAAACATTAAAAATAAATTTT
1 AAAA-ATTAAAAATAAATTTT
2029387 A
1 A
2029388 TTAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 5 0.25
23 3 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTAAAAATAAATTTT
Found at i:2029613 original size:15 final size:17
Alignment explanation
Indices: 2029582--2029614 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2029572 TTTTAAAGTA
2029582 TGTTGACAAATTATTAT
1 TGTTGACAAATTATTAT
2029599 TGTTGA-AAA-TATTAT
1 TGTTGACAAATTATTAT
2029614 T
1 T
2029615 TTTTTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (17 bp):
TGTTGACAAATTATTAT
Found at i:2029679 original size:17 final size:18
Alignment explanation
Indices: 2029657--2029693 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2029647 AAAAAGAATT
*
2029657 TTTAAAATTTTATA-TTA
1 TTTAAAATTTCATACTTA
2029674 TTTAAAATTTCATACTTA
1 TTTAAAATTTCATACTTA
2029692 TT
1 TT
2029694 GAATTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAAATTTCATACTTA
Found at i:2032607 original size:140 final size:145
Alignment explanation
Indices: 2032363--2032643 Score: 403
Period size: 140 Copynumber: 2.0 Consensus size: 145
2032353 GGAAAGTATT
* * *
2032363 GATACCATGGATAATAGAATGCCAAAATGGTATCAATACCGAAAGGGAGTATCAGTACCATAGTG
1 GATACCATGGATAACAGAATGCAAAAATGGTATAAATACCGAAAGGGAG-ATCAG-ACCATAGTG
* * *
2032428 TAGTAGTATTGATACTGAGAGAAAGGTATCGGTATCATAGTATAGAAGTATCGATA-TCATGGTA
64 TAGTAGTATCGATACTGAGAGAAAGGTATCGATACCATAGTATAGAAGTATCGATACT-ATGGTA
2032492 GGGGTATCGATATTTATC
128 GGGGTATCGATATTTATC
* *
2032510 GATATCATGGATAACAGAATGCAAAAATGGTATAAATATCGAAAGGG-G-T-A-A-CATAGTGTA
1 GATACCATGGATAACAGAATGCAAAAATGGTATAAATACCGAAAGGGAGATCAGACCATAGTGTA
* *
2032570 GTAGTATCGATACTGAGAGAAAGGTATCGATACCATAGTATAGAATTATTGATACTATGGTAGGG
66 GTAGTATCGATACTGAGAGAAAGGTATCGATACCATAGTATAGAAGTATCGATACTATGGTAGGG
2032635 GTATCGATA
131 GTATCGATA
2032644 CTATTGAGCC
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
140 76 0.62
141 2 0.02
143 1 0.01
144 1 0.01
146 1 0.01
147 42 0.34
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (145 bp):
GATACCATGGATAACAGAATGCAAAAATGGTATAAATACCGAAAGGGAGATCAGACCATAGTGTA
GTAGTATCGATACTGAGAGAAAGGTATCGATACCATAGTATAGAAGTATCGATACTATGGTAGGG
GTATCGATATTTATC
Found at i:2033028 original size:54 final size:54
Alignment explanation
Indices: 2032961--2033064 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
2032951 TGATTACCAA
*
2032961 ATGGCACAATGTGTGCAAAACTAATAAATTCATAATAAGTGTATGAATTTCCGT
1 ATGGCACAATGTGTGCAAAAATAATAAATTCATAATAAGTGTATGAATTTCCGT
** * *
2033015 ATGGCACTTTGTGTGGAAAAATAATAAATTCATAATAAGTTTATGAATTT
1 ATGGCACAATGTGTGCAAAAATAATAAATTCATAATAAGTGTATGAATTT
2033065 TTGTATTGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (54 bp):
ATGGCACAATGTGTGCAAAAATAATAAATTCATAATAAGTGTATGAATTTCCGT
Found at i:2033328 original size:81 final size:81
Alignment explanation
Indices: 2033263--2034423 Score: 1586
Period size: 81 Copynumber: 14.2 Consensus size: 81
2033253 AAAATGTTAT
*
2033263 AATTATGCCAATTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
* *
2033328 TTGGTAGAAAGGTATC
66 TTGGCAGAAAGGTGTC
*
2033344 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
2033409 TTGGCAGAAAGGTGTC
66 TTGGCAGAAAGGTGTC
** * * *
2033425 AATTACACCAGTTAGATGAAAGGTTAAATACCTTTCAGTAAAAGATTAACGGCCTAGT-TGTGCC
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-TCTGTGCA
*
2033489 TTTGGCAGAAAAGTGTC
65 TTTGGCAGAAAGGTGTC
2033506 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGT-TGTGCA
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-TCTGTGCA
* *
2033570 TTTCGCATAAAGGTGTC
65 TTTGGCAGAAAGGTGTC
*
2033587 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTAAGTAAAAGATTAATGGCCTAGT-TGTGCA
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-TCTGTGCA
*
2033651 TTTGGTAGAAAGGTGTC
65 TTTGGCAGAAAGGTGTC
*
2033668 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATGGCCTAAT-TGTGCA
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCT-ATCTGTGCA
*
2033732 TTTGGCATAAAGGTGTC
65 TTTGGCAGAAAGGTGTC
* *
2033749 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAATAAAAGATTAATGGCCTAGCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
*
2033814 TTGGCAGACAGGTGTC
66 TTGGCAGAAAGGTGTC
* * * * *
2033830 AATTATGCTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGACTAAAT-GTCTAACGGTGCA
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA-TTAATGGCCTATCTGTGCA
* *
2033894 TTTGGCAGAAAGATGCC
65 TTTGGCAGAAAGGTGTC
* * * *
2033911 AATAATGCAAGTTGGATGAAAGACTAATTGCTTAAATACCTTTGAGTAAAAGATTAATGGCCTAG
1 AATTATGCCAGTTAGATGAAAG-------G-TTAAATACCTTTGAGTAAAAGATTAATGGCCTAT
* * *
2033976 ATGTGCATTTGACAGAAAGATGTC
58 CTGTGCATTTGGCAGAAAGGTGTC
* * *
2034000 AATTATGCCAGTTAGATAAAAGGTTAAATACCTTTGAGTGAAAGATTAATGGCCTAGCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
*
2034065 TTGACAGAAAGGTGTC
66 TTGGCAGAAAGGTGTC
* * *
2034081 AATTATACCAGTTATATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
*
2034146 TTGGCAGAAAGGTG-A
66 TTGGCAGAAAGGTGTC
* *
2034161 AATTATGCCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCAT
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
*
2034226 TTGGCATAAAGGTGTC
66 TTGGCAGAAAGGTGTC
2034242 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAAT-TGTGTC
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCT-ATCTGTG-C
* *
2034306 -TTTGGTAGAAATGTGTC
64 ATTTGGCAGAAAGGTGTC
* * * * *
2034323 AATCATGCCAGTTAGATGAAAGGTTAAATACCTTT-AGGTAAAAGACTAAAT-GTCTAACGGTGC
1 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGA-GTAAAAGA-TTAATGGCCTATCTGTGC
* * *
2034386 ATTTAGCAGAAAGATGCC
64 ATTTGGCAGAAAGGTGTC
* * *
2034404 AATAATGCAAGTTGGATGAA
1 AATTATGCCAGTTAGATGAA
2034424 GGACTAATTG
Statistics
Matches: 973, Mismatches: 87, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
80 79 0.08
81 813 0.84
82 12 0.01
88 5 0.01
89 64 0.07
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (81 bp):
AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTATCTGTGCAT
TTGGCAGAAAGGTGTC
Found at i:2034527 original size:2 final size:2
Alignment explanation
Indices: 2034520--2034585 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
2034510 CCATAAATGA
2034520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2034562 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2034586 TAGTGCATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2034887 original size:27 final size:26
Alignment explanation
Indices: 2034849--2034900 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
2034839 AACTGAGAAG
2034849 GATTTATTTGGTCCTTATGGAATATGC
1 GATTTATTTGGTCCTTATGG-ATATGC
2034876 GATTTATTTGGTCCTTATGGATATG
1 GATTTATTTGGTCCTTATGGATATG
2034901 TATGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (26 bp):
GATTTATTTGGTCCTTATGGATATGC
Found at i:2035397 original size:23 final size:23
Alignment explanation
Indices: 2035371--2035416 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2035361 AGAAGATGGC
*
2035371 TCAAAATTATCTTGAAGTCAAAT
1 TCAAAATTATCTTAAAGTCAAAT
*
2035394 TCAAAATTATCTTAAAGTTAAAT
1 TCAAAATTATCTTAAAGTCAAAT
2035417 GTTTGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
TCAAAATTATCTTAAAGTCAAAT
Found at i:2038820 original size:149 final size:149
Alignment explanation
Indices: 2038572--2038878 Score: 535
Period size: 149 Copynumber: 2.1 Consensus size: 149
2038562 CACCGAAGTT
*
2038572 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
* *
2038637 AATCATATACATATGCTAGTGATCAAGTACGTGTCTCTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATGCTAGGGATCAAGTACGTGTCTCTCAAGACTTCACACATGTTCCAAAGAAT
*
2038702 ATATATATATCCCGAAGGA
131 ATACATATATCCCGAAGGA
2038721 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
* *
2038786 AATCATATACATATGCTAGGGATCATA-TATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAA
66 AATCATATACATATGCTAGGGATCA-AGTACGTGTCTCTCAAGACTTCACACATGTTCCAAAGAA
*
2038850 TATACATATGTCCCGAAGGA
130 TATACATATATCCCGAAGGA
2038870 CCGCGTAGA
1 CCGCGTAGA
2038879 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
149 149 0.99
150 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
AATCATATACATATGCTAGGGATCAAGTACGTGTCTCTCAAGACTTCACACATGTTCCAAAGAAT
ATACATATATCCCGAAGGA
Found at i:2040546 original size:21 final size:21
Alignment explanation
Indices: 2040503--2040547 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2040493 TGTTGTTCGT
* *
2040503 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
* *
2040524 TTGAATGGGTACCGATTCTCC
1 TTGAAGGGGTACCGATTCCCC
2040545 TTG
1 TTG
2040548 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2043817 original size:23 final size:23
Alignment explanation
Indices: 2043791--2043835 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2043781 CACCACAGCT
*
2043791 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
2043814 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
2043836 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:2044098 original size:144 final size:148
Alignment explanation
Indices: 2043803--2044112 Score: 515
Period size: 144 Copynumber: 2.1 Consensus size: 148
2043793 TATAATTGCA
2043803 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAA-GATGTCCATAAGGACCACATAGAA
2043867 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCTCAAGACTTCACACATGTT
64 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCTCAAGACTTCACACATGTT
* *
2043932 CCACAGAATATATATATATC
129 CCAAAGAATATACATATATC
2043952 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATAT-A-ATGTCCATAAGGACCACATAGAATT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAGATGTCCATAAGGACCACATAGAATT
*
2044015 CCTTAAG-ATCATATACATATGCTAGGGATC-A-TATAGTGTCTTTCAAGACTTCACACATGTTC
66 CCTTAAGAATCATATACATATGCTAGGGATCAAGTAT-GTGTCTCTCAAGACTTCACACATGTTC
*
2044077 CAAAGAATATACATATGTC
130 CAAAGAATATACATATATC
2044096 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
2044113 CCCTCGACTC
Statistics
Matches: 155, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
143 3 0.02
144 60 0.39
145 23 0.15
146 32 0.21
148 2 0.01
149 35 0.23
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAGATGTCCATAAGGACCACATAGAATT
CCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCTCAAGACTTCACACATGTTCC
AAAGAATATACATATATC
Found at i:2045727 original size:21 final size:21
Alignment explanation
Indices: 2045703--2045747 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2045693 TGTTGTTCGT
*
2045703 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
2045724 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
2045745 TTG
1 TTG
2045748 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:2046800 original size:50 final size:50
Alignment explanation
Indices: 2046746--2046840 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
2046736 TTAAAAAAAC
2046746 TTAACGACACTGCATTTTTATAGATAAATTACATCATTCATCACTAACTA
1 TTAACGACACTGCATTTTTATAGATAAATTACATCATTCATCACTAACTA
* * *
2046796 TTAACGACACTGCATTTTTATGGATAAATTACATTATTTATCACT
1 TTAACGACACTGCATTTTTATAGATAAATTACATCATTCATCACT
2046841 CAAATATCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (50 bp):
TTAACGACACTGCATTTTTATAGATAAATTACATCATTCATCACTAACTA
Found at i:2050622 original size:32 final size:33
Alignment explanation
Indices: 2050560--2050622 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 33
2050550 TTTCCTTAAA
*
2050560 AATTATTATAAACTCATTTTAAAGTATATTCAG
1 AATTATTATAAACTCATTTTAAAATATATTCAG
* *
2050593 AATTCTTA-AAACTTATTTATAAAAT-TATTC
1 AATTATTATAAACTCATTT-TAAAATATATTC
2050623 CTACTATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (33 bp):
AATTATTATAAACTCATTTTAAAATATATTCAG
Found at i:2052219 original size:13 final size:13
Alignment explanation
Indices: 2052152--2052282 Score: 91
Period size: 15 Copynumber: 9.2 Consensus size: 13
2052142 AATGTAAGTT
2052152 TATATATAAACCTA
1 TATATATAAA-CTA
2052166 TATATATAAAACTTA
1 TATATAT-AAAC-TA
* *
2052181 TTTATTACAAACTA
1 TATA-TATAAACTA
2052195 TATAGTTATATAAGCTA
1 TATA--TATA-AA-CTA
*
2052212 TATATATAAATTA
1 TATATATAAACTA
* * *
2052225 TGTTTATGAACTATA
1 TATATATAAAC--TA
2052240 TATATATAAACTA
1 TATATATAAACTA
*
2052253 TGTATATAAACTA
1 TATATATAAACTA
2052266 TATATGTATAAACTA
1 TATA--TATAAACTA
2052281 TA
1 TA
2052283 AAAAGTATAT
Statistics
Matches: 93, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
13 26 0.28
14 15 0.16
15 41 0.44
16 4 0.04
17 7 0.08
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:2052219 original size:15 final size:14
Alignment explanation
Indices: 2052152--2052282 Score: 90
Period size: 13 Copynumber: 9.1 Consensus size: 14
2052142 AATGTAAGTT
*
2052152 TATATATAAACCTA
1 TATATATAAAACTA
2052166 TATATATAAAACT-
1 TATATATAAAACTA
*
2052179 TATTTATTACAAACTA
1 TATATA-TA-AAACTA
*
2052195 TATAGTTATATAAGCTA
1 TATA--TATA-AAACTA
*
2052212 TATATAT-AAATTA
1 TATATATAAAACTA
* * *
2052225 TGTTTAT-GAACTA
1 TATATATAAAACTA
2052238 TATATATATAAACTA
1 TATATATA-AAACTA
*
2052253 TGTATAT-AAACTA
1 TATATATAAAACTA
*
2052266 TATATGTATAAACTA
1 TATATATA-AAACTA
2052281 TA
1 TA
2052283 AAAAGTATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
13 34 0.37
14 14 0.15
15 27 0.30
16 3 0.03
17 11 0.12
18 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (14 bp):
TATATATAAAACTA
Done.