Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1628038 original size:12 final size:12
Alignment explanation
Indices: 1628021--1628047 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1628011 CGGCGCTGTG
1628021 CTTCTTAGGTTT
1 CTTCTTAGGTTT
1628033 CTTCTTAGGTTT
1 CTTCTTAGGTTT
1628045 CTT
1 CTT
1628048 TAATTATATT
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:0.19, G:0.15, T:0.59
Consensus pattern (12 bp):
CTTCTTAGGTTT
Found at i:1629635 original size:18 final size:18
Alignment explanation
Indices: 1629612--1629646 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1629602 CTCACACTAT
1629612 TTTTTATTTAAAAAATAG
1 TTTTTATTTAAAAAATAG
1629630 TTTTTATTTAAAAAATA
1 TTTTTATTTAAAAAATA
1629647 TGTGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTTATTTAAAAAATAG
Found at i:1630254 original size:28 final size:29
Alignment explanation
Indices: 1630209--1630273 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
1630199 TGTAAGTTTT
**
1630209 AAAGTTTAGTGG-TTAAAATATAACTTTGA
1 AAAGTTTAGTGGCCAAAAATATAA-TTTGA
*
1630238 AAAGTTTAG-GGCCAAAAATATAATTTTA
1 AAAGTTTAGTGGCCAAAAATATAATTTGA
*
1630266 AAAATTTA
1 AAAGTTTA
1630274 TATATTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAGTTTAGTGGCCAAAAATATAATTTGA
Found at i:1635035 original size:30 final size:30
Alignment explanation
Indices: 1635001--1635058 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1634991 TGAATTTTTC
* * *
1635001 AAATTGCAATTTTGGTCTCTAAACTTTTGA
1 AAATTACAATTTTAGTCCCTAAACTTTTGA
**
1635031 AAATTACCCTTTTAGTCCCTAAACTTTT
1 AAATTACAATTTTAGTCCCTAAACTTTT
1635059 CTAAACTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (30 bp):
AAATTACAATTTTAGTCCCTAAACTTTTGA
Found at i:1635087 original size:31 final size:28
Alignment explanation
Indices: 1635009--1635111 Score: 82
Period size: 31 Copynumber: 3.5 Consensus size: 28
1634999 TCAAATTGCA
* * *
1635009 ATTTTGGTCTCTAAACTTTTGAAAATTACC
1 ATTTTGGCCACTAAACTTTT-AAATTTA-C
* * *
1635039 CTTTTAGTCC-CTAAACTTTTCTAAACTTTAT
1 ATTTT-GGCCACTAAAC-TTT-TAAA-TTTAC
1635070 ATTTTGGCCACTAAACTTTTAAATTTAC
1 ATTTTGGCCACTAAACTTTTAAATTTAC
*
1635098 ATTTTGGTCACTAA
1 ATTTTGGCCACTAA
1635112 CCAAAATTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 17 0.29
29 4 0.07
30 16 0.27
31 18 0.31
32 4 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (28 bp):
ATTTTGGCCACTAAACTTTTAAATTTAC
Found at i:1642219 original size:26 final size:26
Alignment explanation
Indices: 1642164--1642277 Score: 210
Period size: 26 Copynumber: 4.3 Consensus size: 26
1642154 TACTGATTGC
1642164 TGCTGCTGCTGTTCTTCGACTTGTTTG
1 TGCTGCTGCTGTTCTTCG-CTTGTTTG
*
1642191 TGCTGCTGTTGTTCTTCGCTTGTTTG
1 TGCTGCTGCTGTTCTTCGCTTGTTTG
1642217 TGCTGCTGCTGTTCTTCGCTTGTTTG
1 TGCTGCTGCTGTTCTTCGCTTGTTTG
1642243 TGCTGCTGCTGTTCTTCGCTTGTTTG
1 TGCTGCTGCTGTTCTTCGCTTGTTTG
1642269 TGCTGCTGC
1 TGCTGCTGC
1642278 CGTAAGTTGT
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
26 68 0.80
27 17 0.20
ACGTcount: A:0.01, C:0.23, G:0.27, T:0.49
Consensus pattern (26 bp):
TGCTGCTGCTGTTCTTCGCTTGTTTG
Found at i:1644289 original size:54 final size:54
Alignment explanation
Indices: 1644207--1644479 Score: 474
Period size: 54 Copynumber: 5.1 Consensus size: 54
1644197 CATAGTTGTA
*
1644207 GCCATCATCTTGCTGCCTGTCGGACTGGGGTCCATTGTATCCTCCACGCCCACG
1 GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
*
1644261 GCCATCATCTTGCAGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
1 GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
* *
1644315 GCCATCATCTTGCTGCCTGTCAAACCGGGGTCCATTGTATCCTCCACGCCCACG
1 GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
* * *
1644369 ACCATCATCTTGCTGCCTGTTGAACTGAGGTCCATTGTATCCTCCACGCCCACG
1 GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
*
1644423 GCCATCATCTTGCTGCCTGTCAAACTGGGGTCCATTGTATCCTCCACGCCCACG
1 GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
1644477 GCC
1 GCC
1644480 TCGGTAGCCA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 205 1.00
ACGTcount: A:0.16, C:0.37, G:0.21, T:0.25
Consensus pattern (54 bp):
GCCATCATCTTGCTGCCTGTCGAACTGGGGTCCATTGTATCCTCCACGCCCACG
Found at i:1647287 original size:31 final size:31
Alignment explanation
Indices: 1647252--1647325 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
1647242 ATTTGTACAC
* * *
1647252 TTTTGGTCACTTATATTATCGTTTTATTAAG
1 TTTTGGTCACTTACACTATCGTTTTATTAAA
* *
1647283 TTTTGTTCACTTACGCTATCGTTTTATTAAA
1 TTTTGGTCACTTACACTATCGTTTTATTAAA
*
1647314 TTTTGGGCACTT
1 TTTTGGTCACTT
1647326 GAAAATGAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
TTTTGGTCACTTACACTATCGTTTTATTAAA
Found at i:1648105 original size:39 final size:39
Alignment explanation
Indices: 1648062--1648144 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
1648052 CTTATGATTT
1648062 TATCAAAACCATGATAAACAATATCATAAATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATAAATAATAGTCA
* * *
1648101 TATCAAAGCCATGATGAACAATATCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATAAATAATAGTCA
1648140 TATCA
1 TATCA
1648145 TATTCTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATAAATAATAGTCA
Found at i:1648317 original size:18 final size:18
Alignment explanation
Indices: 1648294--1648340 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1648284 TCCAAACTCA
1648294 TAACTTATTTCAGATTCG
1 TAACTTATTTCAGATTCG
* *
1648312 TAACTTAATTTCATATTTG
1 TAACTT-ATTTCAGATTCG
*
1648331 TAGCTTATTT
1 TAACTTATTT
1648341 TCAAGTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (18 bp):
TAACTTATTTCAGATTCG
Found at i:1651114 original size:103 final size:101
Alignment explanation
Indices: 1650927--1651114 Score: 295
Period size: 103 Copynumber: 1.8 Consensus size: 101
1650917 TTGTTTTTTT
* * *
1650927 TACGAAGGGTCAGACCATCACACCTATCATCCCACACTCTAGATGAAAGGGAACATACCTTCCAT
1 TACGAAGGGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGAGAACATACCTTCCAC
1650992 CCCCAAGCTAGTCAGGTAGATTTTTTTTTATTCTGC
66 CCCCAAGCTAGTCAGGTAGATTTTTTTTTATTCTGC
* * * *
1651028 TACGAAGGGAGTCAGCCCATCACACCTACCATCCCATACTCTAGGTGAAAGAGAGCATACCTTCC
1 TACGAA-GG-GTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGAGAACATACCTTCC
1651093 ACCCCCAAGCTAGTCAGGTAGA
64 ACCCCCAAGCTAGTCAGGTAGA
1651115 GTCATCCTGT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 6 0.08
102 2 0.03
103 70 0.90
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (101 bp):
TACGAAGGGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGAGAACATACCTTCCAC
CCCCAAGCTAGTCAGGTAGATTTTTTTTTATTCTGC
Found at i:1662342 original size:31 final size:31
Alignment explanation
Indices: 1662269--1662342 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
1662259 TTCAACGTCT
* *
1662269 AAGTGACCAAAACTTAATAAAACGATAACGT
1 AAGTGACCAAAACTTAATAAAACGACAACGA
* * *
1662300 ATGTGATCAAAACTTAATAAAACGACAATGA
1 AAGTGACCAAAACTTAATAAAACGACAACGA
1662331 AAGTGACCAAAA
1 AAGTGACCAAAA
1662343 TTATACAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.19
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGACAACGA
Found at i:1662515 original size:31 final size:31
Alignment explanation
Indices: 1662477--1662546 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
1662467 GTTAACCTTC
* *
1662477 AGTGACCACATCTTAATTAAAACAAAATGAA
1 AGTGACCAAATCTTAATTAAAACAAAAAGAA
1662508 AGTGACCAAATCTTAATTAAAACAAAAAGAA
1 AGTGACCAAATCTTAATTAAAACAAAAAGAA
1662539 AGTGACCA
1 AGTGACCA
1662547 GGTATTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACAAAAAGAA
Found at i:1663693 original size:37 final size:37
Alignment explanation
Indices: 1663643--1663780 Score: 204
Period size: 37 Copynumber: 3.7 Consensus size: 37
1663633 ATTTTCGTCC
*
1663643 TACTAGAATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
*
1663680 TACTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
1663717 TACTAAGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
1663754 TACTATGATTTAAACTCCTAAAGATAG
1 TACTAGGATTCAAACTCCTAAAAATAG
1663781 AATCCACAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:1664514 original size:11 final size:11
Alignment explanation
Indices: 1664498--1664564 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
1664488 TATGTGTACT
*
1664498 TTTATATTTTG
1 TTTATATTTTA
1664509 TTTATATATTTA
1 TTTATAT-TTTA
1664521 TTTAT-TTTTA
1 TTTATATTTTA
*
1664531 TTTTTGATTTT-
1 TTTAT-ATTTTA
*
1664542 TTTAT-TTATA
1 TTTATATTTTA
*
1664552 -TTATATTATA
1 TTTATATTTTA
1664562 TTT
1 TTT
1664565 TCATATTACT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 7 0.15
10 13 0.28
11 14 0.30
12 12 0.26
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:1664531 original size:29 final size:30
Alignment explanation
Indices: 1664497--1664565 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
1664487 ATATGTGTAC
1664497 TTTTATATTTTG-TTTATATATTTAT-TTA
1 TTTTATATTTTGATTTATATATTTATATTA
* *
1664525 TTTT-TATTTTTGATTTTTTTATTTATATTA
1 TTTTATA-TTTTGATTTATATATTTATATTA
*
1664555 TATTATATTTT
1 TTTTATATTTT
1664566 CATATTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 9 0.26
29 11 0.32
30 10 0.29
31 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (30 bp):
TTTTATATTTTGATTTATATATTTATATTA
Found at i:1664641 original size:4 final size:4
Alignment explanation
Indices: 1664634--1664696 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
1664624 TATATATTAA
* * * * *
1664634 TATT TATT TATT TATT TATT TATTT TACT TATT TTTAT TCTT CATT TTTT
1 TATT TATT TATT TATT TATT TA-TT TATT TATT TAT-T TATT TATT TATT
*
1664684 TATT TTTT TATT T
1 TATT TATT TATT T
1664697 TTTCCCTCTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 39 0.85
5 7 0.15
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1664672 original size:15 final size:14
Alignment explanation
Indices: 1664652--1664698 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
1664642 TATTTATTTA
1664652 TTTATTTTACTTATT
1 TTTATTTT-CTTATT
1664667 TTTATTCTTCATT-TT
1 TTTATT-TTC-TTATT
*
1664682 TTTATTTTTTTATT
1 TTTATTTTCTTATT
1664696 TTT
1 TTT
1664699 TCCCTCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 2 0.07
14 7 0.25
15 15 0.54
16 4 0.14
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTCTTATT
Found at i:1664697 original size:8 final size:8
Alignment explanation
Indices: 1664634--1664699 Score: 62
Period size: 8 Copynumber: 8.0 Consensus size: 8
1664624 TATATATTAA
*
1664634 TATTTATT
1 TATTTTTT
*
1664642 TATTTATT
1 TATTTTTT
1664650 TATTTATTT
1 TATTT-TTT
1664659 TACTTATTTT
1 TA-TT-TTTT
*
1664669 TA-TTCTT
1 TATTTTTT
*
1664676 CATTTTTT
1 TATTTTTT
1664684 TATTTTTT
1 TATTTTTT
1664692 TATTTTTT
1 TATTTTTT
1664700 CCCTCTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 4 0.08
8 33 0.67
9 4 0.08
10 7 0.14
11 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTT
Found at i:1665413 original size:25 final size:25
Alignment explanation
Indices: 1665385--1665435 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1665375 AATATTTTAT
1665385 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
1665410 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
1665435 A
1 A
1665436 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:1665420 original size:34 final size:34
Alignment explanation
Indices: 1665373--1665457 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
1665363 CCCGAACCCG
*
1665373 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1665407 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1665441 AAAATATTATATATATA
1 AAAATATTATATATATA
1665458 TATATTTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:1669546 original size:21 final size:21
Alignment explanation
Indices: 1669504--1669546 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1669494 GATGAGAACA
*
1669504 ATGATGACGACGAAGAGGAGG
1 ATGATGACGACGAAGAGAAGG
* *
1669525 ATGATGATGACGAAGATAAGG
1 ATGATGACGACGAAGAGAAGG
1669546 A
1 A
1669547 CGACGAGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.37, T:0.14
Consensus pattern (21 bp):
ATGATGACGACGAAGAGAAGG
Found at i:1670386 original size:32 final size:32
Alignment explanation
Indices: 1670350--1670410 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
1670340 GAAAAGTCTA
* *
1670350 TTTTAGGTGTATGTGTATGCTTTTATTTATTG
1 TTTTAGGTGTATGTATATGCTATTATTTATTG
*
1670382 TTTTATGTGTATGTATATGCTATTATTTA
1 TTTTAGGTGTATGTATATGCTATTATTTA
1670411 CTATTTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.03, G:0.18, T:0.59
Consensus pattern (32 bp):
TTTTAGGTGTATGTATATGCTATTATTTATTG
Found at i:1671577 original size:83 final size:83
Alignment explanation
Indices: 1671306--1671724 Score: 466
Period size: 83 Copynumber: 5.1 Consensus size: 83
1671296 TTTCCTCATT
* * * * * ***
1671306 TTCAGAGAATTTTTGCTTTGTCATATTGTTTCATCCCATCCGAAATGAAAGGCATATTCT-AGGA
1 TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGG-
* *
1671370 GAAGTGTTTTCTATTATTA
65 GAAGTATTTTCCATTATTA
* * * * * * *
1671389 TTCAGAGAATCTATACCATGTCATAGTGTTCCATCCCATCTGAAATGAAA-GCACGTTCCAGGGG
1 TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGGG
**
1671453 AAGCGTTTTCCATTATTA
66 AAGTATTTTCCATTATTA
* * * * *
1671471 TTCATATAATTTCTG-TCATGTCATAGTGTTCCATCCCATCCGAAATAAAAGGCGCTTTCTAAGG
1 TTCAGAGAATCTCTGCT-ATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGG
*
1671535 GAAATATTTTCCATTATTA
65 GAAGTATTTTCCATTATTA
* * ** * *
1671554 TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCTCATCCGAAATGAAATGTACGCTCCAAGGG
1 TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGGG
*
1671619 AATTATTTTCCATTATTA
66 AAGTATTTTCCATTATTA
* * * * *
1671637 TTTAGAGAATCTCTGCCATGTCATAGTGTTCCATCCAATCTGAAATGAAAGGCGCGTTCTAGGGG
1 TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGGG
1671702 AAGTATTTTCCATTATTA
66 AAGTATTTTCCATTATTA
1671720 TTCAG
1 TTCAG
1671725 CTCATCCGAA
Statistics
Matches: 278, Mismatches: 54, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
82 64 0.23
83 213 0.77
84 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (83 bp):
TTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTCTAAGGG
AAGTATTTTCCATTATTA
Found at i:1671711 original size:166 final size:165
Alignment explanation
Indices: 1671306--1671724 Score: 523
Period size: 165 Copynumber: 2.5 Consensus size: 165
1671296 TTTCCTCATT
* * ** * * ** *
1671306 TTCAGAGAATTTTTGCTTTGTCATATTGTTTCATCCCATCCGAAATGAAAGGCATATTCTAGGAG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCTAGGGG
* * *
1671371 AAGTGTTTTCTATTATTATTCAGAGAATCTATACCATGTCATAGTGTTCCATCCCATCTGAAATG
66 AAGTATTTTCCATTATTATTCAGAGAATCTATACCATGTCATAGTGTTCCATCCCATCCGAAATG
* * *
1671436 AAAGCACGTTCCAGGGGAAGCGTTTTCCATTATTA
131 AAAGCACGCTCCAAGGGAAGCATTTTCCATTATTA
* * * * * * *
1671471 TTCATATAATTTCTGTCATGTCATAGTGTTCCATCCCATCCGAAATAAAAGGCGCTTTCTAAGGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCTAGGGG
* * * * *
1671536 AAATATTTTCCATTATTATTCAGAGAATCTCTGCTATGTCATAGTGTTCCATCTCATCCGAAATG
66 AAGTATTTTCCATTATTATTCAGAGAATCTATACCATGTCATAGTGTTCCATCCCATCCGAAATG
* **
1671601 AAATGTACGCTCCAAGGGAATTATTTTCCATTATTA
131 AAA-GCACGCTCCAAGGGAAGCATTTTCCATTATTA
* * * *
1671637 TTTAGAGAATCTCTGCCATGTCATAGTGTTCCATCCAATCTGAAATGAAAGGCGCGTTCTAGGGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCTAGGGG
1671702 AAGTATTTTCCATTATTATTCAG
66 AAGTATTTTCCATTATTATTCAG
1671725 CTCATCCGAA
Statistics
Matches: 214, Mismatches: 39, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
165 111 0.52
166 103 0.48
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (165 bp):
TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCTAGGGG
AAGTATTTTCCATTATTATTCAGAGAATCTATACCATGTCATAGTGTTCCATCCCATCCGAAATG
AAAGCACGCTCCAAGGGAAGCATTTTCCATTATTA
Found at i:1671904 original size:220 final size:220
Alignment explanation
Indices: 1671507--1671906 Score: 547
Period size: 220 Copynumber: 1.8 Consensus size: 220
1671497 TGTTCCATCC
* * *
1671507 CATCCGAAATAAAAGGCGCTTTCTAAGGGAAATATTTTCCATTATTATTCAGAGAATCTCTGCTA
1 CATCCGAAATAAAAGACACTTTCTAAGGGAAATATTTTCCATTATTATTCAGAGAATCTATGCTA
* * * **
1671572 TGTCATAGTGTTCCATCTCATCCGAAATGAAATGTACGCTCCAAGGGAATTATTTTCCATTATTA
66 TGTCATAGCGTTCCATCCCATCCGAAATGAAAAGTACGCTCCAAGGGAAACATTTTCCATTATTA
* * *
1671637 TTTAGAGAATCTCTGCCATGTCATAGTGTTCCATCCAATCTGAAATGAAAGGCGCGTTCTAGGGG
131 TTCAGAGAATCTCTGCCATATCATAGTGTTCCATCCAATCCGAAATGAAAGGCGCGTTCTAGGGG
1671702 AAGTATTTTCCATTATTATTCAGCT
196 AAGTATTTTCCATTATTATTCAGCT
* * * * *
1671727 CATCCGAAATGAAAGACATTTTCTAGGGGAAGTGTTTTCCATTATTATTCAGAGAATCTATG-TC
1 CATCCGAAATAAAAGACACTTTCTAAGGGAAATATTTTCCATTATTATTCAGAGAATCTATGCT-
* * *
1671791 ATGTCATAGCGTTTCATCCCATCTGAAAT-AAAAGT-CGCGT-TATAGGGGAAACATTTTCCATT
65 ATGTCATAGCGTTCCATCCCATCCGAAATGAAAAGTACGC-TCCA-A-GGGAAACATTTTCCATT
* *
1671853 ATTATTCAGAGAATCTCTGCCATATCATAGTGTTCTATCCTATCCGAAATGAAA
127 ATTATTCAGAGAATCTCTGCCATATCATAGTGTTCCATCCAATCCGAAATGAAA
1671907 TGCATGTGTT
Statistics
Matches: 155, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
218 4 0.03
219 8 0.05
220 143 0.92
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (220 bp):
CATCCGAAATAAAAGACACTTTCTAAGGGAAATATTTTCCATTATTATTCAGAGAATCTATGCTA
TGTCATAGCGTTCCATCCCATCCGAAATGAAAAGTACGCTCCAAGGGAAACATTTTCCATTATTA
TTCAGAGAATCTCTGCCATATCATAGTGTTCCATCCAATCCGAAATGAAAGGCGCGTTCTAGGGG
AAGTATTTTCCATTATTATTCAGCT
Found at i:1675098 original size:50 final size:50
Alignment explanation
Indices: 1675039--1675153 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 50
1675029 TTTATTTCTT
* *
1675039 ACAATCAACTTTAATCT-TACCGTACTTTAAAAACACAAATATTCTAACAC
1 ACAATCAACTTTAA-CTGTACCCTACTTTAAAAACACAAACATTCTAACAC
* *
1675089 ACAATCAACTTTAACTGTACCCTACTTTAAAAATACAAACATTCTAACAT
1 ACAATCAACTTTAACTGTACCCTACTTTAAAAACACAAACATTCTAACAC
*
1675139 ACAATCAATTTTAAC
1 ACAATCAACTTTAAC
1675154 CCTAAAAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 2 0.03
50 57 0.97
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.30
Consensus pattern (50 bp):
ACAATCAACTTTAACTGTACCCTACTTTAAAAACACAAACATTCTAACAC
Found at i:1685002 original size:41 final size:40
Alignment explanation
Indices: 1684957--1685076 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 40
1684947 GTTTGTAGAT
*
1684957 CAAACGCCGGAACAGGGTAATTTATAGTGGCGTTTTTCTAA
1 CAAACGCCGCAACAGGGTAATTTATAGTGGCGTTTTTCT-A
* ** *
1684998 CAAACGTCGCAACAGAGTGCTAA-TT-TAGCAGCGTTTTTATA
1 CAAACGCCGCAACAG-G-G-TAATTTATAGTGGCGTTTTTCTA
* * * *
1685039 TAAACGCCGCAAAAGGGTTATTTATGGTGGCGTTTTTC
1 CAAACGCCGCAACAGGGTAATTTATAGTGGCGTTTTTC
1685077 AAAAAAAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.03
39 3 0.05
40 11 0.18
41 26 0.43
42 13 0.21
43 3 0.05
44 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (40 bp):
CAAACGCCGCAACAGGGTAATTTATAGTGGCGTTTTTCTA
Found at i:1685150 original size:42 final size:41
Alignment explanation
Indices: 1685093--1685196 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
1685083 AAATGCCGTT
*
1685093 ATAGAG-AAGTAATTTAGCGGCGTTTATCAAACAAACGCCGCT
1 ATAGAGTAA-TAATTTAGCGGCGTTTATCAAA-AAACGCCGCA
* ** * ** *
1685135 GTAGAGTAATAATTTAGTTGCGTTTGTGTAAAAACGCTGCA
1 ATAGAGTAATAATTTAGCGGCGTTTATCAAAAAACGCCGCA
1685176 ATAGAGTAATAATTTAGCGGC
1 ATAGAGTAATAATTTAGCGGC
1685197 ATTTTTTTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 26 0.52
42 22 0.44
43 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAGAGTAATAATTTAGCGGCGTTTATCAAAAAACGCCGCA
Found at i:1685615 original size:22 final size:22
Alignment explanation
Indices: 1685583--1685631 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
1685573 TTGTTTTTCT
1685583 GCTTTCAAATA-GAAGAATAATA
1 GCTTTCAAATAGGAA-AATAATA
*
1685605 GCTTTCGAATAGGAAAATAATA
1 GCTTTCAAATAGGAAAATAATA
1685627 GCTTT
1 GCTTT
1685632 TGAAAACGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (22 bp):
GCTTTCAAATAGGAAAATAATA
Found at i:1686765 original size:41 final size:42
Alignment explanation
Indices: 1686638--1686765 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 42
1686628 GATAACACTT
* * *
1686638 TAGCGACGTTTTTGTACAAACGCCCCAGTAGAT-TATATCTA
1 TAGCGACGTTTTTGTACAAACGCCGCAGTATATATAGATCTA
* * * * * *
1686679 TTGC-AGCGTTTTTATACAAACGCCGTAATATA-ATAGAACTT
1 TAGCGA-CGTTTTTGTACAAACGCCGCAGTATATATAGATCTA
* *
1686720 TAGCGACGTTTTTGTACAGACGCTGCAGTATATATA-ATCTA
1 TAGCGACGTTTTTGTACAAACGCCGCAGTATATATAGATCTA
1686761 TAGCG
1 TAGCG
1686766 GCACCGCCGC
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
40 1 0.02
41 61 0.92
42 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (42 bp):
TAGCGACGTTTTTGTACAAACGCCGCAGTATATATAGATCTA
Found at i:1698846 original size:18 final size:18
Alignment explanation
Indices: 1698825--1698930 Score: 60
Period size: 18 Copynumber: 5.8 Consensus size: 18
1698815 TTTAAAATTA
1698825 AAATAATATTTATAATAT
1 AAATAATATTTATAATAT
*
1698843 AAAT-AT-TATAT-ATAT
1 AAATAATATTTATAATAT
* *
1698858 ATATAATATTTATGTATAAT
1 AAATAATATTTAT-AAT-AT
*
1698878 AAATAATATGATTATATTAT
1 AAATAATAT--TTATAATAT
*
1698898 ATTATAATA-TTATAA-AT
1 A-AATAATATTTATAATAT
*
1698915 AATACTAATATATATA
1 AA-A-TAATATTTATA
1698931 CAAAATATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 21
0.68 0.10 0.21
Matches are distributed among these distances:
15 7 0.10
16 6 0.09
17 10 0.15
18 14 0.21
19 6 0.09
20 13 0.19
21 7 0.10
22 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATAATATTTATAATAT
Found at i:1698849 original size:15 final size:17
Alignment explanation
Indices: 1698827--1698948 Score: 74
Period size: 15 Copynumber: 7.0 Consensus size: 17
1698817 TAAAATTAAA
1698827 ATAATATTTATA-ATAT
1 ATAATATTTATATATAT
1698843 A-AATATTATATATATAT
1 ATAATATT-TATATATAT
*
1698860 ATAATATTTATGTATAATAA
1 ATAATATTTA--TAT-ATAT
1698880 ATAATATGATTATATTATATT
1 ATAATAT--TTATA-TATA-T
*
1698901 ATAATA-TTATAAATA-
1 ATAATATTTATATATAT
* * *
1698916 ATACTA-ATATATATAC
1 ATAATATTTATATATAT
* *
1698932 AAAATATTTTTATATAT
1 ATAATATTTATATATAT
1698949 GATTTATAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
15 18 0.22
16 9 0.11
17 17 0.20
18 11 0.13
19 3 0.04
20 15 0.18
21 7 0.08
22 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATATTTATATATAT
Found at i:1698864 original size:33 final size:32
Alignment explanation
Indices: 1698827--1698930 Score: 88
Period size: 33 Copynumber: 3.1 Consensus size: 32
1698817 TAAAATTAAA
1698827 ATAATATTTATAATATAAATATTATATATATAT
1 ATAATATTTATAATATAAATA-TATATATATAT
*
1698860 ATAATATTTATGTATAATAAATA-ATATGAT-TAT
1 ATAATATTTAT-AAT-ATAAATATATAT-ATATAT
* *
1698893 ATTATATTATAATATTATAAATA-ATACTAATATAT
1 ATAATATT-T-ATAATATAAATATATA-T-ATATAT
1698928 ATA
1 ATA
1698931 CAAAATATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
33 35 0.60
34 9 0.16
35 14 0.24
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (32 bp):
ATAATATTTATAATATAAATATATATATATAT
Found at i:1701946 original size:24 final size:24
Alignment explanation
Indices: 1701919--1701984 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
1701909 AAAGCGAACT
* *
1701919 ATTTTTCGCTTTAATTGAGCTCAA
1 ATTTTACGCTTCAATTGAGCTCAA
*
1701943 ATTTTAGGCTTCAATTGAGCTCAA
1 ATTTTACGCTTCAATTGAGCTCAA
*
1701967 ATTTTAGGCTTCAATTGA
1 ATTTTACGCTTCAATTGA
1701985 ACTTCTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTTTACGCTTCAATTGAGCTCAA
Found at i:1712447 original size:15 final size:16
Alignment explanation
Indices: 1712424--1712456 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1712414 AATATTATTT
1712424 TAATAAAAATA-TTAA
1 TAATAAAAATATTTAA
*
1712439 TAATTAAAATATTTAA
1 TAATAAAAATATTTAA
1712455 TA
1 TA
1712457 CACATATAAT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAAAAATATTTAA
Found at i:1712604 original size:42 final size:41
Alignment explanation
Indices: 1712534--1712614 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 41
1712524 TAATAATTAA
* * *
1712534 AAATATTAAAATATTTAATACACGTATAATATAATTTTAGT
1 AAATATTAAAATAATTAATACACATATAACATAATTTTAGT
* *
1712575 AAATATTTAAATTAATTAATACCCATATAACATAATTTTA
1 AAATA-TTAAAATAATTAATACACATATAACATAATTTTA
1712615 ATTATTAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (41 bp):
AAATATTAAAATAATTAATACACATATAACATAATTTTAGT
Found at i:1712669 original size:19 final size:19
Alignment explanation
Indices: 1712631--1712676 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1712621 AGTATTTTAA
*
1712631 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
1712650 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
1712669 TATTATTA
1 TAATATTA
1712677 TGTGAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:1712948 original size:14 final size:14
Alignment explanation
Indices: 1712875--1712957 Score: 71
Period size: 14 Copynumber: 5.9 Consensus size: 14
1712865 CTAATAAAAT
*
1712875 ATAATTCATTTTAC
1 ATAATTTATTTTAC
*
1712889 AT-ATTT-TTTTAT
1 ATAATTTATTTTAC
1712901 ATAATTTATTTTAC
1 ATAATTTATTTTAC
* * * *
1712915 GTAAAATAATTTTTAA
1 AT-AATTTA-TTTTAC
1712931 ATAATTTATTTTAC
1 ATAATTTATTTTAC
*
1712945 ATAAATTATTTTA
1 ATAATTTATTTTA
1712958 AAAAAAAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
12 7 0.13
13 7 0.13
14 25 0.47
15 8 0.15
16 6 0.11
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (14 bp):
ATAATTTATTTTAC
Found at i:1735910 original size:2 final size:2
Alignment explanation
Indices: 1735903--1735928 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1735893 CCATTATACA
1735903 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
1735929 TTAAATTTAA
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:1745419 original size:14 final size:15
Alignment explanation
Indices: 1745392--1745420 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1745382 TGGATTTCAA
1745392 TAATTTTCATATCAT
1 TAATTTTCATATCAT
1745407 TAATTTT-ATATCAT
1 TAATTTTCATATCAT
1745421 CAGATACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTTCATATCAT
Found at i:1746569 original size:3 final size:3
Alignment explanation
Indices: 1746561--1746592 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1746551 AATTAAACAT
1746561 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1746593 TAAAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1746697 original size:18 final size:17
Alignment explanation
Indices: 1746674--1746714 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
1746664 TATTATATAT
1746674 CTATATAAATTTTCAAAA
1 CTATATAAATTTTC-AAA
**
1746692 CTATATTTATTTTCAAA
1 CTATATAAATTTTCAAA
1746709 CTATAT
1 CTATAT
1746715 TATATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (17 bp):
CTATATAAATTTTCAAA
Found at i:1746711 original size:17 final size:18
Alignment explanation
Indices: 1746682--1746795 Score: 63
Period size: 24 Copynumber: 5.7 Consensus size: 18
1746672 ATCTATATAA
1746682 ATTTTCAAAACTATATTT
1 ATTTTCAAAACTATATTT
1746700 ATTTTC-AAACTATATTATATAT
1 ATTTTCAAAAC--TA-TAT-T-T
1746722 ATGTTTTCTAAAACTATATTT
1 A--TTTTC-AAAACTATATTT
* *
1746743 ATATCCAAAACTATACTATATAT
1 ATTTTCAAAAC--TA-TAT-T-T
1746766 ATTTTTCAAAAC--TATTT
1 A-TTTTCAAAACTATATTT
1746783 ATTTTCAAAACTA
1 ATTTTCAAAACTA
1746796 AAAAAACTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 34
0.66 0.04 0.30
Matches are distributed among these distances:
16 10 0.13
17 6 0.08
18 12 0.16
19 8 0.11
20 5 0.07
21 6 0.08
22 4 0.05
23 5 0.07
24 15 0.20
26 4 0.05
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.46
Consensus pattern (18 bp):
ATTTTCAAAACTATATTT
Found at i:1746720 original size:24 final size:24
Alignment explanation
Indices: 1746693--1746746 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1746683 TTTTCAAAAC
*
1746693 TATATTTATTTTC-AAACTATATT
1 TATATATATTTTCAAAACTATATT
*
1746716 ATATATATGTTTTCTAAAACTATATT
1 -TATATATATTTTC-AAAACTATATT
1746742 TATAT
1 TATAT
1746747 CCAAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
25 5 0.19
26 10 0.38
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATATATTTTCAAAACTATATT
Found at i:1746729 original size:42 final size:41
Alignment explanation
Indices: 1746669--1746791 Score: 153
Period size: 43 Copynumber: 3.0 Consensus size: 41
1746659 AATTATATTA
*
1746669 TATATCTATATA-AATTTTCAAAACTATATTTATTTTCAAAC
1 TATA-CTATATATATTTTTCAAAACTATATTTATTTTCAAAC
* * *
1746710 TATATTATATATATGTTTTCTAAAACTATATTTATATCCAAAAC
1 TATACTATATATAT-TTTTC-AAAACTATATTTATTTTC-AAAC
1746754 TATACTATATATATTTTTCAAAAC--TATTTATTTTCAAA
1 TATACTATATATATTTTTCAAAACTATATTTATTTTCAAA
1746792 ACTAAAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
39 3 0.04
40 15 0.21
41 5 0.07
42 10 0.14
43 21 0.30
44 17 0.24
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.47
Consensus pattern (41 bp):
TATACTATATATATTTTTCAAAACTATATTTATTTTCAAAC
Found at i:1749162 original size:33 final size:34
Alignment explanation
Indices: 1749097--1749164 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
1749087 TTGGAGCCAG
1749097 AGGGTATTCATACCCATGCAGGGGTATCGGTACCC
1 AGGGTATTCATACCCAT-CAGGGGTATCGGTACCC
* *
1749132 AGGGTATTGATACCCAT-AGGGGTATTGGTACCC
1 AGGGTATTCATACCCATCAGGGGTATCGGTACCC
1749165 TTTTTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 15 0.48
35 16 0.52
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (34 bp):
AGGGTATTCATACCCATCAGGGGTATCGGTACCC
Found at i:1749252 original size:37 final size:38
Alignment explanation
Indices: 1749193--1749268 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
1749183 AAACCTTCAT
1749193 AGGGATATTGATACCCAATCATAAGGGTATCAGTACCC
1 AGGGATATTGATACCCAATCATAAGGGTATCAGTACCC
* * *
1749231 AGGG-TATTGATACCCATTCATAGGGGTATCGGTACCC
1 AGGGATATTGATACCCAATCATAAGGGTATCAGTACCC
1749268 A
1 A
1749269 TTTGCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (38 bp):
AGGGATATTGATACCCAATCATAAGGGTATCAGTACCC
Found at i:1749514 original size:21 final size:19
Alignment explanation
Indices: 1749480--1749536 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
1749470 ATGTTTAATG
*
1749480 AAAAAGATATCAATTGTTT
1 AAAAAGATACCAATTGTTT
*
1749499 ACAAAAGGATGCCAATTG-TT
1 A-AAAA-GATACCAATTGTTT
1749519 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
1749537 GGAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 7 0.22
21 9 0.28
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTT
Found at i:1750692 original size:19 final size:20
Alignment explanation
Indices: 1750656--1750703 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1750646 TCTAAATCCT
*
1750656 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTGG
*
1750676 TTTTCAAAA-TCCATTTTTG
1 TTTTCAAAATTCCATTTTGG
1750695 TTTTCAAAA
1 TTTTCAAAA
1750704 GAAAATTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGG
Found at i:1752154 original size:37 final size:38
Alignment explanation
Indices: 1752095--1752168 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
1752085 GAACCCTCAT
* *
1752095 AGGGATATTGATACCCAGTCATAGTGGTATCGGTACCC
1 AGGGATATTGATACCCAGTCATAGGGGTATCGATACCC
*
1752133 AGGG-TATTGATACCCATTCATAGGGGTATCGATACC
1 AGGGATATTGATACCCAGTCATAGGGGTATCGATACC
1752169 TATTTGCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 29 0.88
38 4 0.12
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (38 bp):
AGGGATATTGATACCCAGTCATAGGGGTATCGATACCC
Found at i:1752406 original size:21 final size:19
Alignment explanation
Indices: 1752382--1752438 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
1752372 ATGTTAAATG
1752382 AAAAAGATACCAATTGTTT
1 AAAAAGATACCAATTGTTT
* *
1752401 ACAAAAGGATATCAATT-TCT
1 A-AAAA-GATACCAATTGTTT
1752421 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
1752439 AGAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 7 0.23
21 9 0.29
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTT
Found at i:1754166 original size:22 final size:21
Alignment explanation
Indices: 1754141--1754216 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
1754131 GTTTGAGACT
1754141 TCATAGGGGTATTGATACCCA
1 TCATAGGGGTATTGATACCCA
* *
1754162 GTCATAGGGGTATAGGTA--C-
1 -TCATAGGGGTATTGATACCCA
1754181 -C-TA-GGGTATTGATACCCA
1 TCATAGGGGTATTGATACCCA
1754199 TTCATAGGGGTATTGATA
1 -TCATAGGGGTATTGATA
1754217 TATTGATACC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
15 9 0.21
16 2 0.05
17 2 0.05
20 2 0.05
21 2 0.05
22 26 0.60
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (21 bp):
TCATAGGGGTATTGATACCCA
Found at i:1754494 original size:21 final size:19
Alignment explanation
Indices: 1754470--1754518 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
1754460 TGAAAAAGAC
1754470 ACCAATTGTTTACAAAATGAT
1 ACCAATTGTTT--AAAATGAT
1754491 ACCAATTG-TTAAAATGAT
1 ACCAATTGTTTAAAATGAT
*
1754509 ATCAATTGTT
1 ACCAATTGTT
1754519 ATCAATTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 15 0.58
19 1 0.04
20 2 0.08
21 8 0.31
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (19 bp):
ACCAATTGTTTAAAATGAT
Found at i:1754506 original size:18 final size:18
Alignment explanation
Indices: 1754483--1754519 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1754473 AATTGTTTAC
1754483 AAAATGATACCAATTGTT
1 AAAATGATACCAATTGTT
*
1754501 AAAATGATATCAATTGTT
1 AAAATGATACCAATTGTT
1754519 A
1 A
1754520 TCAATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AAAATGATACCAATTGTT
Found at i:1756837 original size:20 final size:22
Alignment explanation
Indices: 1756812--1756851 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1756802 AGTCATATAA
1756812 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
1756832 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
1756852 TCTTTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:1760421 original size:4 final size:4
Alignment explanation
Indices: 1760414--1760652 Score: 120
Period size: 4 Copynumber: 56.8 Consensus size: 4
1760404 AAAACAAACA
* *
1760414 AAAT AAAT AAA- GAAT GATAAT AAAT AAAT AAA- GAAT GATAAT AAAT
1 AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT AAAT -A-AAT AAAT
* * * *
1760460 AAAT AAA- GAAT GAAT -GAT AAAAT AAAT AAA- GAAT GATAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT
*
1760508 AAAT AAAAT GATAAT AAAT AAAT AAGAAT GATAAT AAAT AAAT AAA- GAAT
1 AAAT -AAAT -A-AAT AAAT AAAT -A-AAT -A-AAT AAAT AAAT AAAT AAAT
* *
1760558 GATAAT -AAT AAAT AAAT AAA- GAAT GATAAT AAAT AAAT AAA- GAAT
1 -A-AAT AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT AAAT
*
1760603 GATAAT AAAT AAAT AAAT AAAT AAA- GAAT GATAAT AAAT AAAT AAAT
1 -A-AAT AAAT AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT
1760650 AAA
1 AAA
1760653 GGCCGTTTAC
Statistics
Matches: 186, Mismatches: 20, Indels: 58
0.70 0.08 0.22
Matches are distributed among these distances:
3 21 0.11
4 118 0.63
5 16 0.09
6 31 0.17
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1760642 original size:21 final size:21
Alignment explanation
Indices: 1760414--1760619 Score: 324
Period size: 21 Copynumber: 9.5 Consensus size: 21
1760404 AAAACAAACA
1760414 AAATAAATAAAGAATGATAAT
1 AAATAAATAAAGAATGATAAT
1760435 AAATAAATAAAGAATGATAAT
1 AAATAAATAAAGAATGATAAT
*
1760456 AAATAAATAAAGAATGAATGAT
1 AAATAAATAAAGAATG-ATAAT
1760478 AAAATAAATAAAGAATGATAAT
1 -AAATAAATAAAGAATGATAAT
*
1760500 AAATAAATAAATAAAATGATAAT
1 AAATAAAT-AA-AGAATGATAAT
1760523 AAATAAAT-AAGAATGATAAT
1 AAATAAATAAAGAATGATAAT
1760543 AAATAAATAAAGAATGATAATAAT
1 AAATAAATAAAGAATG---ATAAT
1760567 AAATAAATAAAGAATGATAAT
1 AAATAAATAAAGAATGATAAT
1760588 AAATAAATAAAGAATGATAAT
1 AAATAAATAAAGAATGATAAT
1760609 AAATAAATAAA
1 AAATAAATAAA
1760620 TAAATAAAGA
Statistics
Matches: 173, Mismatches: 4, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
20 18 0.10
21 90 0.52
22 10 0.06
23 34 0.20
24 21 0.12
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (21 bp):
AAATAAATAAAGAATGATAAT
Found at i:1769531 original size:19 final size:19
Alignment explanation
Indices: 1769507--1769545 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1769497 GTAATCATAT
1769507 ATGTATTTATATCTGAACG
1 ATGTATTTATATCTGAACG
*
1769526 ATGTATTTGTATCTGAACG
1 ATGTATTTATATCTGAACG
1769545 A
1 A
1769546 ACAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (19 bp):
ATGTATTTATATCTGAACG
Found at i:1770338 original size:14 final size:14
Alignment explanation
Indices: 1770319--1770349 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1770309 TTGCGTTGTT
1770319 CATCCATGCCAAGC
1 CATCCATGCCAAGC
1770333 CATCCATGCCAAGC
1 CATCCATGCCAAGC
1770347 CAT
1 CAT
1770350 TTTGAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (14 bp):
CATCCATGCCAAGC
Found at i:1773931 original size:33 final size:33
Alignment explanation
Indices: 1773872--1773969 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1773862 ACCTTACAAC
* *
1773872 TCCCTAGTTTTTC-CGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTCACGGGCTAAGCTAGAACCTT
*
1773904 TCCCTAGCTTTTCACGGGCTAAGCTAGAACATT
1 TCCCTAGCTTTTCACGGGCTAAGCTAGAACCTT
1773937 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCT
1 TCCCTAGCTTTT-CACGGGCTAAGCTAGAACCT
1773970 AACCGTTAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.20
33 29 0.48
34 19 0.32
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (33 bp):
TCCCTAGCTTTTCACGGGCTAAGCTAGAACCTT
Found at i:1774306 original size:18 final size:19
Alignment explanation
Indices: 1774242--1774324 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 19
1774232 AATTTACGTT
*
1774242 TAGTCCAAATTCGTTGAGA
1 TAGTCCAAATTCGTTGCGA
* *
1774261 TAGTCGAAGTTCGTGTTGCGA
1 TAGTCCAAATTC--GTTGCGA
**
1774282 TTTTCCAAATTCG-TGCGA
1 TAGTCCAAATTCGTTGCGA
*
1774300 TAGTCCAAGTTCACGTTGCGA
1 TAGTCCAAATT--CGTTGCGA
1774321 TAGT
1 TAGT
1774325 TAGTCGAAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
18 13 0.27
19 11 0.22
20 2 0.04
21 23 0.47
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (19 bp):
TAGTCCAAATTCGTTGCGA
Found at i:1774310 original size:39 final size:40
Alignment explanation
Indices: 1774245--1774321 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
1774235 TTACGTTTAG
* **
1774245 TCCAAATTCGTTGAGATAGTCGAAGTTCGTGTTGCGATTT
1 TCCAAATTCGTTGAGATAGTCCAAGTTCACGTTGCGATTT
*
1774285 TCCAAATTCG-TGCGATAGTCCAAGTTCACGTTGCGAT
1 TCCAAATTCGTTGAGATAGTCCAAGTTCACGTTGCGAT
1774322 AGTTAGTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (40 bp):
TCCAAATTCGTTGAGATAGTCCAAGTTCACGTTGCGATTT
Found at i:1774383 original size:66 final size:64
Alignment explanation
Indices: 1774261--1774387 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 64
1774251 TTCGTTGAGA
*
1774261 TAGTCGAAGTTCGTGTTGCGATTTTCCAAATTCGTGCGATAGTCCAAGTTCACGTTGCGATAGT
1 TAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTGCGATAGTCCAAGTTCACGTTGCGATAGT
* * **
1774325 TAGTCGAAGTTCGCGTTGCGATTTTTTCAAATTCGTTGCGATAGTCGAAGTTTGCGTTGCGAT
1 TAGTCGAAGTTCGCGTTGCGA-TTTTCCAAATTCG-TGCGATAGTCCAAGTTCACGTTGCGAT
1774388 TTTCCAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 20 0.36
65 12 0.21
66 24 0.43
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (64 bp):
TAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTGCGATAGTCCAAGTTCACGTTGCGATAGT
Found at i:1776512 original size:16 final size:17
Alignment explanation
Indices: 1776477--1776512 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1776467 TTGATCCGTA
1776477 AATT-TGATTATATTTT
1 AATTATGATTATATTTT
1776493 -ATTATGATTA-ATTTT
1 AATTATGATTATATTTT
1776508 AATTA
1 AATTA
1776513 CATCCGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTATGATTATATTTT
Found at i:1776867 original size:59 final size:59
Alignment explanation
Indices: 1776799--1776918 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
1776789 CGACGTGAGC
1776799 ACGCCATTATTGAGTAAACGGTCGAGTGACAAAAAAGTTCAATATCTAAAGTTCAGTGA
1 ACGCCATTATTGAGTAAACGGTCGAGTGACAAAAAAGTTCAATATCTAAAGTTCAGTGA
1776858 ACGCCATTATTGAGTAAACGGTCGAGTGACAAAAAAGTTCAATATCTAAAGTTCAGTGA
1 ACGCCATTATTGAGTAAACGGTCGAGTGACAAAAAAGTTCAATATCTAAAGTTCAGTGA
1776917 AC
1 AC
1776919 AAATTGAAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (59 bp):
ACGCCATTATTGAGTAAACGGTCGAGTGACAAAAAAGTTCAATATCTAAAGTTCAGTGA
Found at i:1777859 original size:42 final size:42
Alignment explanation
Indices: 1777810--1777927 Score: 184
Period size: 41 Copynumber: 2.8 Consensus size: 42
1777800 TTTTCCCGAA
* *
1777810 TCCCGTGTTTGTTTCATGTAATTCGTTTTTCGGAAAATATTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
* * *
1777852 TTCCGTGTTTGTTTCACGTAA-TCGTTTTCCAGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
1777893 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1777928 TGTAATTCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 37 0.54
42 31 0.46
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
Found at i:1778251 original size:18 final size:18
Alignment explanation
Indices: 1778221--1778268 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1778211 TTTTTATTTT
*
1778221 AATA-ATATATAATAAAA
1 AATATATATTTAATAAAA
**
1778238 AATATATATTTAATAATG
1 AATATATATTTAATAAAA
1778256 AATATATTATTTA
1 AATATA-TATTTA
1778269 TATATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATATATTTAATAAAA
Found at i:1778275 original size:56 final size:58
Alignment explanation
Indices: 1778145--1778284 Score: 157
Period size: 56 Copynumber: 2.4 Consensus size: 58
1778135 ATTTTTAATA
* * *
1778145 ATATAATA-TTATATTTTAATATTATATAAAATAATCAATTATATTATAATAATATAAG
1 ATATTATATTTATATTTTAATAATATATAAAATAA-CAATTATATTATAATAATAGAAG
* *
1778203 ATATTATATTTTTATTTTAATAATATATAATAA-AA-AATATATATT-TAATAAT-GAAT
1 ATATTATATTTATATTTTAATAATATATAA-AATAACAAT-TATATTATAATAATAGAAG
1778259 ATATTAT-TTATATATTTTAATAATAT
1 ATATTATATT-TATATTTTAATAATAT
1778285 TTTAATAAGA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 2 0.03
56 24 0.33
57 10 0.14
58 13 0.18
59 21 0.29
60 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (58 bp):
ATATTATATTTATATTTTAATAATATATAAAATAACAATTATATTATAATAATAGAAG
Found at i:1778696 original size:15 final size:15
Alignment explanation
Indices: 1778660--1778726 Score: 91
Period size: 15 Copynumber: 4.5 Consensus size: 15
1778650 TTTCAGAAAT
**
1778660 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1778675 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
*
1778689 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
*
1778704 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
1778719 GTAATTCA
1 GTAATTCA
1778727 TTTTCCGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1779154 original size:56 final size:55
Alignment explanation
Indices: 1779055--1779200 Score: 145
Period size: 56 Copynumber: 2.6 Consensus size: 55
1779045 TAATGTTTTT
* * *
1779055 AATAATATAATTTATTTTAATATTATATAA-AATAATCAATTATATTATATAATATAAG
1 AATAATAT-TTTTATTTTAATAATATATAATAA-AATAAATTATA-TATATAATA-AAG
* * *
1779113 -ATATTATTTTTATTTTAATAATATATAATAAAA-AAATTTATATATTTAATAATG
1 AATAATATTTTTATTTTAATAATATATAATAAAATAAA-TTATATATATAATAAAG
* *
1779167 AATAATATTTATATATTTAATAATATTTAATAAA
1 AATAATATTTTTAT-TTTAATAATATATAATAAA
1779201 GATATTTAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
54 2 0.03
55 21 0.28
56 44 0.59
57 8 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (55 bp):
AATAATATTTTTATTTTAATAATATATAATAAAATAAATTATATATATAATAAAG
Found at i:1779190 original size:18 final size:17
Alignment explanation
Indices: 1779154--1779199 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
1779144 AAAAATTTAT
1779154 ATATTTAATAATGAATA
1 ATATTTAATAATGAATA
* *
1779171 ATATTTATATATTTAATA
1 ATATTTA-ATAATGAATA
1779189 ATATTTAATAA
1 ATATTTAATAA
1779200 AGATATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATTTAATAATGAATA
Found at i:1779192 original size:10 final size:10
Alignment explanation
Indices: 1779167--1779199 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1779157 TTTAATAATG
1779167 AATAATATTT
1 AATAATATTT
1779177 -AT-ATATTT
1 AATAATATTT
1779185 AATAATATTT
1 AATAATATTT
1779195 AATAA
1 AATAA
1779200 AGATATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.29
9 4 0.19
10 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATAATATTT
Found at i:1779198 original size:28 final size:28
Alignment explanation
Indices: 1779117--1779199 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 28
1779107 TATAAGATAT
* *
1779117 TATTTTTAT-TTTAATAATATATAATAAAAA
1 TATTTATATATTTAATAATAT-T--TAATAA
* *
1779147 AATTTATATATTTAAT-A-A-TGAATAA
1 TATTTATATATTTAATAATATTTAATAA
1779172 TATTTATATATTTAATAATATTTAATAA
1 TATTTATATATTTAATAATATTTAATAA
1779200 AGATATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
25 19 0.44
26 1 0.02
27 2 0.05
28 6 0.14
29 1 0.02
30 8 0.19
31 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTTATATATTTAATAATATTTAATAA
Found at i:1779220 original size:23 final size:22
Alignment explanation
Indices: 1779179--1779235 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1779169 TAATATTTAT
*
1779179 ATATTTAATAATATTTAATAAAG
1 ATATTTAA-AATATCTAATAAAG
* *
1779202 ATATTTAAAATATACTAATTAAT
1 ATATTTAAAATAT-CTAATAAAG
*
1779225 ATTTTTAAAAT
1 ATATTTAAAAT
1779236 TAATATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTTAAAATATCTAATAAAG
Found at i:1779587 original size:903 final size:920
Alignment explanation
Indices: 1778016--1779839 Score: 2890
Period size: 903 Copynumber: 2.0 Consensus size: 920
1778006 TTTTTCGAAC
1778016 TTTTCACTTTAAAGAATAAATACTCAAACTAATTTTATTTTATGAATTAATATTAATAAATATTT
1 TTTTCACTTTAAAGAATAAATACTCAAACTAATTTTATTTTATGAATTAATATTAATAAATATTT
*
1778081 AATATCATTTTCATCAAATTATTAATTATTAAAACTTTAAAATATATTTTTAATATTTTTAATAA
66 AATATCATTTTCATCAAAATATTAATTATTAAAACTTTAAAATATATTTTTAATATTTTTAATAA
1778146 TATAATATTATATTTTAATATTATATAAAATAATCAATTATATTATAATAATATAAGATATTATA
131 TATAATATTATATTTTAATATTATATAAAATAATCAATTATATTATAATAATATAAGATATTATA
1778211 TTTTTATTTTAATAATATATAATAAAAAATATATATTTAATAATGAATATATTATTTATATATTT
196 TTTTTATTTTAATAATATATAATAAAAAATATATATTTAATAATGAATATATTATTTATATATTT
1778276 TAATAATATTTTAATAAGATATTTAAAATACTATAATATTTTTAAATATAATATAACACTATTAC
261 TAATAATATTTTAATAAGATATTTAAAATACTATAATATTTTTAAATATAATATAACACTATTAC
*
1778341 TTTAATAAATAATTAATATAATTATAATATTTTATTTCACTAAAATACCAATATTAATATTTTTA
326 TTTAATAAATAATTAATATAATTATAATATATTATTTCACTAAAATACCAATATTAATATTTTTA
1778406 TTAATAAAATTATAAAAATAATATTTAATAATAAATAAATTATTTTAATATTTTAAAATAAAATA
391 TTAATAAAATTATAAAAATAATATTTAATAATAAATAAATTATTTTAATATTTTAAAATAAAATA
1778471 TTAAGTTTTATGATAAAAATATTATTTATTTATTTAATATTTTAATAAATAATTTTTAAAAAAAC
456 TTAAGTTTTATGATAAAAATATTATTTATTTATTTAATATTTTAAT-AATAATTTTTAAAAAAAC
*
1778536 TCTTCAACTAGTGGAAAAAAGGTTTAATATCATCTTCCAAACATCATAAAACGTTTTCCATGTTT
520 TCTTCAACTAGTGGAAAAAAGGTTTAATAACATCTTCCAAACATCATAAAACGTTTTCCATGTTT
*
1778601 TTCAGAAAAATGTAATTCATTTTACGGAAAACATTTTCCGAAAAACGTTTTTCAGAAATGTAATT
585 TTCAGAAAAATGTAATTCATTTTACGGAAAACATTTTCCGAAAAACGTTTTCCAGAAATGTAATT
*
1778666 CATTTTCCAGAATTCAAATTCCAGTAATTCAAATTTCAGTAATTC-A-AA-T-TT-CAGTAATTC
650 CATTTTCCAGAATTCAAATTCCAATAATTCAAATTTCAGTAATTCAATAATTATTCCAGTAATTC
*
1778726 ATTTTCCG-GAAAACCAATTACAACCAAACAGACCCTTAAATAAGTCTAATA-TTAGGCGTGAGC
715 ATTTTCCGAAAAAACCAATTACAACCAAACAGACCCTTAAATAAGTCTAATAGTTAGGCGTGAGC
1778789 CTTAAATCCGAGATGGTTGATCATTCTAAATAGGGACAGAA-CAAAATTTTATGTTGGGATAAAC
780 CTTAAATCCGAGATGG-TGATCATTCTAAATAGGGACAGAAGCAAAA-TTTATGTTGGGATAAAC
1778853 CT-AACTTAA-GGTTTGAACT-AAATTCTAGGGGTG-AATAAACTTTCAATAGGAAATATATAAA
843 CTAAACTTAAGGGTTTGAACTAAAATTCTAGGGG-GAAATAAACTTTC-ATAGGAAATATATAAA
1778914 AAAAATAAACGGTAA
906 AAAAATAAACGGTAA
1778929 TTTTCA-TTTAAAGAAT-AATACTCAAACTAATTTTATTTTATGAATTAATATTAATAATAAAAT
1 TTTTCACTTTAAAGAATAAATACTCAAACTAATTTTATTTTATGAATTAATA-T--TAAT-AAAT
* *
1778992 ATTTTTATATC-TTTTCATCAAAATATTAATTATTAAAACATTT-AAA-ATATTTTTAATGTTTT
62 A-TTTAATATCATTTTCATCAAAATATTAATTATTAAAAC-TTTAAAATATATTTTTAATATTTT
1779054 TAATAATAT-A-ATT-TATTTTAATATTATATAAAATAATCAATTATATTAT-ATAATATAAGAT
125 TAATAATATAATATTATATTTTAATATTATATAAAATAATCAATTATATTATAATAATATAAGAT
1779115 A-T-TATTTTTATTTTAATAATATATAATAAAAAAATTTATATATTTAATAATGAATA-A-TATT
190 ATTATATTTTTATTTTAATAATATATAAT-AAAAAA--TATATATTTAATAATGAATATATTATT
1779176 TATATA-TTTAATAATA-TTTAATAAAGATATTTAAAATATACTAATTAATATTTTTAAA-ATTA
252 TATATATTTTAATAATATTTTAAT-AAGATATTT-AAA-ATACT-A-TAATATTTTTAAATA-TA
*
1779238 ATATAACACTATTACTTTAATAAATAATTAATATAATT-TAA-ATATTATTTCACTAATATACC-
311 ATATAACACTATTACTTTAATAAATAATTAATATAATTATAATATATTATTTCACTAAAATACCA
1779300 ATA-T-ATA-TTTTATTAAT-AAATTATAAAAATAATA-TTAATAATAAATAAATTATTTTAATA
376 ATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAAATTATTTTAATA
1779360 TTTT-AAATAATAATA-TAAGTTTTATGATAAATAATA-TATTTATTATATTT-ATATTTGT-AT
441 TTTTAAAATAA-AATATTAAGTTTTATGATAAA-AATATTATTTATT-TATTTAATATTT-TAAT
*
1779420 -ATAATTTTT-AAAAATCTCTTCAACTAGTGGGAAAAAAGGTTTTAAATAACATCTTCCAAACAT
502 AATAATTTTTAAAAAAACTCTTCAACTAGT-GGAAAAAAGG-TTT-AATAACATCTTCCAAACAT
*
1779483 CATAAAACGTTTTCCAATGTTTTTCAGAAAAATGTAATTCATTTTACGGAAAA-ATTTTCTGAAA
564 CATAAAACGTTTTCC-ATGTTTTTCAGAAAAATGTAATTCATTTTACGGAAAACATTTTCCGAAA
1779547 AACGTTTTCCAGAAATGTAATTCATTTTCCAGAATTCAAATTCCAATAATTCAAATTTCAGTAAT
628 AACGTTTTCCAGAAATGTAATTCATTTTCCAGAATTCAAATTCCAATAATTCAAATTTCAGTAAT
1779612 TCAAATTTCGTAATTCAAATTCCAGTAATTCATTTTCCGAAAAAACCAATTACAACCAAACAGAC
693 TC-AA-----TAATT---ATTCCAGTAATTCATTTTCCGAAAAAACCAATTACAACCAAACAGAC
* *
1779677 TCTTAAATTAGTCTAATAGTTAGGCGTGAGCCTTAAATCCGAGATGGTGATCATTCTAAATAGGG
749 CCTTAAATAAGTCTAATAGTTAGGCGTGAGCCTTAAATCCGAGATGGTGATCATTCTAAATAGGG
1779742 ACAGAAGCAAAATTTATGTTGGGATAAACCTAAACTTAAGGGTTTGAACTAAAATTCTAGGGGGA
814 ACAGAAGCAAAATTTATGTTGGGATAAACCTAAACTTAAGGGTTTGAACTAAAATTCTAGGGGGA
1779807 AATAAACTTTCATAGGAAATATATAAAAAAAAT
879 AATAAACTTTCATAGGAAATATATAAAAAAAAT
1779840 TTTAAATAAC
Statistics
Matches: 854, Mismatches: 13, Indels: 81
0.90 0.01 0.09
Matches are distributed among these distances:
900 18 0.02
901 19 0.02
902 3 0.00
903 146 0.17
904 81 0.09
905 18 0.02
906 10 0.01
907 9 0.01
908 45 0.05
909 23 0.03
910 38 0.04
911 97 0.11
912 68 0.08
913 7 0.01
914 28 0.03
915 35 0.04
916 13 0.02
917 17 0.02
918 83 0.10
919 40 0.05
920 33 0.04
921 23 0.03
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (920 bp):
TTTTCACTTTAAAGAATAAATACTCAAACTAATTTTATTTTATGAATTAATATTAATAAATATTT
AATATCATTTTCATCAAAATATTAATTATTAAAACTTTAAAATATATTTTTAATATTTTTAATAA
TATAATATTATATTTTAATATTATATAAAATAATCAATTATATTATAATAATATAAGATATTATA
TTTTTATTTTAATAATATATAATAAAAAATATATATTTAATAATGAATATATTATTTATATATTT
TAATAATATTTTAATAAGATATTTAAAATACTATAATATTTTTAAATATAATATAACACTATTAC
TTTAATAAATAATTAATATAATTATAATATATTATTTCACTAAAATACCAATATTAATATTTTTA
TTAATAAAATTATAAAAATAATATTTAATAATAAATAAATTATTTTAATATTTTAAAATAAAATA
TTAAGTTTTATGATAAAAATATTATTTATTTATTTAATATTTTAATAATAATTTTTAAAAAAACT
CTTCAACTAGTGGAAAAAAGGTTTAATAACATCTTCCAAACATCATAAAACGTTTTCCATGTTTT
TCAGAAAAATGTAATTCATTTTACGGAAAACATTTTCCGAAAAACGTTTTCCAGAAATGTAATTC
ATTTTCCAGAATTCAAATTCCAATAATTCAAATTTCAGTAATTCAATAATTATTCCAGTAATTCA
TTTTCCGAAAAAACCAATTACAACCAAACAGACCCTTAAATAAGTCTAATAGTTAGGCGTGAGCC
TTAAATCCGAGATGGTGATCATTCTAAATAGGGACAGAAGCAAAATTTATGTTGGGATAAACCTA
AACTTAAGGGTTTGAACTAAAATTCTAGGGGGAAATAAACTTTCATAGGAAATATATAAAAAAAA
TAAACGGTAA
Found at i:1779588 original size:20 final size:20
Alignment explanation
Indices: 1779551--1779589 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1779541 CTGAAAAACG
**
1779551 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
1779571 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
1779590 CAATAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:1779599 original size:15 final size:15
Alignment explanation
Indices: 1779563--1779643 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
1779553 TTCCAGAAAT
**
1779563 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1779578 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
* *
1779592 ATAATTCAAATTTCA
1 GTAATTCAAATTCCA
*
1779607 GTAATTCAAATTTC-
1 GTAATTCAAATTCCA
1779621 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
1779636 GTAATTCA
1 GTAATTCA
1779644 TTTTCCGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
14 24 0.41
15 34 0.59
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1779625 original size:29 final size:30
Alignment explanation
Indices: 1779563--1779643 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
1779553 TTCCAGAAAT
*
1779563 GTAATTC-ATTTTCCAG-AATTCAAATTCCA
1 GTAATTCAAATTT-CAGTAATTCAAATTCCA
* *
1779592 ATAATTCAAATTTCAGTAATTCAAATTTC-
1 GTAATTCAAATTTCAGTAATTCAAATTCCA
*
1779621 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCAAATTTCAGTAATTCA
1779644 TTTTCCGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 30 0.67
30 15 0.33
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (30 bp):
GTAATTCAAATTTCAGTAATTCAAATTCCA
Found at i:1780438 original size:39 final size:39
Alignment explanation
Indices: 1780384--1780461 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
1780374 AATTTTGGCA
1780384 CATCATTACAAAACATAACTCCACCCGAGCCCTTCCTTT
1 CATCATTACAAAACATAACTCCACCCGAGCCCTTCCTTT
1780423 CATCATTACAAAACATAACTCCACCCGAGCCCTTCCTTT
1 CATCATTACAAAACATAACTCCACCCGAGCCCTTCCTTT
1780462 TTCATTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.38, G:0.05, T:0.26
Consensus pattern (39 bp):
CATCATTACAAAACATAACTCCACCCGAGCCCTTCCTTT
Found at i:1789252 original size:2 final size:2
Alignment explanation
Indices: 1789247--1789333 Score: 74
Period size: 2 Copynumber: 49.5 Consensus size: 2
1789237 ATTTATTAAT
1789247 TA TA TA TA T- TA TA T- TA GTA TA T- TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
1789286 T- TA TA TA T- TA TA T- TA T- TA TA T- TA TA TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1789321 TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA T
1789334 TATGAACTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 28
0.72 0.00 0.28
Matches are distributed among these distances:
1 13 0.18
2 56 0.79
3 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:1789256 original size:13 final size:14
Alignment explanation
Indices: 1789229--1789336 Score: 124
Period size: 13 Copynumber: 8.1 Consensus size: 14
1789219 TCAATAGTGT
1789229 TATTATATAT-TTA
1 TATTATATATATTA
1789242 TTAATTATATATATTA
1 -T-ATTATATATATTA
*
1789258 TATTA-GTATATTA
1 TATTATATATATTA
1789271 TA-TATATATATTA
1 TATTATATATATTA
1789284 TA-T-TATATATTA
1 TATTATATATATTA
1789296 TATTAT-TATATTA
1 TATTATATATATTA
1789309 TA-TATAT-TATTA
1 TATTATATATATTA
1789321 TATTATATTATATTA
1 TATTATA-TATATTA
1789336 T
1 T
1789337 GAACTATAAC
Statistics
Matches: 83, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
12 23 0.28
13 34 0.41
14 7 0.08
15 16 0.19
16 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (14 bp):
TATTATATATATTA
Found at i:1789261 original size:5 final size:5
Alignment explanation
Indices: 1789234--1789336 Score: 98
Period size: 5 Copynumber: 21.6 Consensus size: 5
1789224 AGTGTTATTA
*
1789234 TATAT T-TAT TA-AT TATA- TATAT TATA- T-TAG TATAT TATA- TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1789277 TATAT TATAT TATA- TAT-T ATATTAT TATAT TATAT ATATTAT TATAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT -TA-TAT TATAT
1789324 TATAT TATAT TAT
1 TATAT TATAT TAT
1789337 GAACTATAAC
Statistics
Matches: 85, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
3 2 0.02
4 25 0.29
5 47 0.55
6 7 0.08
7 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:1789270 original size:22 final size:21
Alignment explanation
Indices: 1789245--1789333 Score: 100
Period size: 22 Copynumber: 4.3 Consensus size: 21
1789235 ATATTTATTA
1789245 ATTATATATATTATATTAGTAT
1 ATTATATATATTATATTA-TAT
1789267 ATTATATATA-TATA-T-TAT
1 ATTATATATATTATATTATAT
1789285 A-T-TATATATTATATTATTAT
1 ATTATATATATTATATTA-TAT
1789305 ATTATATATATTAT-TATATTAT
1 ATTATATATATTATAT-TA-TAT
1789327 ATTATAT
1 ATTATAT
1789334 TATGAACTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.10
17 5 0.08
18 5 0.08
20 5 0.08
21 6 0.10
22 33 0.55
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATATATATTATATTATAT
Found at i:1790341 original size:14 final size:14
Alignment explanation
Indices: 1790322--1790348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1790312 TATATTAAAT
1790322 ATTTTAAAAAATAA
1 ATTTTAAAAAATAA
1790336 ATTTTAAAAAATA
1 ATTTTAAAAAATA
1790349 TATATTTCAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTTAAAAAATAA
Found at i:1794605 original size:19 final size:19
Alignment explanation
Indices: 1794568--1794605 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1794558 GCCTAAATTA
1794568 TACTTAAAATTAATTTTTGG
1 TACTTAAAATT-ATTTTTGG
1794588 TACTTAAAGATT-TTTTTG
1 TACTTAAA-ATTATTTTTG
1794606 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
TACTTAAAATTATTTTTGG
Found at i:1799783 original size:17 final size:17
Alignment explanation
Indices: 1799740--1799784 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1799730 TATATGTTTA
1799740 TTTTATAATTATAAAAT
1 TTTTATAATTATAAAAT
* *
1799757 ATTTATAATTATGAATAT
1 TTTTATAATTAT-AAAAT
1799775 TTTTA-AATTA
1 TTTTATAATTA
1799785 ATCACTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTATAATTATAAAAT
Found at i:1804378 original size:3 final size:3
Alignment explanation
Indices: 1804370--1804395 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1804360 TTTTGTATCT
1804370 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
1804396 TGTGCTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1815410 original size:23 final size:23
Alignment explanation
Indices: 1815356--1815411 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1815346 TTTGACCGGT
*
1815356 TCTTCTTCTTCCCCAACCCAACC
1 TCTTCTTCTTCCCCAACCCAACA
* * * *
1815379 CCATATTCTTCCCCAACCCATCA
1 TCTTCTTCTTCCCCAACCCAACA
1815402 TCTTCTTCTT
1 TCTTCTTCTT
1815412 TCTTTCTCTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.46, G:0.00, T:0.36
Consensus pattern (23 bp):
TCTTCTTCTTCCCCAACCCAACA
Found at i:1820454 original size:523 final size:523
Alignment explanation
Indices: 1819466--1820525 Score: 2039
Period size: 523 Copynumber: 2.0 Consensus size: 523
1819456 AATTTACATC
*
1819466 GAACATTAGGGTTGGGGCTAGCATAAACAGCTGTAAAATAGTTCCAATCATTACTATTGAGCCCT
1 GAACATTAGGGTTGGGGCTAGCATAAACAACTGTAAAATAGTTCCAATCATTACTATTGAGCCCT
1819531 CTGAAACGAGTATGAACATACTGATTAGAGACGCTTAAAATCTTCACTTCTACTGAGTTATCCCA
66 CTGAAACGAGTATGAACATACTGATTAGAGACGCTTAAAATCTTCACTTCTACTGAGTTATCCCA
1819596 AAGCACCCATATACCACCGCTATGCCCCTGCGCTTCAATTCTGAAAGAATTATTGTAACACATGT
131 AAGCACCCATATACCACCGCTATGCCCCTGCGCTTCAATTCTGAAAGAATTATTGTAACACATGT
*
1819661 TGGCAATACTATCAGCTCTTTTACCACTCATGTGAGTTTCCATCAAAACAATAATCTTAGGCTTG
196 TGACAATACTATCAGCTCTTTTACCACTCATGTGAGTTTCCATCAAAACAATAATCTTAGGCTTG
1819726 TGCATAATAACACATTCCTTAAAATATCTTTTAAAAGAAGGTTTCACAACCCCTTGTGTGTTCCA
261 TGCATAATAACACATTCCTTAAAATATCTTTTAAAAGAAGGTTTCACAACCCCTTGTGTGTTCCA
*
1819791 AAATAAGAAATTCATAGAAATGAAGCTAGGATTGGTTACTATGAGACGAATCATTTTCCTTCTGA
326 AAATAAGAAATTCATAGAAATGAAGCTAGGATTGGTTACTATGAGACGAATCATTTTCCTTATGA
1819856 ACAGATTCTTATATCTGGCTCTGATCATTATGATCTAACATTCGAATTTGATCGGTTGTAGATGT
391 ACAGATTCTTATATCTGGCTCTGATCATTATGATCTAACATTCGAATTTGATCGGTTGTAGATGT
1819921 GTTGTTGTAAGGCGGGGCCAAATTCTCTGAGTTCATAGTATTCTCTTTGATCCATTCTGAAAGAA
456 GTTGTTGTAAGGCGGGGCCAAATTCTCTGAGTTCATAGTATTCTCTTTGATCCATTCTGAAAGAA
1819986 AAG
521 AAG
*
1819989 GAATATTAGGGTTGGGGCTAGCATAAACAACTGTAAAATAGTTCCAATCATTACTATTGAGCCCT
1 GAACATTAGGGTTGGGGCTAGCATAAACAACTGTAAAATAGTTCCAATCATTACTATTGAGCCCT
*
1820054 CTGAAATGAGTATGAACATACTGATTAGAGACGCTTAAAATCTTCACTTCTACTGAGTTATCCCA
66 CTGAAACGAGTATGAACATACTGATTAGAGACGCTTAAAATCTTCACTTCTACTGAGTTATCCCA
*
1820119 AAGCACCCATATACCACCGCTATGCCCCTGCGCTTCAATTCTGAAAGAGTTATTGTAACACATGT
131 AAGCACCCATATACCACCGCTATGCCCCTGCGCTTCAATTCTGAAAGAATTATTGTAACACATGT
1820184 TGACAATACTATCAGCTCTTTTACCACTCATGTGAGTTTCCATCAAAACAATAATCTTAGGCTTG
196 TGACAATACTATCAGCTCTTTTACCACTCATGTGAGTTTCCATCAAAACAATAATCTTAGGCTTG
*
1820249 TGCATAATAACATATTCCTTAAAATATCTTTTAAAAGAAGGTTTCACAACCCCTTGTGTGTTCCA
261 TGCATAATAACACATTCCTTAAAATATCTTTTAAAAGAAGGTTTCACAACCCCTTGTGTGTTCCA
*
1820314 AAATAAGAAATTCATAGAAATGAAGCTAGGATTGGTTACTATGAGATGAATCATTTTCCTTATGA
326 AAATAAGAAATTCATAGAAATGAAGCTAGGATTGGTTACTATGAGACGAATCATTTTCCTTATGA
*
1820379 ACATATTCTTATATCTGGCTCTGATCATTATGATCTAACATTCGAATTTGATCGGTTGTAGATGT
391 ACAGATTCTTATATCTGGCTCTGATCATTATGATCTAACATTCGAATTTGATCGGTTGTAGATGT
1820444 GTTGTTGTAAGGCGGGGCCAAATTCTCTGAGTTCATAGTATTCTCTTTGATCCATTCTGAAAGAA
456 GTTGTTGTAAGGCGGGGCCAAATTCTCTGAGTTCATAGTATTCTCTTTGATCCATTCTGAAAGAA
1820509 AAG
521 AAG
1820512 GAACATTAGGGTTG
1 GAACATTAGGGTTG
1820526 TTAGGAGTTT
Statistics
Matches: 527, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
523 527 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (523 bp):
GAACATTAGGGTTGGGGCTAGCATAAACAACTGTAAAATAGTTCCAATCATTACTATTGAGCCCT
CTGAAACGAGTATGAACATACTGATTAGAGACGCTTAAAATCTTCACTTCTACTGAGTTATCCCA
AAGCACCCATATACCACCGCTATGCCCCTGCGCTTCAATTCTGAAAGAATTATTGTAACACATGT
TGACAATACTATCAGCTCTTTTACCACTCATGTGAGTTTCCATCAAAACAATAATCTTAGGCTTG
TGCATAATAACACATTCCTTAAAATATCTTTTAAAAGAAGGTTTCACAACCCCTTGTGTGTTCCA
AAATAAGAAATTCATAGAAATGAAGCTAGGATTGGTTACTATGAGACGAATCATTTTCCTTATGA
ACAGATTCTTATATCTGGCTCTGATCATTATGATCTAACATTCGAATTTGATCGGTTGTAGATGT
GTTGTTGTAAGGCGGGGCCAAATTCTCTGAGTTCATAGTATTCTCTTTGATCCATTCTGAAAGAA
AAG
Found at i:1820795 original size:15 final size:15
Alignment explanation
Indices: 1820775--1820810 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1820765 CATCGTTCCT
1820775 CCATCAGAAGTGGGA
1 CCATCAGAAGTGGGA
1820790 CCATCAGAAGTGGGA
1 CCATCAGAAGTGGGA
1820805 CCATCA
1 CCATCA
1820811 ATAGAATTGG
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:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (15 bp):
CCATCAGAAGTGGGA
Found at i:1822021 original size:12 final size:13
Alignment explanation
Indices: 1822004--1822035 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1821994 CGCCTCATCA
1822004 TCATCTTG-GGAT
1 TCATCTTGTGGAT
1822016 TCATCTTGTGGAT
1 TCATCTTGTGGAT
1822029 TCATCTT
1 TCATCTT
1822036 CTATTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (13 bp):
TCATCTTGTGGAT
Found at i:1827556 original size:9 final size:9
Alignment explanation
Indices: 1827542--1827592 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
1827532 TTCTCCACTA
1827542 CCTCCTCTG
1 CCTCCTCTG
* *
1827551 CTTCCTTTG
1 CCTCCTCTG
*
1827560 CCTCCTCTA
1 CCTCCTCTG
*
1827569 CCTCCTATG
1 CCTCCTCTG
*
1827578 CCTCCTCTA
1 CCTCCTCTG
1827587 CCTCCT
1 CCTCCT
1827593 TGACAATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.06, C:0.51, G:0.06, T:0.37
Consensus pattern (9 bp):
CCTCCTCTG
Found at i:1827565 original size:18 final size:18
Alignment explanation
Indices: 1827542--1827592 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
1827532 TTCTCCACTA
* * *
1827542 CCTCCTCTGCTTCCTTTG
1 CCTCCTCTACCTCCTATG
1827560 CCTCCTCTACCTCCTATG
1 CCTCCTCTACCTCCTATG
1827578 CCTCCTCTACCTCCT
1 CCTCCTCTACCTCCT
1827593 TGACAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.06, C:0.51, G:0.06, T:0.37
Consensus pattern (18 bp):
CCTCCTCTACCTCCTATG
Found at i:1827590 original size:27 final size:27
Alignment explanation
Indices: 1827534--1827592 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
1827524 CTTCTTCCTT
* * * * *
1827534 CTCCACTACCTCCTCTGCTTCCTTTGC
1 CTCCTCTACCTCCTATGCCTCCTCTAC
1827561 CTCCTCTACCTCCTATGCCTCCTCTAC
1 CTCCTCTACCTCCTATGCCTCCTCTAC
1827588 CTCCT
1 CTCCT
1827593 TGACAATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.08, C:0.51, G:0.05, T:0.36
Consensus pattern (27 bp):
CTCCTCTACCTCCTATGCCTCCTCTAC
Found at i:1829175 original size:18 final size:18
Alignment explanation
Indices: 1829131--1829197 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
1829121 CATTTATACA
*
1829131 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTT-T
*
1829150 ATCTATAATATCATTTTT
1 ACCTATAATATCATTTTT
1829168 ACCTATAATATCATTTTTT
1 ACCTATAATATCA-TTTTT
*
1829187 ACATATAATAT
1 ACCTATAATAT
1829198 TAAATAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.30
19 30 0.70
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (18 bp):
ACCTATAATATCATTTTT
Found at i:1830146 original size:182 final size:182
Alignment explanation
Indices: 1829589--1830347 Score: 1091
Period size: 182 Copynumber: 4.2 Consensus size: 182
1829579 TACGCGTACT
* * * ** *
1829589 TATTAAAGTATCAACACTTTCAACATAT-TCAGTAGCGCTTTACCGGTTTTGTCATTTTGAGACT
1 TATTAAAGTATCGACACTTTCAACATATCT-GGTATCTATTTACCGGTTTTGTCATTTTGAGACC
**
1829653 GGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACAC
* *
1829718 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCTATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
1829771 TATTAAAGTATCGACACTTTCAACATATCTGGTAGT-TATTTACCTGTTTTGTCA-TTTGAAACC
1 TATTAAAGTATCGACACTTTCAACATATCTGGTA-TCTATTTACCGGTTTTGTCATTTTGAGACC
* * *
1829834 GGTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACAA
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACAC
* *
1829899 TTTTTAGGCG-TATAACTTC-TCTCTTTTAAATTCCAAAAGTGTCAATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
1829950 TATTAAATTATCGACACTTTCAAGATATCTGGTATCTTTTTATCGGTTTTGTCA-TTTGTAGACC
1 TATTAAAGTATCGACACTTTCAACATATCTGGTATCTATTTACCGGTTTTGTCATTTTG-AGACC
** * **
1830014 TCTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTTTTAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACAC
1830079 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
1830132 TATTAAAGTATCGACACTTTCAACATATCTGGTAGT-TATTTACCTGTTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCTGGTA-TCTATTTACCGGTTTTGTCATTTTGAGACC
** * *
1830196 GGTTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACAC
* * * * *
1830261 TTTTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTG
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
1830314 TATTAAATTATCGACACTTTCAACATATCCGGTA
1 TATTAAAGTATCGACACTTTCAACATATCTGGTA
1830348 ACATTTTATC
Statistics
Matches: 516, Mismatches: 53, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
178 1 0.00
179 81 0.16
180 79 0.15
181 85 0.16
182 264 0.51
183 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCTGGTATCTATTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:1830403 original size:162 final size:162
Alignment explanation
Indices: 1830195--1830509 Score: 513
Period size: 162 Copynumber: 1.9 Consensus size: 162
1830185 ATTTTGAGAC
** *
1830195 CGGTTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
1 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
* * * * *
1830260 CTTTTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTGTATTAAATTAT
66 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTATCGATAATTATATTAAAGTAT
1830325 CGACACTTTCAACATATCCGGTAACATTTTAT
131 CGACACTTTCAACATATCCGGTAACATTTTAT
* **
1830357 CGGTTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
1 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
* *
1830422 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTAT
66 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTATCGATAATTATATTAAAGTAT
1830487 CGACACTTTCAACATATCCGGTA
131 CGACACTTTCAACATATCCGGTA
1830510 GTTATTTACC
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 140 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (162 bp):
CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTATCGATAATTATATTAAAGTAT
CGACACTTTCAACATATCCGGTAACATTTTAT
Found at i:1830615 original size:182 final size:182
Alignment explanation
Indices: 1830357--1830768 Score: 618
Period size: 182 Copynumber: 2.3 Consensus size: 182
1830347 AACATTTTAT
* **
1830357 CGGTTTT-TTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGAC
1 CGGTTTTGTT-ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGAC
1830421 ACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATAATTATATTAAAGT
65 ACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATAATTATATTAAAGT
* *
1830485 ATCGACACTTTCAACATATCCGGTAG-TTATTTACCTGTTTTGTCATTTTGAGAC
129 ATCGACACTTTCAACATATCCGGTAGCGT-TTTACCGGTTTTGTCATTTTGAGAC
** *
1830539 CGGTTTTGTTATATTTTTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
1 CGGTTTTGTTATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
* * * *
1830604 TTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTAT
66 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGTAT
1830669 CGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGAC
131 CGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGAC
* * * *
1830721 C-G-ATTGTCATATTTTTACATGTTATATTGTTATAGATCGATATATTTT
1 CGGTTTTGTTATATTTTTACATGTTATATTGTTATGGATCGATACATTTT
1830769 TCATTTGTAT
Statistics
Matches: 210, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
180 40 0.19
181 3 0.01
182 164 0.78
183 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (182 bp):
CGGTTTTGTTATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGTAT
CGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGAC
Found at i:1830654 original size:344 final size:344
Alignment explanation
Indices: 1830016--1830712 Score: 1268
Period size: 344 Copynumber: 2.0 Consensus size: 344
1830006 TGTAGACCTC
1830016 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTTTTAAAGTATCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTTTTAAAGTATCGACACTT
*
1830081 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGA
66 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
*
1830146 CACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
*
1830211 TTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGTTATA
196 TTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
*
1830276 ACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTGTATTAAATTATCGACACTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTATATTAAATTATCGACACTTTCAACATA
*
1830341 TCCGGTAACATTTTATCGG
326 TCCGGTAACATTTTACCGG
* * *
1830360 TTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTTTTAAAGTATCGACACTT
1830425 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
66 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
*
1830490 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTTATATTT
131 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
*
1830555 TTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACATTTTTTAGGCGCTATA
196 TTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
* *
1830620 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTATATTAAATTATCGACACTTTCAACATA
* *
1830685 TCCGGTAGCGTTTTACCGG
326 TCCGGTAACATTTTACCGG
1830704 TTTTGTCAT
1 TTTTGTCAT
1830713 TTTGAGACCG
Statistics
Matches: 338, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
344 338 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (344 bp):
TTTTGTCATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTTTTAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
TTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
ACTTCTTCTCTTTTAAATTCAAAAAGTATCGATACTTATATTAAATTATCGACACTTTCAACATA
TCCGGTAACATTTTACCGG
Found at i:1846323 original size:60 final size:60
Alignment explanation
Indices: 1846239--1846352 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
1846229 TTTTGAATAT
* * * *
1846239 TTTAATTTCATCCTCAAACTATGACTCTCATTCTAACTTAGTCCTAAAGCTTTTAAACAA
1 TTTAATTTCATCCTCAAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTTAAACAA
* *
1846299 TTTAATTTCTTCC-CTAAACGATGACCCTCTTTCTAAATTAGTCCTAAAACTTTT
1 TTTAATTTCATCCTC-AAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTT
1846353 GAGCATGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (60 bp):
TTTAATTTCATCCTCAAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTTAAACAA
Found at i:1846366 original size:60 final size:60
Alignment explanation
Indices: 1846242--1846372 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
1846232 TGAATATTTT
* * * * *
1846242 AATTTCAT-CCTCAAACTATGACTCTCATTCTAACTTAGTCCTAAAGCTTTTAAACAATTT
1 AATTTCATCCCT-AAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTTAAACAATTC
* * * *
1846302 AATTTCTTCCCTAAACGATGACCCTCTTTCTAAATTAGTCCTAAAACTTTTGAGC-ATGTC
1 AATTTCATCCCTAAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTTAAACAAT-TC
1846362 AATTTCATCCC
1 AATTTCATCCC
1846373 CAAATTCATC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 54 0.92
61 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (60 bp):
AATTTCATCCCTAAACGATGACCCTCATTCTAAATTAGTCCTAAAACTTTTAAACAATTC
Found at i:1846544 original size:30 final size:29
Alignment explanation
Indices: 1846503--1846566 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
1846493 ATATATGTAT
1846503 AGTTT-GGGATGAAACTGAAATGA-TCAAAA
1 AGTTTGGGGATGAAACTGAAAT-ACTC-AAA
*
1846532 AGTTTGGGGATGAAATTGAAATACTCAAA
1 AGTTTGGGGATGAAACTGAAATACTCAAA
1846561 AGTTTG
1 AGTTTG
1846567 AAGACTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (29 bp):
AGTTTGGGGATGAAACTGAAATACTCAAA
Found at i:1847498 original size:15 final size:15
Alignment explanation
Indices: 1847478--1847507 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1847468 GACCTGACTT
1847478 GACCCAACCCGACCC
1 GACCCAACCCGACCC
*
1847493 GACCCAATCCGACCC
1 GACCCAACCCGACCC
1847508 TGATTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.57, G:0.13, T:0.03
Consensus pattern (15 bp):
GACCCAACCCGACCC
Found at i:1858445 original size:23 final size:23
Alignment explanation
Indices: 1858419--1858463 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1858409 CACCACAGGT
1858419 CATATAATTGCACCGGAGTGCCA
1 CATATAATTGCACCGGAGTGCCA
1858442 CATATAATTGCACCGGAGTGCC
1 CATATAATTGCACCGGAGTGCC
1858464 GGGAAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGGAGTGCCA
Found at i:1858685 original size:103 final size:103
Alignment explanation
Indices: 1858503--1858720 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
1858493 TAATGTCCAT
* *
1858503 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1858568 GACTTCACAAATGTTCCAAAAAATACATATACGTCCCG
66 GACTTCACAAATGTTCCAAAAAATACATATACGTCCCG
*
1858606 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * * *
1858671 TACTTCACATATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACAAATGTTCCAAAAAATACATATACGTCCCG
*
1858709 AAGAACCACATA
1 AAGGACCACATA
1858721 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACAAATGTTCCAAAAAATACATATACGTCCCG
Found at i:1859620 original size:64 final size:64
Alignment explanation
Indices: 1859467--1859629 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 64
1859457 GGTATGCATC
** ** * ** *
1859467 GATGCATCTTTGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTGTTTATTACTGG
1 GATGCATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGA
* * * *
1859531 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-
1 GATGCATCGATGCACTACC-TGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAG
1859593 A
64 A
*
1859594 GAGTGCATCGATGCACTACCTGTGCATCGATACACC
1 GA-TGCATCGATGCACTACCTGTGCATCGATGCACC
1859630 TTCAAACAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
63 7 0.09
64 70 0.88
65 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
GATGCATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGA
Found at i:1864266 original size:23 final size:23
Alignment explanation
Indices: 1864240--1864300 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1864230 CACCACAGCT
1864240 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1864263 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
1864286 CGTAAAATTGCACCG
1 CATATAATTGCACCG
1864301 TAGTACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1864503 original size:103 final size:103
Alignment explanation
Indices: 1864324--1864541 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
1864314 TAATGTCCAT
* * *
1864324 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1864389 GACTTCACACATGTTCCAAAGAATACCTATACGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATACGTCCCG
*
1864427 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1864492 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATACGTCCCG
*
1864530 AAAGACCACATA
1 AAGGACCACATA
1864542 GACCCTTAAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATACGTCCCG
Found at i:1869803 original size:23 final size:23
Alignment explanation
Indices: 1869762--1869838 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
1869752 ACCACAACTC
*
1869762 ATATAATTGCACCAAAGTGCCAT
1 ATATAATTGCACCGAAGTGCCAT
* **
1869785 ATATAATTGCACCGGAGTGCCGC
1 ATATAATTGCACCGAAGTGCCAT
* * * *
1869808 GTAGAATTGTACCGTAGTGCCAT
1 ATATAATTGCACCGAAGTGCCAT
1869831 ATAATAAT
1 AT-ATAAT
1869839 GTCCATAAGG
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (23 bp):
ATATAATTGCACCGAAGTGCCAT
Found at i:1870024 original size:103 final size:103
Alignment explanation
Indices: 1869845--1870062 Score: 346
Period size: 103 Copynumber: 2.1 Consensus size: 103
1869835 TAATGTCCAT
* * * *
1869845 AAGGACCACATATCATTCCTTAATAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
1869910 GACTTCACACATGTTTAAAAGAATACATATACGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATACATCCCG
*
1869948 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * *
1870013 GACTTCACACATGTTCCAAATAATACATATATATCCCG
66 GACTTCACACATGTTCAAAAGAATACATATACATCCCG
1870051 AAGGACCACATA
1 AAGGACCACATA
1870063 GACCCTCGAC
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCAAAAGAATACATATACATCCCG
Found at i:1875608 original size:23 final size:23
Alignment explanation
Indices: 1875582--1875659 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1875572 CACCACATCT
1875582 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1875605 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
1875628 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1875651 TATAATAAT
1 CAT-ATAAT
1875660 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1875851 original size:103 final size:103
Alignment explanation
Indices: 1875670--1875883 Score: 347
Period size: 103 Copynumber: 2.1 Consensus size: 103
1875660 GTCCATAAGG
* *
1875670 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATAAAGTATATGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATATGTCTCACCAGACT
* *
1875735 TCACACATGTTCCAAAGAATACATATACGTCCTGAAGA
66 TCACACATATTCCAAAGAATACATATACGTCCCGAAGA
* * * *
1875773 ACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATATGTCTCACCAGACT
*
1875838 TCACACATATTCCAAAGAATACATATATGTCCCGAAGA
66 TCACACATATTCCAAAGAATACATATACGTCCCGAAGA
1875876 ACCACATA
1 ACCACATA
1875884 GACCCTCGAC
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATATGTCTCACCAGACT
TCACACATATTCCAAAGAATACATATACGTCCCGAAGA
Found at i:1876655 original size:20 final size:20
Alignment explanation
Indices: 1876630--1876700 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
1876620 GAAGGTATGC
1876630 ATCGATGCGCTGCACAGTGT
1 ATCGATGCGCTGCACAGTGT
** * * *
1876650 ATCGATGCATTCCCTATCGGTGC
1 ATCGATGCGCT-GC-A-CAGTGT
1876673 ATCGATGCGCTGCACAGTGT
1 ATCGATGCGCTGCACAGTGT
1876693 ATCGATGC
1 ATCGATGC
1876701 ATTCCCTATC
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 21 0.55
21 2 0.05
22 2 0.05
23 13 0.34
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (20 bp):
ATCGATGCGCTGCACAGTGT
Found at i:1876680 original size:23 final size:23
Alignment explanation
Indices: 1876650--1876724 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
1876640 TGCACAGTGT
1876650 ATCGATGCATTCCCTATCGGTGC
1 ATCGATGCATTCCCTATCGGTGC
** * * *
1876673 ATCGATGCGCT-GC-A-CAGTGT
1 ATCGATGCATTCCCTATCGGTGC
1876693 ATCGATGCATTCCCTATCGGTGC
1 ATCGATGCATTCCCTATCGGTGC
1876716 ATCGATGCA
1 ATCGATGCA
1876725 CTACCTGTGC
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 13 0.33
21 2 0.05
22 2 0.05
23 22 0.56
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
ATCGATGCATTCCCTATCGGTGC
Found at i:1876688 original size:43 final size:43
Alignment explanation
Indices: 1876627--1876723 Score: 194
Period size: 43 Copynumber: 2.3 Consensus size: 43
1876617 AATGAAGGTA
1876627 TGCATCGATGCGCTGCACAGTGTATCGATGCATTCCCTATCGG
1 TGCATCGATGCGCTGCACAGTGTATCGATGCATTCCCTATCGG
1876670 TGCATCGATGCGCTGCACAGTGTATCGATGCATTCCCTATCGG
1 TGCATCGATGCGCTGCACAGTGTATCGATGCATTCCCTATCGG
1876713 TGCATCGATGC
1 TGCATCGATGC
1876724 ACTACCTGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (43 bp):
TGCATCGATGCGCTGCACAGTGTATCGATGCATTCCCTATCGG
Found at i:1890329 original size:27 final size:29
Alignment explanation
Indices: 1890273--1890330 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
1890263 TTTCAATTCT
*
1890273 ATATGATATATGTATATTATATATGAAGAA
1 ATATGATATATGTATATAATATAT-AAGAA
1890303 ATAT-ATATATCGTATATAAT-TAT-AGAA
1 ATATGATATAT-GTATATAATATATAAGAA
1890330 A
1 A
1890331 ATTGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (29 bp):
ATATGATATATGTATATAATATATAAGAA
Found at i:1895462 original size:8 final size:8
Alignment explanation
Indices: 1895449--1895481 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
1895439 ACAGACCCAT
1895449 AAAGAGAG
1 AAAGAGAG
1895457 AAAGAGAG
1 AAAGAGAG
1895465 AAAGAGAG
1 AAAGAGAG
1895473 AAAGAGAG
1 AAAGAGAG
1895481 A
1 A
1895482 GAGATATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (8 bp):
AAAGAGAG
Found at i:1896268 original size:10 final size:10
Alignment explanation
Indices: 1896253--1896288 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1896243 GAACTAAAAA
1896253 ATAAATGAAC
1 ATAAATGAAC
1896263 ATAAATGAAC
1 ATAAATGAAC
* *
1896273 GTAAACGAAC
1 ATAAATGAAC
1896283 ATAAAT
1 ATAAAT
1896289 AAAAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.19
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:1899034 original size:26 final size:28
Alignment explanation
Indices: 1899005--1899056 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1898995 AATACGTACT
1899005 ATATATT-TA-TTT-AAAAACTATATAAC
1 ATATATTATATTTTCAAAAA-TATATAAC
1899031 ATATATTATATTTTCAAAAATATATA
1 ATATATTATATTTTCAAAAATATATA
1899057 TTGTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 2 0.09
28 9 0.39
29 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATATTATATTTTCAAAAATATATAAC
Done.