Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 54
Found at i:4390291 original size:21 final size:21
Alignment explanation
Indices: 4390266--4390330 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4390256 CCCCTTATGC
* *
4390266 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4390287 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
4390308 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4390329 CT
1 CT
4390331 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:4392390 original size:24 final size:24
Alignment explanation
Indices: 4392353--4392405 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4392343 CCGTTCTATC
4392353 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
4392377 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
4392401 TATTT
1 TATTT
4392406 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:4392564 original size:17 final size:18
Alignment explanation
Indices: 4392542--4392584 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
4392532 ATATATTCGG
4392542 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
4392559 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
4392579 TATCAT
1 TATCAT
4392585 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:4392602 original size:20 final size:19
Alignment explanation
Indices: 4392547--4392593 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4392537 TTCGGTATCA
4392547 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
4392566 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
4392587 TTTTACC
1 TTTTACC
4392594 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4392988 original size:181 final size:181
Alignment explanation
Indices: 4392514--4392986 Score: 687
Period size: 181 Copynumber: 2.6 Consensus size: 181
4392504 CGTACTTACA
* * *
4392514 AAAGTATCGACACTTTCAATATATTCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
** *
4392579 TATCATATTTTTACCTGTTATATCGTCGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
* *
4392644 AGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
4392695 AAAGTATCGACACTTTTAATATATCTGGTAACATTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
4392760 TATCATATTTTTACATGGTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
** *
4392825 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * **
4392877 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
4392941 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
4392987 AATTTGGATC
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 164 0.63
182 95 0.37
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:4393582 original size:11 final size:11
Alignment explanation
Indices: 4393566--4393590 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4393556 ATCCGGTAAT
4393566 ACCGTATATTA
1 ACCGTATATTA
4393577 ACCGTATATTA
1 ACCGTATATTA
4393588 ACC
1 ACC
4393591 TACCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:4394976 original size:19 final size:18
Alignment explanation
Indices: 4394948--4394984 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
4394938 ATAATTCTTG
4394948 AAATTAAATCCTAAAAAT
1 AAATTAAATCCTAAAAAT
4394966 AAATATAAATCCTAAAAAT
1 AAAT-TAAATCCTAAAAAT
4394985 TTGAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATTAAATCCTAAAAAT
Found at i:4395058 original size:23 final size:23
Alignment explanation
Indices: 4395017--4395080 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
4395007 CATTCGTCCT
* * *
4395017 CCTTCTAGAA-TTGCTGACTGGA
1 CCTTCTAGAAGCTACTGACTAGA
*
4395039 CCTTCT-GAAAGCTTCTGACTAGA
1 CCTTCTAG-AAGCTACTGACTAGA
*
4395062 TCTTCTAGAAGCTACTGAC
1 CCTTCTAGAAGCTACTGAC
4395081 GAATTGCCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 8 0.24
23 24 0.71
24 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (23 bp):
CCTTCTAGAAGCTACTGACTAGA
Found at i:4395266 original size:12 final size:11
Alignment explanation
Indices: 4395247--4395276 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
4395237 AAGGAGTATT
4395247 TAAACACAAAA
1 TAAACACAAAA
4395258 TATAACACAAAA
1 TA-AACACAAAA
4395270 TAAACAC
1 TAAACAC
4395277 TAGTCACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (11 bp):
TAAACACAAAA
Found at i:4403456 original size:22 final size:21
Alignment explanation
Indices: 4403431--4403484 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
4403421 ACAATAGAAC
4403431 AAAATTCCAGCAACAAAATAAA
1 AAAATTCCAGCAA-AAAATAAA
* * *
4403453 AAAATCCCAACAAAAAATCAA
1 AAAATTCCAGCAAAAAATAAA
*
4403474 GAAA-TCCAGCA
1 AAAATTCCAGCA
4403485 CTAGATCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.61, C:0.22, G:0.06, T:0.11
Consensus pattern (21 bp):
AAAATTCCAGCAAAAAATAAA
Found at i:4403469 original size:21 final size:22
Alignment explanation
Indices: 4403431--4403480 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4403421 ACAATAGAAC
* *
4403431 AAAATTCCAGCAACAAAATAAA
1 AAAATCCCAACAACAAAATAAA
*
4403453 AAAATCCCAACAA-AAAATCAA
1 AAAATCCCAACAACAAAATAAA
*
4403474 GAAATCC
1 AAAATCC
4403481 AGCACTAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.62, C:0.22, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAATCCCAACAACAAAATAAA
Found at i:4403537 original size:22 final size:21
Alignment explanation
Indices: 4403509--4403580 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
4403499 TCCATGAACG
4403509 AATCAAAGAAAACTAACAAACA
1 AATCAAAGAAAACTAAC-AACA
* *
4403531 AATCAAAGAAACCCAACAACA
1 AATCAAAGAAAACTAACAACA
* *
4403552 TATCACAA-AAAACTAGCAACA
1 AATCA-AAGAAAACTAACAACA
*
4403573 GATCAAAG
1 AATCAAAG
4403581 GAATACAGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 2 0.05
21 22 0.54
22 17 0.41
ACGTcount: A:0.61, C:0.22, G:0.07, T:0.10
Consensus pattern (21 bp):
AATCAAAGAAAACTAACAACA
Found at i:4403551 original size:21 final size:21
Alignment explanation
Indices: 4403441--4403556 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 21
4403431 AAAATTCCAG
*
4403441 CAACAAAAT-AAAAAAATCCCAA
1 CAAC-AAATCAAAGAAA-CCCAA
* * *
4403463 CAAAAAATC-AAGAAATCCAG
1 CAACAAATCAAAGAAACCCAA
* * *
4403483 C-ACTAGATCAAAGAAATCCAT
1 CAAC-AAATCAAAGAAACCCAA
* * * *
4403504 GAACGAATCAAAGAAAACTAA
1 CAACAAATCAAAGAAACCCAA
4403525 CAAACAAATCAAAGAAACCCAA
1 C-AACAAATCAAAGAAACCCAA
*
4403547 CAACATATCA
1 CAACAAATCA
4403557 CAAAAAACTA
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
19 1 0.01
20 8 0.11
21 39 0.55
22 23 0.32
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.11
Consensus pattern (21 bp):
CAACAAATCAAAGAAACCCAA
Found at i:4404043 original size:25 final size:23
Alignment explanation
Indices: 4403990--4404044 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
4403980 GTAATTGATT
4403990 TTTTAATTTTTGATATTTTATTA
1 TTTTAATTTTTGATATTTTATTA
4404013 TATTTAATTTTTTGAATATTTT-TATA
1 T-TTTAA-TTTTTG-ATATTTTAT-TA
4404039 TTTTAA
1 TTTTAA
4404045 ATTTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 1 0.04
24 5 0.18
25 12 0.43
26 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTAATTTTTGATATTTTATTA
Found at i:4404048 original size:26 final size:25
Alignment explanation
Indices: 4403991--4404041 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
4403981 TAATTGATTT
4403991 TTTAA-TTTTTGATATTTTATTATA
1 TTTAATTTTTTGATATTTTATTATA
4404015 TTTAATTTTTTGA-ATATTT-TTATA
1 TTTAATTTTTTGATAT-TTTATTATA
4404039 TTT
1 TTT
4404042 TAAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTAATTTTTTGATATTTTATTATA
Found at i:4404760 original size:37 final size:38
Alignment explanation
Indices: 4404706--4404779 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
4404696 TAAAACCCTA
* *
4404706 AACCATCTAGCC-AAAAAACTCTAAATCCTAAAAACAT
1 AACCATCCAGCCAAAAAAACACTAAATCCTAAAAACAT
*
4404743 AACCATCCA-CCATAAAAAAACACTAAATCTTAAAAAC
1 AACCATCCAGCC--AAAAAAACACTAAATCCTAAAAAC
4404780 CTGATCACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 2 0.06
37 8 0.26
39 21 0.68
ACGTcount: A:0.54, C:0.27, G:0.01, T:0.18
Consensus pattern (38 bp):
AACCATCCAGCCAAAAAAACACTAAATCCTAAAAACAT
Found at i:4413915 original size:77 final size:79
Alignment explanation
Indices: 4413785--4413943 Score: 225
Period size: 77 Copynumber: 2.0 Consensus size: 79
4413775 CCGAATATAG
4413785 TAAATAAACATTAAAAGAATGTAATTTGAATTACAACTCTTTTAATGGATATTTAATTCAGAA-T
1 TAAATAAACATTAAAAGAATGTAATTTGAATTACAACTCTTTTAATGGATATTTAATT-AGAATT
4413849 AATTAAATAAGATTT
65 AATTAAATAAGATTT
* ** * * * *
4413864 TAAATAAACGTT-AAAGGTTGTAATTTGGATTATAAGTC-TTTAATGGATATTTAATTTGAATTA
1 TAAATAAACATTAAAAGAATGTAATTTGAATTACAACTCTTTTAATGGATATTTAATTAGAATTA
4413927 ATTAAATAAGATTT
66 ATTAAATAAGATTT
4413941 TAA
1 TAA
4413944 TTAATTCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
76 3 0.04
77 37 0.51
78 21 0.29
79 11 0.15
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (79 bp):
TAAATAAACATTAAAAGAATGTAATTTGAATTACAACTCTTTTAATGGATATTTAATTAGAATTA
ATTAAATAAGATTT
Found at i:4415379 original size:21 final size:21
Alignment explanation
Indices: 4415331--4415402 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 21
4415321 ACAAAAACGT
*
4415331 ATCGATCCCTTTCTCA-AAAGG
1 ATCGATCCC-TTCACACAAAGG
* * **
4415352 GTTGATCCCTTCAGGCAAAGG
1 ATCGATCCCTTCACACAAAGG
* *
4415373 ATCGAT-CCTTCCCATAAAGG
1 ATCGATCCCTTCACACAAAGG
4415393 ATCGATCCCT
1 ATCGATCCCT
4415403 AACTCAATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
20 19 0.50
21 19 0.50
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (21 bp):
ATCGATCCCTTCACACAAAGG
Found at i:4419592 original size:18 final size:18
Alignment explanation
Indices: 4419565--4419600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4419555 ATATGAATTA
*
4419565 ACCCCCGAGTATCGATAC
1 ACCCCCGAGTATCAATAC
*
4419583 ACCCCTGAGTATCAATAC
1 ACCCCCGAGTATCAATAC
4419601 TCTACATACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.19
Consensus pattern (18 bp):
ACCCCCGAGTATCAATAC
Found at i:4420172 original size:42 final size:42
Alignment explanation
Indices: 4420113--4420192 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
4420103 CTTAAGAAAG
*
4420113 GTAAGAACTAAATTCCTAAGGTTTAGGAATGATCTAGATCTT
1 GTAAGAACTAAATTCCTAAGGCTTAGGAATGATCTAGATCTT
4420155 GTAAGAACTAAATTCCTAAGGCTTAGGAATGATCTAGA
1 GTAAGAACTAAATTCCTAAGGCTTAGGAATGATCTAGA
4420193 GCCACTCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (42 bp):
GTAAGAACTAAATTCCTAAGGCTTAGGAATGATCTAGATCTT
Found at i:4428968 original size:17 final size:17
Alignment explanation
Indices: 4428946--4429017 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
4428936 AATTAAGAGT
4428946 TAGTTTGATTAAT-ACAC
1 TAGTTTGATTAATGA-AC
* * *
4428963 TAGTTTAATGATTGAAC
1 TAGTTTGATTAATGAAC
4428980 TAGTTTGATTAATGAAC
1 TAGTTTGATTAATGAAC
*
4428997 TAACTTT-ATTCAATGAAC
1 T-AGTTTGATT-AATGAAC
4429015 TAG
1 TAG
4429018 ATTCATGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:4432213 original size:16 final size:16
Alignment explanation
Indices: 4432188--4432230 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4432178 AGCCTATCGA
4432188 ATCC-AAGCATCGCTC
1 ATCCAAAGCATCGCTC
*
4432203 ATCCAAAGCATTGCTC
1 ATCCAAAGCATCGCTC
4432219 ATCCAAAGCATC
1 ATCCAAAGCATC
4432231 TATAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.21
Consensus pattern (16 bp):
ATCCAAAGCATCGCTC
Found at i:4444585 original size:2 final size:2
Alignment explanation
Indices: 4444578--4444602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4444568 TTTTTGTGGT
4444578 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4444603 CCATTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4446139 original size:13 final size:13
Alignment explanation
Indices: 4446121--4446146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4446111 TATATTAAAT
4446121 ATTTTTTATATTA
1 ATTTTTTATATTA
4446134 ATTTTTTATATTA
1 ATTTTTTATATTA
4446147 TAGGTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATATTA
Found at i:4446171 original size:16 final size:16
Alignment explanation
Indices: 4446104--4446171 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
4446094 TAATTTTTAA
*
4446104 TTTTATATATATTAAAT
1 TTTTAT-TATATTATAT
*
4446121 ATTTT-TTATATTAATTT
1 -TTTTATTATATT-ATAT
*
4446138 TTTATATTATAGGT-TAT
1 TTT-TATTATA-TTATAT
4446155 TTTTATTATATTATAT
1 TTTTATTATATTATAT
4446171 T
1 T
4446172 ATGAAAACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 1 0.03
16 20 0.50
17 9 0.22
18 9 0.22
19 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTATTATATTATAT
Found at i:4457455 original size:107 final size:107
Alignment explanation
Indices: 4457269--4457484 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 107
4457259 CTAAAAGGAT
*
4457269 AAAATACTGTAGTTTTTTATTTTCAGAATTAAAGTTGGATTTGTGGGCATGACTTTGGGCAAGGA
1 AAAATACTGTAGTTTTTTATTTTCAGAATTAAAGTTGGATTTGTGGGCATGACTTTGGGCAAGAA
4457334 ATATCTGACGAGGCGATGATGTCATCACGTTCTAGAAGGTCC
66 ATATCTGACGAGGCGATGATGTCATCACGTTCTAGAAGGTCC
4457376 AAAATACTGTAGTTTTTTATTTTCAGAATTAAAGTTGGATTTGTGGGCATGACTTTGGGCAAGAA
1 AAAATACTGTAGTTTTTTATTTTCAGAATTAAAGTTGGATTTGTGGGCATGACTTTGGGCAAGAA
4457441 ATATCTGACGAGGCGATGATGTCATCACGTTCTAGAAGGTCC
66 ATATCTGACGAGGCGATGATGTCATCACGTTCTAGAAGGTCC
4457483 AA
1 AA
4457485 TCAACACTTC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (107 bp):
AAAATACTGTAGTTTTTTATTTTCAGAATTAAAGTTGGATTTGTGGGCATGACTTTGGGCAAGAA
ATATCTGACGAGGCGATGATGTCATCACGTTCTAGAAGGTCC
Found at i:4465175 original size:23 final size:23
Alignment explanation
Indices: 4465149--4465200 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
4465139 CCATACACCC
*
4465149 CACACAACCAGTAAGGCCCTGAG
1 CACACAACCAGTAAGGCCCTCAG
*
4465172 CACACAACCAGTAAGGCCTTCAG
1 CACACAACCAGTAAGGCCCTCAG
4465195 CACACA
1 CACACA
4465201 GCCGAGGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.37, G:0.17, T:0.10
Consensus pattern (23 bp):
CACACAACCAGTAAGGCCCTCAG
Found at i:4477410 original size:11 final size:11
Alignment explanation
Indices: 4477394--4477453 Score: 84
Period size: 11 Copynumber: 5.4 Consensus size: 11
4477384 CAACCTCTTT
4477394 TTTTCATTTTA
1 TTTTCATTTTA
4477405 TTTTCATTTTTA
1 TTTTCA-TTTTA
*
4477417 ATTTCATTTTA
1 TTTTCATTTTA
4477428 TTTTCATTTTA
1 TTTTCATTTTA
* *
4477439 ATTTCTTTTTA
1 TTTTCATTTTA
4477450 TTTT
1 TTTT
4477454 TAGAAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
11 33 0.77
12 10 0.23
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCATTTTA
Found at i:4477413 original size:6 final size:6
Alignment explanation
Indices: 4477394--4477442 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
4477384 CAACCTCTTT
* * *
4477394 TTTTCA TTTT-A TTTTCA TTTTTA ATTTCA TTTT-A TTTTCA TTTTAA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
4477440 TTT
1 TTT
4477443 CTTTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:4477454 original size:23 final size:23
Alignment explanation
Indices: 4477395--4477453 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
4477385 AACCTCTTTT
4477395 TTTCATTTTATTTTCATTTTTAA
1 TTTCATTTTATTTTCATTTTTAA
4477418 TTTCATTTTATTTTCA-TTTTAA
1 TTTCATTTTATTTTCATTTTTAA
*
4477440 TTTCTTTTTATTTT
1 TTTCATTTTATTTT
4477454 TAGAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTCATTTTATTTTCATTTTTAA
Found at i:4477846 original size:39 final size:39
Alignment explanation
Indices: 4477803--4477877 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
4477793 TTCAGTTTGA
* *
4477803 CTAAA-AATCAAACTATTTT-TTTCTTTCTTTTATTCCTCC
1 CTAAACAACCAAAC-ATTTTCTTTC-TTCTTTCATTCCTCC
*
4477842 CTAAACAACCCAACATTTTCTTTCTTCTTTCATTCC
1 CTAAACAACCAAACATTTTCTTTCTTCTTTCATTCC
4477878 AGTCATACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 21 0.68
40 10 0.32
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (39 bp):
CTAAACAACCAAACATTTTCTTTCTTCTTTCATTCCTCC
Found at i:4503856 original size:35 final size:35
Alignment explanation
Indices: 4503816--4503893 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
4503806 AGTATATCTT
4503816 CGATGTGATTGCACTTTGTGTGCATATTATGATTC
1 CGATGTGATTGCACTTTGTGTGCATATTATGATTC
* *
4503851 TGATGTAATTGCACTTTGTGTGCATATTATGATTC
1 CGATGTGATTGCACTTTGTGTGCATATTATGATTC
4503886 CGATGTGA
1 CGATGTGA
4503894 GAGCATTGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.42
Consensus pattern (35 bp):
CGATGTGATTGCACTTTGTGTGCATATTATGATTC
Found at i:4503907 original size:35 final size:35
Alignment explanation
Indices: 4503826--4503908 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
4503816 CGATGTGATT
* * **
4503826 GCACTTTGTGTGCATATTATGATTCTGATGTAATT
1 GCACTTCGTGTGCATATTATGATTCCGATGTAAGA
* *
4503861 GCACTTTGTGTGCATATTATGATTCCGATGTGAGA
1 GCACTTCGTGTGCATATTATGATTCCGATGTAAGA
4503896 GCA-TTGCGTGTGC
1 GCACTT-CGTGTGC
4503909 TTATATGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 2 0.05
35 40 0.95
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.40
Consensus pattern (35 bp):
GCACTTCGTGTGCATATTATGATTCCGATGTAAGA
Found at i:4504027 original size:25 final size:25
Alignment explanation
Indices: 4503993--4504042 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4503983 CTCTTACATA
4503993 TACATTGGGCTATAAAAATAAATGT
1 TACATTGGGCTATAAAAATAAATGT
4504018 TACATTGGGCTATAAAAATAAATGT
1 TACATTGGGCTATAAAAATAAATGT
4504043 GAAAGTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
TACATTGGGCTATAAAAATAAATGT
Found at i:4515980 original size:2 final size:2
Alignment explanation
Indices: 4515941--4515966 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4515931 GAATTATAGA
4515941 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
4515967 TTGCATTAAT
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:4518739 original size:66 final size:67
Alignment explanation
Indices: 4518620--4518751 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 67
4518610 CTTTAGGTCC
** * **
4518620 ATAAGGAATTACCAGTCGGTACTGAACCTATAAAAGGAATTACCAACAGCGACTGAATGTGCCAG
1 ATAAGGAATTACCAGTCGGTACAAAACCTATAAAAGGAATTACCAACAACGACTGAACCTGCCAG
4518685 AT
66 AT
* * * ***
4518687 ATAA-GAATTACTAGTCGGTGCAAAACCTATACAAGGAATTACCCGTAACGACTGAACCTGCCAG
1 ATAAGGAATTACCAGTCGGTACAAAACCTATAAAAGGAATTACCAACAACGACTGAACCTGCCAG
4518751 A
66 A
4518752 GTCTTCATAC
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
66 50 0.93
67 4 0.07
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (67 bp):
ATAAGGAATTACCAGTCGGTACAAAACCTATAAAAGGAATTACCAACAACGACTGAACCTGCCAG
AT
Found at i:4520034 original size:16 final size:16
Alignment explanation
Indices: 4520013--4520050 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4520003 TTTTTTATCA
**
4520013 AAATATTTAGTGTAAT
1 AAATATTTAACGTAAT
4520029 AAATATTTAACGTAAT
1 AAATATTTAACGTAAT
4520045 AAATAT
1 AAATAT
4520051 ACTTAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (16 bp):
AAATATTTAACGTAAT
Found at i:4533995 original size:17 final size:17
Alignment explanation
Indices: 4533975--4534011 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4533965 TTACATAAAC
4533975 ATATATAAACTAACTTG
1 ATATATAAACTAACTTG
4533992 ATATATAAACTAACTTG
1 ATATATAAACTAACTTG
4534009 ATA
1 ATA
4534012 GGCCAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (17 bp):
ATATATAAACTAACTTG
Found at i:4534991 original size:31 final size:30
Alignment explanation
Indices: 4534952--4535017 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
4534942 ACCTCAACAA
4534952 TTCC-ATATTTACCACTTAAGTCAC-TAACTT
1 TTCCAATATTTACCA-TTAAGT-ACTTAACTT
* **
4534982 TTCCAATATTTTCCATTTTGTACTTAACTT
1 TTCCAATATTTACCATTAAGTACTTAACTT
4535012 TTCCAA
1 TTCCAA
4535018 CTTTGCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 2 0.06
30 20 0.65
31 9 0.29
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.45
Consensus pattern (30 bp):
TTCCAATATTTACCATTAAGTACTTAACTT
Found at i:4540480 original size:86 final size:86
Alignment explanation
Indices: 4540335--4540508 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
4540325 GTTACTAAAA
4540335 TAATGAAAATATATTTTATTATAATTTAGTTTGGGTTATAATCCAAAACCAAGGAACTCCCTTTG
1 TAATGAAAATATATTTTATTATAATTTAGTTTGGGTTATAATCCAAAACCAAGGAACTCCCTTTG
4540400 TATGGGGACTATATTATGGTG
66 TATGGGGACTATATTATGGTG
4540421 TAATGAAAATATATTTTATTATAATTTAGTTTGGGTTATAATCCAAAACCAAGGAACTCCCTTTG
1 TAATGAAAATATATTTTATTATAATTTAGTTTGGGTTATAATCCAAAACCAAGGAACTCCCTTTG
4540486 TATGGGGACTATATTATGGTG
66 TATGGGGACTATATTATGGTG
4540507 TA
1 TA
4540509 CTGATAGAGG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (86 bp):
TAATGAAAATATATTTTATTATAATTTAGTTTGGGTTATAATCCAAAACCAAGGAACTCCCTTTG
TATGGGGACTATATTATGGTG
Found at i:4540697 original size:24 final size:24
Alignment explanation
Indices: 4540665--4540715 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
4540655 TAGGCCCATA
4540665 GGCCCCAAGGTACTCCCTTAGGGT
1 GGCCCCAAGGTACTCCCTTAGGGT
4540689 GGCCCCAAGGTACTCCCTTAGGGT
1 GGCCCCAAGGTACTCCCTTAGGGT
4540713 GGC
1 GGC
4540716 TCGTTTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.20
Consensus pattern (24 bp):
GGCCCCAAGGTACTCCCTTAGGGT
Found at i:4542343 original size:2 final size:2
Alignment explanation
Indices: 4542338--4542378 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4542328 TATAAACCAA
4542338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4542379 ACCAACTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4545063 original size:9 final size:9
Alignment explanation
Indices: 4545041--4545109 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
4545031 CCGGTTTTCA
4545041 ACCGGTTCTG
1 ACCGGTT-TG
4545051 ACCGGTTTG
1 ACCGGTTTG
*
4545060 ACCGGTTCG
1 ACCGGTTTG
4545069 AACCGGTTTG
1 -ACCGGTTTG
*
4545079 ACCGGTCTG
1 ACCGGTTTG
*
4545088 AATCGGTTTG
1 -ACCGGTTTG
*
4545098 ACCGGTCTG
1 ACCGGTTTG
4545107 ACC
1 ACC
4545110 CGACCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
9 28 0.56
10 22 0.44
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4545065 original size:19 final size:19
Alignment explanation
Indices: 4545041--4545107 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
4545031 CCGGTTTTCA
4545041 ACCGGTTCTG-ACCGGTTTG
1 ACCGG-TCTGAACCGGTTTG
4545060 ACCGGT-TCGAACCGGTTTG
1 ACCGGTCT-GAACCGGTTTG
*
4545079 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTGAACCGGTTTG
4545098 ACCGGTCTGA
1 ACCGGTCTGA
4545108 CCCGACCCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
17 1 0.02
18 2 0.05
19 40 0.91
20 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.28
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:4545116 original size:5 final size:5
Alignment explanation
Indices: 4545106--4545146 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
4545096 TGACCGGTCT
*
4545106 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
4545147 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:4545131 original size:22 final size:22
Alignment explanation
Indices: 4545105--4545153 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
4545095 TTGACCGGTC
4545105 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCCGACCGT
4545127 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCCGACCGT
4545149 TGACC
1 TGACC
4545154 GTTGACCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (22 bp):
TGACCCGACCCGACCCGACCGT
Found at i:4552352 original size:20 final size:21
Alignment explanation
Indices: 4552327--4552385 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
4552317 GGCTGCTGGA
4552327 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
4552347 AACCGGTTCTGACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
*
4552367 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
4552386 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:4552363 original size:10 final size:10
Alignment explanation
Indices: 4552348--4552417 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
4552338 CCGGTTTTCA
4552348 ACCGGTTCTG
1 ACCGGTTCTG
*
4552358 ACCGGTT-TCA
1 ACCGGTTCT-G
4552368 ACCGGTTC-G
1 ACCGGTTCTG
4552377 AACCGGTT-TG
1 -ACCGGTTCTG
4552387 ACCGG-TCTG
1 ACCGGTTCTG
*
4552396 AATCGGTT-TG
1 -ACCGGTTCTG
4552406 ACCGG-TCTG
1 ACCGGTTCTG
4552415 ACC
1 ACC
4552418 CGACCCGACC
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
8 2 0.04
9 17 0.35
10 28 0.58
11 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:4552364 original size:30 final size:29
Alignment explanation
Indices: 4552328--4552392 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
4552318 GCTGCTGGAA
4552328 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTT-TG
4552358 ACCGGTTTCAACCGGTTCGAACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTTG
4552387 ACCGGT
1 ACCGGT
4552393 CTGAATCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.33
30 16 0.48
31 6 0.18
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTTG
Found at i:4552392 original size:19 final size:20
Alignment explanation
Indices: 4552348--4552415 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
4552338 CCGGTTTTCA
*
4552348 ACCGGTTCTG-ACCGGTTTCA
1 ACCGGTTCTGAACCGGTTT-G
4552368 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
*
4552387 ACCGG-TCTGAATCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
4552406 ACCGG-TCTGA
1 ACCGGTTCTGA
4552416 CCCGACCCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 2 0.05
19 26 0.59
20 16 0.36
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:4552435 original size:17 final size:17
Alignment explanation
Indices: 4552413--4552451 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4552403 TTGACCGGTC
4552413 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4552430 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4552447 TGACC
1 TGACC
4552452 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:4552451 original size:7 final size:7
Alignment explanation
Indices: 4552441--4552471 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4552431 GACCCGACCC
4552441 GACCGTT
1 GACCGTT
4552448 GACCGTT
1 GACCGTT
4552455 GACCGTT
1 GACCGTT
4552462 GACCGTT
1 GACCGTT
4552469 GAC
1 GAC
4552472 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:4554553 original size:126 final size:128
Alignment explanation
Indices: 4554297--4554549 Score: 485
Period size: 126 Copynumber: 2.0 Consensus size: 128
4554287 GTAAGTTTTC
4554297 TTTGAGTTAGTTTATTCTCTAGTTTATGGACAAGTTTTGAAACCTTAAGTGATATAGAGGCTTAA
1 TTTGAGTTAGTTTATTCTCTAGTTTATGGACAAGTTTTGAAACCTTAAGTGATATAGAGGCTTAA
4554362 GGAAAGTTCAAGGATGATTAAAACTAATTGATTAGTGAAATATTGGTGATTGAAAGAAAATGG
66 GGAAAGTTCAAGGATGATTAAAACTAATTGATTAGTGAAATATTGGTGATTGAAAGAAAATGG
4554425 TTTGAGTTAG-TT-TTCTCTAGTTTATGGACAAGTTTTGAAACCTTAAGTGATATAGAGGCTTAA
1 TTTGAGTTAGTTTATTCTCTAGTTTATGGACAAGTTTTGAAACCTTAAGTGATATAGAGGCTTAA
4554488 GGAAAGTTCAAGGATGATTAAAACTAATTGATTAGTGAAATATTGGTGATTG-AAGAAAATGG
66 GGAAAGTTCAAGGATGATTAAAACTAATTGATTAGTGAAATATTGGTGATTGAAAGAAAATGG
4554550 GTTTTTGAAT
Statistics
Matches: 125, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
125 10 0.08
126 103 0.82
127 2 0.02
128 10 0.08
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (128 bp):
TTTGAGTTAGTTTATTCTCTAGTTTATGGACAAGTTTTGAAACCTTAAGTGATATAGAGGCTTAA
GGAAAGTTCAAGGATGATTAAAACTAATTGATTAGTGAAATATTGGTGATTGAAAGAAAATGG
Found at i:4555483 original size:54 final size:54
Alignment explanation
Indices: 4555401--4555538 Score: 186
Period size: 54 Copynumber: 2.6 Consensus size: 54
4555391 TGTGTCTTAC
* *
4555401 AGGCACTATGTGTGCAAAGCACAAAATTCATCATAAGCTGATGAACAACCGTTT
1 AGGCACTATGTGTGCAAACCACAAAATTCATCATAAGCTGATGAACAACCGTAT
* * * *
4555455 AGGCACTATGTGTGCAACCCACGAAATTCATCATAAGTTGATGAACGACCGTAT
1 AGGCACTATGTGTGCAAACCACAAAATTCATCATAAGCTGATGAACAACCGTAT
* * * *
4555509 CGACACTAAGTGTGCAAACCATAAAATTCA
1 AGGCACTATGTGTGCAAACCACAAAATTCA
4555539 AAATGTATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (54 bp):
AGGCACTATGTGTGCAAACCACAAAATTCATCATAAGCTGATGAACAACCGTAT
Found at i:4563131 original size:135 final size:135
Alignment explanation
Indices: 4562889--4563159 Score: 506
Period size: 135 Copynumber: 2.0 Consensus size: 135
4562879 AAACTCCATT
4562889 ATATATCACCGTAATACCTCATCATCATCAATAACTCACTTTAACTCTTGAATTTAAGAATTTTA
1 ATATATCACCGTAATACCTCATCATCATCAATAACTCACTTTAACTCTTGAATTTAAGAATTTTA
*
4562954 CTAAACTTTTCATGTGTTCTAAATTCATTTCTAATACTTTAAACTTCTTAATCCTTCTTATGACA
66 CTAAACTTTCCATGTGTTCTAAATTCATTTCTAATACTTTAAACTTCTTAATCCTTCTTATGACA
4563019 AGTCA
131 AGTCA
* *
4563024 ATATATCACTGTAATACCTCATCATCATCAATAACTTACTTTAACTCTTGAATTTAAGAATTTTA
1 ATATATCACCGTAATACCTCATCATCATCAATAACTCACTTTAACTCTTGAATTTAAGAATTTTA
*
4563089 CTAAACTTTCCATGTGTTCTAAATTCATTTCTAATACTTTAAATTTCTTAATCCTTCTTATGACA
66 CTAAACTTTCCATGTGTTCTAAATTCATTTCTAATACTTTAAACTTCTTAATCCTTCTTATGACA
4563154 AGTCA
131 AGTCA
4563159 A
1 A
4563160 ATTTATCAAT
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (135 bp):
ATATATCACCGTAATACCTCATCATCATCAATAACTCACTTTAACTCTTGAATTTAAGAATTTTA
CTAAACTTTCCATGTGTTCTAAATTCATTTCTAATACTTTAAACTTCTTAATCCTTCTTATGACA
AGTCA
Found at i:4563711 original size:54 final size:54
Alignment explanation
Indices: 4563639--4563792 Score: 184
Period size: 54 Copynumber: 2.9 Consensus size: 54
4563629 CAAACCAAAG
* * *
4563639 AATTCATCATAAGTTGATGAACAACCATTTAGGCACTATGTGTGCAACCCACGA-
1 AATTCATCATATGTTGATGAACAACCATATCGGCACTATGTGTGCAACCCAC-AT
* * * *
4563693 AATTCATCATATGGTGATGAACGACCATATCGGCACTAAGTGTGCAAGCCACAT
1 AATTCATCATATGTTGATGAACAACCATATCGGCACTATGTGTGCAACCCACAT
* * * * *
4563747 AATTCATAATGTGTTTATGAATAACCGTATCGGCACTATGTGTGCA
1 AATTCATCATATGTTGATGAACAACCATATCGGCACTATGTGTGCA
4563793 CCTTAGAGTA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.99
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCATATCGGCACTATGTGTGCAACCCACAT
Found at i:4564565 original size:15 final size:15
Alignment explanation
Indices: 4564545--4564576 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4564535 CTACATAGGG
4564545 TACATATATAGTGTA
1 TACATATATAGTGTA
*
4564560 TACATATATAGTTTA
1 TACATATATAGTGTA
4564575 TA
1 TA
4564577 ATAATCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (15 bp):
TACATATATAGTGTA
Found at i:4564588 original size:18 final size:17
Alignment explanation
Indices: 4564558--4564701 Score: 86
Period size: 17 Copynumber: 8.5 Consensus size: 17
4564548 ATATATAGTG
*
4564558 TATACATATATAGTTTA
1 TATATATATATAGTTTA
*
4564575 TA-ATAATCATATAGTTTG
1 TATAT-AT-ATATAGTTTA
*
4564593 TATATATATATAGTTTG
1 TATATATATATAGTTTA
*
4564610 TAT-TGACTATATAATTTA
1 TATAT-A-TATATAGTTTA
4564628 TATTATATATATAG-TT-
1 TA-TATATATATAGTTTA
** *
4564644 TATGCATAT-T-GTTTC
1 TATATATATATAGTTTA
* *
4564659 TATAAACTATATACTTTA
1 TATATA-TATATAGTTTA
*
4564677 T-TACTTTATATAGTTTA
1 TATA-TATATATAGTTTA
4564694 TATATATA
1 TATATATA
4564702 ATCTATAGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
13 1 0.01
14 3 0.03
15 9 0.09
16 7 0.07
17 37 0.38
18 36 0.37
19 4 0.04
20 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.51
Consensus pattern (17 bp):
TATATATATATAGTTTA
Found at i:4564622 original size:35 final size:34
Alignment explanation
Indices: 4564548--4564646 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
4564538 CATAGGGTAC
*
4564548 ATATATAG--TGTATACATATATAGTTTATAATA
1 ATATATAGTTTGTATATATATATAGTTTATAATA
* *
4564580 ATCATATAGTTTGTATATATATATAGTTTGTATTGA
1 AT-ATATAGTTTGTATATATATATAGTTTATAAT-A
* * *
4564616 CTATATAATTTATATTATATATATAGTTTAT
1 ATATATAGTTTGTA-TATATATATAGTTTAT
4564647 GCATATTGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 2 0.04
33 6 0.11
35 30 0.55
36 17 0.31
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.49
Consensus pattern (34 bp):
ATATATAGTTTGTATATATATATAGTTTATAATA
Found at i:4564808 original size:40 final size:38
Alignment explanation
Indices: 4564752--4564888 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 38
4564742 ACTATATTAA
* * *
4564752 TATAAATTATAATTTATAAACTATATACTTTATATAGTT
1 TATACATTATAGTTTATAAACTATATA-TTTATATAATT
* *
4564791 TATACATCTATAGTTTATATACATATATATATTATATTAATA
1 TATACAT-TATAGTTTATAAAC-TATATAT-TTATA-TAATT
*
4564833 T-TA-ATTATAGTTTATAAACTATATATTTTTTATAATT
1 TATACATTATAGTTTATAAACTATATA-TTTATATAATT
4564870 TATACATATATAGTTTATA
1 TATACAT-TATAGTTTATA
4564889 TACATAGTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
37 5 0.06
38 12 0.15
39 22 0.27
40 26 0.32
41 13 0.16
42 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (38 bp):
TATACATTATAGTTTATAAACTATATATTTATATAATT
Found at i:4564825 original size:17 final size:17
Alignment explanation
Indices: 4564773--4564827 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
4564763 ATTTATAAAC
*
4564773 TATATAC-TTTATATAGT
1 TATATACATATATATA-T
*
4564790 T-TATACATCTATAGT-T
1 TATATACATATATA-TAT
4564806 TATATACATATATATAT
1 TATATACATATATATAT
4564823 TATAT
1 TATAT
4564828 TAATATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 8 0.25
17 23 0.72
18 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (17 bp):
TATATACATATATATAT
Found at i:4564886 original size:15 final size:14
Alignment explanation
Indices: 4564782--4564917 Score: 69
Period size: 13 Copynumber: 10.1 Consensus size: 14
4564772 CTATATACTT
4564782 TATATAGTTTATACA
1 TATATAGTTTATA-A
*
4564797 TCTATAGTTTAT-A
1 TATATAGTTTATAA
* * *
4564810 TACATA-TATATAT
1 TATATAGTTTATAA
* *
4564823 TATATTAATAT-TAA
1 TATA-TAGTTTATAA
4564837 T-TATAGTTTATAAA
1 TATATAGTTTAT-AA
4564851 CTATATA-TTT-T--
1 -TATATAGTTTATAA
*
4564862 T-TATAATTTATACA
1 TATATAGTTTATA-A
4564876 TATATAGTTTAT-A
1 TATATAGTTTATAA
*
4564889 TACATAGTTTAT-A
1 TATATAGTTTATAA
*
4564902 TATATAGCTTATAA
1 TATATAGTTTATAA
4564916 TA
1 TA
4564918 ATTGTATAGT
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
9 4 0.04
10 4 0.04
11 1 0.01
12 8 0.09
13 34 0.36
14 12 0.13
15 27 0.29
16 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.50
Consensus pattern (14 bp):
TATATAGTTTATAA
Found at i:4564906 original size:79 final size:79
Alignment explanation
Indices: 4564714--4564894 Score: 272
Period size: 79 Copynumber: 2.3 Consensus size: 79
4564704 CTATAGATTG
*
4564714 CATATATTAGTTATACATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATA
1 CATATA-TAGTT-TATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATA
*
4564779 CTTTATATAGTTTATA
64 CTTTATATAATTTATA
* * * * *
4564795 CATCTATAGTTTATATACATATATATATTATATTAATATTAATTATAGTTTATAAACTATATATT
1 CATATATAGTTTATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATACT
*
4564860 TTTTATAATTTATA
66 TTATATAATTTATA
4564874 CATATATAGTTTATATACATA
1 CATATATAGTTTATATACATA
4564895 GTTTATATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 81 0.89
80 5 0.05
81 5 0.05
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (79 bp):
CATATATAGTTTATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATACT
TTATATAATTTATA
Found at i:4564936 original size:79 final size:78
Alignment explanation
Indices: 4564714--4564932 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 78
4564704 CTATAGATTG
* * *
4564714 CATATATTAGTTATACATACATATATATACTATATTAAT-ATAAATTATAATTTATAAACTATAT
1 CATATA-TAGTT-TATATACATATATATATTATATTAATAAT-AATTATAGTTTAT-AACTATAT
*
4564778 ACTTTATATAGTTTATA
62 ACTTTATATAATTTATA
* * *
4564795 CATCTATAGTTTATATACATATATATATTATATTAATATTAATTATAGTTTATAAACTATATATT
1 CATATATAGTTTATATACATATATATATTATATTAATAATAATTATAGTTTAT-AACTATATACT
*
4564860 TTTTATAATTTATA
65 TTATATAATTTATA
*
4564874 CATATATAGTTTATATACATAGTTTATATATATAGCTT-ATAATAATTGTATAGTTTATA
1 CATATATAGTTTATATACATA-TATATAT-TATA--TTAATAATAA-T-TATAGTTTATA
4564933 TATAAACTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
79 79 0.66
80 12 0.10
81 9 0.08
82 6 0.05
83 4 0.03
84 10 0.08
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (78 bp):
CATATATAGTTTATATACATATATATATTATATTAATAATAATTATAGTTTATAACTATATACTT
TATATAATTTATA
Found at i:4564994 original size:9 final size:9
Alignment explanation
Indices: 4564960--4564992 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4564950 CTAATATAAA
4564960 TTATATACT
1 TTATATACT
4564969 TTA-ATACT
1 TTATATACT
*
4564977 TTATATATT
1 TTATATACT
4564986 TTATATA
1 TTATATA
4564993 TTGTTTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATATACT
Found at i:4565150 original size:21 final size:21
Alignment explanation
Indices: 4565121--4565173 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
4565111 ACATAAATCT
* *
4565121 TATATATTATATA-TTTATATA
1 TATAAATTACATAGTTTAT-TA
4565142 TATAAATTACATAGTTTATTA
1 TATAAATTACATAGTTTATTA
*
4565163 -ATAAACTACAT
1 TATAAATTACAT
4565174 TATAAGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 13 0.46
22 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAAATTACATAGTTTATTA
Found at i:4574755 original size:13 final size:14
Alignment explanation
Indices: 4574727--4574759 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4574717 CGGTTCGGGT
*
4574727 CGGGTCGAGTCAAG
1 CGGGTCGAGGCAAG
4574741 CGGGTCG-GGCAAG
1 CGGGTCGAGGCAAG
4574754 CGGGTC
1 CGGGTC
4574760 AGGTTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.15, C:0.24, G:0.48, T:0.12
Consensus pattern (14 bp):
CGGGTCGAGGCAAG
Found at i:4584587 original size:3 final size:3
Alignment explanation
Indices: 4584581--4584742 Score: 229
Period size: 3 Copynumber: 53.7 Consensus size: 3
4584571 TTTTTATCCA
*
4584581 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4584629 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
4584675 TAT TAT TAT TAT ATAT TAC TAT TAT TAT TAT TAT TAT TA- TAT TATT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
4584721 TAT CAT TAT TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
4584743 AATATATTAA
Statistics
Matches: 142, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
2 4 0.03
3 129 0.91
4 9 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4585256 original size:14 final size:15
Alignment explanation
Indices: 4585237--4585266 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4585227 AGAGACAGAG
4585237 ACAGAGAAA-AAAAA
1 ACAGAGAAAGAAAAA
4585251 ACAGAGAAAGAAAAA
1 ACAGAGAAAGAAAAA
4585266 A
1 A
4585267 AATAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.07, G:0.17, T:0.00
Consensus pattern (15 bp):
ACAGAGAAAGAAAAA
Found at i:4585264 original size:18 final size:20
Alignment explanation
Indices: 4585231--4585268 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
4585221 GAAACTAGAG
4585231 ACAGAGACAGAGAAAAAAAA
1 ACAGAGACAGAGAAAAAAAA
4585251 ACAGAGA-A-AGAAAAAAAA
1 ACAGAGACAGAGAAAAAAAA
4585269 TAAACTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (20 bp):
ACAGAGACAGAGAAAAAAAA
Found at i:4586207 original size:20 final size:21
Alignment explanation
Indices: 4586178--4586218 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4586168 TTTATTTTTA
4586178 TTTTATTATATGAATAAATAT
1 TTTTATTATATGAATAAATAT
**
4586199 TTTTA-TATATTCATAAATAT
1 TTTTATTATATGAATAAATAT
4586219 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATTATATGAATAAATAT
Found at i:4597579 original size:8 final size:8
Alignment explanation
Indices: 4597558--4597607 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
4597548 ATTATGCTTG
4597558 AAGAAAAGA
1 AAGAAAA-A
4597567 AAGAAAAA
1 AAGAAAAA
4597575 AAGAAAAA
1 AAGAAAAA
4597583 AA-AAAGAA
1 AAGAAA-AA
*
4597591 AAAAGAAAA
1 AAGA-AAAA
4597600 AAGAAAAA
1 AAGAAAAA
4597608 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
7 3 0.08
8 19 0.51
9 13 0.35
10 2 0.05
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:4597583 original size:7 final size:7
Alignment explanation
Indices: 4597566--4597607 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
4597556 TGAAGAAAAG
4597566 AAAGAAA
1 AAAGAAA
*
4597573 AAA-AGA
1 AAAGAAA
4597579 AAA-AAA
1 AAAGAAA
4597585 AAAGAAA
1 AAAGAAA
4597592 AAAGAAA
1 AAAGAAA
4597599 AAAGAAA
1 AAAGAAA
4597606 AA
1 AA
4597608 GGGGGTCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:4597584 original size:11 final size:11
Alignment explanation
Indices: 4597561--4597599 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
4597551 ATGCTTGAAG
4597561 AAAAGAAAGAAA
1 AAAAGAAA-AAA
4597573 AAAAGAAAAAA
1 AAAAGAAAAAA
4597584 AAAAGAAAAAA
1 AAAAGAAAAAA
4597595 GAAAA
1 -AAAA
4597600 AAGAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:4597588 original size:19 final size:18
Alignment explanation
Indices: 4597561--4597607 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
4597551 ATGCTTGAAG
4597561 AAAAGAAAGAAAAAAAGAA
1 AAAAGAAA-AAAAAAAGAA
4597580 AAAA-AAAAGAAAAAAGAA
1 AAAAGAAAA-AAAAAAGAA
4597598 AAAAGAAAAA
1 AAAAGAAAAA
4597608 GGGGGTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 17 0.65
19 8 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAGAA
Found at i:4597943 original size:16 final size:16
Alignment explanation
Indices: 4597917--4597961 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4597907 TTTGAATACA
*
4597917 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
4597934 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
4597949 ATTCAATTTATTT
1 ATTCAATTTATTT
4597962 TCGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:4598840 original size:52 final size:52
Alignment explanation
Indices: 4598762--4598974 Score: 426
Period size: 52 Copynumber: 4.1 Consensus size: 52
4598752 ATTTGCCAAT
4598762 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
4598814 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
4598866 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
4598918 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
4598970 AGCAT
1 AGCAT
4598975 TGAATTTGGA
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 161 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (52 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
Found at i:4599079 original size:52 final size:52
Alignment explanation
Indices: 4599001--4599161 Score: 304
Period size: 52 Copynumber: 3.1 Consensus size: 52
4598991 ATTTGCCAAT
4599001 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
*
4599053 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
*
4599105 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
4599157 AGCAT
1 AGCAT
4599162 TGAATTTGGA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 106 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
Found at i:4599108 original size:135 final size:135
Alignment explanation
Indices: 4598866--4599109 Score: 479
Period size: 135 Copynumber: 1.8 Consensus size: 135
4598856 GACAGAATCA
4598866 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
*
4598931 AGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATTTG
66 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATTTG
4598996 CCAAT
131 CCAAT
4599001 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
4599066 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCAT
66 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCAT
4599110 CTTCTGGAAG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 108 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (135 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATTTG
CCAAT
Found at i:4599129 original size:187 final size:185
Alignment explanation
Indices: 4598814--4599226 Score: 765
Period size: 187 Copynumber: 2.2 Consensus size: 185
4598804 GACAGAATCA
4598814 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
*
4598879 AGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAG
66 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAG
4598944 TTATCTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAAT-TTGCCAAT
131 TTATCTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATGTT--C-AT
4599001 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
4599066 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAG
66 AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAG
* *
4599131 TTATTTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATGAATGTTCAT
131 TTATCTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATGTTCAT
4599186 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT
4599227 CAGTAGGAAC
Statistics
Matches: 222, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
185 43 0.19
186 1 0.00
187 176 0.79
188 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (185 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCGGATTGGACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGATTGGACAGAATCAAGCATTGAATTTGGAAGATAAATGTTCAT
Found at i:4600131 original size:113 final size:113
Alignment explanation
Indices: 4599964--4600485 Score: 897
Period size: 113 Copynumber: 4.6 Consensus size: 113
4599954 TTCCAGAGAG
* *
4599964 GTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
4600029 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
66 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
*
4600077 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
*
4600142 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCAA
66 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
4600190 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
4600255 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
66 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
*
4600303 GTTCATAGTGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * **
4600368 ACCTTTTACCTGAATCCATCAATTGATGGATTATCTTTTCC-G-GAGAA
66 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCG-A
* * *
4600415 GTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
4600480 A-CTTTT
66 ACCTTTT
4600486 GGCATAATTC
Statistics
Matches: 392, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
111 6 0.02
112 64 0.16
113 322 0.82
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTCGA
Found at i:4600809 original size:3 final size:3
Alignment explanation
Indices: 4600803--4600972 Score: 286
Period size: 3 Copynumber: 56.7 Consensus size: 3
4600793 TTTTTATCCA
* *
4600803 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4600851 TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4600899 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4600947 TAT TAT CAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
4600973 AATATATTAA
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 155 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4601485 original size:21 final size:19
Alignment explanation
Indices: 4601461--4601499 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
4601451 GAAACTAGAG
4601461 ACAGAGACAGAGAAAAAAAAA
1 ACAGAGA-A-AGAAAAAAAAA
4601482 ACAGAGAAAGAAAAAAAA
1 ACAGAGAAAGAAAAAAAA
4601500 TAAACTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (19 bp):
ACAGAGAAAGAAAAAAAAA
Found at i:4601487 original size:15 final size:16
Alignment explanation
Indices: 4601467--4601498 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4601457 AGAGACAGAG
4601467 ACAGAGAAA-AAAAAA
1 ACAGAGAAAGAAAAAA
4601482 ACAGAGAAAGAAAAAA
1 ACAGAGAAAGAAAAAA
4601498 A
1 A
4601499 ATAAACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (16 bp):
ACAGAGAAAGAAAAAA
Found at i:4601504 original size:21 final size:21
Alignment explanation
Indices: 4601461--4601504 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4601451 GAAACTAGAG
*
4601461 ACAGAGACAGAGAAAAAAAAA
1 ACAGAGAAAGAGAAAAAAAAA
4601482 ACAGAGAAAGA-AAAAAAATAA
1 ACAGAGAAAGAGAAAAAAA-AA
4601503 AC
1 AC
4601505 TATACCAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.73, C:0.09, G:0.16, T:0.02
Consensus pattern (21 bp):
ACAGAGAAAGAGAAAAAAAAA
Found at i:4602429 original size:20 final size:21
Alignment explanation
Indices: 4602400--4602440 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4602390 TTTATTTTTA
4602400 TTTTATTATATGAATAAATAT
1 TTTTATTATATGAATAAATAT
**
4602421 TTTTA-TATATTCATAAATAT
1 TTTTATTATATGAATAAATAT
4602441 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATTATATGAATAAATAT
Found at i:4606808 original size:29 final size:30
Alignment explanation
Indices: 4606776--4606838 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
4606766 GGCCAAAATG
*
4606776 TAAAATTT-AAAAGGTT-GGTGACCAAAGTA
1 TAAAATTTGAAAAGGTTAGG-GACCAAACTA
* *
4606805 TAAAATTTGGAAAGTTTAGGGACCAAACTA
1 TAAAATTTGAAAAGGTTAGGGACCAAACTA
4606835 TAAA
1 TAAA
4606839 TTTTCCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 8 0.28
30 19 0.66
31 2 0.07
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (30 bp):
TAAAATTTGAAAAGGTTAGGGACCAAACTA
Found at i:4609889 original size:25 final size:25
Alignment explanation
Indices: 4609855--4609903 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4609845 CACATCAGGA
*
4609855 AGTCCAAAAAAGGACTGGCAATAGG
1 AGTCCAAAAAAGGACTGACAATAGG
*
4609880 AGTCCGAAAAAGGACTGACAATAG
1 AGTCCAAAAAAGGACTGACAATAG
4609904 AAGTAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.27, T:0.12
Consensus pattern (25 bp):
AGTCCAAAAAAGGACTGACAATAGG
Found at i:4621265 original size:21 final size:19
Alignment explanation
Indices: 4621241--4621283 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
4621231 CTTATAAAAA
4621241 TTTATTTTTTCTCATTTCTTC
1 TTTATTTTTT-TCATTT-TTC
*
4621262 TTTATTTTTTTTATTTTTC
1 TTTATTTTTTTCATTTTTC
4621281 TTT
1 TTT
4621284 CGCTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTATTTTTTTCATTTTTC
Found at i:4622198 original size:4 final size:4
Alignment explanation
Indices: 4622189--4622227 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
4622179 CACAAAAACA
* *
4622189 AAAT AAAT AAAT AAAT -AAT AAAT TAAT AAAT TAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4622228 TAAAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:4622225 original size:16 final size:15
Alignment explanation
Indices: 4622190--4622285 Score: 83
Period size: 15 Copynumber: 6.3 Consensus size: 15
4622180 ACAAAAACAA
*
4622190 AATAAATAAATAAAT
1 AATAAATTAATAAAT
4622205 AATAAATTAATAAATT
1 AATAAATTAATAAA-T
4622221 AATAAATTAA-AATAT
1 AATAAATTAATAA-AT
*
4622236 AATAATAATAAT-AAT
1 AATAA-ATTAATAAAT
*
4622251 AATAATAATAAT-AAT
1 AATAA-ATTAATAAAT
*
4622266 AATAATAATAAT-AAT
1 AATAA-ATTAATAAAT
4622281 AATAA
1 AATAA
4622286 TAAAATACAT
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
15 58 0.77
16 17 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATTAATAAAT
Found at i:4622228 original size:8 final size:8
Alignment explanation
Indices: 4622190--4622230 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
4622180 ACAAAAACAA
*
4622190 AATAAATA
1 AATAAATT
4622198 AATAAA-T
1 AATAAATT
4622205 AATAAATT
1 AATAAATT
4622213 AATAAATT
1 AATAAATT
4622221 AATAAATT
1 AATAAATT
4622229 AA
1 AA
4622231 AATATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AATAAATT
Found at i:4622242 original size:3 final size:3
Alignment explanation
Indices: 4622202--4622292 Score: 113
Period size: 3 Copynumber: 32.3 Consensus size: 3
4622192 TAAATAAATA
* * *
4622202 AAT AAT AA- ATT AAT AA- ATT AAT AA- ATT AA- AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4622245 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4622292 A
1 A
4622293 CATATGTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
2 9 0.12
3 67 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4622423 original size:5 final size:5
Alignment explanation
Indices: 4622413--4622496 Score: 64
Period size: 5 Copynumber: 15.8 Consensus size: 5
4622403 AAAAAAGGGG
*
4622413 AAAAT AAAAT AAAAT AAAAAT ATAAA- AATAT AAAAAT GAAAA- AAAAT
1 AAAAT AAAAT AAAAT -AAAAT A-AAAT AAAAT -AAAAT -AAAAT AAAAT
* *
4622460 AAAAT AAAAT AATAT AATTAAGT GAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AA--AA-T AAAAT AAAAT AAAA
4622497 AAGGAAAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
4 6 0.09
5 37 0.58
6 18 0.28
7 1 0.02
8 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:4622439 original size:8 final size:8
Alignment explanation
Indices: 4622413--4622476 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
4622403 AAAAAAGGGG
4622413 AAAATA-A
1 AAAATATA
*
4622420 AATAAAATA
1 AA-AATATA
4622429 AAAATATA
1 AAAATATA
4622437 AAAATATA
1 AAAATATA
4622445 AAAATGA-A
1 AAAAT-ATA
*
4622453 AAAAAAT-
1 AAAATATA
4622460 AAAATA-A
1 AAAATATA
4622467 AATAATATA
1 AA-AATATA
4622476 A
1 A
4622477 TTAAGTGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 10 0.22
8 30 0.65
9 6 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (8 bp):
AAAATATA
Found at i:4624531 original size:21 final size:20
Alignment explanation
Indices: 4624497--4624546 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
4624487 AGTTGAGCTT
*
4624497 TGAATTGGATATCCT-TCGTTG
1 TGAATT-GAAATCCTATC-TTG
4624518 TGAAGTTGAAATCCTATCTTG
1 TGAA-TTGAAATCCTATCTTG
4624539 TGAATTGA
1 TGAATTGA
4624547 TCACTTCGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (20 bp):
TGAATTGAAATCCTATCTTG
Found at i:4625516 original size:68 final size:66
Alignment explanation
Indices: 4625410--4625556 Score: 185
Period size: 68 Copynumber: 2.2 Consensus size: 66
4625400 TTTTCCTTTC
* * *
4625410 TTTTTTTC--TTT-TTTTCAATTTAGGCTGCCCTTTCGGGTTTTCACCTTAAACGATTTTCTCTT
1 TTTTTTTCTTTTTCTTTTCAATTTAGGCTACCCTTTCGGGTTTTCACCCTAAACGATTTTCTCTC
4625472 T
66 T
* * *
4625473 TTTCTTTTCTATTTTCTTTTCAATTTAGGGC-ACCCTTTTGGGTTTTCACCCTAAACGTTTTTTT
1 TTT-TTTTCT-TTTTCTTTTCAATTTA-GGCTACCCTTTCGGGTTTTCACCCTAAACGATTTTCT
4625537 CTCT
63 CTCT
4625541 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
4625557 CTTCGACTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
63 3 0.04
64 5 0.07
66 7 0.10
67 9 0.12
68 45 0.62
69 3 0.04
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (66 bp):
TTTTTTTCTTTTTCTTTTCAATTTAGGCTACCCTTTCGGGTTTTCACCCTAAACGATTTTCTCTC
T
Found at i:4631723 original size:250 final size:249
Alignment explanation
Indices: 4631282--4631786 Score: 841
Period size: 250 Copynumber: 2.0 Consensus size: 249
4631272 GTGGATTCCG
* * * * * *
4631282 GATCTATCCGTAACTTCAGCATTTCCTATGATTATGGCGTTGATACTTAGGTCTTTTAGAGTCAT
1 GATCTATCCGTAAATTCAACATTTCATATGATTACGACGTTGATACTCAGGTCTTTTAGAGTCAT
* *
4631347 TTCCAAATCTGGTGAGGTGGTCTCAAACACATAACCACTTGACTTGAATGTGTCATAAAGCTGTG
66 TTCCAAATCTGGTGAGGTGGTCTCAAACACATAACCACCTGACTTGAATGTGTCATAAAGCTCTG
*
4631412 GGAATACCATGGGTTCCTATTAAAATTAAGTTCCAATCAATCTGGCCAGTCGTCTTTCTCGGTTA
131 GGAATACCATGGGTTCCCATTAAAATTAAGTTCCAATCAATCTGGCCAGTCGTCTTTCTCGGTTA
* *
4631477 TTCTGAATTTTTTTCCTCTTTTATTGGTGACTGGGCTGAAAACCAAGCCCAAACT
196 TTCTGAATTTCTTTCCTCTTTTATTGGTGAC-GAGCTGAAAACCAAGCCCAAACT
* *
4631532 GATCTATCTGTAAATTCAACATTTCATGTGATTACGACGTTGATACTCAGGTCTTTTAGA-TCCA
1 GATCTATCCGTAAATTCAACATTTCATATGATTACGACGTTGATACTCAGGTCTTTTAGAGT-CA
4631596 TTTCCAAATCTGGTGAGGTGGTCTCAAACACATAACCACCTGACTTGAATGTGTCATAAAGCTCT
65 TTTCCAAATCTGGTGAGGTGGTCTCAAACACATAACCACCTGACTTGAATGTGTCATAAAGCTCT
*
4631661 GGGAATACCATGGGTTCCCATTGAAATTAAGTTCCAATCAATCTGGCCAGTCGTCTTTCTCGGTT
130 GGGAATACCATGGGTTCCCATTAAAATTAAGTTCCAATCAATCTGGCCAGTCGTCTTTCTCGGTT
* *
4631726 ATTCTGAATTTCTTTCCTCTTTTGTTGGTGACGAGCTGAAAACCAAGCTCAAACT
195 ATTCTGAATTTCTTTCCTCTTTTATTGGTGACGAGCTGAAAACCAAGCCCAAACT
4631781 GATCTA
1 GATCTA
4631787 GTTTTGATAT
Statistics
Matches: 238, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
249 28 0.12
250 210 0.88
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (249 bp):
GATCTATCCGTAAATTCAACATTTCATATGATTACGACGTTGATACTCAGGTCTTTTAGAGTCAT
TTCCAAATCTGGTGAGGTGGTCTCAAACACATAACCACCTGACTTGAATGTGTCATAAAGCTCTG
GGAATACCATGGGTTCCCATTAAAATTAAGTTCCAATCAATCTGGCCAGTCGTCTTTCTCGGTTA
TTCTGAATTTCTTTCCTCTTTTATTGGTGACGAGCTGAAAACCAAGCCCAAACT
Found at i:4633796 original size:13 final size:13
Alignment explanation
Indices: 4633778--4633802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4633768 TCGAATATAC
4633778 TTAGAAAATCTTT
1 TTAGAAAATCTTT
4633791 TTAGAAAATCTT
1 TTAGAAAATCTT
4633803 AAAATTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:4636276 original size:22 final size:21
Alignment explanation
Indices: 4636251--4636291 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4636241 CCAGAACCCC
4636251 GGGGGGATATCAATTCCCCTGT
1 GGGGGGA-ATCAATTCCCCTGT
*
4636273 GGGGGGAATCAGTTCCCCT
1 GGGGGGAATCAATTCCCCT
4636292 TCAAAGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
GGGGGGAATCAATTCCCCTGT
Found at i:4643809 original size:21 final size:21
Alignment explanation
Indices: 4643776--4643818 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4643766 GTCCCCTTTG
* * *
4643776 ACCATTTTTATTTGGTCTTCC
1 ACCAATTTAATTTGCTCTTCC
*
4643797 ACCAATTTAATTTTCTCTTCC
1 ACCAATTTAATTTGCTCTTCC
4643818 A
1 A
4643819 TCTTTTTCAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (21 bp):
ACCAATTTAATTTGCTCTTCC
Found at i:4646656 original size:19 final size:22
Alignment explanation
Indices: 4646611--4646651 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4646601 ATGAAAGCAC
*
4646611 AAAGTTGTAAGATAAAAATATA
1 AAAGTTGGAAGATAAAAATATA
4646633 AAAGTTGGAAG-TAAAAATA
1 AAAGTTGGAAGATAAAAATA
4646652 AAAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (22 bp):
AAAGTTGGAAGATAAAAATATA
Found at i:4651226 original size:17 final size:17
Alignment explanation
Indices: 4651204--4651238 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4651194 TTTGAAGAAG
4651204 ATAGACTGGTAAAGTAC
1 ATAGACTGGTAAAGTAC
4651221 ATAGACTGGTAAAGTAC
1 ATAGACTGGTAAAGTAC
4651238 A
1 A
4651239 CATGATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
ATAGACTGGTAAAGTAC
Found at i:4654773 original size:130 final size:128
Alignment explanation
Indices: 4654509--4654768 Score: 432
Period size: 130 Copynumber: 2.0 Consensus size: 128
4654499 TTCAAAGCCC
* *
4654509 TAGAAAATGGTGAATATAACATGCCTAATAGCCCCAACAAAACACCACATCAGACCCATTGCAAG
1 TAGAAAATGGTGAATATAACATGCCTAATAGCCCCAACAAAACACCAAATCAGACCCACTGCAAG
*
4654574 GGAAAAAGCTCATGTAGAAAAGGAGTCCTTTTAGAATCTAGCAAACTCTTGGAAGAAAGAAAACA
66 GGAAAAAGCTCATGTAG--AAGGAGTCCTTTTAGAAACTAGCAAACTCTTGGAAGAAAGAAAACA
* **
4654639 TAGAAAATGGTGATTATAACATGCCTAATAGCTTCAACAAAACACCAAATCAGACCCACTGCAAG
1 TAGAAAATGGTGAATATAACATGCCTAATAGCCCCAACAAAACACCAAATCAGACCCACTGCAAG
*
4654704 GGAAAAAGCTCATGTAG-AGGAGTCCTTTTAGAAACTAGCAAACTCTTGGAAGAAAGAGAACA
66 GGAAAAAGCTCATGTAGAAGGAGTCCTTTTAGAAACTAGCAAACTCTTGGAAGAAAGAAAACA
4654766 TAG
1 TAG
4654769 TAGAACCATG
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
127 46 0.37
130 77 0.63
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (128 bp):
TAGAAAATGGTGAATATAACATGCCTAATAGCCCCAACAAAACACCAAATCAGACCCACTGCAAG
GGAAAAAGCTCATGTAGAAGGAGTCCTTTTAGAAACTAGCAAACTCTTGGAAGAAAGAAAACA
Found at i:4662507 original size:11 final size:11
Alignment explanation
Indices: 4662491--4662517 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4662481 GGTTTAGTGT
4662491 TTATCATTTGG
1 TTATCATTTGG
4662502 TTATCATTTGG
1 TTATCATTTGG
4662513 TTATC
1 TTATC
4662518 TCAAATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.56
Consensus pattern (11 bp):
TTATCATTTGG
Found at i:4673047 original size:32 final size:31
Alignment explanation
Indices: 4672973--4673049 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
4672963 CTAATGTGAC
* * *
4672973 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
**
4673004 TCTCGGGTAGGCCCTACGGCCCTAAGAT-ATGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCA--T
4673036 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
4673050 CATGACCCCG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.03
31 23 0.62
32 13 0.35
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:4679977 original size:21 final size:21
Alignment explanation
Indices: 4679951--4679995 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4679941 ATCGATGACT
*
4679951 GTTAACTGCCATTGACTGAAC
1 GTTAACCGCCATTGACTGAAC
* * *
4679972 GTTAACCGTCGTTGACTGACC
1 GTTAACCGCCATTGACTGAAC
4679993 GTT
1 GTT
4679996 CACTTTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (21 bp):
GTTAACCGCCATTGACTGAAC
Found at i:4681181 original size:26 final size:26
Alignment explanation
Indices: 4681148--4681206 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
4681138 GGATTTGTAT
4681148 AATGACCAAAATACCCCTAGAATACA
1 AATGACCAAAATACCCCTAGAATACA
*
4681174 AATGACCAAAATACCCCTAGAATGCA
1 AATGACCAAAATACCCCTAGAATACA
4681200 AATGACC
1 AATGACC
4681207 CACGAATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.15
Consensus pattern (26 bp):
AATGACCAAAATACCCCTAGAATACA
Found at i:4690943 original size:2 final size:2
Alignment explanation
Indices: 4690936--4690961 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4690926 ATAGGTTGTT
4690936 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4690962 AAGAAAGATA
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):
TA
Found at i:4691114 original size:20 final size:22
Alignment explanation
Indices: 4691069--4691120 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
4691059 AATTAACTTA
*
4691069 TAAAATGTGACGGTTACACTAAT
1 TAAAA-GTTACGGTTACACTAAT
*
4691092 TAACAGTTACGGTTA-AC-AAT
1 TAAAAGTTACGGTTACACTAAT
4691112 TAAAAGTTA
1 TAAAAGTTA
4691121 ATTTGCACGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 9 0.35
23 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (22 bp):
TAAAAGTTACGGTTACACTAAT
Found at i:4691791 original size:30 final size:27
Alignment explanation
Indices: 4691734--4691791 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
4691724 CTCAAAGCAT
**
4691734 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATAAAAATA
4691761 TATTATTTTAATATCATTTAAATAAAAATA
1 TATTATTTT-ATAT-ATTT-AATAAAAATA
4691791 T
1 T
4691792 TAGTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 4 0.15
29 4 0.15
30 9 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAATA
Found at i:4691792 original size:28 final size:27
Alignment explanation
Indices: 4691734--4691793 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
4691724 CTCAAAGCAT
* *
4691734 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATATAAAAA
4691761 TATTATTTTAATATCATTTAA-ATAAAAA
1 TATTATTTT-ATAT-ATTTAATATAAAAA
4691789 TATTA
1 TATTA
4691794 GTTATTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.31
28 14 0.48
29 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTATTTTATATATTTAATATAAAAA
Found at i:4691924 original size:27 final size:27
Alignment explanation
Indices: 4691894--4691958 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
4691884 CTTTTATTTC
4691894 AATAATATATAATAAATT-A-TTCATAAA
1 AATAATAT-T-ATAAATTAATTTCATAAA
**
4691921 AATAATATTATATGTTAATTTCATAAA
1 AATAATATTATAAATTAATTTCATAAA
4691948 AATAATATTAT
1 AATAATATTAT
4691959 TTAATTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 27 0.79
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
AATAATATTATAAATTAATTTCATAAA
Found at i:4692035 original size:22 final size:22
Alignment explanation
Indices: 4692010--4692063 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
4692000 ATAATATTCT
4692010 TATTTCAATATTATATTTTTAA
1 TATTTCAATATTATATTTTTAA
4692032 TATTTCAATATTATATTTTTAA
1 TATTTCAATATTATATTTTTAA
*
4692054 TATTTTAATA
1 TATTTCAATA
4692064 ATACTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTCAATATTATATTTTTAA
Found at i:4693184 original size:79 final size:79
Alignment explanation
Indices: 4693053--4693211 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
4693043 ATATAAATTA
4693053 AGAGGGCATTTAGTTCATGGAAAAGATCATTATTAAGAGGAATATTTTTTTTCGAGAATCACATA
1 AGAGGGCATTTAGTTCATGGAAAAGATCATTATTAAGAGGAATATTTTTTTTCGAGAATCACATA
4693118 CTCATGTTTGGTTT
66 CTCATGTTTGGTTT
4693132 AGAGGGCATTTAGTTCATGGAAAAGATCATTATTAAGAGGAATATTTTTTTTCGAGAATCACATA
1 AGAGGGCATTTAGTTCATGGAAAAGATCATTATTAAGAGGAATATTTTTTTTCGAGAATCACATA
4693197 CTCATGTTTGGTTT
66 CTCATGTTTGGTTT
4693211 A
1 A
4693212 TAAGCATTCC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (79 bp):
AGAGGGCATTTAGTTCATGGAAAAGATCATTATTAAGAGGAATATTTTTTTTCGAGAATCACATA
CTCATGTTTGGTTT
Found at i:4693304 original size:46 final size:46
Alignment explanation
Indices: 4693240--4693332 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
4693230 GTACCTTTTT
4693240 GGGCTAAACAAGAGGAATGCTATTTCTCATGTTTTCTTAGGTGTTG
1 GGGCTAAACAAGAGGAATGCTATTTCTCATGTTTTCTTAGGTGTTG
4693286 GGGCTAAACAAGAGGAATGCTATTTCTCATGTTTTCTTAGGTGTTG
1 GGGCTAAACAAGAGGAATGCTATTTCTCATGTTTTCTTAGGTGTTG
4693332 G
1 G
4693333 ACGATTCTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (46 bp):
GGGCTAAACAAGAGGAATGCTATTTCTCATGTTTTCTTAGGTGTTG
Found at i:4693826 original size:16 final size:17
Alignment explanation
Indices: 4693793--4693831 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4693783 ACTAAAAAAA
4693793 TATTTTATATATTATAT
1 TATTTTATATATTATAT
* *
4693810 T-TTTTATATTTTCTAT
1 TATTTTATATATTATAT
4693826 TATTTT
1 TATTTT
4693832 TTCAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTATATATTATAT
Found at i:4695433 original size:19 final size:19
Alignment explanation
Indices: 4695406--4695444 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4695396 GTGACTCGAT
*
4695406 TGATGAAAATTAAAAATGG
1 TGATGAAAATGAAAAATGG
*
4695425 TGATTAAAATGAAAAATGG
1 TGATGAAAATGAAAAATGG
4695444 T
1 T
4695445 TATAGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (19 bp):
TGATGAAAATGAAAAATGG
Found at i:4696539 original size:2 final size:2
Alignment explanation
Indices: 4696532--4696556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4696522 CAATGCTAAT
4696532 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4696557 TACTTGTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4696592 original size:2 final size:2
Alignment explanation
Indices: 4696585--4696623 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4696575 AAGAATAATT
4696585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4696624 GAATTATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.