Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 38 of 45
Found at i:6689467 original size:8 final size:8
Alignment explanation
Indices: 6689454--6689484 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
6689444 ATTTGATTAA
6689454 ATTTTGTG
1 ATTTTGTG
6689462 ATTTTGTG
1 ATTTTGTG
6689470 ATTTTGTG
1 ATTTTGTG
6689478 ATGTTTG
1 AT-TTTG
6689485 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:6689700 original size:13 final size:13
Alignment explanation
Indices: 6689682--6689719 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6689672 CAACATTCTC
*
6689682 TGTATCGATACAT
1 TGTATCGATACAG
*
6689695 TGTATCCATACAG
1 TGTATCGATACAG
6689708 TGTATCGATACA
1 TGTATCGATACA
6689720 ACGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6691608 original size:32 final size:33
Alignment explanation
Indices: 6691572--6691635 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 33
6691562 TGGTTAAAAG
*
6691572 ATTTTGTTAAATTGCTTT-ATTAAGGGGGAGAA
1 ATTTTGTTAAATTGATTTGATTAAGGGGGAGAA
* ** *
6691604 ATTTTTTTATTTTTATTTGATTAAGGGGGAGA
1 ATTTTGTTAAATTGATTTGATTAAGGGGGAGA
6691636 GAAAAGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (33 bp):
ATTTTGTTAAATTGATTTGATTAAGGGGGAGAA
Found at i:6692172 original size:20 final size:19
Alignment explanation
Indices: 6692143--6692181 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
6692133 AGGTCAAAAC
6692143 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
6692162 CCTTGAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
6692182 TATTGCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:6692209 original size:13 final size:13
Alignment explanation
Indices: 6692191--6692215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6692181 ATATTGCATA
6692191 GTATCGATACATT
1 GTATCGATACATT
6692204 GTATCGATACAT
1 GTATCGATACAT
6692216 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:6692357 original size:33 final size:32
Alignment explanation
Indices: 6692297--6692360 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
6692287 CTTAACTGTT
* *
6692297 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCAATACACACAAAATGTATCGATACAA
*
6692329 TGTATCAATACATCCCAAAATGTATCGATACA
1 TGTATCAATACA-CACAAAATGTATCGATACA
6692361 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCAATACACACAAAATGTATCGATACAA
Found at i:6693774 original size:13 final size:13
Alignment explanation
Indices: 6693755--6693794 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
6693745 ATTGTGATCT
6693755 TAGTATCGATAC-
1 TAGTATCGATACA
6693767 TGAGTATCGATACA
1 T-AGTATCGATACA
*
6693781 TTGTATCGATACA
1 TAGTATCGATACA
6693794 T
1 T
6693795 GGGTTACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (13 bp):
TAGTATCGATACA
Found at i:6695771 original size:20 final size:21
Alignment explanation
Indices: 6695742--6695782 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6695732 GGACATTAAA
*
6695742 TTTTTAAGGGAGAAAT-TTTT
1 TTTTTAAGGGAAAAATGTTTT
*
6695762 TTTTTTAGGGAAAAATGTTTT
1 TTTTTAAGGGAAAAATGTTTT
6695783 ATTAAGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTTTAAGGGAAAAATGTTTT
Found at i:6695790 original size:19 final size:20
Alignment explanation
Indices: 6695745--6695793 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
6695735 CATTAAATTT
* * *
6695745 TTAAGGGAGAAATTTTTTTT
1 TTAAGGGAGAAAATGTTTTA
*
6695765 TTTAGGGA-AAAATGTTTTA
1 TTAAGGGAGAAAATGTTTTA
6695784 TTAAGGGAGA
1 TTAAGGGAGA
6695794 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (20 bp):
TTAAGGGAGAAAATGTTTTA
Found at i:6696418 original size:13 final size:13
Alignment explanation
Indices: 6696400--6696424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6696390 ATATTGCTTA
6696400 GTATCGATACATG
1 GTATCGATACATG
6696413 GTATCGATACAT
1 GTATCGATACAT
6696425 ATTGATTGTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:6696422 original size:33 final size:32
Alignment explanation
Indices: 6696380--6696442 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 32
6696370 ACATCTAGAT
*
6696380 GTATCGATACATATTGCTTAGTATCGATACATG
1 GTATCGATACATATTGATT-GTATCGATACATG
6696413 GTATCGATACATATTGATTGTATCGATACA
1 GTATCGATACATATTGATTGTATCGATACA
6696443 CAGAGAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (32 bp):
GTATCGATACATATTGATTGTATCGATACATG
Found at i:6696535 original size:20 final size:20
Alignment explanation
Indices: 6696493--6696546 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
6696483 CTACCACTGT
* ** *
6696493 TTATATCAATATATGGGACA
1 TTATATCAATACATGAAAAA
6696513 TTATATCAATACATGAAAAA
1 TTATATCAATACATGAAAAA
*
6696533 TTATATCGATACAT
1 TTATATCAATACAT
6696547 TGAGCCCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (20 bp):
TTATATCAATACATGAAAAA
Found at i:6705875 original size:20 final size:21
Alignment explanation
Indices: 6705850--6705889 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6705840 ATTTTTCAGA
6705850 ATGTATTAATACAT-TGAAAG
1 ATGTATTAATACATCTGAAAG
*
6705870 ATGTATTGATACATCTGAAA
1 ATGTATTAATACATCTGAAA
6705890 AAACCTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATTAATACATCTGAAAG
Found at i:6706085 original size:21 final size:22
Alignment explanation
Indices: 6706061--6706109 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
6706051 TTAAATCTTT
* *
6706061 TTCAAATTTCTTC-TTTTTCAC
1 TTCAAAATACTTCATTTTTCAC
6706082 TTCAAAATACTTCATTTTTCA-
1 TTCAAAATACTTCATTTTTCAC
6706103 -TCAAAAT
1 TTCAAAAT
6706110 CATCAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (22 bp):
TTCAAAATACTTCATTTTTCAC
Found at i:6706108 original size:20 final size:20
Alignment explanation
Indices: 6706070--6706109 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6706060 TTTCAAATTT
6706070 CTTCTTTTTCACTTCAAAATA
1 CTTCTTTTTCAC-TCAAAATA
6706091 CTTCATTTTTCA-TCAAAAT
1 CTTC-TTTTTCACTCAAAAT
6706110 CATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (20 bp):
CTTCTTTTTCACTCAAAATA
Found at i:6708383 original size:19 final size:19
Alignment explanation
Indices: 6708340--6708391 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
6708330 CACATCCAGA
* *
6708340 TGTATCGATGCATTATGCTT
1 TGTATCGATACA-TATGCGT
*
6708360 TGTATCGATACATATTCGT
1 TGTATCGATACATATGCGT
6708379 TGTATCGATACAT
1 TGTATCGATACAT
6708392 GCACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATGCGT
Found at i:6709578 original size:28 final size:28
Alignment explanation
Indices: 6709538--6709609 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
6709528 GGAATAAAGC
** *
6709538 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
6709566 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
6709594 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
6709610 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:6709667 original size:52 final size:52
Alignment explanation
Indices: 6709598--6709722 Score: 146
Period size: 52 Copynumber: 2.4 Consensus size: 52
6709588 AAATAACGAG
* *
6709598 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATC-GGA
1 GTTGGAGTATCCTCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCAGGA
* ** * *
6709650 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCTCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
*
6709703 -TTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCTCGATTGTG
6709723 GAGAATTGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
51 1 0.02
52 47 0.78
53 12 0.20
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCTCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
Found at i:6712116 original size:13 final size:13
Alignment explanation
Indices: 6712098--6712123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6712088 ACAAAGATCC
6712098 ATGTATCGATACA
1 ATGTATCGATACA
6712111 ATGTATCGATACA
1 ATGTATCGATACA
6712124 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6712119 original size:33 final size:33
Alignment explanation
Indices: 6712077--6712143 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6712067 AAAATTTCCA
***
6712077 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
6712110 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
6712143 A
1 A
6712144 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:6712187 original size:19 final size:18
Alignment explanation
Indices: 6712163--6712230 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
6712153 CAGTAGGTAA
6712163 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6712182 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6712197 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6712214 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
6712231 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:6712203 original size:13 final size:13
Alignment explanation
Indices: 6712185--6712209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6712175 ACAATACTTA
6712185 TGTATCGATACAT
1 TGTATCGATACAT
6712198 TGTATCGATACA
1 TGTATCGATACA
6712210 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6712207 original size:32 final size:32
Alignment explanation
Indices: 6712166--6712228 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6712156 TAGGTAATTA
*
6712166 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6712198 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
6712229 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:6712530 original size:20 final size:19
Alignment explanation
Indices: 6712505--6712555 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
6712495 CCACTGTTTA
6712505 TATCGATACATG-GCACATTG
1 TATCGATACATGAG-A-ATTG
6712525 TATCGATACATGATGAATTG
1 TATCGATACATGA-GAATTG
6712545 TATCGATACAT
1 TATCGATACAT
6712556 TGCTTCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 27 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
TATCGATACATGAGAATTG
Found at i:6715973 original size:92 final size:91
Alignment explanation
Indices: 6715760--6716046 Score: 283
Period size: 92 Copynumber: 3.1 Consensus size: 91
6715750 CTAATGCATA
* * * * * *
6715760 GATTGTAAATGTCAGACGACAATGATTAGATTAATGCATAGATTACTTTTACGAATCGAATTCCT
1 GATTGTAAATATCAGACTACAA-GATTAGACTAATGCATGGATTATTTTTAAGAATCGAATTCCT
* * *
6715825 TTTGTTAGAAAGGAAAAAAAGTTAATT
65 TTAGATAGAAAGGAAAAAAAGTTGATT
* * * * * *
6715852 GATTATGAATATCAAACGGTA-AAGATTAGACTAATACATGGATTGTTTTTAAGAATCGGATTCC
1 GATTGTAAATATCAGAC--TACAAGATTAGACTAATGCATGGATTATTTTTAAGAATCGAATTCC
6715916 TTTAGATAGAAAGGAAAAAAAGTTGATT
64 TTTAGATAGAAAGGAAAAAAAGTTGATT
* * * * * *
6715944 GATTGTAAATTTCAGACTACAAGGGTTAGACTAATGCATGAATTATATTTAAGAATCAAATTCTT
1 GATTGTAAATATCAGACTACAA-GATTAGACTAATGCATGGATTATTTTTAAGAATCGAATTCCT
* *
6716009 TTCGGTAGAAA--AAGATAAAAGTTGATTT
65 TTAGATAGAAAGGAA-A-AAAAGTTGA-TT
6716037 GATTGTAAAT
1 GATTGTAAAT
6716047 GTCACATTAT
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
90 4 0.03
91 3 0.02
92 137 0.86
93 14 0.09
94 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (91 bp):
GATTGTAAATATCAGACTACAAGATTAGACTAATGCATGGATTATTTTTAAGAATCGAATTCCTT
TAGATAGAAAGGAAAAAAAGTTGATT
Found at i:6719373 original size:15 final size:15
Alignment explanation
Indices: 6719353--6719433 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
6719343 TAAGCAACAT
6719353 AATATAAATAATAGA
1 AATATAAATAATAGA
* *
6719368 AATATATATTATAGAA
1 AATATAAATAATAG-A
*
6719384 ATGATATAAATGATAGA
1 A--ATATAAATAATAGA
* * *
6719401 AACATAAGTAATA-T
1 AATATAAATAATAGA
6719415 AATATAATTATAATAGA
1 AATATAA--ATAATAGA
6719432 AA
1 AA
6719434 ATTATATCTT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
14 6 0.12
15 21 0.43
16 7 0.14
17 4 0.08
18 11 0.22
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (15 bp):
AATATAAATAATAGA
Found at i:6719399 original size:18 final size:17
Alignment explanation
Indices: 6719354--6719402 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
6719344 AAGCAACATA
6719354 ATATAAATAATAGAAAT
1 ATATAAATAATAGAAAT
*
6719371 ATAT--ATTATAGAAAT
1 ATATAAATAATAGAAAT
*
6719386 GATATAAATGATAGAAA
1 -ATATAAATAATAGAAA
6719403 CATAAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 4 0.15
18 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
ATATAAATAATAGAAAT
Found at i:6724975 original size:16 final size:15
Alignment explanation
Indices: 6724956--6724993 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6724946 ATTAAAAAAG
6724956 TAAATAATTTATTAGT
1 TAAATAATTTATTA-T
*
6724972 TAAAAAATTTATTAT
1 TAAATAATTTATTAT
6724987 T-AATAAT
1 TAAATAAT
6724994 GATTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 5 0.25
15 2 0.10
16 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATAATTTATTAT
Found at i:6725599 original size:66 final size:65
Alignment explanation
Indices: 6725518--6725647 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 65
6725508 ATATAACTAA
* * * *
6725518 AAAATAAATTTAAACTTTTATAAAGAAAAATAAATCATACCTTAAAAAATTTAAACTTATATAAT
1 AAAACAAATTTAAACTTCTACAAAGAAAAATAAATAATACCTT-AAAAATTTAAACTTATATAAT
6725583 T
65 T
**
6725584 AAAACAAATTTAAACTTCTACAAATCAAAATAAATAATACCTTAAAAATTTAAACTTATATAAT
1 AAAACAAATTTAAACTTCTACAAAGAAAAATAAATAATACCTTAAAAATTTAAACTTATATAAT
6725648 CATACCTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
65 21 0.36
66 37 0.64
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (65 bp):
AAAACAAATTTAAACTTCTACAAAGAAAAATAAATAATACCTTAAAAATTTAAACTTATATAATT
Found at i:6725680 original size:66 final size:65
Alignment explanation
Indices: 6725529--6725681 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 65
6725519 AAATAAATTT
* * *
6725529 AAACTTTTATAAAGAAAAATAAATCATACCTTAAAAAATTTAAACTTATATAATTAAAACAAATT
1 AAACTTTTACAAATAAAAATAAATAATACCTTAAAAAATTTAAACTTATATAATTAAAACAAA-T
*
6725594 T
65 A
* * ***
6725595 AAACTTCTACAAATCAAAATAAATAATACCTT-AAAAATTTAAACTTATATAATCATACCTCAAA
1 AAACTTTTACAAATAAAAATAAATAATACCTTAAAAAATTTAAACTTATATAAT--TAAAACAAA
6725659 -A
64 TA
6725660 AACACTTTTACAAATAAAAATA
1 AA-ACTTTTACAAATAAAAATA
6725682 TTTTTATTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 23 0.32
66 44 0.60
67 6 0.08
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (65 bp):
AAACTTTTACAAATAAAAATAAATAATACCTTAAAAAATTTAAACTTATATAATTAAAACAAATA
Found at i:6726757 original size:73 final size:73
Alignment explanation
Indices: 6726623--6726813 Score: 233
Period size: 74 Copynumber: 2.6 Consensus size: 73
6726613 TAATTTTATG
* * *
6726623 AATAAAAATAAATCATATATTAAAATAATTT-TAACTTTTATAATTAACCCATAAAATAAATTTA
1 AATAAAAATAAATCATATATTAAAA-AATTTAT-ACTTGTATAATTAAACCAAAAAATAAATTTA
6726687 AACTTCTATA
64 AACTTCTATA
* *
6726697 AATAAAAATAAATCATATAATAAAAAATTTATACTTGTATAATTAAATCAAAAAATAAATTTAAA
1 AATAAAAATAAATCATATATTAAAAAATTTATACTTGTATAATTAAACCAAAAAATAAATTTAAA
*
6726762 CTTTTATA
66 CTTCTATA
* * * * *
6726770 GATAAAAAATTAAA-CATATCTTATAAAATTTAAATTTGTATAAT
1 AAT-AAAAA-TAAATCATATATTAAAAAATTTATACTTGTATAAT
6726814 CATACTCAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
73 43 0.42
74 55 0.54
75 4 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (73 bp):
AATAAAAATAAATCATATATTAAAAAATTTATACTTGTATAATTAAACCAAAAAATAAATTTAAA
CTTCTATA
Found at i:6727390 original size:14 final size:14
Alignment explanation
Indices: 6727371--6727418 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
6727361 CAAAAATATA
*
6727371 AAAAAACATATTTT
1 AAAAAATATATTTT
6727385 AAAAAATAT-TTATT
1 AAAAAATATATT-TT
*
6727399 AAAAAATATAATTT
1 AAAAAATATATTTT
6727413 AAAAAA
1 AAAAAA
6727419 ATTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 2 0.07
14 27 0.90
15 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAAATATATTTT
Found at i:6727412 original size:29 final size:28
Alignment explanation
Indices: 6727371--6727428 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
6727361 CAAAAATATA
*
6727371 AAAAAACATATTTTAAAAAA-TATTTATT
1 AAAAAACATATTTAAAAAAATTA-TTATT
*
6727399 AAAAAATATAATTTAAAAAAATTATTATT
1 AAAAAACAT-ATTTAAAAAAATTATTATT
6727428 A
1 A
6727429 TTTTAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 16 0.62
30 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAAACATATTTAAAAAAATTATTATT
Found at i:6729035 original size:19 final size:21
Alignment explanation
Indices: 6728996--6729034 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6728986 CTCTACTTGG
6728996 AATAGTATTTTTAATTAAAAT
1 AATAGTATTTTTAATTAAAAT
*
6729017 AATA-TATTTTTATTTAAA
1 AATAGTATTTTTAATTAAA
6729035 TTTAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATAGTATTTTTAATTAAAAT
Found at i:6731007 original size:22 final size:23
Alignment explanation
Indices: 6730960--6731012 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
6730950 GAAGGAGATG
*
6730960 AAAATGAAGTAAAGAAAAAT-AG
1 AAAATGAAGTAAAGAAAAATAAA
*
6730982 AAAATGAAGTAAAGAAAAGTAAA
1 AAAATGAAGTAAAGAAAAATAAA
6731005 AAAATGAA
1 AAAATGAA
6731013 TAGCTCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (23 bp):
AAAATGAAGTAAAGAAAAATAAA
Found at i:6731715 original size:27 final size:23
Alignment explanation
Indices: 6731657--6731702 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6731647 AACTTACATG
*
6731657 GACAAAATTGAAACAAACAAAAA
1 GACAAAATTAAAACAAACAAAAA
6731680 GACAAAATTAAAACAAACAAAAA
1 GACAAAATTAAAACAAACAAAAA
6731703 CTGAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.72, C:0.13, G:0.07, T:0.09
Consensus pattern (23 bp):
GACAAAATTAAAACAAACAAAAA
Found at i:6740250 original size:21 final size:22
Alignment explanation
Indices: 6740203--6740254 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
6740193 GTTTATAAGC
6740203 AACTAATTTTAGAATGAATTAA
1 AACTAATTTTAGAATGAATTAA
6740225 AACTAATTTTAGAATGAATT-A
1 AACTAATTTTAGAATGAATTAA
6740246 AACTAATTT
1 AACTAATTT
6740255 AGCTGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
AACTAATTTTAGAATGAATTAA
Found at i:6740426 original size:26 final size:26
Alignment explanation
Indices: 6740393--6740458 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
6740383 TATACTCAAG
*
6740393 AATT-AATTAAAATTTAACATACG-AA
1 AATTCAATTAAAATTTAA-AAACGTAA
*
6740418 AATTCAATTAGAAA-TTAAAAATGTAA
1 AATTCAATTA-AAATTTAAAAACGTAA
6740444 AATTCTAATTAAAAT
1 AATTC-AATTAAAAT
6740459 ACCATAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 7 0.21
26 19 0.56
27 8 0.24
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTCAATTAAAATTTAAAAACGTAA
Found at i:6746831 original size:20 final size:19
Alignment explanation
Indices: 6746805--6746880 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
6746795 ATTTGCCTGC
6746805 ATGTATCGATACATTAAAG
1 ATGTATCGATACATTAAAG
*
6746824 AGTGTATCGATACAATGAATA-
1 A-TGTATCGATAC-ATTAA-AG
*
6746845 ATGTATCCATACATTACAAG
1 ATGTATCGATACATTA-AAG
*
6746865 CATGTATCTATACATT
1 -ATGTATCGATACATT
6746881 CACTTATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.11
20 22 0.47
21 19 0.40
22 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATTAAAG
Found at i:6746890 original size:41 final size:40
Alignment explanation
Indices: 6746805--6746902 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 40
6746795 ATTTGCCTGC
* *
6746805 ATGTATCGATACATTAAAGAGTGTATCGATACAATGAATA
1 ATGTATCAATACATTAAAGAGTGTATCGATACAATCAATA
* * * * *
6746845 ATGTATCCATACATTACAAGCA-TGTATCTATACATTCACTT
1 ATGTATCAATACATTA-AAG-AGTGTATCGATACAATCAATA
6746886 ATGTATCAATACATTAA
1 ATGTATCAATACATTAA
6746903 CTTGTTGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 16 0.33
41 32 0.65
42 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (40 bp):
ATGTATCAATACATTAAAGAGTGTATCGATACAATCAATA
Found at i:6746891 original size:20 final size:20
Alignment explanation
Indices: 6746866--6746905 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6746856 CATTACAAGC
* *
6746866 ATGTATCTATACATTCACTT
1 ATGTATCAATACATTAACTT
6746886 ATGTATCAATACATTAACTT
1 ATGTATCAATACATTAACTT
6746906 GTTGTATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTAACTT
Found at i:6750976 original size:22 final size:24
Alignment explanation
Indices: 6750935--6750983 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
6750925 ATAGTTTTCA
*
6750935 TTTTTTGTTATTATAATATGA-AT
1 TTTTTTGTAATTATAATATGATAT
*
6750958 TTTTTTGTAATTAT-CTATGATAT
1 TTTTTTGTAATTATAATATGATAT
6750981 TTT
1 TTT
6750984 ATATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (24 bp):
TTTTTTGTAATTATAATATGATAT
Found at i:6751662 original size:20 final size:20
Alignment explanation
Indices: 6751624--6751664 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6751614 ATACATATAC
*
6751624 AAATTTTGACATATTTTTAA
1 AAATTTTGACATATATTTAA
6751644 AAATTTTGACAT-TAATTTAA
1 AAATTTTGACATAT-ATTTAA
6751664 A
1 A
6751665 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
AAATTTTGACATATATTTAA
Found at i:6753367 original size:16 final size:16
Alignment explanation
Indices: 6753348--6753395 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
6753338 TGGTGCATGC
6753348 TAATAAATATATATTT
1 TAATAAATATATATTT
* *
6753364 TAATACATATATATAAT
1 TAATAAATATATAT-TT
6753381 TAA-AAATATCATATT
1 TAATAAATAT-ATATT
6753396 ATAGTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAAATATATATTT
Found at i:6753827 original size:23 final size:21
Alignment explanation
Indices: 6753801--6753844 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6753791 ATTTTTTGTT
*
6753801 ATTATAATATTAATATTTTTATA
1 ATTAT-ATATGAA-ATTTTTATA
*
6753824 ATTATCTATGAAATTTTTATA
1 ATTATATATGAAATTTTTATA
6753845 TATTTATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATATATGAAATTTTTATA
Found at i:6754370 original size:2 final size:2
Alignment explanation
Indices: 6754363--6754401 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6754353 TTTGCCAGCA
6754363 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 A
6754402 CACTTCGTTC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6754701 original size:17 final size:17
Alignment explanation
Indices: 6754666--6754705 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
6754656 ATAAAATATA
6754666 AAATTTTTAATTAAAAAT
1 AAATTTTT-ATTAAAAAT
6754684 AAATTTTT-TTAAACAAT
1 AAATTTTTATTAAA-AAT
6754701 AAATT
1 AAATT
6754706 ATATTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTTTTATTAAAAAT
Found at i:6755209 original size:15 final size:15
Alignment explanation
Indices: 6755186--6755220 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6755176 CAGTTGCAGT
6755186 TTTTCTTTTTT-TTC
1 TTTTCTTTTTTATTC
*
6755200 TTTTCTTTTTTATTG
1 TTTTCTTTTTTATTC
6755215 TTTTCT
1 TTTTCT
6755221 CAATTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTATTC
Found at i:6755274 original size:15 final size:16
Alignment explanation
Indices: 6755254--6755285 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6755244 ATTACTTTTA
6755254 AATTTT-AATTATTTC
1 AATTTTAAATTATTTC
6755269 AATTTTAAATTATTTC
1 AATTTTAAATTATTTC
6755285 A
1 A
6755286 CACTTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTAAATTATTTC
Found at i:6755818 original size:3 final size:3
Alignment explanation
Indices: 6755810--6755871 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
6755800 AATCTAAATT
*
6755810 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6755858 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
6755872 TAAGAAAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6756016 original size:16 final size:16
Alignment explanation
Indices: 6755995--6756059 Score: 87
Period size: 16 Copynumber: 4.1 Consensus size: 16
6755985 TTATATCTAT
*
6755995 AATTTAGATTATTTTA
1 AATTTAAATTATTTTA
*
6756011 AATTTAAATTTTTTTA
1 AATTTAAATTATTTTA
*
6756027 ATTTTAAATTATTTTA
1 AATTTAAATTATTTTA
*
6756043 ATTTTAAATT-TTTTA
1 AATTTAAATTATTTTA
6756058 AA
1 AA
6756060 ATCAAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 6 0.14
16 38 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
AATTTAAATTATTTTA
Found at i:6756326 original size:16 final size:17
Alignment explanation
Indices: 6756295--6756333 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
6756285 TTATATGCCC
6756295 ATTATAATAATTATTTT
1 ATTATAATAATTATTTT
*
6756312 ATTATAA-ATTTATTTT
1 ATTATAATAATTATTTT
6756328 ATTATA
1 ATTATA
6756334 TTATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATAATAATTATTTT
Found at i:6756359 original size:43 final size:40
Alignment explanation
Indices: 6756301--6756390 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 40
6756291 GCCCATTATA
* *
6756301 ATAATTATTTTATTA-TAAATTTATTTTATTATATTATAATAAT
1 ATAATTATTTGATTATTAAA--TA-TTTATTATA-TAAAATAAT
6756344 ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
1 ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
6756384 AT-ATTAT
1 ATAATTAT
6756391 AATTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
39 5 0.11
40 10 0.23
41 9 0.20
42 2 0.05
43 14 0.32
44 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (40 bp):
ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
Found at i:6756378 original size:15 final size:16
Alignment explanation
Indices: 6756342--6756378 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6756332 TATTATAATA
*
6756342 ATATAATTATTTGATT
1 ATATAAATATTTGATT
6756358 AT-TAAATATTT-ATT
1 ATATAAATATTTGATT
6756372 ATATAAA
1 ATATAAA
6756379 ATAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATAAATATTTGATT
Found at i:6757751 original size:13 final size:13
Alignment explanation
Indices: 6757715--6757753 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6757705 AAGTTAATAA
*
6757715 ATAATTAAATAAT
1 ATAATTAAAAAAT
*
6757728 AT-ATAAAAAAAT
1 ATAATTAAAAAAT
6757740 ATAATTAAAAAAT
1 ATAATTAAAAAAT
6757753 A
1 A
6757754 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATTAAAAAAT
Found at i:6757762 original size:23 final size:25
Alignment explanation
Indices: 6757715--6757763 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
6757705 AAGTTAATAA
*
6757715 ATAATTAAATAATATATAAAAAAAT
1 ATAATTAAATAATATAGAAAAAAAT
6757740 ATAATTAAA-AA-ATAGAAAAAAAT
1 ATAATTAAATAATATAGAAAAAAAT
6757763 A
1 A
6757764 ACAAGTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 2 0.09
25 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
ATAATTAAATAATATAGAAAAAAAT
Found at i:6767565 original size:20 final size:20
Alignment explanation
Indices: 6767518--6767592 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6767508 AAAAAGACAT
*
6767518 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
6767537 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6767558 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6767578 AATGTATCGATACAT
1 AATGTATCGATACAT
6767593 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6767586 original size:40 final size:39
Alignment explanation
Indices: 6767515--6767592 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6767505 GGTAAAAAGA
* *
6767515 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6767554 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
6767593 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6773439 original size:24 final size:25
Alignment explanation
Indices: 6773389--6773439 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
6773379 AGTACCATTG
* *
6773389 TTTTATTTATTTTAAAAATATATAA
1 TTTTATTTATTATAAAAATATAAAA
6773414 TTTTATTT-TTATAAATAAT-TAAAA
1 TTTTATTTATTATAAA-AATATAAAA
6773438 TT
1 TT
6773440 AATAATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTATTTATTATAAAAATATAAAA
Found at i:6773665 original size:17 final size:16
Alignment explanation
Indices: 6773624--6773671 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6773614 ATAATTTATT
* * *
6773624 ATATATTTAATGAAAT
1 ATATATATAATAAAAG
*
6773640 ATATTTATAATTAAAAG
1 ATATATATAA-TAAAAG
6773657 ATATATATAATAAAA
1 ATATATATAATAAAA
6773672 TACTCTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATATATATAATAAAAG
Found at i:6774311 original size:27 final size:28
Alignment explanation
Indices: 6774275--6774333 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
6774265 TATGTTTTTA
**
6774275 TTTTTATATTAT-AGGTTATAGAGTAAT
1 TTTTTATATTATAAAATTATAGAGTAAT
6774302 TTTTTATATTATAAAATTATAGAGTAAT
1 TTTTTATATTATAAAATTATAGAGTAAT
6774330 TTTT
1 TTTT
6774334 AAGGTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (28 bp):
TTTTTATATTATAAAATTATAGAGTAAT
Found at i:6774334 original size:27 final size:26
Alignment explanation
Indices: 6774274--6774334 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
6774264 TTATGTTTTT
**
6774274 ATTTTTATATTATAGGTTATAGAGTA
1 ATTTTTATATTATAAATTATAGAGTA
6774300 ATTTTTTATATTATAAAATTATAGAGTA
1 A-TTTTTATATTAT-AAATTATAGAGTA
6774328 ATTTTTA
1 ATTTTTA
6774335 AGGTACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.03
27 18 0.58
28 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (26 bp):
ATTTTTATATTATAAATTATAGAGTA
Found at i:6775366 original size:20 final size:21
Alignment explanation
Indices: 6775330--6775376 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
6775320 TGTTCAAAAC
6775330 ATAATTATGAAAATATAATAA
1 ATAATTATGAAAATATAATAA
*
6775351 ATAATT-TGAAATTATAATAA
1 ATAATTATGAAAATATAATAA
6775371 ATAATT
1 ATAATT
6775377 CATTGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATTATGAAAATATAATAA
Found at i:6775660 original size:2 final size:2
Alignment explanation
Indices: 6775653--6775677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6775643 ATTACAAAAT
6775653 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
6775678 GGGGGGGGGG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6776875 original size:24 final size:23
Alignment explanation
Indices: 6776843--6776890 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
6776833 TAGTCTCTAT
*
6776843 AAAATTTTACATTATTAAAGTAAA
1 AAAAGTTTACATT-TTAAAGTAAA
* *
6776867 AAAAGTTTAGATTTTACAGTAAA
1 AAAAGTTTACATTTTAAAGTAAA
6776890 A
1 A
6776891 CTATTAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (23 bp):
AAAAGTTTACATTTTAAAGTAAA
Found at i:6781750 original size:15 final size:15
Alignment explanation
Indices: 6781730--6781758 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6781720 AGTAAATCCA
6781730 TGACTTAATTAAATT
1 TGACTTAATTAAATT
6781745 TGACTTAATTAAAT
1 TGACTTAATTAAAT
6781759 AAAAGGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
TGACTTAATTAAATT
Found at i:6783070 original size:2 final size:2
Alignment explanation
Indices: 6783063--6783091 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6783053 GTCTAATTGG
6783063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6783092 CACATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6785708 original size:51 final size:51
Alignment explanation
Indices: 6785643--6785778 Score: 202
Period size: 51 Copynumber: 2.7 Consensus size: 51
6785633 ACATTTTTCA
*
6785643 ATGTATCGATACATTCTTTGATGTATCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTCTTTAATGTATCGATACATTCTATCTTTTTACCCAG
* * * *
6785694 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTTCCTAG
1 ATGTATCGATACATTCTTTAATGTATCGATACATTCTATCTTTTTACCCAG
*
6785745 ATATATCGATACATT-TTTCAATGTATCGATACAT
1 ATGTATCGATACATTCTTT-AATGTATCGATACAT
6785779 CTAGTTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 2 0.03
51 75 0.97
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTCTTTAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:6785735 original size:24 final size:20
Alignment explanation
Indices: 6785623--6785730 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
6785613 TTTTAACTAG
*
6785623 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
**
6785643 ATGTATCGATACATTCTTTG
1 ATGTATCGATACATTCTTCA
6785663 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGATACA---T-TC---TT---CA
6785693 GATGTATCGATACATTCTTCA
1 -ATGTATCGATACATTCTTCA
6785714 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
6785731 GTCTTTTTTC
Statistics
Matches: 72, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
20 47 0.65
21 2 0.03
23 1 0.01
24 4 0.06
27 4 0.06
28 1 0.01
31 13 0.18
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:6786678 original size:19 final size:21
Alignment explanation
Indices: 6786640--6786678 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6786630 TAGCCTTTGA
*
6786640 CCATGCATTTTTTACTATGTT
1 CCATGCATTTTTAACTATGTT
6786661 CCATGCA-TTTTAAC-ATGT
1 CCATGCATTTTTAACTATGT
6786679 CCAACATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:6794813 original size:29 final size:29
Alignment explanation
Indices: 6794778--6794836 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
6794768 GTCGTTGAAG
6794778 AGTTTATCCATGTTATTTTTGATGAAACT
1 AGTTTATCCATGTTATTTTTGATGAAACT
6794807 AGTTTATCCATGTTATTTTTGATGAAACT
1 AGTTTATCCATGTTATTTTTGATGAAACT
6794836 A
1 A
6794837 ACTCTTCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
AGTTTATCCATGTTATTTTTGATGAAACT
Found at i:6794845 original size:29 final size:29
Alignment explanation
Indices: 6794782--6794845 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
6794772 TTGAAGAGTT
* *
6794782 TATCCATGTTATTTTTGATGAAACTAGTT
1 TATCCATGTTATTTTTGATGAAACTACTC
6794811 TATCCATGTTATTTTTGATGAAACTAACTC
1 TATCCATGTTATTTTTGATGAAACT-ACTC
6794841 T-TCCA
1 TATCCA
6794846 AGAGGAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (29 bp):
TATCCATGTTATTTTTGATGAAACTACTC
Found at i:6797058 original size:19 final size:19
Alignment explanation
Indices: 6797034--6797078 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6797024 CAGATCTATT
6797034 GATACA-AAGAAATTGTATC
1 GATACATAA-AAATTGTATC
*
6797053 GATACATTAAAATTGTATC
1 GATACATAAAAATTGTATC
6797072 GATACAT
1 GATACAT
6797079 TTCGACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (19 bp):
GATACATAAAAATTGTATC
Found at i:6797079 original size:19 final size:19
Alignment explanation
Indices: 6797043--6797079 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6797033 TGATACAAAG
6797043 AAATTGTATCGATACATTA
1 AAATTGTATCGATACATTA
6797062 AAATTGTATCGATACATT
1 AAATTGTATCGATACATT
6797080 TCGACTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATTGTATCGATACATTA
Found at i:6799094 original size:13 final size:13
Alignment explanation
Indices: 6799076--6799100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6799066 GGGGAATATT
6799076 CATAAATTTGTTG
1 CATAAATTTGTTG
6799089 CATAAATTTGTT
1 CATAAATTTGTT
6799101 CAAATGAAAA
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:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
CATAAATTTGTTG
Found at i:6799699 original size:13 final size:13
Alignment explanation
Indices: 6799681--6799705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6799671 GTATTGATTG
6799681 GTATCGATACATT
1 GTATCGATACATT
6799694 GTATCGATACAT
1 GTATCGATACAT
6799706 GATTTTTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:6800331 original size:34 final size:34
Alignment explanation
Indices: 6800272--6800336 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
6800262 AGTGATTGAG
* ***
6800272 AGGTTTTATCTTAGCCTTTGTAAAGATAGGGAAA
1 AGGTTCTATCTTAGCCTTCAAAAAGATAGGGAAA
6800306 AGGTTCTATCTTAGCCTTCAAAAAGATAGGG
1 AGGTTCTATCTTAGCCTTCAAAAAGATAGGG
6800337 TTGTAAGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCTTCAAAAAGATAGGGAAA
Found at i:6800979 original size:166 final size:165
Alignment explanation
Indices: 6800767--6801162 Score: 417
Period size: 166 Copynumber: 2.4 Consensus size: 165
6800757 CAAAACTCAT
* * * *
6800767 GAAAATGAATTAATTTTTCATAACCT-ATTTAAT-GTGAATCAAATGATAATATTTTATGAATTT
1 GAAAATGAA-GAATTTTTCA-AAACTGATTTAATAGT-AATTAAATGATAATATTTAATGAATTT
* ** *
6800830 TTAAAATTTTAAATTGATGAAAATCCTCCCAAAAAAATTTACGTA-GAAGAAAACTCTGTATTTT
63 TAAAAATTTTAAATCAATGAAAATCCTCCCAAAAAAATTTACG-ACGAAGAAAACTCCGTA-TTT
** * * ** *
6800894 GGAAA-TCGGAGGAATTCTAAGAAAAAATGAAAAATTCAT
126 CAAAAGTAGGAAGAATTCTAAGAAAAAATGAAAAATGAAG
* * * * *
6800933 GAAAATAGTAA-AATTTTTCAAAATTGATTTACTA-TAAATTAAATGATGATATTTGATGCATTT
1 GAAAAT-G-AAGAATTTTTCAAAACTGATTTAATAGT-AATTAAATGATAATATTTAATGAATTT
*** *
6800996 TAAAAATTTTAAATCAATGAAAATCCTCTTGAAAAAATTTGCGACGAAGAAAACTCCGTATTTCA
63 TAAAAATTTTAAATCAATGAAAATCCTCCCAAAAAAATTTACGACGAAGAAAACTCCGTATTTCA
*
6801061 AAAGTAGGAAGAATTCTAAGGAAAAATGAAAAATGAAG
128 AAAGTAGGAAGAATTCTAAGAAAAAATGAAAAATGAAG
* * *
6801099 GAAAATGAATGAATTTTTCAAAACTGATTTAATAGTGATTAGATGATAATATTTAAAGAATTTT
1 GAAAATGAA-GAATTTTTCAAAACTGATTTAATAGTAATTAAATGATAATATTTAATGAATTTT
6801163 GATGTTCAAC
Statistics
Matches: 189, Mismatches: 32, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
164 2 0.01
165 11 0.06
166 172 0.91
167 2 0.01
168 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (165 bp):
GAAAATGAAGAATTTTTCAAAACTGATTTAATAGTAATTAAATGATAATATTTAATGAATTTTAA
AAATTTTAAATCAATGAAAATCCTCCCAAAAAAATTTACGACGAAGAAAACTCCGTATTTCAAAA
GTAGGAAGAATTCTAAGAAAAAATGAAAAATGAAG
Found at i:6802545 original size:19 final size:20
Alignment explanation
Indices: 6802515--6802566 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
6802505 TAGGCTAAAA
*
6802515 TGTATTGATACATAAATGAT
1 TGTATCGATACATAAATGAT
* *
6802535 TG-ATCGATACACAAGTGAT
1 TGTATCGATACATAAATGAT
*
6802554 TGTATTGATACAT
1 TGTATCGATACAT
6802567 TCACCTGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATAAATGAT
Found at i:6807388 original size:16 final size:16
Alignment explanation
Indices: 6807364--6807394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6807354 AACCAAGATA
6807364 TGGCCAAATCTTGATT
1 TGGCCAAATCTTGATT
*
6807380 TGGCTAAATCTTGAT
1 TGGCCAAATCTTGAT
6807395 CTATGATCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
TGGCCAAATCTTGATT
Found at i:6808015 original size:57 final size:56
Alignment explanation
Indices: 6807952--6808108 Score: 156
Period size: 58 Copynumber: 2.7 Consensus size: 56
6807942 ATTTTTTGTA
* * *
6807952 CATTTTAGTCATTTTCTATTATTTAAGGATTATTATGTAATTAATGTATTCTAGGGAT
1 CATTTTAGTCATTTTCTATGATTTAAGGATT-TTATGTAATTAATGCATTCTAGAG-T
* * * * *
6808010 -GTTTTAGTCACTTTT-AATGATTTAGGGATTTTTATGTAATTTCATGCATTTTAGAGT
1 CATTTTAGTCA-TTTTCTATGATTTAAGGA-TTTTATGTAA-TTAATGCATTCTAGAGT
* *
6808067 CATTTAAGTCATTTTCTATGATTTTAGGACTTTTATGTAATT
1 CATTTTAGTCATTTTCTATGATTTAAGGA-TTTTATGTAATT
6808109 TTAGCATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
57 34 0.43
58 46 0.57
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.51
Consensus pattern (56 bp):
CATTTTAGTCATTTTCTATGATTTAAGGATTTTATGTAATTAATGCATTCTAGAGT
Found at i:6808062 original size:29 final size:29
Alignment explanation
Indices: 6808030--6808174 Score: 104
Period size: 28 Copynumber: 5.1 Consensus size: 29
6808020 CTTTTAATGA
6808030 TTTAGGGATTTTTATGTAATTTCATGCAT
1 TTTAGGGATTTTTATGTAATTTCATGCAT
* * * *
6808059 TTTAGAG-TCATTTAAGTCATTTTCTATG-AT
1 TTTAGGGAT-TTTTATGT-AATTTC-ATGCAT
* *
6808089 TTTA-GGACTTTTATGTAATTTTA-GCAT
1 TTTAGGGATTTTTATGTAATTTCATGCAT
* * * *
6808116 TTTAGGGTTATTTTA-ATAATTCCAT-AAT
1 TTTAGGGAT-TTTTATGTAATTTCATGCAT
* *
6808144 TTTAGAGATTATTATGTAATTTCATGCAT
1 TTTAGGGATTTTTATGTAATTTCATGCAT
6808173 TT
1 TT
6808175 ATGGTCATTT
Statistics
Matches: 84, Mismatches: 22, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
26 1 0.01
27 11 0.13
28 30 0.36
29 28 0.33
30 11 0.13
31 3 0.04
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTAGGGATTTTTATGTAATTTCATGCAT
Found at i:6808205 original size:57 final size:59
Alignment explanation
Indices: 6808144--6808253 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 59
6808134 ATTCCATAAT
* * * * *
6808144 TTTAGAGATTATTATGTAATTTCATGCATT-TAT-GGTCATTTAGGTTATTTTTCTTGA
1 TTTAGAGACTATTATGCAATTCCATGCATTATATAGGCCATTTAGGTCATTTTTCTTGA
* *
6808201 TTTAGGGACTATTATGCAATTCCATGCATTATTTAGGCCATTTAGGTCATTTT
1 TTTAGAGACTATTATGCAATTCCATGCATTATATAGGCCATTTAGGTCATTTT
6808254 ATATGATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 26 0.59
58 2 0.05
59 16 0.36
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (59 bp):
TTTAGAGACTATTATGCAATTCCATGCATTATATAGGCCATTTAGGTCATTTTTCTTGA
Found at i:6809057 original size:39 final size:39
Alignment explanation
Indices: 6809013--6809116 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
6809003 TCTAGCGTTA
*
6809013 ATTGAAATCCT-AAAGATATGACTAATGCATGGAGTT-TTT
1 ATTGAAAT-CTGAAAGATGTGACTAATGCATGGA-TTATTT
* * *
6809052 ATTGAAATCTGAAAGATGTTAGTAATGTATGGATTATTT
1 ATTGAAATCTGAAAGATGTGACTAATGCATGGATTATTT
* *
6809091 ATTGGAATTTGAAAGATGTGACTAAT
1 ATTGAAATCTGAAAGATGTGACTAAT
6809117 AGATAAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 4 0.07
39 51 0.93
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.38
Consensus pattern (39 bp):
ATTGAAATCTGAAAGATGTGACTAATGCATGGATTATTT
Found at i:6809482 original size:92 final size:91
Alignment explanation
Indices: 6809315--6809631 Score: 281
Period size: 91 Copynumber: 3.5 Consensus size: 91
6809305 GAATTGGATA
* * * * *
6809315 TCTTTTGGTAAAAAAGAA-AAAGAGTTAATTGATTGTAAATGTCAGACTGC-AAGGATTAAACTA
1 TCTTTTAGTAGAAAAGAAGAAA-AGTTGATTGATTGTAAATGTCAGA-TACTAAGGATTAGACTA
*
6809378 ATACATGAATTATTTTTGAAAATA-AGAT
64 ATACATGAATTATATTTGAAAATAGA-AT
* * ** * *
6809406 TCCTTTTGGTA-TATTGAAAGAAAAGTTGATTGATTGTTAATGTTAGATACTAAGGATTAGACTA
1 T-CTTTTAGTAGAAAAG-AAGAAAAGTTGATTGATTGTAAATGTCAGATACTAAGGATTAGACTA
* ** *
6809470 ATATAT-AGATTATATTTGAGTATCGAAT
64 ATACATGA-ATTATATTTGAAAATAGAAT
* * *
6809498 TTTTTTAGTAGAAAAGAAGAAAAGTTGATTGATTATAAATATCAGATACTAAGGATTAGACTAAT
1 TCTTTTAGTAGAAAAGAAGAAAAGTTGATTGATTGTAAATGTCAGATACTAAGGATTAGACTAAT
* *
6809563 GCATGTATTATATTT-AATAATTAG-AT
66 ACATGAATTATATTTGAA-AA-TAGAAT
* * * *
6809589 TTTTTTA-TAGAAAAGGAGAAAAGTTGATTGGTTGCAAATGTCA
1 TCTTTTAGTAGAAAAGAAGAAAAGTTGATTGATTGTAAATGTCA
6809632 TATTTTAAAG
Statistics
Matches: 183, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
90 32 0.17
91 79 0.43
92 68 0.37
93 4 0.02
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (91 bp):
TCTTTTAGTAGAAAAGAAGAAAAGTTGATTGATTGTAAATGTCAGATACTAAGGATTAGACTAAT
ACATGAATTATATTTGAAAATAGAAT
Found at i:6809738 original size:12 final size:12
Alignment explanation
Indices: 6809723--6809749 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6809713 TATCATTATC
6809723 ATTTTCATTCTT
1 ATTTTCATTCTT
6809735 ATTTTCATTCTT
1 ATTTTCATTCTT
6809747 ATT
1 ATT
6809750 CTTGGTTTTT
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:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTCATTCTT
Found at i:6815690 original size:76 final size:76
Alignment explanation
Indices: 6815602--6815745 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 76
6815592 TAAAATAAAT
* * ** * * *
6815602 CATACCTTAAAAATTTAAACTCGTATAATC-AACCCAAAAGTAATTTTAAACTTTTACAAATAAA
1 CATACCTTAAAAATTTAAACACGTATAATCAAACCAAAAAACAAATTTAAACTTATACAAAAAAA
6815666 AATAAATCATA
66 AATAAATCATA
*
6815677 CATACCTTAAAAAATTTAAACACGTATAATCAAACTAAAAAACAAATTTAAACTTATACAAAAAA
1 CATACCTT-AAAAATTTAAACACGTATAATCAAACCAAAAAACAAATTTAAACTTATACAAAAAA
6815742 AAAT
65 AAAT
6815746 CATACTTGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 8 0.14
76 21 0.36
77 30 0.51
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (76 bp):
CATACCTTAAAAATTTAAACACGTATAATCAAACCAAAAAACAAATTTAAACTTATACAAAAAAA
AATAAATCATA
Found at i:6816913 original size:72 final size:71
Alignment explanation
Indices: 6816788--6816976 Score: 258
Period size: 72 Copynumber: 2.6 Consensus size: 71
6816778 TAATCTTATG
6816788 AATAAAAATAAATCATAT-ATTAAAATAATTTCAACTCCTATAATTAACTTAAAAAATAAATTTA
1 AATAAAAATAAATCATATCA-T-AAA-AATTT-AACTCCTATAATTAACTTAAAAAATAAATTTA
6816852 AACTTTTACA
62 AACTTTTACA
6816862 AATAAAAATAAATCATATCATAAAAATTTAA-TCACATATAATTAAAC-TAAAAAATAAATTTAA
1 AATAAAAATAAATCATATCATAAAAATTTAACTC-C-TATAATT-AACTTAAAAAATAAATTTAA
6816925 ACTTTTACA
63 ACTTTTACA
* *
6816934 AATAAAAATAAATCATATCTTACAAAATTTAAACTCGTATAAT
1 AATAAAAATAAATCATATCATA-AAAATTT-AACTCCTATAAT
6816977 CATACTCATA
Statistics
Matches: 106, Mismatches: 2, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
70 2 0.02
71 3 0.03
72 58 0.55
73 19 0.18
74 21 0.20
75 3 0.03
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.33
Consensus pattern (71 bp):
AATAAAAATAAATCATATCATAAAAATTTAACTCCTATAATTAACTTAAAAAATAAATTTAAACT
TTTACA
Found at i:6817560 original size:14 final size:12
Alignment explanation
Indices: 6817533--6817580 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 12
6817523 CAAAAATATG
6817533 AAAAAATATTTC
1 AAAAAATATTTC
6817545 AAAAAATATTTGTC
1 AAAAAATA-TT-TC
*
6817559 AAAAAACTTATTTT
1 AAAAAA--TATTTC
6817573 AAAAAATA
1 AAAAAATA
6817581 AAAATATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 15 0.48
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAAAATATTTC
Found at i:6817571 original size:16 final size:14
Alignment explanation
Indices: 6817533--6817564 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
6817523 CAAAAATATG
6817533 AAAAAATA-TT-TC
1 AAAAAATATTTGTC
6817545 AAAAAATATTTGTC
1 AAAAAATATTTGTC
6817559 AAAAAA
1 AAAAAA
6817565 CTTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAAAATATTTGTC
Found at i:6818808 original size:14 final size:12
Alignment explanation
Indices: 6818756--6818797 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
6818746 CTAATTAATT
6818756 AAAAATTTATAA
1 AAAAATTTATAA
6818768 AAAAATTTATAA
1 AAAAATTTATAA
6818780 AAAAATTTA-AA
1 AAAAATTTATAA
*
6818791 TAAAATT
1 AAAAATT
6818798 ATTATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATTTATAA
Found at i:6823480 original size:12 final size:12
Alignment explanation
Indices: 6823465--6823529 Score: 68
Period size: 11 Copynumber: 5.7 Consensus size: 12
6823455 TAGCTAGTTT
6823465 TCTATTTTCTTC
1 TCTATTTTCTTC
6823477 TCTA-TTT-TTC
1 TCTATTTTCTTC
6823487 TTCT-TTTTCTT-
1 -TCTATTTTCTTC
*
6823498 TCTTTTTTCTTC
1 TCTATTTTCTTC
6823510 TCTATTTTC-TC
1 TCTATTTTCTTC
6823521 TCTAATTTT
1 TCT-ATTTT
6823530 TCCTACTAGT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
10 6 0.13
11 21 0.46
12 19 0.41
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTATTTTCTTC
Found at i:6823504 original size:20 final size:23
Alignment explanation
Indices: 6823464--6823531 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
6823454 CTAGCTAGTT
6823464 TTCTATTTTCTTCTCTATTTTTC
1 TTCTATTTTCTTCTCTATTTTTC
6823487 TTCT-TTTTCTT-TCT-TTTTTC
1 TTCTATTTTCTTCTCTATTTTTC
6823507 TTCTCTATTTTC-TCTCTAATTTTTC
1 -T-TCTATTTTCTTCTCT-ATTTTTC
6823532 CTACTAGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.15
21 4 0.10
22 11 0.28
23 12 0.31
25 6 0.15
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (23 bp):
TTCTATTTTCTTCTCTATTTTTC
Found at i:6824120 original size:166 final size:164
Alignment explanation
Indices: 6823858--6824494 Score: 701
Period size: 165 Copynumber: 3.8 Consensus size: 164
6823848 AAAATTTATG
* * ** * * *
6823858 AAATAAATAGAATTTTTCAACAA-TGATTTAATGGGAGTTAAATGATAATATTAGATGAATTTTA
1 AAATGAAT-GAATTTTTGAA-AACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
* * * * * *
6823922 AAAATTAAAAACTAAAAAAAATCTCTCCGAAAACATTTATGGAATAGAAAACTCCGTGTTTTAAA
64 AAAATT-AAAACCAAAAAAAA-CCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAA
* * *
6823987 AACAAGGGAATTTCCAAGAAAAAAATCAAAACTCATGA
127 AACAAGGAAATTTCCAAGAAAAAAATAAAAACTCATAA
* ** * * *
6824025 AAATAAATGAAAATTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAAATTGAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
** * ** * *
6824090 AACCAAGAACCAAGAAAAAACCCCCCGAAAACATTTACGGAGTAGAAAACTCTATATTTTAGAAA
66 AATTAA-AACCAA-AAAAAACCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAA
* *
6824155 -TAGAGAAATTT-CAAG-AAAAAATGAAAAA-TGAATAA
129 CAAG-GAAATTTCCAAGAAAAAAAT-AAAAACT-CATAA
* *
6824190 AAATGAATGAATTTTTGAAAACTGATTTAATATTAATTAAATAATAATATTTAATGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
** * *
6824255 AATTAAAAATAAAAAAATCCCCCCGAAAACATTTACGGAGTAGAAAACTCCGTATTTCAAAAACA
66 AATTAAAACCAAAAAAAACCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAACA
** *
6824320 AAAAAATTTCAAAGAAAAAAATGAAAAACTCATAA
131 AGGAAATTTCCAAGAAAAAAAT-AAAAACTCATAA
* *
6824355 AAATGAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
** * *
6824420 AATTAAAACCAAGAAAAAGACCCCTAG-AAACATTTACGGAATTGAAAACTCTGTATTTCAAAAA
66 AATTAAAACCAA-AAAAA-ACCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAA
6824484 CAAGGAGAATT
129 CAAGGA-AATT
6824495 CTAAAAGAAA
Statistics
Matches: 394, Mismatches: 63, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
163 52 0.13
164 16 0.04
165 166 0.42
166 137 0.35
167 23 0.06
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.28
Consensus pattern (164 bp):
AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
AATTAAAACCAAAAAAAACCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAACA
AGGAAATTTCCAAGAAAAAAATAAAAACTCATAA
Found at i:6824534 original size:165 final size:165
Alignment explanation
Indices: 6823858--6824569 Score: 662
Period size: 165 Copynumber: 4.3 Consensus size: 165
6823848 AAAATTTATG
* ** * * *
6823858 AAAT-AAATAGAATTTTTCAACAA-TGATTTAATGGGAGTTAAATGATAATATTAGATGAATTTT
1 AAATAAAAT-GAATTTTT-AAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTT
* * * * *
6823921 AAAAATTAAAAACTAAAAAAAATCTCTCC-GAAAACATTTATGGAATAGAAAACTCCGTGTTTTA
64 AAAAATT-AAAACCAAAAAAAA-C-CCCCAGAAAACATTTACGGAATAGAAAACTCCGTATTTCA
* *
6823985 AAAACAAGGGAATTTCCAAGAAAAAAATC-AAAACTCATGA
126 AAAACAAGAGAATTTCTAAGAAAAAAATCAAAAACTCAT-A
** * * * *
6824025 AAAT-AAATGAAAATTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAAATTGAA
1 AAATAAAATGAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
** * * ** * *
6824089 AAACCAAGAACCAAGAAAAAACCCCCCGAAAACATTTACGGAGTAGAAAACTCTATATTTTAGAA
66 AAATTAA-AACCAA-AAAAAACCCCCAGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAA
* * *
6824154 A-TAGAGAAATTTC-AAG-AAAAAATGAAAAA-TGAATA
129 ACAAGAG-AATTTCTAAGAAAAAAATCAAAAACT-CATA
* * * *
6824189 AAA-ATGAATGAATTTTTGAAAACTGATTTAATATTAATTAAATAATAATATTTAATGAATTTTA
1 AAATA-AAATGAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
** * * *
6824253 AAAATTAAAAATAAAAAAATCCCCCCGAAAACATTTACGGAGTAGAAAACTCCGTATTTCAAAAA
65 AAAATTAAAACCAAAAAAAACCCCCAGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAA
* * * *
6824318 CAAAAAAATTTCAAAGAAAAAAATGAAAAACTCATA
130 CAAGAGAATTTCTAAGAAAAAAATCAAAAACTCATA
* *
6824354 AAA-ATGAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
1 AAATA-AAATGAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
* * *
6824418 AAAATTAAAACCAAGAAAAAGACCCCTAG-AAACATTTACGGAATTGAAAACTCTGTATTTCAAA
65 AAAATTAAAACCAA-AAAAA-ACCCCCAGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAA
* * * *
6824482 AACAAGGAGAA-TTCTAA-AAGAAAATCAATAACCCACA
128 AACAA-GAGAATTTCTAAGAAAAAAATCAAAAACTCATA
* * * * *
6824519 AAATAAAAAGAATTTTTCAAAATTGATTTAATGGTG-ATTAAATGATAATAT
1 AAATAAAATGAATTTTTAAAAACTGATTTAAT-ATGAATTAAATAATAATAT
6824570 ATAAAGAATT
Statistics
Matches: 455, Mismatches: 72, Indels: 38
0.81 0.13 0.07
Matches are distributed among these distances:
163 52 0.11
164 21 0.05
165 221 0.49
166 139 0.31
167 22 0.05
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.28
Consensus pattern (165 bp):
AAATAAAATGAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
AAATTAAAACCAAAAAAAACCCCCAGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAAC
AAGAGAATTTCTAAGAAAAAAATCAAAAACTCATA
Found at i:6824581 original size:330 final size:329
Alignment explanation
Indices: 6823858--6824581 Score: 854
Period size: 330 Copynumber: 2.2 Consensus size: 329
6823848 AAAATTTATG
*
6823858 AAATAAATAGAATTTTTCAACAATGATTTAATGG-GAGTTAAATGATAATATTAGATGAATTTTA
1 AAATAAAAAGAATTTTTCAA-AATGATTTAATGGTGA-TTAAATGATAATATTA-ATGAATTTTA
* * * * *
6823922 AAAATTAAAAACTAAAAAAAATCTCTCCGAAAACATTTATGGAATAGAAAACTCCGTGTTTTAAA
63 AAAATTAAAAACTAAAAAAAATCCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAA
*** * * * *
6823987 AACAAGGGAATTTCCAAGAAAAAAATCAAAACTCATGAAAATAAATGAAAATTTGAAAACTAATT
128 AACAAAAAAATTTCAAAGAAAAAAATAAAAACTCATAAAAATAAATGAAAATTTAAAAACTAATT
*
6824052 TAATATGAATTAAATAATAATATTTGATGAAATTGAAAAACCAAGAACCAAGAAAAAACCCCCCG
193 TAATATGAATTAAATAATAATATTTGATGAAATTGAAAAACCAAGAACCAAGAAAAAACCCCCAG
* * * * *
6824117 AAAACATTTACGGAGTAGAAAACTCTATATTTTAGAAATAGAGAAATTTCAAGAAAAAATGAAAA
258 AAAACATTTACGGAATAGAAAACTCTATATTTCAAAAAAAGAGAAATTTCAAGAAAAAATCAAAA
** *
6824182 ATGAATA
323 ACCAACA
* * * ** * *
6824189 AAA-ATGAATGAATTTTTGAAAACTGATTTAATATTAATTAAATAATAATATTTAATGAATTTTA
1 AAATA-AAAAGAATTTTTCAAAA-TGATTTAATGGTGATTAAATGATAATA-TTAATGAATTTTA
*
6824253 AAAATTAAAAA-T-AAAAAAATCCCCCCGAAAACATTTACGGAGTAGAAAACTCCGTATTTCAAA
63 AAAATTAAAAACTAAAAAAAATCCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAA
* ** * *
6824316 AACAAAAAAATTTCAAAGAAAAAAATGAAAAACTCATAAAAATGAATGAATTTTTAAAAATTGAT
128 AACAAAAAAATTTCAAAGAAAAAAAT-AAAAACTCATAAAAATAAATGAAAATTTAAAAACTAAT
* * ** *
6824381 TTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAA-AACCAAGAAAAAGACCCCT
192 TTAATATGAATTAAATAATAATATTTGATGAAATTGAAAAACCAAGAACCAAGAAAAA-ACCCCC
* *
6824445 AG-AAACATTTACGGAATTGAAAACTCTGTATTTCAAAAACAAG-GAGAA-TTCTAA-AAGAAAA
256 AGAAAACATTTACGGAATAGAAAACTCTATATTTCAAAAA-AAGAGA-AATTTC-AAGAA-AAAA
* *
6824506 TCAATAACCCACA
317 TCAAAAACCAACA
*
6824519 AAATAAAAAGAATTTTTCAAAATTGATTTAATGGTGATTAAATGATAATATATAAAGAATTTT
1 AAATAAAAAGAATTTTTCAAAA-TGATTTAATGGTGATTAAATGATAATAT-TAATGAATTTT
6824582 GATGCTTGAA
Statistics
Matches: 328, Mismatches: 53, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
329 119 0.36
330 148 0.45
331 57 0.17
332 4 0.01
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (329 bp):
AAATAAAAAGAATTTTTCAAAATGATTTAATGGTGATTAAATGATAATATTAATGAATTTTAAAA
ATTAAAAACTAAAAAAAATCCCCCCGAAAACATTTACGGAATAGAAAACTCCGTATTTCAAAAAC
AAAAAAATTTCAAAGAAAAAAATAAAAACTCATAAAAATAAATGAAAATTTAAAAACTAATTTAA
TATGAATTAAATAATAATATTTGATGAAATTGAAAAACCAAGAACCAAGAAAAAACCCCCAGAAA
ACATTTACGGAATAGAAAACTCTATATTTCAAAAAAAGAGAAATTTCAAGAAAAAATCAAAAACC
AACA
Found at i:6828197 original size:32 final size:31
Alignment explanation
Indices: 6827989--6828199 Score: 117
Period size: 31 Copynumber: 6.7 Consensus size: 31
6827979 AGAAAACAAA
*
6827989 TAAGGCAAAACCTATTAGTCAAATAGATGAC
1 TAAGGCAAAACCTATTAGTCAAAAAGATGAC
* * * *
6828020 CAGGGCAAAACCT-TCAATCAAAAAGGATTGAC
1 TAAGGCAAAACCTATTAGTCAAAAA-GA-TGAC
* * * *
6828052 CAAAGTAAAATC-ATGATAGTCAAAGAAGATGAC
1 TAAGGCAAAACCTAT--TAGTCAAA-AAGATGAC
* *
6828085 TAAGGCAAAACCCT-TTAGTAAAAAAAATGAC
1 TAAGGCAAAA-CCTATTAGTCAAAAAGATGAC
* *** * * ***
6828116 CAAGATGAAA-CTTTTGGTTGGAAAGATTGAC
1 TAAGGCAAAACCTATTAGTCAAAAAGA-TGAC
**
6828147 TAAGGTGAAACCTA-TAGTCAAAGAAGATGAC
1 TAAGGCAAAACCTATTAGTCAAA-AAGATGAC
6828178 TAAGGCAAAACCTATTAGTCAA
1 TAAGGCAAAACCTATTAGTCAA
6828200 GAATTTCATA
Statistics
Matches: 132, Mismatches: 35, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
29 2 0.02
30 16 0.12
31 58 0.44
32 33 0.25
33 11 0.08
34 10 0.08
35 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (31 bp):
TAAGGCAAAACCTATTAGTCAAAAAGATGAC
Found at i:6834671 original size:45 final size:49
Alignment explanation
Indices: 6834575--6834675 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 49
6834565 CAATGTGCCA
* *
6834575 ATTCAAGGCCAGCGACATTGGGCTAAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAACGACATTGGGCTAAA-GGAAAAGTGGACCAATATGCTG
* *
6834625 ATTCAAGGTCAACGACATTGGGCT-AA-TAAAAGT-G-CCAATATGCTG
1 ATTCAAGGCCAACGACATTGGGCTAAAGGAAAAGTGGACCAATATGCTG
6834670 ATTCAA
1 ATTCAA
6834676 TGCTAGCGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 16 0.34
46 1 0.02
47 6 0.13
49 2 0.04
50 22 0.47
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (49 bp):
ATTCAAGGCCAACGACATTGGGCTAAAGGAAAAGTGGACCAATATGCTG
Found at i:6835266 original size:28 final size:28
Alignment explanation
Indices: 6834747--6835260 Score: 659
Period size: 28 Copynumber: 17.9 Consensus size: 28
6834737 TTTAAAAAAT
*
6834747 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* *
6834779 TTGCCACCGACTCATGTGGGCTTTGAAAAGAG
1 GTGCCACTGACT--TGTGGGCTTTG-AAAG-G
* * * **
6834811 TTACCACTGGCTTGTGGGCTTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
6834840 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
6834868 GTGCCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
**
6834896 GTGCCACTGACACTTACGGGCTTTGAAAGG
1 GTGCCACTG--ACTTGTGGGCTTTGAAAGG
* * *
6834926 GTGCCACTGACTTGCGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
**
6834955 GTGCCACTGACTTACGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
6834983 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
6835011 ATGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
6835040 GTGCCACTGACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
6835068 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
6835096 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
6835124 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
6835152 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
6835180 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
6835208 GTACCACTAACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
6835236 ATGCCACTAACTTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
6835261 GAGATGAACG
Statistics
Matches: 436, Mismatches: 41, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
28 289 0.66
29 70 0.16
30 41 0.09
31 1 0.00
32 35 0.08
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:6836515 original size:11 final size:11
Alignment explanation
Indices: 6836475--6836525 Score: 57
Period size: 11 Copynumber: 4.3 Consensus size: 11
6836465 CCCCTTTCTA
6836475 TTTTTTTGTAATT
1 TTTTTTTGT--TT
6836488 TTTTTCTTGGTTT
1 TTTTT-TT-GTTT
6836501 TTTTTTTGTTT
1 TTTTTTTGTTT
*
6836512 TTTTGTTGTTT
1 TTTTTTTGTTT
6836523 TTT
1 TTT
6836526 GGTTTTTCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 17 0.49
12 2 0.06
13 12 0.34
14 2 0.06
15 2 0.06
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:6850345 original size:20 final size:20
Alignment explanation
Indices: 6850320--6850444 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
6850310 TTTTAACTAG
6850320 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
6850340 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
* *
6850371 ATGTATCAATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
6850391 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
6850411 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
6850431 ATGAATCGATACAT
1 ATGTATCGATACAT
6850445 CTGGGTACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 60 0.72
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 14 0.17
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:6851372 original size:21 final size:19
Alignment explanation
Indices: 6851325--6851378 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6851315 CGATATGGTC
6851325 TTGTATCGATACATTCACT
1 TTGTATCGATACATTCACT
*
6851344 TCTGTATCGATACATTACCCT
1 T-TGTATCGATACATT-CACT
*
6851365 ATTGTATCAATACA
1 -TTGTATCGATACA
6851379 AATTATCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
21 14 0.47
22 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATTCACT
Found at i:6852676 original size:17 final size:16
Alignment explanation
Indices: 6852649--6852689 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
6852639 CTTCACTCAT
6852649 TTTTCTTTTTCCTTCTC
1 TTTT-TTTTTCCTTCTC
*
6852666 TATTTTTTTTCTTTCTC
1 T-TTTTTTTTCCTTCTC
6852683 TTTTTTT
1 TTTTTTT
6852690 CTTCTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTCCTTCTC
Found at i:6852686 original size:15 final size:16
Alignment explanation
Indices: 6852654--6852694 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
6852644 CTCATTTTTC
6852654 TTTTTCCTTCTCTATT
1 TTTTTCCTTCTCTATT
* *
6852670 TTTTTTCTT-TCTCTT
1 TTTTTCCTTCTCTATT
6852685 TTTTT-CTTCT
1 TTTTTCCTTCT
6852695 TTTTCTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCCTTCTCTATT
Found at i:6852694 original size:17 final size:17
Alignment explanation
Indices: 6852654--6852696 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6852644 CTCATTTTTC
*
6852654 TTTTTCCTTCTCTATTT
1 TTTTTCTTTCTCTATTT
6852671 TTTTTCTTTCTCT-TTT
1 TTTTTCTTTCTCTATTT
6852687 TTTCTTCTTT
1 TTT-TTCTTT
6852697 TTCTGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTCTCTATTT
Found at i:6866837 original size:1 final size:1
Alignment explanation
Indices: 6866831--6866904 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
6866821 ATTCATTTTC
* * * * * * * * *
6866831 AAAAAAAAACAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAACAAAACAAAGAAAAAAGAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6866896 AAAAAAAAA
1 AAAAAAAAA
6866905 GAAGAATCTG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:6866846 original size:9 final size:9
Alignment explanation
Indices: 6866832--6866902 Score: 81
Period size: 9 Copynumber: 7.9 Consensus size: 9
6866822 TTCATTTTCA
6866832 AAAAAAAAC
1 AAAAAAAAC
6866841 AAAAAAAAC
1 AAAAAAAAC
6866850 -AAAAAAAC
1 AAAAAAAAC
*
6866858 AAAAAAAAA
1 AAAAAAAAC
6866867 ACAAAAAAAC
1 A-AAAAAAAC
* *
6866877 AAAACAAAG
1 AAAAAAAAC
* *
6866886 AAAAAAGAG
1 AAAAAAAAC
6866895 AAAAAAAA
1 AAAAAAAA
6866903 AAGAAGAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 8 0.15
9 37 0.70
10 8 0.15
ACGTcount: A:0.87, C:0.08, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:6866854 original size:19 final size:19
Alignment explanation
Indices: 6866830--6866904 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
6866820 CATTCATTTT
6866830 CAAAAAAAAACAAAAAAAA
1 CAAAAAAAAACAAAAAAAA
6866849 C--AAAAAAACAAAAAAAA
1 CAAAAAAAAACAAAAAAAA
*
6866866 -AACAAAAAAACAAAACAAA
1 CAA-AAAAAAACAAAAAAAA
*
6866885 GAAAAAAGAGAA-AAAAAAAA
1 CAAAAAA-A-AACAAAAAAAA
6866905 GAAGAATCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.33
19 20 0.42
20 10 0.21
21 2 0.04
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAACAAAAAAAA
Found at i:6866860 original size:27 final size:27
Alignment explanation
Indices: 6866830--6866904 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
6866820 CATTCATTTT
6866830 CAAAAAAAAACAAAAAAAACAAAA-AAA
1 CAAAAAAAAA-AAAAAAAACAAAACAAA
6866857 CAAAAAAAAAACAAAAAAACAAAACAAA
1 CAAAAAAAAAA-AAAAAAACAAAACAAA
*
6866885 GAAAAAAGAGAAAAAAAAAA
1 CAAAAAA-A-AAAAAAAAAA
6866905 GAAGAATCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 1 0.02
27 22 0.51
28 9 0.21
29 8 0.19
30 3 0.07
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (27 bp):
CAAAAAAAAAAAAAAAAACAAAACAAA
Found at i:6866862 original size:28 final size:29
Alignment explanation
Indices: 6866831--6866904 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
6866821 ATTCATTTTC
6866831 AAAAAAAAACAAAAAAAACAAAA-AAACA
1 AAAAAAAAACAAAAAAAACAAAACAAACA
*
6866859 AAAAAAAAAC-AAAAAAACAAAACAAAGA
1 AAAAAAAAACAAAAAAAACAAAACAAACA
*
6866887 AAAAAGAGAA-AAAAAAAA
1 AAAAA-AAAACAAAAAAAA
6866905 GAAGAATCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 12 0.29
28 19 0.46
29 10 0.24
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (29 bp):
AAAAAAAAACAAAAAAAACAAAACAAACA
Found at i:6866873 original size:36 final size:37
Alignment explanation
Indices: 6866833--6866904 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
6866823 TCATTTTCAA
6866833 AAAAAAACAAAAAAAACAAAAAA-ACAAAAAAAAAAC
1 AAAAAAACAAAAAAAACAAAAAAGACAAAAAAAAAAC
* * *
6866869 AAAAAAACAAAACAAAGAAAAAAGAGAAAAAAAAAA
1 AAAAAAACAAAAAAAACAAAAAAGACAAAAAAAAAA
6866905 GAAGAATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 21 0.66
37 11 0.34
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (37 bp):
AAAAAAACAAAAAAAACAAAAAAGACAAAAAAAAAAC
Found at i:6867995 original size:55 final size:54
Alignment explanation
Indices: 6867875--6868409 Score: 608
Period size: 55 Copynumber: 9.4 Consensus size: 54
6867865 TTTCTCCTTT
* *
6867875 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTCGGTGA
1 CACTTTT-AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGG
* *
6867936 CACCTTTTAGTCCTCAAATAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CA-CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
6867991 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CA-CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
6868046 CATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTT-TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
6868101 CA-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTAGTGG
1 CACTTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
6868156 CATTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTT-TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
6868211 CA-TTTTCCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGA
1 CACTTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
6868266 CA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTT--AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGG
* *
6868327 CACTTTCAGTCCTCAAAGAGCAGGACGCCTTCTACTTTTAAAGCCCACATAAGTTGGTGG
1 CACTTTTAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGG
*
6868387 CACTTCCTAGTCCTCAAAGAGCA
1 CACTT-TTAGTCCTCAAAGAGCA
6868410 AAACGCTCTC
Statistics
Matches: 423, Mismatches: 29, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
53 2 0.00
54 11 0.03
55 290 0.69
56 4 0.01
57 1 0.00
60 46 0.11
61 61 0.14
62 8 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
CACTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:6868078 original size:110 final size:109
Alignment explanation
Indices: 6867879--6868409 Score: 677
Period size: 110 Copynumber: 4.7 Consensus size: 109
6867869 TCCTTTCACT
* * *
6867879 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTCGGTGACACCTTT-
1 TTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
6867943 TAGTCCTCAAATAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
59 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-C
6867995 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCT
* *
6868060 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
6868104 TTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCC
1 TTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * *
6868169 TCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
65 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * *
6868214 TTTCCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGACATTTTCCAGTCC
1 TTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
*
6868279 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC
65 TCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
6868330 TTTCAGTCCTCAAAGAGCAGGACGCCTTCTACTTTTAAAGCCCACATAAGTTGGTGGCACTTCCT
1 TTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCT
6868395 AGTCCTCAAAGAGCA
60 AGTCCTCAAAGAGCA
6868410 AAACGCTCTC
Statistics
Matches: 376, Mismatches: 25, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
109 6 0.02
110 252 0.67
115 24 0.06
116 54 0.14
117 1 0.00
121 39 0.10
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (109 bp):
TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCT
CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:6868106 original size:27 final size:27
Alignment explanation
Indices: 6868025--6868216 Score: 80
Period size: 27 Copynumber: 7.0 Consensus size: 27
6868015 GACGCCTTTC
6868025 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * ** ** *
6868052 CTAGTCCTCAAAGAGCAGGACGCCTTTT
1 AAAGCCCACACA-AGTTGGTGGCATTTT
6868080 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * ** * *
6868107 CCAGTCCTCAAAGAGCAGGAT-GCCTTTC
1 AAAGCCCACACA-AGTTGG-TGGCATTTT
*
6868135 AAAGCCCACACAAGTTAGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * * ** *
6868162 CTAGTCCTCAAAGAGTAGGACGCCTTTT
1 AAAGCCCACACA-AGTTGGTGGCATTTT
6868190 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
6868217 CCAATCCTCA
Statistics
Matches: 102, Mismatches: 58, Indels: 10
0.60 0.34 0.06
Matches are distributed among these distances:
26 1 0.01
27 50 0.49
28 50 0.49
29 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAGCCCACACAAGTTGGTGGCATTTT
Found at i:6868170 original size:165 final size:164
Alignment explanation
Indices: 6867878--6868409 Score: 701
Period size: 165 Copynumber: 3.1 Consensus size: 164
6867868 CTCCTTTCAC
*
6867878 TTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTCGGTGACACCTT
1 TTTTCTAGTCCTCAAAGAGCAGGACGCC---T--TTT-AAAGCCCACACAAGTTGGTGACA--TT
* **
6867942 TT--AGTCCTCAAATAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
58 TTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCT
6868005 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
122 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
6868048 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGACATTTTCCAGTC
* * *
6868113 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCCTCAAAGAGT
66 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGC
*
6868178 AGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
130 AGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
6868213 TTTTCCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGACATTTTCCAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGACATTTTCCAGTC
6868278 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAA
66 CTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAA
*
6868343 AGAGCAGGACGCCTTCTACTTTTAAAGCCCACATAAGTTGGTGGCA
125 AGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
* *
6868389 CTTCCTAGTCCTCAAAGAGCA
1 TTTTCTAGTCCTCAAAGAGCA
6868410 AAACGCTCTC
Statistics
Matches: 323, Mismatches: 23, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
163 4 0.01
164 4 0.01
165 190 0.59
166 3 0.01
168 1 0.00
170 29 0.09
171 53 0.16
176 39 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (164 bp):
TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGACATTTTCCAGTC
CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCA
GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:6868550 original size:61 final size:61
Alignment explanation
Indices: 6868450--6868668 Score: 277
Period size: 60 Copynumber: 3.6 Consensus size: 61
6868440 AAAAAAAAAA
* * *
6868450 CCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTCCCCTTTT-AAAG
1 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTCAAAG
* * *
6868510 CCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTTTTTGCAAAG
1 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTT-CAAAG
* * * * *
6868571 CCCACACAAGTTGGTGGCAC-TTCCGGTCCTCAAAGGGCAGGACACCTTTTCTTTTCAAAG
1 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAG
6868631 CCCACA-AGAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1 CCCACACA-AGTTGGTGGCACTTTTCAGTCCTCAAAGAG
6868669 TATGACACAC
Statistics
Matches: 136, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
59 6 0.04
60 66 0.49
61 64 0.47
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (61 bp):
CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAG
Found at i:6868664 original size:121 final size:121
Alignment explanation
Indices: 6868450--6868668 Score: 318
Period size: 121 Copynumber: 1.8 Consensus size: 121
6868440 AAAAAAAAAA
* *
6868450 CCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCAC
1 CCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTCCCCTTTTAAAGCCCAC
6868515 ACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
66 ACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
* * * **
6868571 CCCACACAAGTTGGTGGCA-CTTCCGGTCCTCAAAGGGCAGGACACCTT-TTCTTTTCAAAGCCC
1 CCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCTTCCCCTTTT-AAAGCCC
*
6868634 ACA-AGAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
64 ACACA-AGTTGATGGCACTTTTCAGTCCTCAAAGAG
6868669 TATGACACAC
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
120 9 0.10
121 78 0.90
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (121 bp):
CCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTCCCCTTTTAAAGCCCAC
ACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
Found at i:6868756 original size:42 final size:42
Alignment explanation
Indices: 6868690--6868794 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
6868680 TCCTTCCCTT
* *
6868690 CTTTTCTCTTTTATCCTCAAAGAGCAGGACGCACTTT-ATTTTC
1 CTTTT-TCTTTTGTCCTCAAAGAGCAGGACGCA-TTTCATTTCC
* * *
6868733 CTTTTTCTTTTGTCCTCAGAGAGCAGGACGTATTTCGTTTCC
1 CTTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCC
*
6868775 CTTTTTCCTTTGTCCTCAAA
1 CTTTTTCTTTTGTCCTCAAA
6868795 AAACGAGACG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.06
42 46 0.85
43 5 0.09
ACGTcount: A:0.17, C:0.26, G:0.13, T:0.44
Consensus pattern (42 bp):
CTTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCC
Found at i:6868908 original size:40 final size:42
Alignment explanation
Indices: 6868811--6868910 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
6868801 GACGTACTCT
* *
6868811 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * *
6868854 TCTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
6868894 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
6868911 AAAGTGGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 18 0.36
41 5 0.10
42 23 0.46
43 4 0.08
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:6869681 original size:13 final size:13
Alignment explanation
Indices: 6869663--6869689 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6869653 TTATTCAATG
6869663 TATCGATACATTT
1 TATCGATACATTT
6869676 TATCGATACATTT
1 TATCGATACATTT
6869689 T
1 T
6869690 GCATTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TATCGATACATTT
Done.