Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 9 of 54
Found at i:4425160 original size:22 final size:22
Alignment explanation
Indices: 4425126--4425199 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
4425116 CATTATTATT
* * *
4425126 TTTTAATTGTTATTTTATTTTA
1 TTTTATTTATTATTATATTTTA
*
4425148 TTTTATTTATTATCATATCTTTTA
1 TTTTATTTATTAT--TATATTTTA
*
4425172 TTTTA-TTCTT-TTATATTTTA
1 TTTTATTTATTATTATATTTTA
4425192 GTTTTATT
1 -TTTTATT
4425200 CTAAGTTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.19
21 5 0.12
22 13 0.31
23 4 0.10
24 12 0.29
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTATTTATTATTATATTTTA
Found at i:4437424 original size:17 final size:18
Alignment explanation
Indices: 4437404--4437502 Score: 62
Period size: 17 Copynumber: 5.4 Consensus size: 18
4437394 ATTTTTATCA
*
4437404 TTATTATTTTTTA-TTTT
1 TTATTATTATTTATTTTT
4437421 TTATT-TTATTTATTTTT
1 TTATTATTATTTATTTTT
****
4437438 TTATTATCNGGGGTATTTTT
1 TTATTAT--TATTTATTTTT
4437458 GTCT-TTATTATTT-TTTTAAT
1 -T-TATTATTATTTATTTT--T
*
4437478 TTATTTTTATTTATTTTT
1 TTATTATTATTTATTTTT
4437496 TTATTAT
1 TTATTAT
4437503 CATATCTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 19
0.67 0.12 0.21
Matches are distributed among these distances:
16 6 0.10
17 14 0.23
18 13 0.21
19 10 0.16
20 12 0.20
21 5 0.08
22 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.74
Consensus pattern (18 bp):
TTATTATTATTTATTTTT
Found at i:4437424 original size:23 final size:23
Alignment explanation
Indices: 4437395--4437438 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4437385 CAGTTAACTA
4437395 TTTTTATCATTA-TTATTTTTTAT
1 TTTTTAT-ATTATTTATTTTTTAT
*
4437418 TTTTTATTTTATTTATTTTTT
1 TTTTTATATTATTTATTTTTT
4437439 TATTATCNGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATATTATTTATTTTTTAT
Found at i:4437427 original size:12 final size:12
Alignment explanation
Indices: 4437410--4437442 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4437400 ATCATTATTA
4437410 TTTTTTATTT-T
1 TTTTTTATTTAT
4437421 TTATTTTATTTAT
1 TT-TTTTATTTAT
4437434 TTTTTTATT
1 TTTTTTATT
4437443 ATCNGGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 15 0.75
13 3 0.15
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:4437486 original size:58 final size:57
Alignment explanation
Indices: 4437393--4437503 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 57
4437383 TGCAGTTAAC
* *
4437393 TATTTTTATCATTATTATTTTTTATTTTTTATTTTATTTATTTTTTTATTATCNGGGG
1 TATTTTTATCATTATTATTTTTTAATTTATATTTTATTTATTTTTTTATTATC-GGGG
* *
4437451 TATTTTTGTCTTTATTATTTTTTTAATTTAT-TTTTATTTATTTTTTTATTATC
1 TATTTTTATCATTATTA-TTTTTTAATTTATATTTTATTTATTTTTTTATTATC
4437504 ATATCTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 37 0.77
59 11 0.23
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.72
Consensus pattern (57 bp):
TATTTTTATCATTATTATTTTTTAATTTATATTTTATTTATTTTTTTATTATCGGGG
Found at i:4439278 original size:22 final size:22
Alignment explanation
Indices: 4439250--4439292 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4439240 CATTGTGTAT
4439250 TTTTTTTGT-TTATTTTTTACTA
1 TTTTTTTGTATT-TTTTTTACTA
4439272 TTTTTTTGTATTTTTTTTACT
1 TTTTTTTGTATTTTTTTTACT
4439293 GTGGATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTTTTGTATTTTTTTTACTA
Found at i:4444548 original size:18 final size:19
Alignment explanation
Indices: 4444513--4444548 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4444503 GTTTTTCTAT
*
4444513 TTTATTCCTTATCATTTTC
1 TTTATACCTTATCATTTTC
4444532 TTTATACCTTA-CATTTT
1 TTTATACCTTATCATTTT
4444549 AATTCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATACCTTATCATTTTC
Found at i:4444710 original size:8 final size:9
Alignment explanation
Indices: 4444699--4444735 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
4444689 TTTTATCTTT
4444699 TTAT-TATA
1 TTATATATA
4444707 TTATATATA
1 TTATATATA
4444716 -TATATATA
1 TTATATATA
4444724 TATATATATA
1 T-TATATATA
4444734 TT
1 TT
4444736 TGTAAGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.46
9 5 0.19
10 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:4444715 original size:2 final size:2
Alignment explanation
Indices: 4444703--4444734 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4444693 ATCTTTTTAT
4444703 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4444735 TTGTAAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4445012 original size:19 final size:19
Alignment explanation
Indices: 4444990--4445050 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 19
4444980 TATATTTGAA
4444990 TTATCTTTATTTATTATTT
1 TTATCTTTATTTATTATTT
* * *
4445009 TTATCTTTTTTTTTTCTATTG
1 TTATC-TTTATTTAT-TATTT
4445030 TTA--TTTATTTATTATTT
1 TTATCTTTATTTATTATTT
4445047 TTAT
1 TTAT
4445051 TGAATAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
19 5 0.15
20 7 0.21
21 7 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATCTTTATTTATTATTT
Found at i:4445051 original size:13 final size:13
Alignment explanation
Indices: 4444989--4445051 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
4444979 ATATATTTGA
*
4444989 ATTATCTTTATTT
1 ATTATTTTTATTT
4445002 ATTATTTTTATCTT
1 ATTATTTTTAT-TT
*
4445016 -TT-TTTTT-TCT
1 ATTATTTTTATTT
*
4445026 ATTGTTATTTATTT
1 ATTATT-TTTATTT
4445040 ATTATTTTTATT
1 ATTATTTTTATT
4445052 GAATAACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 3 0.07
12 7 0.17
13 21 0.51
14 9 0.22
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:4446015 original size:25 final size:24
Alignment explanation
Indices: 4445986--4446046 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
4445976 CAGTTTCTCT
* *
4445986 CTTCTCATCCCTGCGTCGGTAGCTC
1 CTTCTC-TCCCTGCGACGGCAGCTC
4446011 CTTCTCTTCCCTGCGACGGCAGCTC
1 CTTCTC-TCCCTGCGACGGCAGCTC
*
4446036 CTGCTCTCCCT
1 CTTCTCTCCCT
4446047 ATCTACCGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.07, C:0.44, G:0.18, T:0.31
Consensus pattern (24 bp):
CTTCTCTCCCTGCGACGGCAGCTC
Found at i:4446632 original size:24 final size:24
Alignment explanation
Indices: 4446581--4446659 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
4446571 TTTTTTATAT
* * * *
4446581 ATTTTTCTTTATTTTTTATTTTTT
1 ATTTTTATTCATTTTTTATTTATG
*
4446605 ATTTTTATTCATTTTTTGTTTATG
1 ATTTTTATTCATTTTTTATTTATG
* * *
4446629 ATTTTCTTTTTA-ATTTTA-TTATG
1 ATTTT-TATTCATTTTTTATTTATG
4446652 ATTTTTAT
1 ATTTTTAT
4446660 AGTGTCTACA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
22 2 0.05
23 10 0.23
24 28 0.64
25 4 0.09
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (24 bp):
ATTTTTATTCATTTTTTATTTATG
Found at i:4458009 original size:1 final size:1
Alignment explanation
Indices: 4457949--4457998 Score: 100
Period size: 1 Copynumber: 50.0 Consensus size: 1
4457939 AAAAAAAAAA
4457949 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4457999 GAAATTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4459689 original size:51 final size:51
Alignment explanation
Indices: 4459615--4459721 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
4459605 TATAAAAACA
* * * * *
4459615 TATTACACGCTATGATTAAGTTATTACACGTTATATTGAAAAAAA-TATTGT
1 TATTACACACCATAATTAAGTTATTACACGTCATATT-AAAAAAACTATTAT
* *
4459666 TATTACACACCATAATTAGGTTATTACACGTCATGTTAAAAAAACTATTAT
1 TATTACACACCATAATTAAGTTATTACACGTCATATTAAAAAAACTATTAT
4459717 TATTA
1 TATTA
4459722 TACATCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 7 0.15
51 41 0.85
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (51 bp):
TATTACACACCATAATTAAGTTATTACACGTCATATTAAAAAAACTATTAT
Found at i:4459744 original size:27 final size:30
Alignment explanation
Indices: 4459686--4459746 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4459676 CATAATTAGG
*
4459686 TTATTACACGTCATGTTAAAAAAACTATTA
1 TTATTACACATCATGTTAAAAAAACTATTA
* *
4459716 TTATTATACATCATGTATAAAAATA-TATTA
1 TTATTACACATCATGT-TAAAAAAACTATTA
4459746 T
1 T
4459747 AAGTCATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (30 bp):
TTATTACACATCATGTTAAAAAAACTATTA
Found at i:4460594 original size:29 final size:29
Alignment explanation
Indices: 4460504--4460580 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
4460494 ATGTTAAAAT
4460504 AAAAATATTATCGTTACACGTGATGTTAA
1 AAAAATATTATCGTTACACGTGATGTTAA
4460533 AAAAATATTATCGTTACACGTGATGTTAA
1 AAAAATATTATCGTTACACGTGATGTTAA
*
4460562 AAAAATATTATTGTTACAC
1 AAAAATATTATCGTTACAC
4460581 ATCATATTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (29 bp):
AAAAATATTATCGTTACACGTGATGTTAA
Found at i:4461119 original size:23 final size:23
Alignment explanation
Indices: 4461092--4461139 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4461082 GGATGGTGAG
4461092 AGAGAGAAATTAGAAGCACAAAT
1 AGAGAGAAATTAGAAGCACAAAT
4461115 AGAGAGAAATTAGAAGCACAAAT
1 AGAGAGAAATTAGAAGCACAAAT
4461138 AG
1 AG
4461140 GAAAAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.12
Consensus pattern (23 bp):
AGAGAGAAATTAGAAGCACAAAT
Found at i:4461148 original size:23 final size:23
Alignment explanation
Indices: 4461092--4461145 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
4461082 GGATGGTGAG
*
4461092 AGAGAGAAATTAGAAGCACAAAT
1 AGAGAAAAATTAGAAGCACAAAT
*
4461115 AGAGAGAAATTAGAAGCACAAAT
1 AGAGAAAAATTAGAAGCACAAAT
4461138 AG-GAAAAA
1 AGAGAAAAA
4461146 ATTGTGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.11
Consensus pattern (23 bp):
AGAGAAAAATTAGAAGCACAAAT
Found at i:4466773 original size:119 final size:119
Alignment explanation
Indices: 4466562--4466800 Score: 435
Period size: 119 Copynumber: 2.0 Consensus size: 119
4466552 ATATCTGGAA
* *
4466562 TCAAACTACACGATAAATTTTGCATTTGAACATTTAGTTCATTAGTTAGTACATAATTTTCTTAC
1 TCAAACTACACGATAAATTTTACATTTGAACATTTAATTCATTAGTTAGTACATAATTTTCTTAC
*
4466627 TTAAAGAGTAAGGTTTGAATTTCTCTTTT-TCTAACATATTTCCCTATAAAAATT
66 TTAAAGAGTAAGATTTGAATTTCTCTTTTCT-TAACATATTTCCCTATAAAAATT
4466681 TCAAACTACACGATAAATTTTACATTTGAACATTTAATTCATTAGTTAGTACATAATTTTCTTAC
1 TCAAACTACACGATAAATTTTACATTTGAACATTTAATTCATTAGTTAGTACATAATTTTCTTAC
4466746 TTAAAGAGTAAGATTTGAATTTCTCTTTTCTTAACATATTTCCCTATAAAAATT
66 TTAAAGAGTAAGATTTGAATTTCTCTTTTCTTAACATATTTCCCTATAAAAATT
4466800 T
1 T
4466801 ACCATAAATT
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 115 0.99
120 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (119 bp):
TCAAACTACACGATAAATTTTACATTTGAACATTTAATTCATTAGTTAGTACATAATTTTCTTAC
TTAAAGAGTAAGATTTGAATTTCTCTTTTCTTAACATATTTCCCTATAAAAATT
Found at i:4479240 original size:19 final size:20
Alignment explanation
Indices: 4479202--4479242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4479192 GAAATTTATT
4479202 ATGAACAGTAATGATTTTGAA
1 ATGAACAGTAAT-ATTTTGAA
*
4479223 ATGAATAGTAAT-TTTTGAA
1 ATGAACAGTAATATTTTGAA
4479242 A
1 A
4479243 AAACTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGAACAGTAATATTTTGAA
Found at i:4490071 original size:10 final size:10
Alignment explanation
Indices: 4490058--4490108 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
4490048 TTTAGTCTTA
4490058 TTTAAATAAT
1 TTTAAATAAT
4490068 TTTAAATAATT
1 TTTAAATAA-T
*
4490079 ATTTTAATAATT
1 -TTTAAATAA-T
4490091 TTTAAA-AAT
1 TTTAAATAAT
4490100 TTT-AATAAT
1 TTTAAATAAT
4490109 GTAATTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 2 0.06
9 7 0.19
10 11 0.31
11 6 0.17
12 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTAAATAAT
Found at i:4490080 original size:22 final size:22
Alignment explanation
Indices: 4490055--4490100 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4490045 TATTTTAGTC
4490055 TTATTTAAATAA-TTTTAAATAA
1 TTATTTAAATAATTTTTAAA-AA
*
4490077 TTATTTTAATAATTTTTAAAAA
1 TTATTTAAATAATTTTTAAAAA
4490099 TT
1 TT
4490101 TTAATAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATTTAAATAATTTTTAAAAA
Found at i:4490108 original size:22 final size:22
Alignment explanation
Indices: 4490062--4490108 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
4490052 GTCTTATTTA
*
4490062 AATAATTTTAAATAATTATTTT
1 AATAATTTTAAATAATTATTAT
4490084 AATAATTTTTAAA-AATT-TTAAT
1 AATAA-TTTTAAATAATTATT-AT
4490106 AAT
1 AAT
4490109 GTAATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATAATTTTAAATAATTATTAT
Found at i:4491827 original size:2 final size:2
Alignment explanation
Indices: 4491820--4491853 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4491810 GTTTCTTCCC
4491820 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4491854 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4491888 original size:2 final size:2
Alignment explanation
Indices: 4491881--4491925 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4491871 TCTTCCCTTC
4491881 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4491923 CT C
1 CT C
4491926 CTTTTTTGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4494465 original size:6 final size:7
Alignment explanation
Indices: 4494446--4494470 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4494436 GCCACAAACC
4494446 CCAAAAA
1 CCAAAAA
4494453 CCAAAAA
1 CCAAAAA
4494460 CCAAAAA
1 CCAAAAA
4494467 CCAA
1 CCAA
4494471 CAAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (7 bp):
CCAAAAA
Found at i:4508263 original size:2 final size:2
Alignment explanation
Indices: 4508256--4508283 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4508246 CGATCAGCCA
4508256 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4508284 ACACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4518731 original size:22 final size:22
Alignment explanation
Indices: 4518689--4518731 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4518679 TGGTAGAAAA
* *
4518689 ACCAAGCATGTCAGCAGAACAT
1 ACCAAGCATGTCAACAAAACAT
*
4518711 ACCAAGTATGTCAACAAAACA
1 ACCAAGCATGTCAACAAAACA
4518732 AAATGAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.14, T:0.14
Consensus pattern (22 bp):
ACCAAGCATGTCAACAAAACAT
Found at i:4521562 original size:3 final size:3
Alignment explanation
Indices: 4521556--4521587 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4521546 GTCGTCGTAG
*
4521556 TCT TCT TCT TCT TCT TCT TCT TCA TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4521588 GTCGTATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:4524837 original size:2 final size:2
Alignment explanation
Indices: 4524825--4524888 Score: 89
Period size: 2 Copynumber: 33.0 Consensus size: 2
4524815 TTAACCACTG
*
4524825 AT AT AT GT AT AT AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4524865 AT AT AT AT A- AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT
4524889 NCCATTTATA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
1 3 0.05
2 51 0.91
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4524851 original size:13 final size:13
Alignment explanation
Indices: 4524833--4524887 Score: 83
Period size: 13 Copynumber: 4.0 Consensus size: 13
4524823 TGATATATGT
4524833 ATATATATATATA
1 ATATATATATATA
4524846 ATATATATATATA
1 ATATATATATATA
4524859 TTATATATATATATA
1 --ATATATATATATA
4524874 ATATATATAGTATA
1 ATATATATA-TATA
4524888 TNCCATTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
13 22 0.56
14 4 0.10
15 13 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATATATATATA
Found at i:4524852 original size:15 final size:15
Alignment explanation
Indices: 4524832--4524888 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
4524822 CTGATATATG
4524832 TATATATATATATAA
1 TATATATATATATAA
4524847 TATATATATATAT--
1 TATATATATATATAA
4524860 TATATATATATATAA
1 TATATATATATATAA
4524875 TATATATAGTATAT
1 TATATATA-TATAT
4524889 NCCATTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.33
15 21 0.54
16 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:4525611 original size:95 final size:95
Alignment explanation
Indices: 4525448--4525800 Score: 412
Period size: 95 Copynumber: 3.7 Consensus size: 95
4525438 AGGGACTTCA
* * * * *
4525448 CAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTGAGATAAGG
1 CAATTGAA-TAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGG
* * * *
4525512 TCAGACTAAGGTGGATTCTCTAGTAAATGAT
65 TCAGACCAAGGTGAATCCTCTAGTGAATGAT
*
4525543 CAATTGAATAAATAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGAT-AGAG
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAG-G
*
4525607 TCAGACCAAGGCT-AATCCTCTAGCGAATGCA-
65 TCAGACCAAGG-TGAATCCTCTAGTGAATG-AT
* * * * *
4525638 CAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAGAT
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGGT
* * *
4525702 CAGTCCAAGGTGAATCCTTTGGTGAATG-T
66 CAGACCAAGGTGAATCCTCTAGTGAATGAT
* * * *
4525731 ACAATTGAATAGAGAATTTATCTAACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGG
1 -CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGG
4525796 TCAGA
65 TCAGA
4525801 TCCTCTAGCG
Statistics
Matches: 220, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
93 1 0.00
94 78 0.35
95 137 0.62
96 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (95 bp):
CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGGT
CAGACCAAGGTGAATCCTCTAGTGAATGAT
Found at i:4526242 original size:95 final size:96
Alignment explanation
Indices: 4526079--4526483 Score: 432
Period size: 95 Copynumber: 4.3 Consensus size: 96
4526069 AGGGACTTCA
* * * * *
4526079 CAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTAAGATAAGG
1 CAATTGAA-TAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCAAGATAAGG
* * **
4526143 TCAGACTAAGGTGGATTCTCTAGTAAATG-AT
65 TCAGACCAAGGTGGATCCTCTAGCGAATGCAT
* * *
4526174 CAATTGAATAAATAACTTATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGAT-AGAG
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCAAGATAAG-G
*
4526238 TCAGACCAAGGCT-AATCCTCTAGCGAATGCA-
65 TCAGACCAAGG-TGGATCCTCTAGCGAATGCAT
* * * * * *
4526269 CAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAGAT
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCAAGATAAGGT
* * * *
4526333 CA-ATCCAAGGTGGATCCTTTGGTGAATGTA-
66 CAGA-CCAAGGTGGATCCTCTAGCGAATGCAT
* * *
4526363 CAATTGAATAGAGAACTTATCTAACTTGAGACTTCTCGTGAGAGATACCATGATCAAGATAAGGT
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCAAGATAAGGT
* * ** *
4526428 CAGATCAGGGCAGATCCTCTAGCGACTGCAT
66 CAGACCAAGGTGGATCCTCTAGCGAATGCAT
4526459 -AATTGAATAAAGAACTTATCTAACT
1 CAATTGAATAAAGAACTTATCTAACT
4526484 CTAAACTTTA
Statistics
Matches: 258, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
93 2 0.01
94 77 0.30
95 174 0.67
96 5 0.02
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (96 bp):
CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCAAGATAAGGT
CAGACCAAGGTGGATCCTCTAGCGAATGCAT
Found at i:4526447 original size:189 final size:190
Alignment explanation
Indices: 4526077--4526484 Score: 513
Period size: 189 Copynumber: 2.2 Consensus size: 190
4526067 TTAGGGACTT
* * * * *
4526077 CACAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTAAGATAA
1 CACAATTGAA-TAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCAAGATAA
* * * *
4526141 GGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACTTATCTAACTTGAGAC
65 GATCAGACCAAGGTGGATCCTCTAGTAAATGATCAATTGAATAAAGAACTTATCTAACTTGAGAC
* *
4526206 TTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCCTCTAGCGAATG
130 TTCTCATGAGAGATACCACGATCAAGATAGAGTCAGACCAAGGCTAATCCTCTAGCGAATG
* * *
4526267 CACAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAG
1 CACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCAAGATAAG
* * * *
4526331 ATCA-ATCCAAGGTGGATCCTTTGGTGAATG-TACAATTGAATAGAGAACTTATCTAACTTGAGA
66 ATCAGA-CCAAGGTGGATCCTCTAGTAAATGAT-CAATTGAATAAAGAACTTATCTAACTTGAGA
* * * * *
4526394 CTTCTCGTGAGAGATACCATGATCAAGATA-AGGTCAGATCAGGGC-AGATCCTCTAGCGACTG
129 CTTCTCATGAGAGATACCACGATCAAGATAGA-GTCAGACCAAGGCTA-ATCCTCTAGCGAATG
*
4526456 CATAATTGAATAAAGAACTTATCTAACTC
1 CACAATTGAATAAAGAACTTATCTAACTC
4526485 TAAACTTTAC
Statistics
Matches: 188, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
188 4 0.02
189 158 0.84
190 24 0.13
191 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (190 bp):
CACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCAAGATAAG
ATCAGACCAAGGTGGATCCTCTAGTAAATGATCAATTGAATAAAGAACTTATCTAACTTGAGACT
TCTCATGAGAGATACCACGATCAAGATAGAGTCAGACCAAGGCTAATCCTCTAGCGAATG
Found at i:4526679 original size:95 final size:95
Alignment explanation
Indices: 4526493--4526707 Score: 213
Period size: 95 Copynumber: 2.3 Consensus size: 95
4526483 TCTAAACTTT
* * * **
4526493 ACAATTGAATAAAAAACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAG
1 ACAATTGAATAAAAAACTTATCTAAATCAAGACTTCTCATAAGAGATACCACAATCGAGATAAAG
* **
4526558 TTAAACCAACGTGAATCTTCTAACAAATAC
66 GTAAACCAACAAGAATCTTCTAACAAATAC
* * * *
4526588 ACAATTAAATAAAAAACTTATCTAAATCGAGA-TTGCTCATAATAGATACCACAATCGAGA-AAG
1 ACAATTGAATAAAAAACTTATCTAAATCAAGACTT-CTCATAAGAGATACCACAATCGAGATAAA
* * *
4526651 GGTAAGGCCAACAAGAATCATT-TGACAAATGC
65 GGTAA-ACCAACAAGAATC-TTCTAACAAATAC
* *
4526683 -CTAATTGAATAAAGAATTTATCTAA
1 AC-AATTGAATAAAAAACTTATCTAA
4526708 TTAGGGACTT
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
94 9 0.09
95 87 0.89
96 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (95 bp):
ACAATTGAATAAAAAACTTATCTAAATCAAGACTTCTCATAAGAGATACCACAATCGAGATAAAG
GTAAACCAACAAGAATCTTCTAACAAATAC
Found at i:4526883 original size:95 final size:96
Alignment explanation
Indices: 4526720--4527124 Score: 439
Period size: 95 Copynumber: 4.3 Consensus size: 96
4526710 AGGGACTTCA
* * * * *
4526720 CAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTGAGATAAGG
1 CAATTGAA-TAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGG
* * *
4526784 TCAGACTAAGGTGGATTCTCTAGTAAATG-AT
65 TCAGACCAAGGTGGATCCTCTAGCAAATGCAT
* *
4526815 CAATTGAATAAATAACTTATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGAT-AGAG
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAG-G
*
4526879 TCAGACCAAGGCT-AATCCTCTAGCAAATGCA-
65 TCAGACCAAGG-TGGATCCTCTAGCAAATGCAT
* * * * *
4526910 CAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAGAT
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGGT
* * * * ** *
4526974 TAGTCCAAGGTGGATCCTTTGGTGAATGTA-
66 CAGACCAAGGTGGATCCTCTAGCAAATGCAT
* * *
4527004 CAATTGAATAGAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGT
1 CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGGT
* * ** * *
4527069 CAGATCAGGGCAGATCCTCTAGCGACTGCAT
66 CAGACCAAGGTGGATCCTCTAGCAAATGCAT
4527100 -AATTGAATAAAGAACTTATCTAACT
1 CAATTGAATAAAGAACTTATCTAACT
4527125 CTAAACTTTA
Statistics
Matches: 258, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.00
94 76 0.29
95 177 0.69
96 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (96 bp):
CAATTGAATAAAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAAGGT
CAGACCAAGGTGGATCCTCTAGCAAATGCAT
Found at i:4526908 original size:226 final size:224
Alignment explanation
Indices: 4526267--4526935 Score: 601
Period size: 226 Copynumber: 3.0 Consensus size: 224
4526257 CTAGCGAATG
* * * * *
4526267 CACAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAG
1 CACAATTGAATAAAAAACTTATCTAACTTGAGACTTCTAATGAAAGATACCATGATCGAGATAAG
* * * * * * *
4526331 ATCAATCCAAGGTGGATCCTTTGGTGAATG-TACAATTGAATAGAGAACTTATCTAACTTGAGAC
66 GTCAA-CCAAGGTGGATTCTCTAGTAAATGAT-CAATTGAATAAAAAACTTATCTAACTTGAGAC
* * * * * * * *
4526395 TTCTCGTGAGAGATACCATGATCAAGATA-AGGTCAGATCAGGGCAGATCCTCTAGCGACTGCAT
129 TTCTCATGAGAGATACCACGATCGAGATAGA-GTCAGACCAAGGCA-ATCCTCTAGCAAATGCCT
4526459 AATTGAATAAAGAACTTATCTAACTCTAAACTT
192 AATTGAATAAAGAACTTATCTAACTCTAAACTT
* * * * *
4526492 TACAATTGAATAAAAAACTTATCTAA-TTCAAGACTTCTCATGAGAGATATCATGATCGAGATAA
1 CACAATTGAATAAAAAACTTATCTAACTT-GAGACTTCTAATGAAAGATACCATGATCGAGAT-A
* * * * ** * * * *
4526556 AGTTAAACCAACGT-GAATCTTCTAACAAAT-ACACAATTAAATAAAAAACTTATCTAAATCGAG
64 AGGTCAACCAAGGTGGATTC-TCTAGTAAATGA-TCAATTGAATAAAAAACTTATCTAACTTGAG
* * * * * * * * * *
4526619 A-TTGCTCATAATAGATACCACAATCGAGAAAGGGTAAGGCCAACAAG-AATCAT-TTGACAAAT
127 ACTT-CTCATGAGAGATACCACGATCGAGATAGAGTCAGACC-A-AGGCAATCCTCTAG-CAAAT
* *
4526681 GCCTAATTGAATAAAGAATTTATCTAA-T-TAGGGACTT
188 GCCTAATTGAATAAAGAACTTATCTAACTCTA--AACTT
* * *
4526718 CACAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTGAGATAA
1 CACAATTGAA-TAAAAAACTTATCTAACTTGAGACTTCTAATGAAAGATACCATGATCGAGATAA
* *
4526782 GGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACTTATCTAACTTGAGAC
65 GGTCA-ACCAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAAAAACTTATCTAACTTGAGAC
*
4526847 TTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCCTCTAGCAAATGCAC-
129 TTCTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGC-AATCCTCTAGCAAATGC-CT
4526911 AATTGAATAAAGAACTTAT-TAACTC
192 AATTGAATAAAGAACTTATCTAACTC
4526936 GAGATTTCTT
Statistics
Matches: 343, Mismatches: 76, Indels: 48
0.73 0.16 0.10
Matches are distributed among these distances:
224 4 0.01
225 40 0.12
226 278 0.81
227 20 0.06
228 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (224 bp):
CACAATTGAATAAAAAACTTATCTAACTTGAGACTTCTAATGAAAGATACCATGATCGAGATAAG
GTCAACCAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAAAAACTTATCTAACTTGAGACTT
CTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCAATCCTCTAGCAAATGCCTAATT
GAATAAAGAACTTATCTAACTCTAAACTT
Found at i:4527088 original size:189 final size:190
Alignment explanation
Indices: 4526718--4527125 Score: 520
Period size: 189 Copynumber: 2.2 Consensus size: 190
4526708 TTAGGGACTT
* * * * *
4526718 CACAATT-AACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATACCATGATTGAGATAA
1 CACAATTGAA-TAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCGAGATAA
* * * *
4526782 GGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACTTATCTAACTTGAGAC
65 GATCAGACCAAGGTGGATCCTCTAGTAAATGATCAATTGAATAAAGAACTTATCTAACTTGAGAC
* *
4526847 TTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCCTCTAGCAAATG
130 TTCTCATGAGAGATACCACGATCAAGATAGAGTCAGACCAAGGCTAATCCTCTAGCAAATG
* *
4526908 CACAATTGAATAAAGAACTTAT-TAACTCGAGATTTCTTATGAAAGATACCACGATCGAGATAAG
1 CACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCGAGATAAG
* * * * * *
4526972 ATTAGTCCAAGGTGGATCCTTTGGTGAATG-TACAATTGAATAGAGAACTTATCTAACTTGAGAC
66 ATCAGACCAAGGTGGATCCTCTAGTAAATGAT-CAATTGAATAAAGAACTTATCTAACTTGAGAC
* * * * *
4527036 TTCTCATGAGAGATACCATGATCAAGATA-AGGTCAGATCAGGGC-AGATCCTCTAGCGACTG
130 TTCTCATGAGAGATACCACGATCAAGATAGA-GTCAGACCAAGGCTA-ATCCTCTAGCAAATG
*
4527097 CATAATTGAATAAAGAACTTATCTAACTC
1 CACAATTGAATAAAGAACTTATCTAACTC
4527126 TAAACTTTAC
Statistics
Matches: 188, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
188 3 0.02
189 159 0.85
190 24 0.13
191 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (190 bp):
CACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTAATGAAAGATACCACGATCGAGATAAG
ATCAGACCAAGGTGGATCCTCTAGTAAATGATCAATTGAATAAAGAACTTATCTAACTTGAGACT
TCTCATGAGAGATACCACGATCAAGATAGAGTCAGACCAAGGCTAATCCTCTAGCAAATG
Found at i:4527236 original size:131 final size:130
Alignment explanation
Indices: 4527002--4527414 Score: 493
Period size: 131 Copynumber: 3.2 Consensus size: 130
4526992 TTGGTGAATG
* * * *
4527002 TACAATTGAATAGAGAACTTATCTAACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAG
1 TACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAAG
* * * * *
4527067 GTCAGATCAGGGCAGATCCTCTAGCGACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACT
66 GTTAGATCAAGGCGGATCCTCTAGCGAATGCACAATTGAATAAAGAACTTATCTAACTC-AAACT
4527132 T
130 T
*
4527133 TACAATTGAATAAAAAACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAAG
1 TACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAAG
* * * * * *
4527198 ATTAGATTAAGGTGGATCCTCTAGTGAATGCACAATTGAATAAAGAACTTATCTAATTCGACACT
66 GTTAGATCAAGGCGGATCCTCTAGCGAATGCACAATTGAATAAAGAACTTATCTAACTC-AAACT
4527263 T
130 T
* * * * * * * *
4527264 TACGATTAAATAAAGAACTTATCTAACTCGATACTTCTCATAAGAGATACCGCAATTGATATAAG
1 TACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAAG
* * * * * * *
4527329 GTTAGACCAAGGCGAATCCTTTGGCGAATGTACAATTGAATAAAAAATTTATCTAACTCAAGACT
66 GTTAGATCAAGGCGGATCCTCTAGCGAATGCACAATTGAATAAAGAACTTATCTAACTCAA-ACT
4527394 T
130 T
* * *
4527395 CATAATTGAGTAAAGAACTT
1 TACAATTGAATAAAGAACTT
4527415 TTTTTTTTGC
Statistics
Matches: 237, Mismatches: 44, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
130 1 0.00
131 236 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (130 bp):
TACAATTGAATAAAGAACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAAG
GTTAGATCAAGGCGGATCCTCTAGCGAATGCACAATTGAATAAAGAACTTATCTAACTCAAACTT
Found at i:4527253 original size:641 final size:641
Alignment explanation
Indices: 4525235--4527196 Score: 3719
Period size: 641 Copynumber: 3.1 Consensus size: 641
4525225 ATGGTATTAG
*
4525235 AACTTATCTAATTCAAGACCTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
1 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
4525300 ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
66 ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
4525365 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
131 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
4525430 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
196 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
4525495 CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
261 CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
*
4525560 TATCTAACTTGAGACTTCTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
326 TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
4525625 TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
391 TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
* *
4525690 TCGAGATAAGATCAGTCCAAGGTGAATCCTTTGGTGAATGTACAATTGAATAGAGAATTTATCTA
456 TCGAGATAAGATCAGTCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
4525755 ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAA-G---G-T-----CAGATCCTCTAGC
521 ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
4525810 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
586 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
4525866 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
1 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
4525931 ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
66 ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
4525996 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
131 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
4526061 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
196 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
*
4526126 CCATGATTAAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
261 CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
4526191 TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
326 TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
4526256 TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
391 TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
*
4526321 TCGAGATAAGATCAATCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
456 TCGAGATAAGATCAGTCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
*
4526386 ACTTGAGACTTCTCGTGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
521 ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
4526451 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
586 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
4526507 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
1 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
* *
4526572 ATCTTCTAACAAATACACAATTAAATAAAAAACTTATCTAAATCGAGATTGCTCATAATAGATAC
66 ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
4526637 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
131 CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
4526702 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
196 ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
4526767 CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
261 CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
4526832 TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
326 TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
*
4526897 TCTAGCAAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
391 TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
*
4526962 TCGAGATAAGATTAGTCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
456 TCGAGATAAGATCAGTCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
4527027 ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
521 ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
4527092 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
586 GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
* * * *
4527148 AACTTATCTAACTCGAGACTTCTCATGAGAGATACCACGATCGAGATAA
1 AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAA
4527197 GATTAGATTA
Statistics
Matches: 1303, Mismatches: 18, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
631 552 0.42
632 1 0.00
635 1 0.00
636 1 0.00
641 748 0.57
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (641 bp):
AACTTATCTAATTCAAGACTTCTCATGAGAGATATCATGATCGAGATAAAGTTAAACCAACGTGA
ATCTTCTAACAAATACACAATTAAATAAACAACTTATCTAACTCGAGATTGCTCATAATAGATAC
CACAATCGAGAAAGGGTAAGGCCAACAAGAATCATTTGACAAATGCCTAATTGAATAAAGAATTT
ATCTAATTAGGGACTTCACAATTAACTAAATAACTTATCTAACTTGAGACTTCTAATGACAGATA
CCATGATTGAGATAAGGTCAGACTAAGGTGGATTCTCTAGTAAATGATCAATTGAATAAATAACT
TATCTAACTTGAGACTTTTCATGAGAGATACCACGATCGAGATAGAGTCAGACCAAGGCTAATCC
TCTAGCGAATGCACAATTGAATAAAGAACTTATTAACTCGAGATTTCTTATGAAAGATACCACGA
TCGAGATAAGATCAGTCCAAGGTGGATCCTTTGGTGAATGTACAATTGAATAGAGAACTTATCTA
ACTTGAGACTTCTCATGAGAGATACCATGATCAAGATAAGGTCAGATCAGGGCAGATCCTCTAGC
GACTGCATAATTGAATAAAGAACTTATCTAACTCTAAACTTTACAATTGAATAAAA
Found at i:4531895 original size:21 final size:22
Alignment explanation
Indices: 4531867--4531964 Score: 126
Period size: 22 Copynumber: 4.5 Consensus size: 22
4531857 TGCGTTTCTA
* *
4531867 GTTTTTAGGTATTGCGTGATT-
1 GTTTTTAGGCATTGTGTGATTG
* *
4531888 GATTTTAGGTATTGTGTGATTG
1 GTTTTTAGGCATTGTGTGATTG
4531910 GTTTTTAGGCATTGTGTGATTG
1 GTTTTTAGGCATTGTGTGATTG
* *
4531932 GTTTTTAGGCATTGTGTAACTG
1 GTTTTTAGGCATTGTGTGATTG
*
4531954 ATTTTTAGGCA
1 GTTTTTAGGCA
4531965 ATGCCTAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
21 19 0.28
22 50 0.72
ACGTcount: A:0.17, C:0.05, G:0.29, T:0.49
Consensus pattern (22 bp):
GTTTTTAGGCATTGTGTGATTG
Found at i:4532089 original size:22 final size:22
Alignment explanation
Indices: 4532061--4532125 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
4532051 CCATATTATC
*
4532061 CAGTCACGTAATACTTAAAAAT
1 CAGTCACGTAATGCTTAAAAAT
*
4532083 CAGTCACATAATGCTTAAAAAT
1 CAGTCACGTAATGCTTAAAAAT
* *
4532105 TAGTAACGTAATGCTTAAAAA
1 CAGTCACGTAATGCTTAAAAA
4532126 CTAACCACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (22 bp):
CAGTCACGTAATGCTTAAAAAT
Found at i:4532241 original size:22 final size:22
Alignment explanation
Indices: 4532185--4532243 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
4532175 AAAACTATTG
*
4532185 AATTTCATTTAACAAAATCAAC
1 AATTTCATTTAACAATATCAAC
*
4532207 AATTTCA---AACAATA-CACC
1 AATTTCATTTAACAATATCAAC
4532225 ATATTTCATTTAACAATAT
1 A-ATTTCATTTAACAATAT
4532244 AATTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
22 14 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (22 bp):
AATTTCATTTAACAATATCAAC
Found at i:4533820 original size:2 final size:2
Alignment explanation
Indices: 4533813--4533838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4533803 TTAGTAATGA
4533813 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4533839 TCCTACTTCC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4536439 original size:57 final size:59
Alignment explanation
Indices: 4536346--4536462 Score: 193
Period size: 57 Copynumber: 2.0 Consensus size: 59
4536336 ACTAGCTTTT
*
4536346 CAACATGTGTTTAAAGGGTACTCTTTTTTTTTTACTTAATTAAATTTGGTTATTTTATTA
1 CAACATGTGTTTAAAGGGTAC-CTTTTTTTTTTACTTAATCAAATTTGGTTATTTTATTA
*
4536406 CAACATGTGTTTAACGGGTA-C-TTTTTTTTTACTTAATCAAATTTGGTTATTTTATTA
1 CAACATGTGTTTAAAGGGTACCTTTTTTTTTTACTTAATCAAATTTGGTTATTTTATTA
4536463 AATATAACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
57 35 0.64
58 1 0.02
60 19 0.35
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.52
Consensus pattern (59 bp):
CAACATGTGTTTAAAGGGTACCTTTTTTTTTTACTTAATCAAATTTGGTTATTTTATTA
Found at i:4538745 original size:13 final size:13
Alignment explanation
Indices: 4538727--4538753 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4538717 CTCATTGATC
4538727 CTAAAGGTTCCAT
1 CTAAAGGTTCCAT
4538740 CTAAAGGTTCCAT
1 CTAAAGGTTCCAT
4538753 C
1 C
4538754 AATTCCTTAG
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:0.26, G:0.15, T:0.30
Consensus pattern (13 bp):
CTAAAGGTTCCAT
Found at i:4544142 original size:6 final size:6
Alignment explanation
Indices: 4544131--4544155 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4544121 CACAATATAA
4544131 TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT T
4544156 TATAGTCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:4554990 original size:37 final size:37
Alignment explanation
Indices: 4554949--4555022 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
4554939 GAAGAAGTTT
*
4554949 AATTAA-GTCAGTTT-TATTATCACGTTTAAGTTAGTGG
1 AATTAAGGTCAGTTTAT-TTATC-CATTTAAGTTAGTGG
4554986 AATTAAGGTCAGTTTATTTATCCATTTAAGTTAGTGG
1 AATTAAGGTCAGTTTATTTATCCATTTAAGTTAGTGG
4555023 GGTTAGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 20 0.59
38 13 0.38
39 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (37 bp):
AATTAAGGTCAGTTTATTTATCCATTTAAGTTAGTGG
Found at i:4564813 original size:15 final size:15
Alignment explanation
Indices: 4564793--4564825 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4564783 TATTTATAAA
4564793 TTTAAAAATTAATAT
1 TTTAAAAATTAATAT
4564808 TTT-AAAATTAATAT
1 TTTAAAAATTAATAT
4564822 TTTA
1 TTTA
4564826 TATATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAAAATTAATAT
Found at i:4564873 original size:24 final size:23
Alignment explanation
Indices: 4564842--4564893 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4564832 ATTTAAACAT
4564842 TATT-AATATTAATATGGTAAAAA
1 TATTAAATATTAATAT-GTAAAAA
* *
4564865 TATTAAATATTAATATTTTAAAA
1 TATTAAATATTAATATGTAAAAA
4564888 TATTAA
1 TATTAA
4564894 TGTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TATTAAATATTAATATGTAAAAA
Found at i:4564932 original size:16 final size:16
Alignment explanation
Indices: 4564800--4564934 Score: 69
Period size: 16 Copynumber: 8.9 Consensus size: 16
4564790 AAATTTAAAA
4564800 ATTAATATTTTAA-A-
1 ATTAATATTTTAATAT
4564814 ATTAATATTTT-ATAT
1 ATTAATATTTTAATAT
* *
4564829 A-T-A-ATTTAAACATT
1 ATTAATATTTTAATA-T
4564843 ATTAATA--TTAATAT
1 ATTAATATTTTAATAT
* * * *
4564857 GGTAAAAATATTAA-AT
1 -ATTAATATTTTAATAT
*
4564873 ATTAATATTTTAAAAT
1 ATTAATATTTTAATAT
* *
4564889 ATTAATGTTTT-ATTT
1 ATTAATATTTTAATAT
4564904 ATTAA-ATTATTAATAT
1 ATTAATATT-TTAATAT
4564920 ATTAA-ATTTTTAATA
1 ATTAATA-TTTTAATA
4564935 AACATAAATA
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
12 4 0.04
13 4 0.04
14 18 0.20
15 28 0.31
16 30 0.33
17 7 0.08
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTAATATTTTAATAT
Found at i:4564952 original size:7 final size:7
Alignment explanation
Indices: 4564940--4564977 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
4564930 TAATAAACAT
4564940 AAATAAA
1 AAATAAA
4564947 AAATAAA
1 AAATAAA
*
4564954 AAAT-GA
1 AAATAAA
4564960 AAATAAA
1 AAATAAA
4564967 AAATAAA
1 AAATAAA
4564974 AAAT
1 AAAT
4564978 TTTACTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:4564964 original size:13 final size:12
Alignment explanation
Indices: 4564931--4564974 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
4564921 TTAAATTTTT
*
4564931 AATAAACATAAAT
1 AATAAA-ATAAAA
4564944 AA-AAAATAAAA
1 AATAAAATAAAA
4564955 AATGAAAATAAAA
1 AAT-AAAATAAAA
4564968 AATAAAA
1 AATAAAA
4564975 AATTTTACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 7 0.25
12 7 0.25
13 14 0.50
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:4564965 original size:20 final size:20
Alignment explanation
Indices: 4564940--4564977 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4564930 TAATAAACAT
4564940 AAATAAAAAATAAAAAATGA
1 AAATAAAAAATAAAAAATGA
4564960 AAATAAAAAATAAAAAAT
1 AAATAAAAAATAAAAAAT
4564978 TTTACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (20 bp):
AAATAAAAAATAAAAAATGA
Found at i:4565273 original size:25 final size:25
Alignment explanation
Indices: 4565245--4565379 Score: 69
Period size: 26 Copynumber: 5.2 Consensus size: 25
4565235 TAATGATTAA
*
4565245 ATTATAAAAATATTAATATTAAAAT
1 ATTATAAAATTATTAATATTAAAAT
* * *
4565270 ATTA-ATAATTTATAAATTATTAATAT
1 ATTATA-AAATTATTAA-TATTAAAAT
* * * * * *
4565296 TTTAAAATAAATAATCATATTAAAGT
1 ATTATAA-AATTATTAATATTAAAAT
*
4565322 TTTAATTAAAATTATTAATATTTAATAA-
1 ATT-A-TAAAATTATTAATA-TTAA-AAT
4565350 ATTAT-AAATTATTAATATTTTAAAAT
1 ATTATAAAATTATTAATA--TTAAAAT
4565376 ATTA
1 ATTA
4565380 ATGTTTAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
24 1 0.01
25 25 0.30
26 32 0.39
27 15 0.18
28 8 0.10
29 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (25 bp):
ATTATAAAATTATTAATATTAAAAT
Found at i:4565290 original size:18 final size:18
Alignment explanation
Indices: 4565264--4565381 Score: 68
Period size: 18 Copynumber: 6.7 Consensus size: 18
4565254 ATATTAATAT
*
4565264 TAAAATATTAATAATTTA
1 TAAATTATTAATAATTTA
*
4565282 TAAATTATTAATATTTTA
1 TAAATTATTAATAATTTA
* * *
4565300 -AAATAAATAATCATATTA
1 TAAATTATTAATAAT-TTA
* *
4565318 -AAGTT-TTAATTAAAATTA
1 TAAATTATTAA-T-AATTTA
* *
4565336 TTAA-TATTTAATAAATTA
1 TAAATTA-TTAATAATTTA
4565354 TAAATTATTAAT-ATTT-
1 TAAATTATTAATAATTTA
*
4565370 TAAAATATTAAT
1 TAAATTATTAAT
4565382 GTTTAAATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
16 11 0.14
17 16 0.21
18 41 0.53
19 5 0.06
20 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TAAATTATTAATAATTTA
Found at i:4565387 original size:23 final size:23
Alignment explanation
Indices: 4565361--4565404 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4565351 TTATAAATTA
*
4565361 TTAATATTTTAAAAT-ATTAATGT
1 TTAA-ATTATAAAATAATTAATGT
*
4565384 TTAAATTATAAATTAATTAAT
1 TTAAATTATAAAATAATTAAT
4565405 ATTAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAATTATAAAATAATTAATGT
Found at i:4565522 original size:18 final size:18
Alignment explanation
Indices: 4565501--4565542 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4565491 TTACCAACCA
* *
4565501 AATACTGCAATAAGTTAT
1 AATAATGCAATAAGGTAT
*
4565519 AATAATTCAATAAGGTAT
1 AATAATGCAATAAGGTAT
4565537 AATAAT
1 AATAAT
4565543 TATTCCTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (18 bp):
AATAATGCAATAAGGTAT
Found at i:4565543 original size:18 final size:18
Alignment explanation
Indices: 4565508--4565543 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4565498 CCAAATACTG
*
4565508 CAATAAGTTATAATAATT
1 CAATAAGGTATAATAATT
4565526 CAATAAGGTATAATAATT
1 CAATAAGGTATAATAATT
4565544 ATTCCTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (18 bp):
CAATAAGGTATAATAATT
Found at i:4573751 original size:21 final size:21
Alignment explanation
Indices: 4573725--4573767 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4573715 GTGGTAAGTA
4573725 AAGCATTTGTCAAAGGAGAAG
1 AAGCATTTGTCAAAGGAGAAG
4573746 AAGCATTTGTCAAAGGAGAAG
1 AAGCATTTGTCAAAGGAGAAG
4573767 A
1 A
4573768 GATAAGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (21 bp):
AAGCATTTGTCAAAGGAGAAG
Found at i:4577344 original size:21 final size:21
Alignment explanation
Indices: 4577302--4577384 Score: 53
Period size: 21 Copynumber: 3.8 Consensus size: 21
4577292 TCATAGTTAT
* *
4577302 ATTGTTACACGTTATGGT-TAA
1 ATTGTTACACGTCAT-ATATAA
4577323 ATTGTTACACGTCATATATAAAA
1 ATTGTTACACGTCATATAT--AA
*
4577346 ATATGTTACAAGTCATA-ATTAA
1 AT-TGTTACACGTCATATA-TAA
* * *
4577368 GTTATTACATGTCATAT
1 ATTGTTACACGTCATAT
4577385 TGAAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.02
21 27 0.54
22 3 0.06
23 5 0.10
24 14 0.28
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTGTTACACGTCATATATAA
Found at i:4579480 original size:22 final size:22
Alignment explanation
Indices: 4579435--4579480 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4579425 AAATAACCAA
* *
4579435 ATTCAAATATTTGATTTGACAT
1 ATTCAAATATTTGATTTAAAAT
4579457 ATTCAAATATTT-ATTATAAAAT
1 ATTCAAATATTTGATT-TAAAAT
4579479 AT
1 AT
4579481 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTCAAATATTTGATTTAAAAT
Found at i:4580582 original size:149 final size:151
Alignment explanation
Indices: 4580384--4580691 Score: 401
Period size: 149 Copynumber: 2.1 Consensus size: 151
4580374 TAAAACTTAC
* * * *
4580384 ATAAATTTGCAAAACACTATCAAAACCGAATCTTAGTAGTAAAGAACTATCTGTTAATTATCCGA
1 ATAAAATTGCAAAACACTATCAAAACCGAATCTTAATAGTAAAGAACTATATGTTAATTATCCAA
* * * * *
4580449 ATCTATTAAATACATGTTTAAGTTGGCAATATTGGCAAAGACTTAGAGTATTTC-CAATCCT-TC
66 ATCCATTAAATACATATTTAAGTTGGCAAAATAGGCAAAAACTTAGAGTATTTCTC-ATCCTCT-
*
4580512 TATGAGTTCAATCCCTACTA-T-
129 TATGAGTTCAATCCCCACTAGTA
* * *
4580533 ATAAAATTGCAAAACACTCTCAAAACTGAAT-TCTAATAGTAAAGAACTATATGTTAATTATCTA
1 ATAAAATTGCAAAACACTATCAAAACCGAATCT-TAATAGTAAAGAACTATATGTTAATTATCCA
* * * *
4580597 AATCCATTAAATACCTATTTAAGTTGGCAAAATAGGTAAAAACTTGGAGTGTTTCTCATCCTCTT
65 AATCCATTAAATACATATTTAAGTTGGCAAAATAGGCAAAAACTTAGAGTATTTCTCATCCTCTT
4580662 ATGAGTTCAATCCCCACTAGTA
130 ATGAGTTCAATCCCCACTAGTA
4580684 ATAAAATT
1 ATAAAATT
4580692 TTACATTTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
148 1 0.01
149 125 0.91
150 3 0.02
151 8 0.06
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (151 bp):
ATAAAATTGCAAAACACTATCAAAACCGAATCTTAATAGTAAAGAACTATATGTTAATTATCCAA
ATCCATTAAATACATATTTAAGTTGGCAAAATAGGCAAAAACTTAGAGTATTTCTCATCCTCTTA
TGAGTTCAATCCCCACTAGTA
Found at i:4581699 original size:13 final size:14
Alignment explanation
Indices: 4581648--4581714 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 14
4581638 TTTTTTTCAT
**
4581648 TTATTATTATTTAA
1 TTATTATTATTTTC
4581662 TTATTATT-TTTT-
1 TTATTATTATTTTC
4581674 TTATTATCATATTTTC
1 TTATTAT--TATTTTC
*
4581690 -TATTCTTA-TTTC
1 TTATTATTATTTTC
4581702 TTATTATTATTTT
1 TTATTATTATTTT
4581715 TTCATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 11 0.25
13 12 0.27
14 12 0.27
15 9 0.20
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATTATTTTC
Found at i:4581839 original size:15 final size:17
Alignment explanation
Indices: 4581821--4581858 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
4581811 TTTATTACAC
4581821 TATTTTCATT-TT-TTA
1 TATTTTCATTATTATTA
*
4581836 TATTTTTATTATTATTA
1 TATTTTCATTATTATTA
4581853 TATTTT
1 TATTTT
4581859 TTCGTAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 9 0.45
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTCATTATTATTA
Found at i:4581855 original size:17 final size:15
Alignment explanation
Indices: 4581821--4581859 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
4581811 TTTATTACAC
*
4581821 TATTTTCATTTTTTA
1 TATTTTTATTTTTTA
4581836 TATTTTTATTATTATTA
1 TATTTTTATT-TT-TTA
4581853 TATTTTT
1 TATTTTT
4581860 TCGTAAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 2 0.10
17 10 0.48
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTATTTTTTA
Found at i:4582131 original size:16 final size:15
Alignment explanation
Indices: 4582112--4582162 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
4582102 ATATATTTGA
4582112 ATTATTATATTTTTTT
1 ATTATTAT-TTTTTTT
*
4582128 ATTATT-TTTTTATCT
1 ATTATTATTTTT-TTT
4582143 ATTATTATTTATTTTT
1 ATTATTATTT-TTTTT
4582159 ATTA
1 ATTA
4582163 AGTAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
16 15 0.50
17 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTATTATTTTTTTT
Found at i:4582140 original size:21 final size:22
Alignment explanation
Indices: 4582116--4582158 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
4582106 ATTTGAATTA
* *
4582116 TTATATTTTTTTA-TTATTTTT
1 TTATATATTATTATTTATTTTT
*
4582137 TTATCTATTATTATTTATTTTT
1 TTATATATTATTATTTATTTTT
4582159 ATTAAGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTATATATTATTATTTATTTTT
Found at i:4583686 original size:3 final size:3
Alignment explanation
Indices: 4583680--4583725 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
4583670 ATTTATTTAC
4583680 TAT TAT TAT T-T TAT T-T TAT TAT TAT TAT TATT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
4583725 T
1 T
4583726 TTTTAGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:4583690 original size:13 final size:13
Alignment explanation
Indices: 4583672--4583726 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 13
4583662 TTTTTTAAAT
*
4583672 TTATTTACTATTA
1 TTATTTATTATTA
4583685 TTA-TT-TTATT-
1 TTATTTATTATTA
4583695 TTA-TTATTATTA
1 TTATTTATTATTA
4583707 TTATTTATTATTTA
1 TTATTTATTA-TTA
4583721 TTATTT
1 TTATTT
4583727 TTTAGTGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 5 0.14
11 9 0.24
12 5 0.14
13 9 0.24
14 9 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:4583701 original size:16 final size:16
Alignment explanation
Indices: 4583680--4583727 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
4583670 ATTTATTTAC
4583680 TATTATTATTTTATTT
1 TATTATTATTTTATTT
4583696 TATTATTATTATTA-TT
1 TATTATTATT-TTATTT
*
4583712 TATTATT-TATTATTT
1 TATTATTATTTTATTT
4583727 T
1 T
4583728 TTAGTGTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 4 0.14
16 19 0.66
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATTATTTTATTT
Found at i:4583716 original size:7 final size:7
Alignment explanation
Indices: 4583672--4583726 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
4583662 TTTTTTAAAT
4583672 TTATTTA
1 TTATTTA
*
4583679 CTA-TTA
1 TTATTTA
4583685 TTATTTTA
1 TTA-TTTA
*
4583693 TTTTATTA
1 TTAT-TTA
4583701 TTA-TTA
1 TTATTTA
4583707 TTATTTA
1 TTATTTA
4583714 TTATTTA
1 TTATTTA
4583721 TTATTT
1 TTATTT
4583727 TTTAGTGTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 11 0.28
7 19 0.47
8 10 0.25
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:4583816 original size:20 final size:20
Alignment explanation
Indices: 4583793--4583850 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
4583783 ACTAATATAA
4583793 ATTAATTTGAGATGGTAAAG
1 ATTAATTTGAGATGGTAAAG
** *
4583813 ATTAAACT-A-AT-AT-AA-
1 ATTAATTTGAGATGGTAAAG
4583828 ATTAATTTGAGATGGTAAAG
1 ATTAATTTGAGATGGTAAAG
4583848 ATT
1 ATT
4583851 GTGTTAACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 10
0.63 0.14 0.23
Matches are distributed among these distances:
15 6 0.22
16 3 0.11
17 3 0.11
18 3 0.11
19 3 0.11
20 9 0.33
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (20 bp):
ATTAATTTGAGATGGTAAAG
Found at i:4583818 original size:35 final size:35
Alignment explanation
Indices: 4583779--4583850 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4583769 TACATCCTAT
4583779 TTAAACTAATATAAATTAATTTGAGATGGTAAAGA
1 TTAAACTAATATAAATTAATTTGAGATGGTAAAGA
4583814 TTAAACTAATATAAATTAATTTGAGATGGTAAAGA
1 TTAAACTAATATAAATTAATTTGAGATGGTAAAGA
4583849 TT
1 TT
4583851 GTGTTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (35 bp):
TTAAACTAATATAAATTAATTTGAGATGGTAAAGA
Found at i:4584052 original size:153 final size:152
Alignment explanation
Indices: 4583859--4584154 Score: 472
Period size: 153 Copynumber: 1.9 Consensus size: 152
4583849 TTGTGTTAAC
* * *
4583859 ATAAGGTTGATAAAGTTTCAATCTCACAAAATCTAAAATTTTTGTAATATTATATATAATTGA-G
1 ATAAGGTTGATAAAGTTTCAATCTCACAAAATCTAAAATTTTTGTAACATCATATATAA-TCATG
* *
4583923 TTCTGGTTTAGGGTATGC-TAAAGGTTATACTCGAAACTTACCTAAATCCATGTCGAGTTTTCTT
65 TTCTGGTTTAGGGTAT-CTTAAAGATGATACTCGAAACTTACCTAAATCCATGTCGAGTTTTCTT
4583987 TTCAAAAAAGAAAATTGCGTTGAG
129 TTCAAAAAAGAAAATTGCGTTGAG
4584011 ATAAGGTTGATGAAAG-TTCAAATCTCACAAAATCTAAAATTTTTGTAACATCATATATAATCAT
1 ATAAGGTTGAT-AAAGTTTC-AATCTCACAAAATCTAAAATTTTTGTAACATCATATATAATCAT
*
4584075 GTTCTGGTTTAGGGTATCTTAAAGATGATACTCGAAACTTACCTAATTCCATGTCGAGTTTTCTT
64 GTTCTGGTTTAGGGTATCTTAAAGATGATACTCGAAACTTACCTAAATCCATGTCGAGTTTTCTT
*
4584140 TTCAAAGAAGAAAAT
129 TTCAAAAAAGAAAAT
4584155 CCATGTCGGG
Statistics
Matches: 133, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
152 17 0.13
153 116 0.87
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (152 bp):
ATAAGGTTGATAAAGTTTCAATCTCACAAAATCTAAAATTTTTGTAACATCATATATAATCATGT
TCTGGTTTAGGGTATCTTAAAGATGATACTCGAAACTTACCTAAATCCATGTCGAGTTTTCTTTT
CAAAAAAGAAAATTGCGTTGAG
Found at i:4589256 original size:18 final size:18
Alignment explanation
Indices: 4589235--4589293 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 18
4589225 TTTAATATTT
4589235 TAAAATTATAAAATAAAA
1 TAAAATTATAAAATAAAA
4589253 TAAAATTTTATTTTAAAAATAAAA
1 TAAAA--TTA---T-AAAATAAAA
4589277 T-AAATTATAAAATAAAA
1 TAAAATTATAAAATAAAA
4589294 ATTTTAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
17 9 0.26
18 6 0.17
20 3 0.09
21 3 0.09
23 4 0.11
24 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAATTATAAAATAAAA
Found at i:4589267 original size:31 final size:30
Alignment explanation
Indices: 4589230--4589289 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
4589220 ACAATTTTAA
4589230 TATTTTAAAATTATAAAATAAA-ATAAAATTT
1 TATTTTAAAA--ATAAAATAAATATAAAATTT
4589261 TATTTTAAAAATAAAATAAATTATAAAAT
1 TATTTTAAAAATAAAATAAA-TATAAAAT
4589290 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TATTTTAAAAATAAAATAAATATAAAATTT
Found at i:4589403 original size:27 final size:29
Alignment explanation
Indices: 4589373--4589428 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
4589363 CAATTTTACT
4589373 TATAAATTATTAATA-TTTTAA-ATAAAA
1 TATAAATTATTAATATTTTTAATATAAAA
* *
4589400 TATATATTTTTAATATTTTTAATATAAAA
1 TATAAATTATTAATATTTTTAATATAAAA
4589429 AATAGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.52
28 6 0.24
29 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TATAAATTATTAATATTTTTAATATAAAA
Found at i:4612065 original size:67 final size:67
Alignment explanation
Indices: 4611932--4612065 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
4611922 TTCAACATCC
* *
4611932 CATATCTGTTTCTTTTGATTCTCATTAACAGCAAGAAAGTTTGTTTCTTTTGTTATATTGTGGAA
1 CATATCTGTTTCTTTTGATTCTCATTAACAGCAAGAAAGTTTGTTTCTTTTGTTATAGTATGGAA
4611997 AA
66 AA
*
4611999 CATATCTGTTTCTTTTGATTCTCATTAACAGCAATG-AAGTTTGTTTCTTTTGTTATAGTATTGA
1 CATATCTGTTTCTTTTGATTCTCATTAACAGCAA-GAAAGTTTGTTTCTTTTGTTATAGTATGGA
4612063 AAA
65 AAA
4612066 TTGCAAAGAC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 62 0.98
68 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (67 bp):
CATATCTGTTTCTTTTGATTCTCATTAACAGCAAGAAAGTTTGTTTCTTTTGTTATAGTATGGAA
AA
Found at i:4622621 original size:27 final size:27
Alignment explanation
Indices: 4622591--4622653 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
4622581 GCTTTCATCA
*
4622591 TTTTTCTTTTC-TCT-TCTTTTTGTCTGT
1 TTTTTCTTTTCTTCTCTCTTTTT-T-AGT
*
4622618 TTTTTTTTTTCTTCTCTCTTTTTTAGT
1 TTTTTCTTTTCTTCTCTCTTTTTTAGT
4622645 TTTTTCTTT
1 TTTTTCTTT
4622654 AACATTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 20 0.65
28 4 0.13
29 7 0.23
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (27 bp):
TTTTTCTTTTCTTCTCTCTTTTTTAGT
Found at i:4633306 original size:16 final size:17
Alignment explanation
Indices: 4633266--4633311 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4633256 TCTTTTCAAT
4633266 TTTTCCTTCTCATATTC
1 TTTTCCTTCTCATATTC
* *
4633283 CTTT-CTTCTC-TCTTC
1 TTTTCCTTCTCATATTC
4633298 TTTTCCTTCCTCAT
1 TTTTCCTT-CTCAT
4633312 GCTAGTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 6 0.26
18 1 0.04
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCCTTCTCATATTC
Found at i:4638501 original size:24 final size:24
Alignment explanation
Indices: 4638474--4638611 Score: 116
Period size: 24 Copynumber: 5.8 Consensus size: 24
4638464 TCCTTGCAAA
* ** *
4638474 TCAGATTCTGAATTTGATTACGGC
1 TCAGATCCTGAATCAGATTACGAC
4638498 TCAGATCCTGAATCAGATTACGAC
1 TCAGATCCTGAATCAGATTACGAC
** *
4638522 TCATTTCTTGAATCAGA-TACCGAC
1 TCAGATCCTGAATCAGATTA-CGAC
* *
4638546 TCAGATCCTGAATCACATTATGAC
1 TCAGATCCTGAATCAGATTACGAC
** * ** *
4638570 TCACTTCCTGAATTAGATGCCAAC
1 TCAGATCCTGAATCAGATTACGAC
*
4638594 TCAGATCTTGAATCAGAT
1 TCAGATCCTGAATCAGAT
4638612 GCAAGTCTGC
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
23 2 0.02
24 84 0.95
25 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
TCAGATCCTGAATCAGATTACGAC
Found at i:4638534 original size:48 final size:48
Alignment explanation
Indices: 4638481--4638611 Score: 147
Period size: 48 Copynumber: 2.7 Consensus size: 48
4638471 AAATCAGATT
* * *
4638481 CTGAATTTGATTACGGCTCAGATCCTGAATCAGATTACGACTCATTTC
1 CTGAATTAGATTACGACTCAGATCCTGAATCAGATTACGACTCACTTC
* * * *
4638529 TTGAATCAGA-TACCGACTCAGATCCTGAATCACATTATGACTCACTTC
1 CTGAATTAGATTA-CGACTCAGATCCTGAATCAGATTACGACTCACTTC
** * *
4638577 CTGAATTAGATGCCAACTCAGATCTTGAATCAGAT
1 CTGAATTAGATTACGACTCAGATCCTGAATCAGAT
4638612 GCAAGTCTGC
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 2 0.03
48 65 0.97
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (48 bp):
CTGAATTAGATTACGACTCAGATCCTGAATCAGATTACGACTCACTTC
Found at i:4649384 original size:13 final size:13
Alignment explanation
Indices: 4649366--4649400 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
4649356 TAACTGCACA
4649366 GAAGCAAACCATG
1 GAAGCAAACCATG
4649379 GAAGCAAACCATG
1 GAAGCAAACCATG
4649392 GAAGCAAAC
1 GAAGCAAAC
4649401 GACGCTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (13 bp):
GAAGCAAACCATG
Found at i:4651450 original size:22 final size:21
Alignment explanation
Indices: 4651425--4651465 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4651415 TAAAAATCTT
4651425 GAAGAAAATGTGAATGATCTCA
1 GAAGAAAAT-TGAATGATCTCA
* *
4651447 GAAGAAGATTGGATGATCT
1 GAAGAAAATTGAATGATCT
4651466 AAATATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.24
Consensus pattern (21 bp):
GAAGAAAATTGAATGATCTCA
Found at i:4662351 original size:4 final size:4
Alignment explanation
Indices: 4662318--4662360 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
4662308 AACTATTTTA
* * *
4662318 AATT AATT ACATT AATG AATT AACT AATT AATT AGTT AATT AA
1 AATT AATT A-ATT AATT AATT AATT AATT AATT AATT AATT AA
4662361 GATAATTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (4 bp):
AATT
Found at i:4662862 original size:63 final size:63
Alignment explanation
Indices: 4662739--4662864 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 63
4662729 TTTTTCATTC
* * *
4662739 ATCATATTCCCTACAATTATCATTTTTTTATATTATACAAAATGCTGCAAAATTCTTCTCATCT
1 ATCATATTCCCTACAATCATCACTTTTTCATATTATAC-AAATGCTGCAAAATTCTTCTCATCT
*
4662803 ATCATATTCCCTACAGTCATCACTTTTTCATATTATATC-AATGCTGCAAAATTCTTCTCATC
1 ATCATATTCCCTACAATCATCACTTTTTCATATTATA-CAAATGCTGCAAAATTCTTCTCATC
4662865 AATAACATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
63 23 0.40
64 33 0.58
65 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (63 bp):
ATCATATTCCCTACAATCATCACTTTTTCATATTATACAAATGCTGCAAAATTCTTCTCATCT
Found at i:4667112 original size:27 final size:27
Alignment explanation
Indices: 4667074--4667125 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4667064 TGAAGGACCA
*
4667074 AACTAAAGCTTCATACAGTTCAGATAT
1 AACTAAAGCTTCATACAGTTAAGATAT
* *
4667101 AACTGAAGCTTCATACGGTTAAGAT
1 AACTAAAGCTTCATACAGTTAAGAT
4667126 GTACAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
AACTAAAGCTTCATACAGTTAAGATAT
Found at i:4668315 original size:35 final size:33
Alignment explanation
Indices: 4668275--4668347 Score: 103
Period size: 35 Copynumber: 2.2 Consensus size: 33
4668265 AAATTTAAAT
4668275 TTAAATAATCAAAAACAAATATCTCAAA-TATCAAC
1 TTAAATAATCAAAAACAAATAT-T-AAACTA-CAAC
*
4668310 TTAAATAATTAAAAACAAATATTAAACTACAAC
1 TTAAATAATCAAAAACAAATATTAAACTACAAC
4668343 TTAAA
1 TTAAA
4668348 CATTACAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 12 0.33
34 3 0.08
35 21 0.58
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (33 bp):
TTAAATAATCAAAAACAAATATTAAACTACAAC
Found at i:4671086 original size:4 final size:4
Alignment explanation
Indices: 4671053--4671149 Score: 68
Period size: 4 Copynumber: 23.0 Consensus size: 4
4671043 AACTATTTTA
* * *
4671053 AATT AATT ACATT AATG AATT AACT AATT AATT AGTT AATT AAATT AATT
1 AATT AATT A-ATT AATT AATT AATT AATT AATT AATT AATT -AATT AATT
* * * * * *
4671103 AACT AACT AATT TATT TATA AAAT AATTT AAATT AATT AATTT AATT
1 AATT AATT AATT AATT AATT AATT AA-TT -AATT AATT AA-TT AATT
4671150 CTTTAAAACT
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
4 57 0.77
5 15 0.20
6 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:4671098 original size:25 final size:25
Alignment explanation
Indices: 4671053--4671100 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4671043 AACTATTTTA
*
4671053 AATTAATTACATTAATGAATTAACT
1 AATTAATTACATTAATAAATTAACT
*
4671078 AATTAATTA-GTTAATTAAATTAA
1 AATTAATTACATTAA-TAAATTAA
4671101 TTAACTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (25 bp):
AATTAATTACATTAATAAATTAACT
Found at i:4671102 original size:29 final size:29
Alignment explanation
Indices: 4671033--4671114 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
4671023 GTGATTAATT
* *
4671033 TTAATTGATTAACTATTTTAAATTAATTACA
1 TTAATTAATTAACTA-ATT-AATTAATTACA
* *
4671064 TTAATGAATTAACTAATTAATTAGTTA-A
1 TTAATTAATTAACTAATTAATTAATTACA
*
4671092 TTAAATTAATTAACTAACTAATT
1 TT-AATTAATTAACTAATTAATT
4671115 TATTTATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 3 0.07
29 26 0.59
30 2 0.05
31 13 0.30
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAATTAATTAACTAATTAATTAATTACA
Found at i:4671126 original size:29 final size:28
Alignment explanation
Indices: 4671070--4671130 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
4671060 TACATTAATG
* *
4671070 AATTAACTAATTAATTAGTTAATTAAATT
1 AATTAACTAACTAATTAGTTAA-TAAAAT
*
4671099 AATTAACTAACTAATTTA-TTTATAAAAT
1 AATTAACTAACTAA-TTAGTTAATAAAAT
4671127 AATT
1 AATT
4671131 TAAATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.32
29 16 0.57
30 3 0.11
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTAACTAACTAATTAGTTAATAAAAT
Found at i:4671560 original size:64 final size:63
Alignment explanation
Indices: 4671410--4671588 Score: 195
Period size: 64 Copynumber: 2.8 Consensus size: 63
4671400 TTATATTACA
* * * *
4671410 TGCAATCATCATTTTTC-TATGATATATAAAACATT-CTAAAGTTTTTTTCATCCATCATATTCC
1 TGCAATCATCATTTTTCATAT--TATACAAAACGTTGC-AAAGTTCTTCTCATCCATCATATTCC
4671473 C
63 C
* * *
4671474 TGCAATTATCATATTTTTATATTATACAAAACGTTGCAAAGTTCTTCTCATTCATCATATTCCC
1 TGCAATCATCAT-TTTTCATATTATACAAAACGTTGCAAAGTTCTTCTCATCCATCATATTCCC
* *
4671538 TGCAATCATCACTTTTTCATATTATATC--AATGTTGCAAAATTCTTCTCATC
1 TGCAATCATCA-TTTTTCATATTATA-CAAAACGTTGCAAAGTTCTTCTCATC
4671589 AATAACATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
63 20 0.20
64 68 0.69
65 7 0.07
66 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.43
Consensus pattern (63 bp):
TGCAATCATCATTTTTCATATTATACAAAACGTTGCAAAGTTCTTCTCATCCATCATATTCCC
Found at i:4676627 original size:30 final size:31
Alignment explanation
Indices: 4676580--4676650 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
4676570 CCGACATGCT
* * *
4676580 TAATGGGCTTGTAGTGGA-CTAGCAATTTTC
1 TAATGGGCTTATAGTGGATCAAGCAATGTTC
* * *
4676610 TAATGGGCTTATTGTGGATCAAGGACTGTTC
1 TAATGGGCTTATAGTGGATCAAGCAATGTTC
4676641 TAATGGGCTT
1 TAATGGGCTT
4676651 CTATTGGACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.37
Consensus pattern (31 bp):
TAATGGGCTTATAGTGGATCAAGCAATGTTC
Found at i:4686626 original size:84 final size:84
Alignment explanation
Indices: 4686486--4686654 Score: 297
Period size: 84 Copynumber: 2.0 Consensus size: 84
4686476 ATCAAACGCG
4686486 AGAGTGATAATAGATTGGCAAAACAAGAACACATCTCTCACGGATCCATTTCAGTGAGATATGAA
1 AGAGTGATAATAGATTGGCAAAACAAGAACACATCTCTCACGGATCCATTTCAGTGAGATATGAA
4686551 GAGGATCTT-AAAAATATA
66 GAGGATCTTAAAAAATATA
4686569 AGAGTGATAATAGATTGGCAAAATCAAGAACACATCTCTCACAGG-TCCATTTCAGTGAGATATG
1 AGAGTGATAATAGATTGGCAAAA-CAAGAACACATCTCTCAC-GGATCCATTTCAGTGAGATATG
*
4686633 AAGATGATCTTAAAAAATATA
64 AAGAGGATCTTAAAAAATATA
4686654 A
1 A
4686655 ATATGAATCT
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
83 23 0.28
84 47 0.57
85 12 0.15
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (84 bp):
AGAGTGATAATAGATTGGCAAAACAAGAACACATCTCTCACGGATCCATTTCAGTGAGATATGAA
GAGGATCTTAAAAAATATA
Found at i:4687724 original size:29 final size:29
Alignment explanation
Indices: 4687664--4687725 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
4687654 AACTATTTTA
* *
4687664 AATTAGTTACATTAATGAATAAACTGATT
1 AATTAGTTACATTAATGAATAAACTAACT
* *
4687693 AATTAGTTA-ATTAAATTAATTAACTAACT
1 AATTAGTTACATT-AATGAATAAACTAACT
4687722 AATT
1 AATT
4687726 TATTTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (29 bp):
AATTAGTTACATTAATGAATAAACTAACT
Found at i:4688138 original size:64 final size:64
Alignment explanation
Indices: 4688006--4688159 Score: 152
Period size: 64 Copynumber: 2.4 Consensus size: 64
4687996 TCTTCCAGCC
* * * * * * *
4688006 ATCATACTCCTTGCAATAATCACTTTTCTATGTTATACAAAACGTTACAAAGTTCTTCTCATCC
1 ATCATATTCCTTGCAATAATCACTTTTCTATATAATACAAAACATTACAAAGTTCATCCCATCA
* * *
4688070 ATCATATTCCTTGCAATTATCATTTTTCTATATAATGCAAAACAATGTA-AAA-TTCATCCCATC
1 ATCATATTCCTTGCAATAATCACTTTTCTATATAATACAAAAC-AT-TACAAAGTTCATCCCATC
4688133 A
64 A
* *
4688134 ATCATATT-CTCTACAATCATCACTTT
1 ATCATATTCCT-TGCAATAATCACTTT
4688160 CCATGTTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.03
64 66 0.89
65 4 0.05
66 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (64 bp):
ATCATATTCCTTGCAATAATCACTTTTCTATATAATACAAAACATTACAAAGTTCATCCCATCA
Found at i:4691425 original size:40 final size:39
Alignment explanation
Indices: 4691381--4691476 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 39
4691371 CATGTATATC
* *
4691381 CCCCCCACATCATGCACATAGCCGGCGCCATCGTGTGCAT
1 CCCCCCACATCATGCACA-AGCCAGCGCCATCGTGTACAT
* * *
4691421 CCCCCCACATCGTGCAC-AGTCAGTGCCATCGTGTACAT
1 CCCCCCACATCATGCACAAGCCAGCGCCATCGTGTACAT
*
4691459 CCCCACACATCATGCACA
1 CCCCCCACATCATGCACA
4691477 CGGGCACTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 32 0.67
40 16 0.33
ACGTcount: A:0.23, C:0.43, G:0.17, T:0.18
Consensus pattern (39 bp):
CCCCCCACATCATGCACAAGCCAGCGCCATCGTGTACAT
Found at i:4691456 original size:136 final size:135
Alignment explanation
Indices: 4691213--4691492 Score: 443
Period size: 136 Copynumber: 2.1 Consensus size: 135
4691203 TAAACATCAA
* * * * *
4691213 TATCATCATAATCATACCCGACTCATGTGCATCCCCCCACATCGTGCACATAGCTGGTGCCATCG
1 TATCATCATAATCACACCCGACTCATGTACATCCCCCCACATCATGCACATAGCCGGCGCCATCG
* *
4691278 TATGCATCCTCCCACATAGTGCACAGTCAGTGCCATCGTGTACATCCCCCCACATCATGCACACG
66 TATGCATCCCCCCACATAGTGCACAGTCAGTGCCATCGTGTACATCCCCACACATCATGCACACG
4691343 GGCAC
131 GGCAC
* * *
4691348 TATCATCATAATCACACCTGGCTCATGTATATCCCCCCCACATCATGCACATAGCCGGCGCCATC
1 TATCATCATAATCACACCCGACTCATGTACAT-CCCCCCACATCATGCACATAGCCGGCGCCATC
* *
4691413 GTGTGCATCCCCCCACATCGTGCACAGTCAGTGCCATCGTGTACATCCCCACACATCATGCACAC
65 GTATGCATCCCCCCACATAGTGCACAGTCAGTGCCATCGTGTACATCCCCACACATCATGCACAC
4691478 GGGCAC
130 GGGCAC
4691484 TATCATCAT
1 TATCATCAT
4691493 CCACCTCCCT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
135 27 0.20
136 105 0.80
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.22
Consensus pattern (135 bp):
TATCATCATAATCACACCCGACTCATGTACATCCCCCCACATCATGCACATAGCCGGCGCCATCG
TATGCATCCCCCCACATAGTGCACAGTCAGTGCCATCGTGTACATCCCCACACATCATGCACACG
GGCAC
Found at i:4695861 original size:24 final size:24
Alignment explanation
Indices: 4695825--4695873 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4695815 TACATTAAGC
**
4695825 TAAAGATGTTTCCATCATGTTAGT
1 TAAAGATACTTCCATCATGTTAGT
4695849 TAAAGATACTTCCATCATGTTAGT
1 TAAAGATACTTCCATCATGTTAGT
4695873 T
1 T
4695874 CGTAGTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (24 bp):
TAAAGATACTTCCATCATGTTAGT
Found at i:4733299 original size:24 final size:24
Alignment explanation
Indices: 4733263--4733311 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4733253 TACATTAAGC
**
4733263 TAAAGATGTTTCCATCATGTTAGT
1 TAAAGATACTTCCATCATGTTAGT
4733287 TAAAGATACTTCCATCATGTTAGT
1 TAAAGATACTTCCATCATGTTAGT
4733311 T
1 T
4733312 CGTAGTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (24 bp):
TAAAGATACTTCCATCATGTTAGT
Found at i:4735469 original size:20 final size:22
Alignment explanation
Indices: 4735430--4735474 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4735420 CATTTAATTA
*
4735430 TTTATATTTTATGCATTAT-AGT
1 TTTATATTTAAT-CATTATAAGT
4735452 TTTATATTTAAT-ATTATAAGT
1 TTTATATTTAATCATTATAAGT
4735473 TT
1 TT
4735475 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTATATTTAATCATTATAAGT
Found at i:4784772 original size:24 final size:25
Alignment explanation
Indices: 4784745--4784848 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 25
4784735 CTCCAACTTC
4784745 TCCTTCT-TTTTCTTTTCTTTCCTT
1 TCCTTCTCTTTTCTTTTCTTTCCTT
*
4784769 TCCTTCTCTTTTCTCTTC-TTCCTTT
1 TCCTTCTCTTTTCTTTTCTTTCC-TT
*
4784794 TCCTCTCGTCTCTCTCTTTTTCTTTCCTT
1 TCCT-TC-TCT-TTTC-TTTTCTTTCCTT
*
4784823 CTCC-TCTTCTTTTCCTTCTCTTTCCT
1 -TCCTTC-TCTTTT-CTTTTCTTTCCT
4784849 CCTCCTTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
24 11 0.17
25 15 0.23
26 2 0.03
27 15 0.23
28 9 0.14
29 6 0.09
30 7 0.11
ACGTcount: A:0.00, C:0.37, G:0.01, T:0.62
Consensus pattern (25 bp):
TCCTTCTCTTTTCTTTTCTTTCCTT
Found at i:4784796 original size:30 final size:30
Alignment explanation
Indices: 4784762--4784896 Score: 98
Period size: 30 Copynumber: 4.4 Consensus size: 30
4784752 TTTTCTTTTC
4784762 TTTCCTTTCCTTCTCTTTTCTCT-TCTTCCT
1 TTTCCTTTCCTTCTCTTTTCTCTCTC-TCCT
* *
4784792 TTTCCTCTCGTCTCTCTCTTTTTCTTTCCTTCTCCT
1 TTTCCTTTC--CT-TCTC-TTTTCTCT-C-TCTCCT
* *
4784828 CTTCTTTTCCTTCTC-TTTC-CTC-CTCCT
1 TTTCCTTTCCTTCTCTTTTCTCTCTCTCCT
* * *
4784855 TTTCCTCTCCCTCTCTTCTCTCTCTCTCCT
1 TTTCCTTTCCTTCTCTTTTCTCTCTCTCCT
*
4784885 CTTCCTCTTCCT
1 TTTCCT-TTCCT
4784897 CCTCCTCTCC
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
27 16 0.20
28 3 0.04
29 4 0.05
30 19 0.24
31 7 0.09
32 2 0.03
33 8 0.10
34 9 0.11
36 10 0.12
37 2 0.03
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTCCTTTCCTTCTCTTTTCTCTCTCTCCT
Found at i:4784805 original size:22 final size:21
Alignment explanation
Indices: 4784780--4784873 Score: 61
Period size: 22 Copynumber: 4.4 Consensus size: 21
4784770 CCTTCTCTTT
4784780 TCTCTTCTTCCTTTTCCTCTC
1 TCTCTTCTTCCTTTTCCTCTC
**
4784801 GTCTCTCTCTTTTTCTTTCCT-TC
1 -TCTCT-TCTTCCT-TTTCCTCTC
4784824 TC-C-TCTT-CTTTTCCTTCTC
1 TCTCTTCTTCCTTTTCC-TCTC
* * *
4784843 TTTCCTCCTCCTTTTCCTCTCCC
1 TCTCTTCTTCCTTTTCCTCT--C
4784866 TCTCTTCT
1 TCTCTTCT
4784874 CTCTCTCTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
17 5 0.09
18 2 0.04
19 7 0.13
20 1 0.02
21 7 0.13
22 14 0.25
23 13 0.24
24 6 0.11
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (21 bp):
TCTCTTCTTCCTTTTCCTCTC
Found at i:4784884 original size:33 final size:33
Alignment explanation
Indices: 4784762--4784885 Score: 91
Period size: 33 Copynumber: 3.9 Consensus size: 33
4784752 TTTTCTTTTC
* *
4784762 TTTCCTTTCCTTCTCTT-T-TCTCT-TCTTCCT
1 TTTCCTCTCCTTCTCTTCTCTCTCTCTCCTCCT
* * * *
4784792 TTTCCTCT-CGTCTC-TCTCTTTTTCT-TTCCT
1 TTTCCTCTCCTTCTCTTCTCTCTCTCTCCTCCT
* * * *
4784822 TCTCCTCTTCTTTTCCTTCTCTTTC-CTCCTCCT
1 TTTCCTCTCCTTCT-CTTCTCTCTCTCTCCTCCT
*
4784855 TTTCCTCTCCCTCTCTTCTCTCTCTCTCCTC
1 TTTCCTCTCCTTCTCTTCTCTCTCTCTCCTC
4784886 TTCCTCTTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
28 1 0.01
29 6 0.08
30 22 0.31
31 4 0.06
32 12 0.17
33 27 0.38
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (33 bp):
TTTCCTCTCCTTCTCTTCTCTCTCTCTCCTCCT
Found at i:4784891 original size:63 final size:66
Alignment explanation
Indices: 4784767--4784894 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 66
4784757 TTTTCTTTCC
* * * * *
4784767 TTTCCTTCTCTTTTCTCTTCTTCCTTTTCCTCTCGTCTCTCTCTTTTTCTTTCCTTCTCCTCTTC
1 TTTCCTTCTCTTTTCTCTTCCTCCTTTTCCTCTCCTCTCTCTCTCTCTCTCTCCTTCTCCTCTTC
4784832 T
66 T
4784833 TTTCCTTCTC-TTTC-C-TCCTCCTTTTCCTCTCC-CTCTCTTCTCTCTCTCTCC-TCTTCCTCT
1 TTTCCTTCTCTTTTCTCTTCCTCCTTTTCCTCTCCTCTCTC-TCTCTCTCTCTCCTTC-TCCTCT
4784893 TC
64 TC
4784895 CTCCTCCTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
62 7 0.13
63 33 0.60
64 1 0.02
65 4 0.07
66 10 0.18
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (66 bp):
TTTCCTTCTCTTTTCTCTTCCTCCTTTTCCTCTCCTCTCTCTCTCTCTCTCTCCTTCTCCTCTTC
T
Found at i:4784912 original size:11 final size:11
Alignment explanation
Indices: 4784845--4784912 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 11
4784835 TCCTTCTCTT
*
4784845 TCCTCCTCCTTT
1 TCCTCCTCC-TC
4784857 TCCT-CTCCCTC
1 TCCTCCT-CCTC
*
4784868 TCTTCTCTCTCTC
1 TCCTC-CTC-CTC
*
4784881 TCCTCTTCCTC
1 TCCTCCTCCTC
4784892 TTCCTCCTCCTC
1 -TCCTCCTCCTC
4784904 TCCTCCTCC
1 TCCTCCTCC
4784913 GAATCCGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
11 18 0.39
12 19 0.41
13 9 0.20
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCTCCTCCTC
Found at i:4788798 original size:20 final size:20
Alignment explanation
Indices: 4788759--4788809 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4788749 TTAATTTTTG
* **
4788759 AAATAAATAATTTTTTTAAA
1 AAATAAATAATATTAATAAA
4788779 AAATAAATAATATTAATAAA
1 AAATAAATAATATTAATAAA
*
4788799 ATAAAAAATAA
1 A-AATAAATAA
4788810 AAATATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAATAATATTAATAAA
Found at i:4788801 original size:18 final size:17
Alignment explanation
Indices: 4788774--4788808 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4788764 AATAATTTTT
*
4788774 TTAAAAAATAAATAATA
1 TTAAAAAATAAAAAATA
4788791 TTAATAAAATAAAAAATA
1 TTAA-AAAATAAAAAATA
4788809 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAATAAAAAATA
Found at i:4788829 original size:26 final size:25
Alignment explanation
Indices: 4788773--4788830 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
4788763 AAATAATTTT
4788773 TTTAAAAAATAAATAATATTAATAA
1 TTTAAAAAATAAATAATATTAATAA
**
4788798 AATAAAAAATAAA-AATATTTTAATAA
1 TTTAAAAAATAAATAATA--TTAATAA
4788824 TTTAAAA
1 TTTAAAA
4788831 TAATTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.15
25 11 0.41
26 12 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TTTAAAAAATAAATAATATTAATAA
Found at i:4791078 original size:21 final size:20
Alignment explanation
Indices: 4791050--4791093 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
4791040 CAGGATCCAG
4791050 GAAAAGAACCACAGCAATCT
1 GAAAAGAACCACAGCAATCT
* *
4791070 GAAACAGAACCTCAGCAGTCT
1 GAAA-AGAACCACAGCAATCT
4791091 GAA
1 GAA
4791094 GGTACAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAAAGAACCACAGCAATCT
Found at i:4793021 original size:46 final size:46
Alignment explanation
Indices: 4792942--4793034 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
4792932 ATGTATAGCA
* *
4792942 TTCATTTCAACTTCAAAGGCATTTATAAATATTTCACCTGATCAAG
1 TTCACTTCAACTTCAAAGGCATTTATAAATATTTCACCTGACCAAG
* *
4792988 TTCACTTCATCTTC-AAGAGCATTTATAAGTATTTCACCTGACCAAG
1 TTCACTTCAACTTCAAAG-GCATTTATAAATATTTCACCTGACCAAG
4793034 T
1 T
4793035 ACATACACGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 3 0.07
46 39 0.93
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (46 bp):
TTCACTTCAACTTCAAAGGCATTTATAAATATTTCACCTGACCAAG
Found at i:4803264 original size:30 final size:29
Alignment explanation
Indices: 4803230--4803286 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
4803220 TGTACTTGAA
*
4803230 AATCTCAAGCTCGAATATTGATAAAAAGTT
1 AATCTCAAGCTCGAAGATTGA-AAAAAGTT
**
4803260 AATCTTGAGCTCGAAGATTGAAAAAAG
1 AATCTCAAGCTCGAAGATTGAAAAAAG
4803287 AATATGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (29 bp):
AATCTCAAGCTCGAAGATTGAAAAAAGTT
Found at i:4809415 original size:18 final size:19
Alignment explanation
Indices: 4809387--4809426 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
4809377 AAATAATAAT
4809387 TTTTAATATTAAATTTTAA
1 TTTTAATATTAAATTTTAA
4809406 TTTT-ATATTAAATTTTAA
1 TTTTAATATTAAATTTTAA
4809424 TTT
1 TTT
4809427 ATTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATATTAAATTTTAA
Found at i:4810142 original size:17 final size:19
Alignment explanation
Indices: 4810110--4810144 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4810100 AGCCTCATTC
4810110 AATTTTATTCAAAATTTTA
1 AATTTTATTCAAAATTTTA
4810129 AATTTT-TT-AAAATTTT
1 AATTTTATTCAAAATTTT
4810145 TTAAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTATTCAAAATTTTA
Found at i:4810408 original size:15 final size:16
Alignment explanation
Indices: 4810388--4810417 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4810378 CTGTTATGTG
4810388 TATTTT-ATTTTTAAT
1 TATTTTAATTTTTAAT
4810403 TATTTTAATTTTTAA
1 TATTTTAATTTTTAA
4810418 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTAATTTTTAAT
Done.