Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 21 of 126
Found at i:4797153 original size:16 final size:16
Alignment explanation
Indices: 4797132--4797166 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4797122 AGCAAATATT
4797132 TAATAAATCATACAAA
1 TAATAAATCATACAAA
*
4797148 TAATAAATCATGCAAA
1 TAATAAATCATACAAA
4797164 TAA
1 TAA
4797167 ATAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (16 bp):
TAATAAATCATACAAA
Found at i:4797168 original size:20 final size:20
Alignment explanation
Indices: 4797145--4797325 Score: 117
Period size: 20 Copynumber: 9.1 Consensus size: 20
4797135 TAAATCATAC
4797145 AAATAATAAATCATGCAAAT
1 AAATAATAAATCATGCAAAT
* ** *
4797165 AAATAATAAATTACACAATT
1 AAATAATAAATCATGCAAAT
**
4797185 AAAT-ATATAATTGTGCAAAT
1 AAATAATA-AATCATGCAAAT
*
4797205 -AATAAATAAATCATGCAATT
1 AAAT-AATAAATCATGCAAAT
*
4797225 AAAT-ATATAATCATACAAAT
1 AAATAATA-AATCATGCAAAT
* ** *
4797245 -AATAAACAAATCATATAATT
1 AAAT-AATAAATCATGCAAAT
4797265 AAAT-ATATAATCATGCAAAT
1 AAATAATA-AATCATGCAAAT
4797285 -AATAAATAAATCATGC-AAT
1 AAAT-AATAAATCATGCAAAT
* *
4797304 TAA-ACTAAATCCATGCAAAT
1 AAATAATAAAT-CATGCAAAT
4797324 AA
1 AA
4797326 TAAATGACAT
Statistics
Matches: 125, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
18 6 0.05
19 25 0.20
20 80 0.64
21 14 0.11
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAATAAATCATGCAAAT
Found at i:4797189 original size:40 final size:40
Alignment explanation
Indices: 4797110--4797330 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
4797100 TATAGTAAAA
* * *
4797110 TAAA-ATAT-ATCAAGCAAATATTTAATAAATCATACAA-
1 TAAATATATAATCATGCAAATAATAAATAAATCATACAAT
* * *
4797147 -ATA-ATA-AATCATGCAAATAA-ATAATAAATTACACAAT
1 TAAATATATAATCATGCAAATAATA-AATAAATCATACAAT
** *
4797184 TAAATATATAATTGTGCAAATAATAAATAAATCATGCAAT
1 TAAATATATAATCATGCAAATAATAAATAAATCATACAAT
* * *
4797224 TAAATATATAATCATACAAATAATAAACAAATCATATAAT
1 TAAATATATAATCATGCAAATAATAAATAAATCATACAAT
*
4797264 TAAATATATAATCATGCAAATAATAAATAAATCATGCAAT
1 TAAATATATAATCATGCAAATAATAAATAAATCATACAAT
*
4797304 TAAA-CTA-AATCCATGCAAATAATAAAT
1 TAAATATATAAT-CATGCAAATAATAAAT
4797331 GACATGCAAA
Statistics
Matches: 153, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
36 28 0.18
38 5 0.03
39 21 0.14
40 98 0.64
41 1 0.01
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (40 bp):
TAAATATATAATCATGCAAATAATAAATAAATCATACAAT
Found at i:4797379 original size:19 final size:18
Alignment explanation
Indices: 4797265--4797379 Score: 74
Period size: 19 Copynumber: 6.2 Consensus size: 18
4797255 TCATATAATT
*
4797265 AAATATATAATCATGCAAA
1 AAATAAATAA-CATGCAAA
*
4797284 TAATAAATAAATCATGCAATTA
1 AAATAAAT-AA-CATGCAA--A
* *
4797306 AACTAAAT-CCATGCAAA
1 AAATAAATAACATGCAAA
* *
4797323 TAATAAATGACATGCAAAA
1 AAATAAATAACATGC-AAA
* *
4797342 AAACTAACT-TCATGC-AA
1 AAA-TAAATAACATGCAAA
4797359 AAATAAATAACATGCAAA
1 AAATAAATAACATGCAAA
4797377 AAA
1 AAA
4797380 CTAACTTCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
16 4 0.05
17 17 0.23
18 10 0.13
19 23 0.31
20 14 0.19
22 7 0.09
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (18 bp):
AAATAAATAACATGCAAA
Found at i:4797385 original size:35 final size:36
Alignment explanation
Indices: 4797275--4797389 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 36
4797265 AAATATATAA
* *
4797275 TCATGCAAATAATAAATAAATCATGCAATTAAACTAAAT
1 TCATGCAAATAATAAAT-AA-CATGCAA-AAAACTAACT
* *
4797314 CCATGCAAATAATAAATGACATGCAAAAAAACTAACT
1 TCATGCAAATAATAAATAACATGC-AAAAAACTAACT
4797351 TCATGCAAA-AATAAATAACATGCAAAAAACTAACT
1 TCATGCAAATAATAAATAACATGCAAAAAACTAACT
4797386 TCAT
1 TCAT
4797390 AAAAATATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
35 16 0.23
36 13 0.19
37 21 0.30
38 3 0.04
39 16 0.23
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (36 bp):
TCATGCAAATAATAAATAACATGCAAAAAACTAACT
Found at i:4797532 original size:19 final size:18
Alignment explanation
Indices: 4797508--4797543 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
4797498 CAAATTACAA
4797508 AAATACAAAATAGAAATAG
1 AAATACAAAATA-AAATAG
4797527 AAATACAAAATAAAATA
1 AAATACAAAATAAAATA
4797544 AAAAGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATACAAAATAAAATAG
Found at i:4797991 original size:26 final size:23
Alignment explanation
Indices: 4797935--4797990 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
4797925 GGATAAATAA
*
4797935 ATTTGTTGTTTTTTTTTAAGTAT
1 ATTTGTTGTTTATTTTTAAGTAT
4797958 ATTTGTTGTTTATTTTTAAGTAT
1 ATTTGTTGTTTATTTTTAAGTAT
*
4797981 ATTTTTTGTT
1 ATTTGTTGTT
4797991 GGAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (23 bp):
ATTTGTTGTTTATTTTTAAGTAT
Found at i:4800242 original size:10 final size:10
Alignment explanation
Indices: 4800227--4800253 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4800217 CAAAAATACA
4800227 CTAAGACCAT
1 CTAAGACCAT
4800237 CTAAGACCAT
1 CTAAGACCAT
4800247 CTAAGAC
1 CTAAGAC
4800254 ATGAGGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
CTAAGACCAT
Found at i:4805928 original size:11 final size:11
Alignment explanation
Indices: 4805910--4805951 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
4805900 AATCCCATAA
4805910 GAGATTTGTTT
1 GAGATTTGTTT
* *
4805921 GTGATTTGTTA
1 GAGATTTGTTT
4805932 GAGATTTGTTT
1 GAGATTTGTTT
4805943 GAGATTTGT
1 GAGATTTGT
4805952 CAAATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4805937 original size:22 final size:22
Alignment explanation
Indices: 4805909--4805951 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4805899 AAATCCCATA
*
4805909 AGAGATTTGTTTGTGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
4805931 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
4805952 CAAATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:4806062 original size:52 final size:52
Alignment explanation
Indices: 4805976--4806132 Score: 235
Period size: 52 Copynumber: 3.0 Consensus size: 52
4805966 TGGACAAGAA
* * *
4805976 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGGGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAA-GGGATTCTTAATAGGCAAGTTT
* *
4806028 GACTTACTAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* *
4806080 AACTTACAAGAGAAGAATTCTAAGAGGAAAGGAATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
4806132 G
1 G
4806133 TATAGTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 90 0.96
53 4 0.04
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:4806656 original size:31 final size:31
Alignment explanation
Indices: 4806616--4806684 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
4806606 AGGCTTTTAG
*
4806616 CCCAACAAATAGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATAGTATCAGAGCTGTAGTGTTC
* *
4806647 CTCAACAAATGGTATCAGAGCTGTAGTGTTC
1 CCCAACAAATAGTATCAGAGCTGTAGTGTTC
4806678 CCCAACA
1 CCCAACA
4806685 CCAAAGACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (31 bp):
CCCAACAAATAGTATCAGAGCTGTAGTGTTC
Found at i:4808635 original size:14 final size:14
Alignment explanation
Indices: 4808618--4808644 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4808608 TATCCTTCTA
4808618 TTATTATTTGTTTT
1 TTATTATTTGTTTT
4808632 TTATTATTTGTTT
1 TTATTATTTGTTT
4808645 ATGTTCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (14 bp):
TTATTATTTGTTTT
Found at i:4815401 original size:144 final size:142
Alignment explanation
Indices: 4815265--4815537 Score: 322
Period size: 143 Copynumber: 1.9 Consensus size: 142
4815255 TTTTTTATGA
* * *
4815265 ATTAAAAA-CTCAAATCATACTTTCGAAG-GTGTGAAATT-ACAAAATA-CCCTTTGGAGT-ATT
1 ATTAAAAACCT-AAATCATACCTT--AAGAGTGTGAAATTAAAAAAATACCCCTTAGGAGTAATT
* *
4815325 TTCATAATTTAACCTTCTCAAGGTTAAAATTTAGCAAAACACTCTAGATCATGGTTTAATATTAT
63 TT-ATAATTTAACCTTCTCAAGGCT-AAATTTAGCAAAACACTCAAGATCATGGTTTAATATTAT
4815390 TTGATAGTTTTTAAAAT
126 TTGATAGTTTTTAAAAT
* ** * *
4815407 TTTAAAAACCTTGATTATACCTTAAGATGTGTGAAATTAAAAAAATACCCCTTAGGGGTAATTTT
1 ATTAAAAACCTAAATCATACCTTAAGA-GTGTGAAATTAAAAAAATACCCCTTAGGAGTAATTTT
* * * * *
4815472 GTAATTTAACCTTCTCAAGGCTGAATTTCGCAAAACACTCAAGATTATGGTTTGATATTATTTGA
65 ATAATTTAACCTTCTCAAGGCTAAATTTAGCAAAACACTCAAGATCATGGTTTAATATTATTTGA
4815537 T
130 T
4815538 GATTTTCAGA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
140 3 0.03
142 25 0.23
143 48 0.44
144 29 0.26
145 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (142 bp):
ATTAAAAACCTAAATCATACCTTAAGAGTGTGAAATTAAAAAAATACCCCTTAGGAGTAATTTTA
TAATTTAACCTTCTCAAGGCTAAATTTAGCAAAACACTCAAGATCATGGTTTAATATTATTTGAT
AGTTTTTAAAAT
Found at i:4815522 original size:143 final size:142
Alignment explanation
Indices: 4815293--4815565 Score: 363
Period size: 143 Copynumber: 1.9 Consensus size: 142
4815283 ACTTTCGAAG
* * *
4815293 GTGTGAAATTACAAAATACCCTTTGGAGTATTTTCATAATTTAACCTTCTCAAGGTTAAAATTTA
1 GTGTGAAATTAAAAAATACCCTTAGGAGTATTTTCATAATTTAACCTTCTCAAGGCTAAAATTTA
* * *
4815358 GCAAAACACTCTAGATCATGGTTTAATATTATTTGAT-AGTTTTTAAAATTTTAAAAACCTTGAT
66 GCAAAACACTCAAGATCATGGTTTAATATTATTTGATGA-TTTTCAAAACTTTAAAAACCTTGAT
4815422 TATACCTTAAGAT
130 TATACCTTAAGAT
* * *
4815435 GTGTGAAATTAAAAAAATACCCCTTAGGGGTAATTTT-GTAATTTAACCTTCTCAAGGCT-GAAT
1 GTGTGAAATT-AAAAAATA-CCCTTAGGAGT-ATTTTCATAATTTAACCTTCTCAAGGCTAAAAT
* * * * *
4815498 TTCGCAAAACACTCAAGATTATGGTTTGATATTATTTGATGATTTTCAGAACTTTAAAAATCTTG
63 TTAGCAAAACACTCAAGATCATGGTTTAATATTATTTGATGATTTTCAAAACTTTAAAAACCTTG
4815563 ATT
128 ATT
4815566 GTACGTGTAG
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
142 10 0.09
143 68 0.60
144 30 0.27
145 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (142 bp):
GTGTGAAATTAAAAAATACCCTTAGGAGTATTTTCATAATTTAACCTTCTCAAGGCTAAAATTTA
GCAAAACACTCAAGATCATGGTTTAATATTATTTGATGATTTTCAAAACTTTAAAAACCTTGATT
ATACCTTAAGAT
Found at i:4815729 original size:14 final size:13
Alignment explanation
Indices: 4815707--4815765 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
4815697 ATTTATAGGC
4815707 TTTATTTTATTTT
1 TTTATTTTATTTT
4815720 TTTATGTTTATTTGT
1 TTTAT-TTTATTT-T
* *
4815735 GATTTTTTATTATTTA
1 --TTTATT-TTATTTT
4815751 TTTATTTTATTTT
1 TTTATTTTATTTT
4815764 TT
1 TT
4815766 CTTGATTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 13 0.35
14 12 0.32
15 1 0.03
16 1 0.03
17 10 0.27
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:4821327 original size:20 final size:20
Alignment explanation
Indices: 4821304--4821374 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4821294 CTAATGTATG
4821304 AGAAAATGAAAAAATGAAAA
1 AGAAAATGAAAAAATGAAAA
*
4821324 AG-AAA-GAAAAAAGGGAAAA
1 AGAAAATGAAAAAA-TGAAAA
*
4821343 A-AAAAAGAGAAAAATGAAAA
1 AGAAAATGA-AAAAATGAAAA
*
4821363 AAAAAATGAAAA
1 AGAAAATGAAAA
4821375 TGAGAGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 7 0.16
19 12 0.28
20 13 0.30
21 11 0.26
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (20 bp):
AGAAAATGAAAAAATGAAAA
Found at i:4822586 original size:21 final size:21
Alignment explanation
Indices: 4822561--4822625 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
4822551 TTCTGAATCC
*
4822561 TCAAATGAGAATATTTGAATT
1 TCAAATGAGAATCTTTGAATT
* *
4822582 TCAAATGGGAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGA-ATT
4822604 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
4822625 T
1 T
4822626 TTGAGTTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATT
Found at i:4822626 original size:22 final size:22
Alignment explanation
Indices: 4822561--4822626 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
4822551 TTCTGAATCC
*
4822561 TCAAATGAGAATATTTGAA-TT
1 TCAAATGAGAATCTTTGAATTT
* *
4822582 TCAAATGGGAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGAATTT
4822604 TCAAATGAGAATCTTTGAATTT
1 TCAAATGAGAATCTTTGAATTT
4822626 T
1 T
4822627 TGAGTTCTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.41
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAATTT
Found at i:4822631 original size:30 final size:30
Alignment explanation
Indices: 4822590--4822652 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4822580 TTTCAAATGG
* * *
4822590 GAATCTTTGAGTTTTCAAATGAGAATCTTT
1 GAATCTTTGAGTTCTCAAATAAGAATCCTT
*
4822620 GAATTTTTGAGTTCTCAAATAAGAATCCTT
1 GAATCTTTGAGTTCTCAAATAAGAATCCTT
4822650 GAA
1 GAA
4822653 ATTCAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (30 bp):
GAATCTTTGAGTTCTCAAATAAGAATCCTT
Found at i:4823361 original size:41 final size:42
Alignment explanation
Indices: 4823190--4823608 Score: 291
Period size: 42 Copynumber: 10.0 Consensus size: 42
4823180 ATGATGGTCA
* * * ** *
4823190 AGGAACCTTTTACTTTTCTAAAGTTGTTGAGCCTCTGCTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * *
4823232 AGGAG-C-TTTATTTTTCAAAAGTCATTAAGTCTTTGTTT-G
1 AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * * *
4823271 AATGAGACTTTTATTTTTCAAAAGGCATTGACCCTCTGTTTAA
1 -AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
*
4823314 AGGAGCCTTTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * *
4823355 ATGAGCCTTTTATATTTCAAAAAT-AGTTGAGCCTCTATTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTCA-TTGAGCCTCTGTTTAG
* **
4823397 AGGAGCATTTTATTTTT-TGAAGTCATTGAGCCTCTGTTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * ** ** * * *
4823438 ATGAACCTTTTATTTTT-TGAAGTTGTTGTGCCTTTATTTAG
1 AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * ** * * *
4823479 AAGAGCCTTTTATTTTTCTTAAAGTTGTTGGGCCTCTATTTAA
1 AGGAGCCTTTTATTTTTC-AAAAGTCATTGAGCCTCTGTTTAG
* * * *
4823522 AGAAG-CATTTATTTCTCTC-AAAGTCATTAAGCCTCTATTTAG
1 AGGAGCCTTTTATTT-T-TCAAAAGTCATTGAGCCTCTGTTTAG
* * *
4823564 AGGAGCTTTGTTTACTTTTTC-AAAGTCATGGAGCCTCAGTTTAG
1 AGGAGC-CT-TTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTAG
4823608 A
1 A
4823609 AGAGATTTTA
Statistics
Matches: 299, Mismatches: 63, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.00
40 28 0.09
41 103 0.34
42 111 0.37
43 24 0.08
44 24 0.08
45 5 0.02
46 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (42 bp):
AGGAGCCTTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
Found at i:4823365 original size:83 final size:83
Alignment explanation
Indices: 4823215--4823608 Score: 291
Period size: 83 Copynumber: 4.7 Consensus size: 83
4823205 TTCTAAAGTT
* * * *
4823215 GTTGAGCCTCTGCTTAGAGGAG-C-TTTATTTTTCAAAAGTCATTAAGTCTTTGTTT-GAATGAG
1 GTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAG-ATGAG
* *
4823277 ACTTTTATTTTTCAAAAGGCA
64 CCTTTTATTTTTCAAAA-ACA
* * *
4823298 -TTGACCCTCTGTTTAAAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGATGAGCC
1 GTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGATGAGCC
* *
4823362 TTTTATATTTCAAAAATA
66 TTTTATTTTTCAAAAACA
* * ** *
4823380 GTTGAGCCTCTATTTAGAGGAGCATTTTATTTTTTGAAGTCATTGAGCCTCTGTTTAGATGAACC
1 GTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGATGAGCC
** ***
4823445 TTTTATTTTT-TGAAGTT
66 TTTTATTTTTCAAAAACA
* * * * ** * * *
4823462 GTTGTGCCTTTATTTAGAAGAGCCTTTTATTTTTCTTAAAGTTGTTGGGCCTCTATTTA-AAGAA
1 GTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTC--AAAGTCATTGAGCCTCTGTTTAGATG-A
* **
4823526 G-CATTTATTTCTCTCAAAGTCA
63 GCCTTTTATTT-T-TCAAAAACA
* * * * *
4823548 -TTAAGCCTCTATTTAGAGGAGCTTTGTTTACTTTTTCAAAGTCATGGAGCCTCAGTTTAGA
1 GTTGAGCCTCTGTTTAGAGGAGC-CT-TTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAGA
4823609 AGAGATTTTA
Statistics
Matches: 243, Mismatches: 54, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
82 52 0.21
83 113 0.47
84 30 0.12
85 19 0.08
86 18 0.07
87 5 0.02
88 6 0.02
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (83 bp):
GTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGATGAGCC
TTTTATTTTTCAAAAACA
Found at i:4824177 original size:14 final size:14
Alignment explanation
Indices: 4824154--4824190 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
4824144 AATATAGCAC
*
4824154 AAAA-ACACATAGG
1 AAAATACACATAGA
4824167 AAAATACACATAGA
1 AAAATACACATAGA
4824181 AAAATACACA
1 AAAATACACA
4824191 GAAGCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.65, C:0.16, G:0.08, T:0.11
Consensus pattern (14 bp):
AAAATACACATAGA
Found at i:4825071 original size:15 final size:15
Alignment explanation
Indices: 4825051--4825080 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4825041 ATTTTCAAAC
*
4825051 AAAAAAATAGAAAAT
1 AAAAAAATAAAAAAT
4825066 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
4825081 TTTGGAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:4833303 original size:32 final size:32
Alignment explanation
Indices: 4833231--4833302 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
4833221 GCTAGAATTT
4833231 AAACAAAAATTTCCTTTTAACTATTTACTTCC
1 AAACAAAAATTTCCTTTTAACTATTTACTTCC
* *
4833263 AAACAAAAATTTCTTTTTAACTATTTTCTTCC
1 AAACAAAAATTTCCTTTTAACTATTTACTTCC
4833295 -AACAAAAA
1 AAACAAAAA
4833303 AACAGGGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (32 bp):
AAACAAAAATTTCCTTTTAACTATTTACTTCC
Found at i:4839081 original size:22 final size:22
Alignment explanation
Indices: 4839053--4839097 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4839043 GTTAAGAGTA
4839053 AGAGTATCATCCCACAAGGATT
1 AGAGTATCATCCCACAAGGATT
4839075 AGAGTATCATCCCACAAGGATT
1 AGAGTATCATCCCACAAGGATT
4839097 A
1 A
4839098 TAGAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (22 bp):
AGAGTATCATCCCACAAGGATT
Found at i:4839603 original size:12 final size:12
Alignment explanation
Indices: 4839586--4839619 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4839576 TACCTTAGCC
4839586 AAACTACAAAGA
1 AAACTACAAAGA
*
4839598 AAACTATGAAAGA
1 AAACTA-CAAAGA
4839611 AAACTACAA
1 AAACTACAA
4839620 GAATTACAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (12 bp):
AAACTACAAAGA
Found at i:4841939 original size:2 final size:2
Alignment explanation
Indices: 4841932--4841963 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4841922 TTAAAAACAA
4841932 AG AG AG 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 AG AG AG
4841964 GGGGGGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4844236 original size:32 final size:32
Alignment explanation
Indices: 4844188--4844258 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
4844178 TAAAAAATTA
* * *
4844188 AATAAAATTTATTTATTTATTTATTATATAAT
1 AATAAAATTTAGTTATTAATATATTATATAAT
* *
4844220 AATAAAGTTTAGTTATTAATATATTATATATT
1 AATAAAATTTAGTTATTAATATATTATATAAT
4844252 AATAAAA
1 AATAAAA
4844259 AATCAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
AATAAAATTTAGTTATTAATATATTATATAAT
Found at i:4850168 original size:201 final size:201
Alignment explanation
Indices: 4849813--4850216 Score: 652
Period size: 201 Copynumber: 2.0 Consensus size: 201
4849803 AAAAAAATTA
*
4849813 CATGCATGTCATTTATTCATTTATTATTATATGTTTTTTATGTTATTCTTGATAAATTGCAAGAC
1 CATGCATGTCATTTATTCATTTATTATTATATGTTTTTTATATTATTCTTGATAAATTGCAAGAC
*
4849878 ATTTAAGATTAAGTTTCCAATGGTATATTCACGTATCCACACATGGCACATTTATATCATGCTTG
66 ATTTAAGATTAAGTTTCCAATGGTATATTCACGTATCCACACATGGCACATTTATATCATGCATG
* * * *
4849943 AGTTTTATATCCGAATTTTATCCCTTTTTGAAGGGAGTAGAGTACTTATACTCTTGTGAGGTGAT
131 AGTTTTATATCCGAATTCTATCCCTTTTAGAAGGGAGTAGAGTACCTATACTCTTGTGAGATGAT
4850008 AACTTT
196 AACTTT
* *
4850014 CATGCATAG-CATTTATTCATTTATTATTTTATGTTTTTTATATTATTCTTGATAGATTGCAAGA
1 CATGCAT-GTCATTTATTCATTTATTATTATATGTTTTTTATATTATTCTTGATAAATTGCAAGA
* * *
4850078 CATTTAAGGTTAAGTTTCCAATGTTATGTTCAC-TCATCCACACATGGCACATTTATATCATGCA
65 CATTTAAGATTAAGTTTCCAATGGTATATTCACGT-ATCCACACATGGCACATTTATATCATGCA
*
4850142 TGAGTTTTATA-CCTGAATTCTATCCCTTTTAGGAGGGAGTAGAGTACCTATACTCTTGTGAGAT
129 TGAGTTTTATATCC-GAATTCTATCCCTTTTAGAAGGGAGTAGAGTACCTATACTCTTGTGAGAT
4850206 GATAACTTT
193 GATAACTTT
4850215 CA
1 CA
4850217 CAATGGCAAG
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
200 3 0.02
201 184 0.98
202 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (201 bp):
CATGCATGTCATTTATTCATTTATTATTATATGTTTTTTATATTATTCTTGATAAATTGCAAGAC
ATTTAAGATTAAGTTTCCAATGGTATATTCACGTATCCACACATGGCACATTTATATCATGCATG
AGTTTTATATCCGAATTCTATCCCTTTTAGAAGGGAGTAGAGTACCTATACTCTTGTGAGATGAT
AACTTT
Found at i:4851080 original size:21 final size:21
Alignment explanation
Indices: 4851034--4851106 Score: 114
Period size: 21 Copynumber: 3.5 Consensus size: 21
4851024 CTCCCCACAT
4851034 AAGGGATCGATCACC-C-AGG
1 AAGGGATCGATCACCTCAAGG
4851053 CAAGGGATCGATCACCTCAAGG
1 -AAGGGATCGATCACCTCAAGG
*
4851075 AAGGGATCGATCCCCTCAAGG
1 AAGGGATCGATCACCTCAAGG
4851096 AAGGGATCGAT
1 AAGGGATCGAT
4851107 AAGTTCTGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
20 15 0.30
21 32 0.64
22 3 0.06
ACGTcount: A:0.32, C:0.25, G:0.30, T:0.14
Consensus pattern (21 bp):
AAGGGATCGATCACCTCAAGG
Found at i:4852548 original size:21 final size:20
Alignment explanation
Indices: 4852502--4852549 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
4852492 AGGTATGAAA
4852502 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
4852523 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
4852544 TTTTGA
1 TTTTGA
4852550 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:4861165 original size:21 final size:21
Alignment explanation
Indices: 4861141--4861190 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4861131 AAAAAGAGAA
** *
4861141 AAAAAAAGTGAGAAAAAAACC
1 AAAAAAAGAAAGAAAAAAAAC
*
4861162 AAAAATAGAAAGAAAAAAAAC
1 AAAAAAAGAAAGAAAAAAAAC
4861183 AAGAAAAA
1 AA-AAAAA
4861191 ATAATTGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAAAGAAAGAAAAAAAAC
Found at i:4863969 original size:23 final size:23
Alignment explanation
Indices: 4863927--4864014 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
4863917 CATTACATTT
*
4863927 AAATTTTAAATATTTACA-TTCAA
1 AAATTTTAAAGATTT-CATTTCAA
*
4863950 AAATTTTAAAGATTCTCATTTGAA
1 AAATTTTAAAGATT-TCATTTCAA
* * *
4863974 AGA-TTTAAAAATTCTCATTTGAA
1 AAATTTTAAAGATT-TCATTTCAA
*
4863997 AAATTTTAGAGATTTCAT
1 AAATTTTAAAGATTTCAT
4864015 CCAAATTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
23 40 0.73
24 15 0.27
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (23 bp):
AAATTTTAAAGATTTCATTTCAA
Found at i:4865152 original size:12 final size:12
Alignment explanation
Indices: 4865135--4865159 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4865125 AGAGCTTTCA
4865135 TTTTTTCATTTT
1 TTTTTTCATTTT
4865147 TTTTTTCATTTT
1 TTTTTTCATTTT
4865159 T
1 T
4865160 CACATCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCATTTT
Found at i:4865214 original size:40 final size:39
Alignment explanation
Indices: 4865135--4865214 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 39
4865125 AGAGCTTTCA
*
4865135 TTTTTTCATTTTTTTTTTCATTTTTCACATCTTTCTCAT
1 TTTTTTCATTTTTTTTTTCATTTTTCACATCATTCTCAT
*
4865174 TTTTTTC-TTTCTTTTATTTC-TTTTTCACTTCATTCATCAT
1 TTTTTTCATTT-TTTT-TTTCATTTTTCACATCATTC-TCAT
4865214 T
1 T
4865215 GATATCCCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 3 0.08
39 24 0.67
40 9 0.25
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (39 bp):
TTTTTTCATTTTTTTTTTCATTTTTCACATCATTCTCAT
Found at i:4865501 original size:10 final size:11
Alignment explanation
Indices: 4865478--4865506 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4865468 CATTTTGCCC
4865478 CATTTCTTCAA
1 CATTTCTTCAA
4865489 CATTTCTTC-A
1 CATTTCTTCAA
4865499 CATTTCTT
1 CATTTCTT
4865507 TTTTCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.52
Consensus pattern (11 bp):
CATTTCTTCAA
Found at i:4865541 original size:19 final size:16
Alignment explanation
Indices: 4865503--4865562 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
4865493 TCTTCACATT
4865503 TCTTTTTTCTTTTCCA
1 TCTTTTTTCTTTTCCA
4865519 TCTTTTTTACTTTTTCACA
1 TCTTTTTT-C-TTTTC-CA
* *
4865538 TCTTTTTTTTTTTTCA
1 TCTTTTTTCTTTTCCA
4865554 T-TTTTTTCT
1 TCTTTTTTCT
4865563 CTTTAAGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.18
16 11 0.29
17 5 0.13
18 5 0.13
19 10 0.26
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTTTTCTTTTCCA
Found at i:4865550 original size:18 final size:18
Alignment explanation
Indices: 4865495--4865553 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
4865485 TCAACATTTC
4865495 TTCACAT-TTCTTTTTTCTT
1 TTCACATCTT-TTTTTT-TT
*
4865514 TTC-CATCTTTTTTACTTT
1 TTCACATCTTTTTT-TTTT
4865532 TTCACATCTTTTTTTTTT
1 TTCACATCTTTTTTTTTT
4865550 TTCA
1 TTCA
4865554 TTTTTTTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 19 0.54
19 16 0.46
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCACATCTTTTTTTTTT
Found at i:4867085 original size:145 final size:142
Alignment explanation
Indices: 4866681--4867069 Score: 404
Period size: 145 Copynumber: 2.7 Consensus size: 142
4866671 ACCCTTTTAC
* * *
4866681 GAAAATACCTTTATAAGGGTATTTTCGTAAATTGACCTTTCCAAACTTGGATTTTCATGAAACTT
1 GAAAATACCCTTATAAGGGTATTTTCGTAATTTG-CCTTTCCAAGCTTGGATTTTCATGAAACTT
* * * * * *
4866746 TTCAGATCTCAATTTCATAACATTTCATGACTGTTAGTGCATTTGAAATCACAACAGTACCCCGA
65 TT-AGATTTCAATTTCATAAAATTTCATGATTTTTAATGCATTT-AAATCACAACAATACCCCGA
4866811 AAAGTGTGAAATTAT
128 AAAGTGTGAAATTAT
* * * * *
4866826 GAAAATACCCTTATAAAGGTATTTTCGTAATTTAACCTTTCCGAGCTTGGATTTTTATGAAAATT
1 GAAAATACCCTTATAAGGGTATTTTCGTAATTT-GCCTTTCCAAGCTTGGATTTTCATG-AAACT
* * * * ** * * * * *
4866891 TTTAGATCTT-AATTTTATAATATTTTATTATTTACAATGCATTTGAATCATAGCAATGCCCTTG
64 TTTAGAT-TTCAATTTCATAAAATTTCATGATTTTTAATGCATTTAAATCACAACAATACCC-CG
*
4866955 GAAAGCT-TGAAATTAT
127 AAAAG-TGTGAAATTAT
* * **
4866971 GAAAATACCCCTATAAGGGTATTTTCGTAATTTGGCTTTCCCAAGCTCAGATTTTCATGAAACTT
1 GAAAATACCCTTATAAGGGTATTTTCGTAATTTGCCTTT-CCAAGCTTGGATTTTCATGAAACTT
*
4867036 TTATATTTCAATTTCATAAAATTTCATGATTTTT
65 TTAGATTTCAATTTCATAAAATTTCATGATTTTT
4867070 TTTTGTTTTA
Statistics
Matches: 196, Mismatches: 41, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
143 2 0.01
144 45 0.23
145 140 0.71
146 9 0.05
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (142 bp):
GAAAATACCCTTATAAGGGTATTTTCGTAATTTGCCTTTCCAAGCTTGGATTTTCATGAAACTTT
TAGATTTCAATTTCATAAAATTTCATGATTTTTAATGCATTTAAATCACAACAATACCCCGAAAA
GTGTGAAATTAT
Found at i:4869867 original size:23 final size:24
Alignment explanation
Indices: 4869841--4869894 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4869831 TATTTATTTT
4869841 TATTTATTT-TTAAAATGTTATTA
1 TATTTATTTATTAAAATGTTATTA
* *
4869864 TATTTTTTTAATTAAAATTTTATTA
1 TATTTATTT-ATTAAAATGTTATTA
*
4869889 TTTTTA
1 TATTTA
4869895 ACTAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.32
25 17 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TATTTATTTATTAAAATGTTATTA
Found at i:4869900 original size:25 final size:25
Alignment explanation
Indices: 4869850--4869908 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
4869840 TTATTTATTT
* **
4869850 TTAAAATGTTATTATATTTTTTTAA
1 TTAAAATTTTATTATATTTTACTAA
4869875 TTAAAATTTTATTAT-TTTTAACTAA
1 TTAAAATTTTATTATATTTT-ACTAA
*
4869900 TAAAAATTT
1 TTAAAATTT
4869909 ATGCTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TTAAAATTTTATTATATTTTACTAA
Found at i:4870873 original size:4 final size:4
Alignment explanation
Indices: 4870864--4870894 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4870854 TATCCAACAA
*
4870864 AAAC AAAC AAAT AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
4870895 GAAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.03
Consensus pattern (4 bp):
AAAC
Found at i:4873023 original size:31 final size:31
Alignment explanation
Indices: 4872966--4873035 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
4872956 TGGAAAACCT
* * *
4872966 ACCAAAAAAGTTAACTGGCACCAAAAAGTTC
1 ACCAAAAAAGTTAACTGACACAAAAAAATTC
*
4872997 ACCAAAAAA-TTCAACTGACATAAAAAAATTC
1 ACCAAAAAAGTT-AACTGACACAAAAAAATTC
*
4873028 ATCAAAAA
1 ACCAAAAA
4873036 TTGAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.17
Consensus pattern (31 bp):
ACCAAAAAAGTTAACTGACACAAAAAAATTC
Found at i:4873566 original size:45 final size:44
Alignment explanation
Indices: 4873516--4874387 Score: 573
Period size: 44 Copynumber: 20.0 Consensus size: 44
4873506 GAATAACGTA
* * * *
4873516 AAAGCTCCTCTAAACAAAGGCTTAATTACTTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGAC-TTTGAAAAAATAAAT
** * * *
4873561 AAAGCTCCTCTAAGTGGAGGTTCAATAACTTTAAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* ** ** * *
4873605 AAAACTCCTCTAAATAGAGGCTCAACAATTTTAAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * * * *
4873649 AAAGCTCTTTTATGCAGAGGCTCAA-CAGCTTTAAAGAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGA-CTTTGAA-AAAATAAAT
* * *
4873694 AAAGTTTCTCTAAGCAGAGGCTTAATGACTTTG-AAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * **
4873737 AAGGCT-CTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
*
4873780 AAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * ** * *** * * * ** **
4873824 AAGGCTCATTTGCTAATAAATAAAAATAAATAAGGCTCCTCTACTAATAAAT
1 AAAGCTC--CT-CTAA-GCA-GAGGCTCAAT--GACT-TTGAAAAAATAAAT
* * *
4873876 AAGGCTCCTTTAAGCAGAGGCTTAATGACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * *
4873920 AAGGCTCCTTTAAGCAGAAGCTCAATGACTTTG-AAAAAT-AA-
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * * *
4873961 AAGGTTCCTCTCAGCAAAGGCTCAATGACTTT-AAAAAAT--A-
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * * * *
4874001 AAGGCTCATCTAAGTAGAGGCTTAACGACTTTG-AAAAATAAATT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAA-T
* * * **
4874045 AAA-CTCTTCTAAACAGAGGCTTAACAACTTTGAAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTG-AAAAAATAAAT
* * * ** *
4874089 AAGGTTCCTCTAAGTAGAAACTAAATGACTTTG-AAAAAT--A-
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * * *
4874129 AAAGCTCCTTTAAGCATAGGCTCAATGA-TTT-AAAAAAAAAAA
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* *
4874171 AAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTG-AAAAATAAAT
1 AAA-GCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * ** * * * *
4874215 AAAGCTCATTTAATAAGAGGCTCAATAATTTTTAGAAAGATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGA-AAAAATAAAT
** * *
4874260 AAAGCTCCTCTAAATAGAGGCTTAATGACATTGAAAAAATAAAT
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
* * * * *
4874304 AAGGCTCATCTAAGTAAAGGCTCAAAGACTTTGAAAAAA-AAA-
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
** * * *
4874346 AAAGCTCCTCTAAATAAAGGCACAATAACTTTG-AAAAATAAA
1 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAA
4874388 AGCTCCTCAA
Statistics
Matches: 648, Mismatches: 147, Indels: 67
0.75 0.17 0.08
Matches are distributed among these distances:
39 8 0.01
40 52 0.08
41 40 0.06
42 58 0.09
43 112 0.17
44 217 0.33
45 120 0.19
46 2 0.00
47 9 0.01
48 2 0.00
49 8 0.01
50 1 0.00
51 3 0.00
52 16 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (44 bp):
AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAAT
Found at i:4873799 original size:131 final size:132
Alignment explanation
Indices: 4873516--4873830 Score: 350
Period size: 131 Copynumber: 2.4 Consensus size: 132
4873506 GAATAACGTA
* * * ** * **
4873516 AAAGCTCCTCTAAACAAAGGCTTAATTACTTTTGAAAAAATAAATAAAGCTCCTCTAAGTGGAGG
1 AAAGCTCCTCTAAGCAGAGGCTCAAAGAC-TTTAAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* *
4873581 TTCAATAACTTTAAAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAACAATTTTAAAAAAATA
65 TTCAATAACTTTAAAAAAATAAATAAAACTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATA
4873646 AAT
130 AAT
* * * * *
4873649 AAAGCTCTTTTATGCAGAGGCTCAACAG-CTTTAAAGAAAATAAATAAAGTTTCTCTAAGCAGAG
1 AAAGCTCCTCTAAGCAGAGGCTCAA-AGACTTTAAA-AAAATAAATAAAGCTCCTCTAAGCAGAG
* * ** *
4873713 GCTT-AATGACTTT-GAAAAATAAATAAGGCT-CTCTAAACAGAGGCTCAACAACTTTGAAAAAA
64 G-TTCAATAACTTTAAAAAAATAAATAAAACTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAA
4873775 TAAAT
128 TAAAT
* * * *
4873780 AAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAAAAAATAAATAAGGCTC
1 AAAGCTCCTCTAAGCAGAGGCTCAAAGACTTTAAAAAAATAAATAAAGCTC
4873831 ATTTGCTAAT
Statistics
Matches: 149, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
130 14 0.09
131 61 0.41
132 19 0.13
133 53 0.36
134 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (132 bp):
AAAGCTCCTCTAAGCAGAGGCTCAAAGACTTTAAAAAAATAAATAAAGCTCCTCTAAGCAGAGGT
TCAATAACTTTAAAAAAATAAATAAAACTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAA
AT
Found at i:4873851 original size:31 final size:31
Alignment explanation
Indices: 4873814--4873877 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4873804 ATGACTTTGA
* *
4873814 AAAAATAAATAAGGCTCATTTGCTAATAAAT
1 AAAAATAAATAAGGCTCATCTACTAATAAAT
*
4873845 AAAAATAAATAAGGCTCCTCTACTAATAAAT
1 AAAAATAAATAAGGCTCATCTACTAATAAAT
4873876 AA
1 AA
4873878 GGCTCCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (31 bp):
AAAAATAAATAAGGCTCATCTACTAATAAAT
Found at i:4874166 original size:128 final size:125
Alignment explanation
Indices: 4873879--4874394 Score: 364
Period size: 128 Copynumber: 4.0 Consensus size: 125
4873869 AATAAATAAG
* *
4873879 GCTCCTTTAAGCAGAGGCTTAATGACTTTGAAAAAATAAATAAGGCTCCTT-TAAGCAGAAGCTC
1 GCTCCTTTAAGCAGAGGCTTAATGACTTT-AAAAAATAAATAA-ACT-CTTCTAAGCAGAGGCTC
* * * * *
4873943 AATGACTTTGAAAAAT-AA-AAGGTTCCTCTCAGCAAAGGCTCAATGACTTTAAAAAATAAAG
63 AACGACTTTGAAAAATAAATAAGGTTCCTCTAAGCAAAGACTAAATGACTTTAAAAAATAAAA
* * * * * * *
4874004 GCTCATCTAAGTAGAGGCTTAACGACTTTGAAAAATAAATTAAACTCTTCTAAACAGAGGCTTAA
1 GCTCCTTTAAGCAGAGGCTTAATGACTTTAAAAAATAAA-TAAACTCTTCTAAGCAGAGGCTCAA
* * *
4874069 CAACTTTGAAAAAAATAAATAAGGTTCCTCTAAGTAGAA-ACTAAATGACTTTGAAAAATAAAA
65 CGACTTTG--AAAAATAAATAAGGTTCCTCTAAGCA-AAGACTAAATGACTTTAAAAAATAAAA
* * * * * *
4874132 GCTCCTTTAAGCATAGGCTCAATGA-TTTAAAAAAAAAAAAAAGGCTCCTCTAAGTAGAGGCTCA
1 GCTCCTTTAAGCAGAGGCTTAATGACTTTAAAAAATAAATAAA--CTCTTCTAAGCAGAGGCTCA
* * * * * * * * * *
4874196 ACGACTTTGAAAAATAAATAAAGCTCATTTAA-TAAGAGGCTCAATAATTTTTAGAAAGATAAAT
64 ACGACTTTGAAAAATAAATAAGGTTCCTCTAAGCAA-AGACTAAATGA-CTTTA-AAA-A-ATA-
4874260 AAA
123 AAA
* ** * * * * *
4874263 GCTCCTCTAAATAGAGGCTTAATGACATTGAAAAAATAAATAAGGCTCATCTAAGTAAAGGCTCA
1 GCTCCTTTAAGCAGAGGCTTAATGAC-TTTAAAAAATAAATAA-ACTCTTCTAAGCAGAGGCTCA
* * * * ** * * *
4874328 AAGACTTTGAAAAA-AAAAAAAGCTCCTCTAAATAAAGGC-ACAATAACTTTGAAAAATAAAA
64 ACGACTTTGAAAAATAAATAAGGTTCCTCTAAGCAAAGACTA-AATGACTTTAAAAAATAAAA
4874389 GCTCCT
1 GCTCCT
4874395 CAACAATCAT
Statistics
Matches: 310, Mismatches: 60, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
123 3 0.01
124 30 0.10
125 31 0.10
126 43 0.14
127 18 0.06
128 81 0.26
129 6 0.02
130 5 0.02
131 46 0.15
132 34 0.11
133 13 0.04
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (125 bp):
GCTCCTTTAAGCAGAGGCTTAATGACTTTAAAAAATAAATAAACTCTTCTAAGCAGAGGCTCAAC
GACTTTGAAAAATAAATAAGGTTCCTCTAAGCAAAGACTAAATGACTTTAAAAAATAAAA
Found at i:4874211 original size:171 final size:172
Alignment explanation
Indices: 4873869--4874387 Score: 574
Period size: 171 Copynumber: 3.0 Consensus size: 172
4873859 CTCCTCTACT
* * * * *
4873869 AATAAATAAGGCTCCTTTAA-GCAGAGGCTTAATGACTTTG-AAAAAATAAATAAGGCTCCTTTA
1 AATAAATAAAGCTCATTTAATACAGAGGCTTAATAACTTTGAAAAAAATAAATAAGGCTCCTCTA
* * * *
4873932 AGCAGAAGCTCAATGACTTTGAAAAATAAAAGGTTCCTCTCAGCAAAGGCTCAATGACTTT--AA
66 AGTAGAAGCTAAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAAAGGCTCAATGACTTTAAAA
* * *
4873995 AAAATAAAGGCTCATCTAAGTAGAGGCTTAACGACTTTGAAA
131 AAAAAAAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTGAAA
* *
4874037 AATAAATTAAA-CTC-TTCTAA-ACAGAGGCTTAACAACTTTGAAAAAAATAAATAAGGTTCCTC
1 AATAAA-TAAAGCTCATT-TAATACAGAGGCTTAATAACTTTGAAAAAAATAAATAAGGCTCCTC
* * *
4874099 TAAGTAGAAACTAAATGACTTTGAAAAATAAAA-GCTCCTTTAAGCATAGGCTCAATGA-TTTAA
64 TAAGTAGAAGCTAAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAAAGGCTCAATGACTTT--
4874162 AAAAAAAAAAAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTGAAA
127 AAAAAAAAAAAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTGAAA
* * * * * *
4874208 AATAAATAAAGCTCATTTAATA-AGAGGCTCAATAATTTTTAGAAAGATAAATAAAGCTCCTCTA
1 AATAAATAAAGCTCATTTAATACAGAGGCTTAATAACTTTGAAAAAAATAAATAAGGCTCCTCTA
* * * * * * *
4874272 AATAGAGGCTTAATGACATTGAAAAAATAAATAAGGCTCATCTAAGTAAAGGCTCAAAGACTTTG
66 AGTAGAAGCTAAATGACTTTG-AAAAAT-AA-AAGGCTCCTCTAAGCAAAGGCTCAATGACTTT-
* * * **
4874337 AAAAAAAAAAAA-GCTCCTCTAAATAAAGGCACAATAACTTTGAAA
127 AAAAAAAAAAAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTGAAA
4874382 AATAAA
1 AATAAA
4874388 AGCTCCTCAA
Statistics
Matches: 296, Mismatches: 40, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
167 5 0.02
168 50 0.17
169 52 0.18
170 4 0.01
171 103 0.35
172 9 0.03
173 2 0.01
174 36 0.12
175 32 0.11
176 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (172 bp):
AATAAATAAAGCTCATTTAATACAGAGGCTTAATAACTTTGAAAAAAATAAATAAGGCTCCTCTA
AGTAGAAGCTAAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAAAGGCTCAATGACTTTAAAA
AAAAAAAAGGCTCCTCTAAGTAGAGGCTCAACGACTTTGAAA
Found at i:4875230 original size:79 final size:79
Alignment explanation
Indices: 4875068--4875261 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 79
4875058 AGCTTCTCAG
* * * ** *
4875068 CATT-TAAAACAAGTTTCGTCAATTGATCCTCATTATTTTCATCACTTGATCACCATTCATAGGC
1 CATTCTAAAACAAGTTTAGCCAATTGATCCTCATCATGGTCATCACTTGATCACCATTCACAGGC
*
4875132 TTCTCAGCACCTAC
66 TTCTCAACACCTAC
*
4875146 AATTCTAAAACAAGTTTAGCCAATTGATCCAT-ATCATGGTCATCACTTGATCACCATTCACAGG
1 CATTCTAAAACAAGTTTAGCCAATTGATCC-TCATCATGGTCATCACTTGATCACCATTCACAGG
4875210 CTTCTCAACA-CTAGC
65 CTTCTCAACACCTA-C
** *
4875225 CATTCTAGAATGAA-TTTCATCC-ATTGATCCTCATCAT
1 CATTCTA-AAACAAGTTT-AGCCAATTGATCCTCATCAT
4875262 TTGATTACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
78 7 0.07
79 83 0.85
80 8 0.08
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (79 bp):
CATTCTAAAACAAGTTTAGCCAATTGATCCTCATCATGGTCATCACTTGATCACCATTCACAGGC
TTCTCAACACCTAC
Found at i:4875853 original size:8 final size:8
Alignment explanation
Indices: 4875840--4875948 Score: 64
Period size: 8 Copynumber: 13.1 Consensus size: 8
4875830 ATTTGAGTAT
4875840 TCTTTTTC
1 TCTTTTTC
4875848 TCTTTTT-
1 TCTTTTTC
*
4875855 TCATTATTTT
1 TC-TT-TTTC
4875865 TCGTTCTTTC
1 TC-TT-TTTC
*
4875875 -ATTTTTC
1 TCTTTTTC
4875882 TCTTTTTC
1 TCTTTTTC
*
4875890 TCTCTTTTT
1 TCT-TTTTC
4875899 TCTTTATTC
1 TCTTT-TTC
4875908 T-TTTTTC
1 TCTTTTTC
4875915 -CTTGTTTCC
1 TCTT-TTT-C
* *
4875924 TTTTTTTT
1 TCTTTTTC
*
4875932 TCTTTTTT
1 TCTTTTTC
4875940 TCTTTTTC
1 TCTTTTTC
4875948 T
1 T
4875949 TATATTTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
7 11 0.14
8 43 0.54
9 17 0.21
10 9 0.11
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (8 bp):
TCTTTTTC
Found at i:4875864 original size:18 final size:16
Alignment explanation
Indices: 4875842--4875984 Score: 62
Period size: 17 Copynumber: 8.6 Consensus size: 16
4875832 TTGAGTATTC
4875842 TTTTTCTCTTTTTTCA
1 TTTTTCTCTTTTTTCA
* *
4875858 TTATTTTTCGTTCTTTCA
1 TT-TTTCTC-TTTTTTCA
4875876 TTTTTCTCTTTTTCTC-
1 TTTTTCTCTTTTT-TCA
* * *
4875892 TCTTTTTTCTTTATTCT
1 T-TTTTCTCTTTTTTCA
* *
4875909 TTTTTC-CTTGTTTCCTT
1 TTTTTCTCTT-TTTTC-A
*
4875926 TTTTTTTCTTTTTTTC-
1 TTTTTCTC-TTTTTTCA
* *
4875942 TTTTTCTTATATTTTTTA
1 TTTTTC-TCT-TTTTTCA
4875960 TTTTT-TCCATTTTTT-A
1 TTTTTCT-C-TTTTTTCA
4875976 TTTTTCTCT
1 TTTTTCTCT
4875985 CTTCATTTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 31
0.68 0.10 0.22
Matches are distributed among these distances:
15 4 0.04
16 30 0.31
17 41 0.42
18 20 0.21
19 2 0.02
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTTCTCTTTTTTCA
Found at i:4875913 original size:33 final size:34
Alignment explanation
Indices: 4875837--4875946 Score: 90
Period size: 34 Copynumber: 3.3 Consensus size: 34
4875827 TCAATTTGAG
4875837 TATTC-TTTTTCTCTTTTT-TCATTATTTTTCGTT
1 TATTCTTTTTTCTCTTTTTCTCATT-TTTTTCGTT
*
4875870 CT-TTCATTTTTCTCTTTTTCTC-TCTTTTTTC-TT
1 -TATTCTTTTTTCTCTTTTTCTCAT-TTTTTTCGTT
* *
4875903 TATTCTTTTTTC-CTTGTTTC-CTTTTTTTTTCTTT
1 TATTCTTTTTTCTCTT-TTTCTC-ATTTTTTTCGTT
*
4875937 TTTTCTTTTT
1 TATTCTTTTT
4875947 CTTATATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
32 5 0.08
33 25 0.38
34 33 0.50
35 3 0.05
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (34 bp):
TATTCTTTTTTCTCTTTTTCTCATTTTTTTCGTT
Found at i:4875932 original size:19 final size:18
Alignment explanation
Indices: 4875908--4875946 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4875898 TTCTTTATTC
*
4875908 TTTTTTCCTTGTTTCCTT
1 TTTTTTTCTTGTTTCCTT
* *
4875926 TTTTTTTCTTTTTTTCTT
1 TTTTTTTCTTGTTTCCTT
4875944 TTT
1 TTT
4875947 CTTATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTTCTTGTTTCCTT
Found at i:4875956 original size:26 final size:25
Alignment explanation
Indices: 4875868--4875965 Score: 83
Period size: 26 Copynumber: 3.8 Consensus size: 25
4875858 TTATTTTTCG
* *
4875868 TTCTTTCATTTTTCTCTTTTTCTCTCT
1 TTCTTT-ATTTTT-TCTTTTTTTCTTT
* * *
4875895 TT-TTTCTTTATTCTTTTTTCCTTGT
1 TTCTTTATTTTTTCTTTTTTTCTT-T
4875920 TTCCTTT-TTTTTTCTTTTTTTCTTT
1 TT-CTTTATTTTTTCTTTTTTTCTTT
*
4875945 TTCTTATATTTTTTATTTTTT
1 TTCTT-TATTTTTTCTTTTTT
4875966 CCATTTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
24 12 0.21
25 11 0.19
26 30 0.52
27 5 0.09
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (25 bp):
TTCTTTATTTTTTCTTTTTTTCTTT
Found at i:4876741 original size:18 final size:18
Alignment explanation
Indices: 4876718--4876760 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
4876708 AATTATTGCT
*
4876718 ATCATTGTCTAAACATTC
1 ATCATTGTCTAAACATTA
4876736 ATCATTGTCTAAACATTA
1 ATCATTGTCTAAACATTA
4876754 ATCATTG
1 ATCATTG
4876761 AGAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (18 bp):
ATCATTGTCTAAACATTA
Found at i:4880554 original size:26 final size:25
Alignment explanation
Indices: 4880500--4880554 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
4880490 CTCACCTAAG
*
4880500 AATTTTATAAAAATTTACCATTTGA
1 AATTTTATAAAAATTTACCATTGGA
* *
4880525 AATTTT-TATAAATTCTATCATTGGA
1 AATTTTATAAAAATT-TACCATTGGA
4880550 TAATT
1 -AATT
4880555 AATACTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 14 0.56
26 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTACCATTGGA
Found at i:4885660 original size:17 final size:17
Alignment explanation
Indices: 4885638--4885681 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4885628 TAATGTTTCT
*
4885638 AAAAAAAATAAGAAAAC
1 AAAAAAAATAAAAAAAC
* *
4885655 AAAAAAAACAAAAAAAG
1 AAAAAAAATAAAAAAAC
*
4885672 AAAAACAATA
1 AAAAAAAATA
4885682 CATCTCAGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAC
Found at i:4886958 original size:87 final size:87
Alignment explanation
Indices: 4886847--4887097 Score: 394
Period size: 87 Copynumber: 2.9 Consensus size: 87
4886837 CATTTGTATC
* * * *
4886847 ACTTGCATATGCATCATGAAAAAGACATTCGCATTCAAATCTGCATCACAAAAAAAGAACATCCA
1 ACTTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTGCATCACAAAAAAAGAACATCCA
4886912 TATTTGCATCATCCGCATTCAT
66 TATTTGCATCATCCGCATTCAT
* *
4886934 ACTTGCATGTGCATCATGAGAAAGACATTTGTATTCACATCTGCATCACAAAAAAAGAACATCCG
1 ACTTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTGCATCACAAAAAAAGAACATCCA
*
4886999 TATTTGCATCATTCGCATTCAT
66 TATTTGCATCATCCGCATTCAT
* * *
4887021 ATTTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTGCATCACAAAAAAAAAGACATTC
1 ACTTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTGCATCACAAAAAAAGA-ACATCC
*
4887086 ACATTTGCATCA
65 ATATTTGCATCA
4887098 CAAAAAAAAA
Statistics
Matches: 150, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 135 0.90
88 15 0.10
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (87 bp):
ACTTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTGCATCACAAAAAAAGAACATCCA
TATTTGCATCATCCGCATTCAT
Found at i:4887120 original size:29 final size:29
Alignment explanation
Indices: 4887052--4887113 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
4887042 AAGACATTTG
*
4887052 CATTCACATCTGCATCACAAAAAAAAAGA
1 CATTCACATTTGCATCACAAAAAAAAAGA
4887081 CATTCACATTTGCATCACAAAAAAAAAGA
1 CATTCACATTTGCATCACAAAAAAAAAGA
4887110 CATT
1 CATT
4887114 TGCATTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.21
Consensus pattern (29 bp):
CATTCACATTTGCATCACAAAAAAAAAGA
Found at i:4887125 original size:29 final size:29
Alignment explanation
Indices: 4887052--4887125 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
4887042 AAGACATTTG
* *
4887052 CATTCACATCTGCATCACAAAAAAAAAGA
1 CATTCACATTTACATCACAAAAAAAAAGA
*
4887081 CATTCACATTTGCATCACAAAAAAAAAGA
1 CATTCACATTTACATCACAAAAAAAAAGA
**
4887110 CATTTGCATTTACATC
1 CATTCACATTTACATC
4887126 CAATTACACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (29 bp):
CATTCACATTTACATCACAAAAAAAAAGA
Found at i:4888156 original size:84 final size:83
Alignment explanation
Indices: 4887923--4888231 Score: 331
Period size: 82 Copynumber: 3.7 Consensus size: 83
4887913 GGCCTTCGAC
* * * *
4887923 AAAATGTTTTAATTTTTTAAAGTTTCAACACCTTTAGTACAAGGAGCATTCAAAGATTTTT-AGA
1 AAAATGTTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAGA
* *
4887987 TTTCTAAGACCTCCAGGC-
66 TTTCCAAGA-CTTCAGGCA
* * * * **
4888005 AAAATGTTTTAATTTTTTAAAGTTTTAATGCCTTTATTACCAAAAGCATTCAAAGATTTTTGAAG
1 AAAATGTTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTG-AG
* *
4888070 ATTTCCAAGATTTCTATGCA
65 ATTTCCAAGACTTC-AGGCA
* * *
4888090 AAAAT-TTTTAATTTTTTAAAAGTTTCAATGCCTCTATTACGAGGAGGATTTAAAGATTTTTGAG
1 AAAATGTTTTAATTTTTT-AAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAG
* *
4888154 ATTTTCAAGACCTTCGGGCA
65 ATTTCCAAGA-CTTCAGGCA
* * *
4888174 AAACA--TTTTAAATTTTTAAAGTTTCAAAACATCTATTACGAGGAGCATTCAAAGATTT
1 AAA-ATGTTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTT
4888232 CAAAAACCTC
Statistics
Matches: 192, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
82 54 0.28
83 38 0.20
84 54 0.28
85 46 0.24
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (83 bp):
AAAATGTTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAGA
TTTCCAAGACTTCAGGCA
Found at i:4888223 original size:168 final size:167
Alignment explanation
Indices: 4887923--4888231 Score: 397
Period size: 168 Copynumber: 1.8 Consensus size: 167
4887913 GGCCTTCGAC
*
4887923 AAAATGTTTTAATTTTTTAAAGTTTCAACACCTTTAGTACAAGGAGCATTCAAAGATTTTTAGAT
1 AAAATGTTTTAATTTTTTAAAGTTTCAACACCTCTAGTACAAGGAGCATTCAAAGATTTTTAGAT
** * * ** * *
4887988 TTCTAAGACCTCCAGGCAAAATGTTTTAATTTTTTAAAGTTTTAATGCCTTTATTACCAAAAGCA
66 TTCTAAGACCTCCAGGCAAAACATTTTAAATTTTTAAAGTTTCAAAACATCTATTACCAAAAGCA
4888053 TTCAAAGATTTTTGAAGATTTCCAAGATTTCTATGCA
131 TTCAAAGATTTTTGAAGATTTCCAAGATTTCTATGCA
** * * * *
4888090 AAAAT-TTTTAATTTTTTAAAAGTTTCAATGCCTCTATTACGAGGAGGATTTAAAGATTTTTGAG
1 AAAATGTTTTAATTTTTT-AAAGTTTCAACACCTCTAGTACAAGGAGCATTCAAAGATTTTT-AG
* * * **
4888154 ATTT-TCAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAAAACATCTATTACGAGGA
64 ATTTCT-AAGACCTCCAGGCAAAACATTTTAAATTTTTAAAGTTTCAAAACATCTATTACCAAAA
4888218 GCATTCAAAGATTT
128 GCATTCAAAGATTT
4888232 CAAAAACCTC
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
166 12 0.10
167 42 0.35
168 65 0.55
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (167 bp):
AAAATGTTTTAATTTTTTAAAGTTTCAACACCTCTAGTACAAGGAGCATTCAAAGATTTTTAGAT
TTCTAAGACCTCCAGGCAAAACATTTTAAATTTTTAAAGTTTCAAAACATCTATTACCAAAAGCA
TTCAAAGATTTTTGAAGATTTCCAAGATTTCTATGCA
Found at i:4888230 original size:83 final size:82
Alignment explanation
Indices: 4887929--4888231 Score: 324
Period size: 84 Copynumber: 3.6 Consensus size: 82
4887919 CGACAAAATG
* * * *
4887929 TTTTAATTTTTTAAAGTTTCAACACCTTTAGTACAAGGAGCATTCAAAGATTTTT-AGA-TTTCT
1 TTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAGATTTTC-
* *
4887992 AAGACCTCCAGGCAAAATG
65 AAGACCTTCAGGCAAAA-A
* * * * ** *
4888011 TTTTAATTTTTTAAAGTTTTAATGCCTTTATTACCAAAAGCATTCAAAGATTTTTGAAGATTTCC
1 TTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTG-AGATTTTC
* *
4888076 AAGA-TTTCTATGCAAAAA
65 AAGACCTTC-AGGCAAAAA
* * *
4888094 TTTTTAATTTTTTAAAAGTTTCAATGCCTCTATTACGAGGAGGATTTAAAGATTTTTGAGATTTT
1 -TTTTAATTTTTT-AAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAGATTTT
*
4888159 CAAGACCTTCGGGCAAAACA
64 CAAGACCTTCAGGCAAAA-A
* * *
4888179 TTTTAAATTTTTAAAGTTTCAAAACATCTATTACGAGGAGCATTCAAAGATTT
1 TTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTT
4888232 CAAAAACCTC
Statistics
Matches: 184, Mismatches: 29, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
82 48 0.26
83 38 0.21
84 54 0.29
85 44 0.24
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (82 bp):
TTTTAATTTTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTCAAAGATTTTTGAGATTTTCA
AGACCTTCAGGCAAAAA
Found at i:4889176 original size:144 final size:143
Alignment explanation
Indices: 4888921--4889456 Score: 525
Period size: 145 Copynumber: 3.7 Consensus size: 143
4888911 AGGAAAGTAC
* * * * * *
4888921 AAAATTACCAAAATACCCCTATAATAGATATTTTCATAACTTGACCTTTTCTAGCTCAAATTTTT
1 AAAATTACCAAAATA-CCCTATAA-GGATATTTTCGTAATTTGACCTTCTCGAGCTCAAATTTTC
* *
4888986 ATGAAATTTTTTAAGATCTTAATTTCATAATATTTCATGA-TTTTAGTGCATTTGAAATCATAGT
64 ATGAAA-CTTTTAAGATCTTAATTTCATAATATTTCAT-ATTTTTAGTGCATTTGAAATCACA-T
*
4889050 -AGTA-CCTTGAAAAGTGT
126 CAGTATCCCT-AAAAGTGT
* * * *
4889067 AAAATTACCAAAATACCCATATAAGGGTATTTTCGTAATTTGACCTTCCCGAGTTTAAATTTTCA
1 AAAATTACCAAAATACCC-TATAAGGATATTTTCGTAATTTGACCTTCTCGAGCTCAAATTTTCA
* *
4889132 TGAAACATTCT-AGATCTTGATTTCATAATATTTCATATTTTTAGTGCATTTGAAATCACATCAG
65 TGAAAC-TTTTAAGATCTTAATTTCATAATATTTCATATTTTTAGTGCATTTGAAATCACATCAG
*
4889196 TATCCCTAAAATTGT
129 TATCCCTAAAAGTGT
* * * * * *
4889211 GAAATTACTAAATTACTCCTATAAGGATATTTTTGTAATTTGACCTTCTTGAGCTCAGATTTTCA
1 AAAATTACCAAAATAC-CCTATAAGGATATTTTCGTAATTTGACCTTCTCGAGCTCAAATTTTCA
** *
4889276 AAAAACTTTTCAA-ATCTTAATTTCATAATATTTCATTATTTTTAGTGCATTTGAAATC-CTAGC
65 TGAAACTTTT-AAGATCTTAATTTCATAATATTTCA-TATTTTTAGTGCATTTGAAATCAC-ATC
*
4889339 AATA-CCC-AAGGAAGTGT
127 AGTATCCCTAA--AAGTGT
* * * * * * * **
4889356 GAAATTACCAAAATACACCTAAAAGCATATTTTTGTAATTTGGCTTTC-CAAAGCTCGGATTTTC
1 AAAATTACCAAAATAC-CCTATAAGGATATTTTCGTAATTTGACCTTCTC-GAGCTCAAATTTTC
*
4889420 ATGAAACTTTTCAGAT-TTCAATTTCATAATATTTCAT
64 ATGAAACTTTTAAGATCTT-AATTTCATAATATTTCAT
4889457 GATATTTGGT
Statistics
Matches: 329, Mismatches: 46, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
143 7 0.02
144 141 0.43
145 161 0.49
146 20 0.06
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (143 bp):
AAAATTACCAAAATACCCTATAAGGATATTTTCGTAATTTGACCTTCTCGAGCTCAAATTTTCAT
GAAACTTTTAAGATCTTAATTTCATAATATTTCATATTTTTAGTGCATTTGAAATCACATCAGTA
TCCCTAAAAGTGT
Found at i:4892073 original size:10 final size:10
Alignment explanation
Indices: 4892060--4892084 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4892050 CTTTATAAAA
4892060 TTTTAATAAT
1 TTTTAATAAT
4892070 TTTTAATAAT
1 TTTTAATAAT
4892080 TTTTA
1 TTTTA
4892085 TAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:4896250 original size:25 final size:25
Alignment explanation
Indices: 4896203--4896250 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4896193 AAACAACCTC
* *
4896203 TAAAAAGTAAATAGAGAAAGCTACG
1 TAAAAAGGAAAAAGAGAAAGCTACG
4896228 TAAAAAGGAAAAAGA-AAATGCTA
1 TAAAAAGGAAAAAGAGAAA-GCTA
4896251 GGAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (25 bp):
TAAAAAGGAAAAAGAGAAAGCTACG
Found at i:4899696 original size:15 final size:15
Alignment explanation
Indices: 4899676--4899704 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4899666 TATTACTTAA
4899676 ACTCAATCTCAAATT
1 ACTCAATCTCAAATT
4899691 ACTCAATCTCAAAT
1 ACTCAATCTCAAAT
4899705 AAGATAAGTA
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:0.28, G:0.00, T:0.31
Consensus pattern (15 bp):
ACTCAATCTCAAATT
Found at i:4903392 original size:16 final size:16
Alignment explanation
Indices: 4903371--4903402 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4903361 TCATATCGTA
4903371 TTTTAATAATTGGTAT
1 TTTTAATAATTGGTAT
*
4903387 TTTTAATATTTGGTAT
1 TTTTAATAATTGGTAT
4903403 GAGCTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTTAATAATTGGTAT
Found at i:4908905 original size:6 final size:6
Alignment explanation
Indices: 4908875--4908993 Score: 53
Period size: 7 Copynumber: 18.5 Consensus size: 6
4908865 AAACTCCAAG
* * * *
4908875 CCTAAA CCTTAAA -CTGAAA CTCTAAA CCTAAA TCCCAAA TCCTAGA TCGAAA
1 CCTAAA CC-TAAA CCT-AAA C-CTAAA CCTAAA -CCTAAA -CCTAAA CCTAAA
* * * * *
4908927 CCCAAA CCTAAC CCTAAA CCTAAA TCCTAAA TCCCAAA CCCCAAA -TTGAAA
1 CCTAAA CCTAAA CCTAAA CCTAAA -CCTAAA -CCTAAA -CCTAAA CCT-AAA
4908978 CCTCAAA CCTAAA CCT
1 CCT-AAA CCTAAA CCT
4908994 TAAATCGTAA
Statistics
Matches: 88, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
5 1 0.01
6 42 0.48
7 43 0.49
8 2 0.02
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.18
Consensus pattern (6 bp):
CCTAAA
Found at i:4908957 original size:13 final size:13
Alignment explanation
Indices: 4908896--4909011 Score: 55
Period size: 13 Copynumber: 8.8 Consensus size: 13
4908886 AACTGAAACT
4908896 CTAAACCTAAATC
1 CTAAACCTAAATC
* *
4908909 CCAAATCCTAGAT-
1 CTAAA-CCTAAATC
* *
4908922 CGAAACCCAAA-C
1 CTAAACCTAAATC
*
4908934 CTAACCCTAAA-C
1 CTAAACCTAAATC
4908946 CTAAATCCTAAATC
1 CTAAA-CCTAAATC
* *
4908960 CCAAACCCCAAAT-
1 CTAAA-CCTAAATC
4908973 -TGAAACCTCAAA-C
1 CT-AAACCT-AAATC
4908986 CTAAACCTTAAATC
1 CTAAACC-TAAATC
*
4909000 GTAAACCCTAAA
1 CTAAA-CCTAAA
4909012 GTTAACTAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
12 19 0.25
13 28 0.36
14 28 0.36
15 2 0.03
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18
Consensus pattern (13 bp):
CTAAACCTAAATC
Found at i:4908957 original size:51 final size:52
Alignment explanation
Indices: 4908891--4909011 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 52
4908881 CCTTAAACTG
* * *
4908891 AAACTCTAAACCTAAATCCCAAATCCTAGATCGAAACC-CAAACCTAACCCT
1 AAACTCTAAACCTAAATCCCAAACCCCAAATCGAAACCTCAAACCTAACCCT
* *
4908942 AAAC-CTAAATCCTAAATCCCAAACCCCAAATTGAAACCTCAAACCTAAACCTT
1 AAACTCTAAA-CCTAAATCCCAAACCCCAAATCGAAACCTCAAACCT-AACCCT
4908995 AAA-TCGTAAACCCTAAA
1 AAACTC-TAAA-CCTAAA
4909012 GTTAACTAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
50 5 0.08
51 28 0.47
52 7 0.12
53 9 0.15
54 10 0.17
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.18
Consensus pattern (52 bp):
AAACTCTAAACCTAAATCCCAAACCCCAAATCGAAACCTCAAACCTAACCCT
Found at i:4909633 original size:25 final size:26
Alignment explanation
Indices: 4909595--4909643 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4909585 AATAAAATAC
* *
4909595 TTTGTTTTTCAAAAAGAAAAAATTGA
1 TTTGCTTTTCAAAAAAAAAAAATTGA
4909621 TTTGCTTTT-AAAAAAAAAAAATT
1 TTTGCTTTTCAAAAAAAAAAAATT
4909644 CAAATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (26 bp):
TTTGCTTTTCAAAAAAAAAAAATTGA
Found at i:4909650 original size:27 final size:26
Alignment explanation
Indices: 4909582--4909643 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 26
4909572 ATTTTGGTCC
* * *
4909582 AAAAATAAAA-TACTTTGTTTTTCAA
1 AAAAAAAAAATTAATTTGCTTTTCAA
* *
4909607 AAAGAAAAAATTGATTTGCTTTT-AA
1 AAAAAAAAAATTAATTTGCTTTTCAA
4909632 AAAAAAAAAATT
1 AAAAAAAAAATT
4909644 CAAATTTTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (26 bp):
AAAAAAAAAATTAATTTGCTTTTCAA
Found at i:4910167 original size:9 final size:9
Alignment explanation
Indices: 4910153--4910187 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
4910143 TGTTTTCCCA
4910153 AAAAAATTG
1 AAAAAATTG
4910162 AAAAAATTG
1 AAAAAATTG
*
4910171 AAAAAAGT-
1 AAAAAATTG
4910179 AAAAAATTG
1 AAAAAATTG
4910188 TGAAAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (9 bp):
AAAAAATTG
Found at i:4911184 original size:13 final size:12
Alignment explanation
Indices: 4911159--4911193 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
4911149 ATCTCATTTT
4911159 ATCTTTTTT-TC
1 ATCTTTTTTATC
4911170 ATACTTTTTTATC
1 AT-CTTTTTTATC
4911183 ATCTTTTTTAT
1 ATCTTTTTTAT
4911194 ATAATAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 16 0.73
13 4 0.18
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (12 bp):
ATCTTTTTTATC
Found at i:4911239 original size:36 final size:38
Alignment explanation
Indices: 4911194--4911339 Score: 152
Period size: 38 Copynumber: 3.9 Consensus size: 38
4911184 TCTTTTTTAT
*
4911194 ATAATAAGATAATACATACACCACATCTCATGCATATT
1 ATAATAAGATAATACATACACCACATCTCATGCATATC
** * * *
4911232 AT-A-AAGATAATACATGTACCCCATTTTATGCATATC
1 ATAATAAGATAATACATACACCACATCTCATGCATATC
* *
4911268 ATAATAAGATAATACATACACCATATCTCATGCACATC
1 ATAATAAGATAATACATACACCACATCTCATGCATATC
* * * * * *
4911306 CTACTAAGATAGTACATGCACCCCATGTCATGCA
1 ATAATAAGATAATACATACACCACATCTCATGCA
4911340 CATCTAAATA
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
36 29 0.34
37 2 0.02
38 55 0.64
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (38 bp):
ATAATAAGATAATACATACACCACATCTCATGCATATC
Found at i:4911340 original size:38 final size:38
Alignment explanation
Indices: 4911194--4911447 Score: 162
Period size: 37 Copynumber: 6.8 Consensus size: 38
4911184 TCTTTTTTAT
* * * *
4911194 ATAATAAGATAATACATACACCACATCTCATGCATATT
1 ATAATAAGATAATACATGCACCCCATCTCATGCACATC
* * * *
4911232 AT-A-AAGATAATACATGTACCCCATTTTATGCATATC
1 ATAATAAGATAATACATGCACCCCATCTCATGCACATC
* **
4911268 ATAATAAGATAATACATACACCATATCTCATGCACATC
1 ATAATAAGATAATACATGCACCCCATCTCATGCACATC
* * * *
4911306 CTACTAAGATAGTACATGCACCCCATGTCATGCACATC
1 ATAATAAGATAATACATGCACCCCATCTCATGCACATC
* * *** * * * *
4911344 -TAA-ATAGATAGTATATGCATTTCATTTTATACACACC
1 ATAATA-AGATAATACATGCACCCCATCTCATGCACATC
* * *
4911381 ATAATAA-ATACTACATGCACTCCATCTCATGCATATC
1 ATAATAAGATAATACATGCACCCCATCTCATGCACATC
* * **
4911418 -TCAAT-AGTTAGTACATGCATTCCATCTCAT
1 AT-AATAAGATAATACATGCACCCCATCTCAT
4911448 TGCATAGCTT
Statistics
Matches: 168, Mismatches: 41, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
36 32 0.19
37 72 0.43
38 63 0.38
39 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (38 bp):
ATAATAAGATAATACATGCACCCCATCTCATGCACATC
Found at i:4911727 original size:2 final size:2
Alignment explanation
Indices: 4911720--4911756 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4911710 TTAATTAAAA
* *
4911720 AG AG AG AG AG AG AG AG AG AG AG AA AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4911757 AAAAGTCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4911809 original size:14 final size:14
Alignment explanation
Indices: 4911790--4911818 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4911780 TTTTTGTTCC
4911790 AAGGAAAAAAAAAA
1 AAGGAAAAAAAAAA
4911804 AAGGAAAAAAAAAA
1 AAGGAAAAAAAAAA
4911818 A
1 A
4911819 GAAAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAGGAAAAAAAAAA
Found at i:4911813 original size:13 final size:13
Alignment explanation
Indices: 4911790--4911824 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
4911780 TTTTTGTTCC
4911790 AAGGAAAAAAAAAA
1 AAGG-AAAAAAAAA
4911804 AAGGAAAAAAAAA
1 AAGGAAAAAAAAA
4911817 AA-GAAAAA
1 AAGGAAAAA
4911825 GAGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.29
13 11 0.52
14 4 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAAAAA
Found at i:4912712 original size:22 final size:23
Alignment explanation
Indices: 4912670--4912720 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
4912660 AAATATATTT
* *
4912670 TTTTTATTTTCAATAAAAATTATG
1 TTTTTATTTT-AAGAAAAATTATC
4912694 TTTTTATTTT-AGAAAAATTATC
1 TTTTTATTTTAAGAAAAATTATC
4912716 TTTTT
1 TTTTT
4912721 CAATAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.60
24 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTTATTTTAAGAAAAATTATC
Found at i:4912741 original size:22 final size:21
Alignment explanation
Indices: 4912671--4912741 Score: 51
Period size: 22 Copynumber: 3.3 Consensus size: 21
4912661 AATATATTTT
4912671 TTTTATTTTCAATAAAAATTATG
1 TTTT-TTTTCAAT-AAAATTATG
*
4912694 TTTTTATTTTAGA-AAAATTA--
1 TTTTT-TTTCA-ATAAAATTATG
*
4912714 -TCTTTTTCAATAAAGATTATG
1 TTTTTTTTCAATAAA-ATTATG
4912735 TTTTTTT
1 TTTTTTT
4912742 ATTTTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 15
0.66 0.07 0.27
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 7 0.19
22 13 0.35
23 8 0.22
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (21 bp):
TTTTTTTTCAATAAAATTATG
Found at i:4913089 original size:21 final size:21
Alignment explanation
Indices: 4913023--4913089 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
4913013 TTTTTTTTTG
*
4913023 TTTTCCATAAAAATTACATTT
1 TTTTCAATAAAAATTACATTT
** * *
4913044 TTATTTTAGAAAATATT--ATTG
1 TT-TTCAATAAAA-ATTACATTT
4913065 TTTTCAATAAAAATTACATTT
1 TTTTCAATAAAAATTACATTT
4913086 TTTT
1 TTTT
4913090 ATTTTAGAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 14 0.41
22 7 0.21
23 3 0.09
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.52
Consensus pattern (21 bp):
TTTTCAATAAAAATTACATTT
Found at i:4913126 original size:345 final size:344
Alignment explanation
Indices: 4912457--4913145 Score: 912
Period size: 345 Copynumber: 2.0 Consensus size: 344
4912447 ACCAAAGGTT
* *
4912457 AAGATATCATTCTCACAAATATTAGCTAAAAAGATTCTTAACCTAAGTCCTTATTATACCCATAT
1 AAGATATCATTCTCACAAATATTAACTAAAAAGATTCTTAACCTAAGTCCTTATTATACCCATAC
* * *
4912522 TCTCTCTAAAGTTGATTAAAACTATGTTTTTATTTTAGAATTGTTTATTAAATTTTGAAAACTAT
66 TCTCTCTAAAGTTGATTAAAACTAAGTTTTTATTTTAAAATTGTTTATTAAAATTTGAAAACTAT
* *
4912587 AATTTTTTTTCATGTTTTCAATAAATACTACATTTTCTATCTTACAAACATTTGTCTTTGTTGAT
131 AATTTTTTTTCATGTTTTCAATAAAAACTACATTTTCTATCTTACAAACATTTGTCTTTATTGAT
**
4912652 TTCTGTAAAAATATATTTTTTTTATTTTCAATAAAAATTATGTTTTTATTTTAGAAAAATTATCT
196 TTCTG--AAAATATATTTTTTTTATTTTCAATAAAAATTACATTTTTATTTTAGAAAAATTATCT
* ** *
4912717 TTTTCAATAAAGATTATGTTTTTTTATTTTAAAAACGTCGTTTTTATTAAATTATAAAAAAAA-A
259 TTTTCAATAAAAATTACATTTTTTTATTTTAAAAACATCGTTTTTATTAAATTATAAAAAAAATA
*
4912781 TTTTTTATGTTTACAAAGATC
324 TTTTTCATGTTTACAAAGATC
* * * * *
4912802 AAGATATCATTTTCACGAATATTAACTAAAGAGATT-TTTAGCTCAAGTACC-TATTAT-CCACA
1 AAGATATCATTCTCACAAATATTAACTAAAAAGATTCTTAACCT-AAGT-CCTTATTATACC-CA
*
4912864 TACTCTCTCTAAAGTTGGTTAAAACTAAGTTTTTATTTTAAAATAGTTGTCTTTATTAAAATTTG
63 TACTCTCTCTAAAGTTGATTAAAACTAAGTTTTTATTTT-AAA-A-TTG--TTTATTAAAATTTG
* * *
4912929 AAAACTATAATTTTTCTTTTCATGTTTTCAATAAAAACTACATTTTTTATCTTAGAAATATTTGT
123 AAAACTATAA-TTTT-TTTTCATGTTTTCAATAAAAACTACATTTTCTATCTTACAAACATTTGT
* *
4912994 CTTTATTGATTTCTG-AAAT-T-TTTTTTTTGTTTTCCATAAAAATTACATTTTTATTTTAGAAA
186 CTTTATTGATTTCTGAAAATATATTTTTTTTATTTTCAATAAAAATTACATTTTTATTTTAGAAA
* * *
4913056 ATATTAT-TGTTTTCAATAAAAATTACATTTTTTTATTTTAGAAACATCAG-TTTTGTTAAATTT
251 A-ATTATCT-TTTTCAATAAAAATTACATTTTTTTATTTTAAAAACATC-GTTTTTATTAAATTA
*
4913119 TAAAAAATA-ATTTTTCATGTTTACAAA
313 TAAAAAAAATATTTTTCATGTTTACAAA
4913146 AAAAAATGTG
Statistics
Matches: 302, Mismatches: 29, Indels: 23
0.85 0.08 0.06
Matches are distributed among these distances:
344 7 0.02
345 80 0.26
346 4 0.01
347 41 0.14
348 79 0.26
349 5 0.02
350 23 0.08
351 4 0.01
352 59 0.20
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (344 bp):
AAGATATCATTCTCACAAATATTAACTAAAAAGATTCTTAACCTAAGTCCTTATTATACCCATAC
TCTCTCTAAAGTTGATTAAAACTAAGTTTTTATTTTAAAATTGTTTATTAAAATTTGAAAACTAT
AATTTTTTTTCATGTTTTCAATAAAAACTACATTTTCTATCTTACAAACATTTGTCTTTATTGAT
TTCTGAAAATATATTTTTTTTATTTTCAATAAAAATTACATTTTTATTTTAGAAAAATTATCTTT
TTCAATAAAAATTACATTTTTTTATTTTAAAAACATCGTTTTTATTAAATTATAAAAAAAATATT
TTTCATGTTTACAAAGATC
Found at i:4920310 original size:17 final size:17
Alignment explanation
Indices: 4920280--4920314 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4920270 CCTCATGTCC
4920280 TTTTTCCTTCTTTTCTT
1 TTTTTCCTTCTTTTCTT
* *
4920297 TTTTTTCTTGTTTTCTT
1 TTTTTCCTTCTTTTCTT
4920314 T
1 T
4920315 CCGTCCCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTCCTTCTTTTCTT
Found at i:4920379 original size:15 final size:16
Alignment explanation
Indices: 4920346--4920382 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4920336 TTTTCCTTCC
4920346 TTCTTCATCTTTCTTT
1 TTCTTCATCTTTCTTT
4920362 TTCTTC-TCTTT-TTCT
1 TTCTTCATCTTTCTT-T
4920377 TTCTTC
1 TTCTTC
4920383 CTTCCCGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTCATCTTTCTTT
Found at i:4920380 original size:12 final size:11
Alignment explanation
Indices: 4920324--4920381 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
4920314 TCCGTCCCCT
*
4920324 TTTTTCTTCTT
1 TTTTTCTTCTC
4920335 TTTTTCCTTC-C
1 TTTTT-CTTCTC
4920346 TTCTTCATCTT-TC
1 TT-TT--TCTTCTC
4920359 TTTTTCTTCTC
1 TTTTTCTTCTC
4920370 TTTTTCTT-TC
1 TTTTTCTTCTC
4920380 TT
1 TT
4920382 CCTTCCCGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
10 8 0.20
11 17 0.43
12 8 0.20
13 6 0.15
14 1 0.03
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTCTTCTC
Found at i:4920803 original size:109 final size:110
Alignment explanation
Indices: 4920679--4920890 Score: 329
Period size: 110 Copynumber: 1.9 Consensus size: 110
4920669 AAAACTGCAG
* * *
4920679 CTTTAAACTCCAAAAAAA-TCCCTTCTCCATAAACTTCCTTTCCTCCAATTTTCATGCT-TGAAA
1 CTTTAAACTCAAAAAAAACTCCCTTCTCCATAAACTTCCTTTCCACCAATTTTCAAGCTCTG-AA
* *
4920742 TCTCCTTAAAACTACCTAAACCTAAAACCCTAGGTTTTCACCACAA
65 TCTCCCTAAAACTACCTAAACCCAAAACCCTAGGTTTTCACCACAA
* *
4920788 CTTTGAACTCAAAAAAAACTCCCTTCTCCATAACCTTCCTTTCCACCAATTTTCAAGCTCTGAAT
1 CTTTAAACTCAAAAAAAACTCCCTTCTCCATAAACTTCCTTTCCACCAATTTTCAAGCTCTGAAT
*
4920853 CTCCCTAAAACTACCTAAACCCATAACCCTAGGTTTTC
66 CTCCCTAAAACTACCTAAACCCAAAACCCTAGGTTTTC
4920891 TCTCTCTATT
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 16 0.17
110 75 0.81
111 2 0.02
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.31
Consensus pattern (110 bp):
CTTTAAACTCAAAAAAAACTCCCTTCTCCATAAACTTCCTTTCCACCAATTTTCAAGCTCTGAAT
CTCCCTAAAACTACCTAAACCCAAAACCCTAGGTTTTCACCACAA
Found at i:4923396 original size:18 final size:19
Alignment explanation
Indices: 4923362--4923397 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4923352 AATTTTAGAT
4923362 CATTTAAATTAATTATATC
1 CATTTAAATTAATTATATC
4923381 CATTTAAATT-ATTATAT
1 CATTTAAATTAATTATAT
4923398 ACTATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
CATTTAAATTAATTATATC
Found at i:4925452 original size:25 final size:25
Alignment explanation
Indices: 4925389--4925448 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
4925379 TATTAACATA
4925389 ATTATTAAAATATTCAAATTTATTT
1 ATTATTAAAATATTCAAATTTATTT
*
4925414 ATTATTAAAATATTGAAA-TTATTT
1 ATTATTAAAATATTCAAATTTATTT
*
4925438 ATTGTTAAAAT
1 ATTATTAAAAT
4925449 TATTATGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 16 0.48
25 17 0.52
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (25 bp):
ATTATTAAAATATTCAAATTTATTT
Found at i:4925824 original size:18 final size:17
Alignment explanation
Indices: 4925773--4925824 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
4925763 AAAATCGTCA
4925773 TATTATTAAAATAATAT
1 TATTATTAAAATAATAT
* * *
4925790 TATTCTAATAAACAATAT
1 TATTATTA-AAATAATAT
4925808 TAATTATTAAAATAATA
1 T-ATTATTAAAATAATA
4925825 AAAAAATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
19 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTATTAAAATAATAT
Found at i:4926160 original size:26 final size:26
Alignment explanation
Indices: 4926131--4926189 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
4926121 AACTTCTAAT
*
4926131 ATTAATAAATTAATTTT-TTAATTAAA
1 ATTAATAAAATAATTTTATTAA-TAAA
*
4926157 ATTAAATAAAATATTTTTATTAATAAA
1 ATT-AATAAAATAATTTTATTAATAAA
4926184 A-TAATA
1 ATTAATA
4926190 TTTTGGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 4 0.14
27 17 0.59
28 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAATAAAATAATTTTATTAATAAA
Found at i:4926174 original size:27 final size:27
Alignment explanation
Indices: 4926134--4926185 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4926124 TTCTAATATT
*
4926134 AATAAATTAATTTT-TTAATTAAAATTA
1 AATAAAATAATTTTATTAA-TAAAATTA
*
4926161 AATAAAATATTTTTATTAATAAAAT
1 AATAAAATAATTTTATTAATAAAAT
4926186 AATATTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AATAAAATAATTTTATTAATAAAATTA
Found at i:4926207 original size:22 final size:22
Alignment explanation
Indices: 4926136--4926207 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
4926126 CTAATATTAA
* * *
4926136 TAAATTAATTTTTTAATTAAAAT
1 TAAATAAATATTTTGATT-AAAT
*
4926159 TAAATAAAATATTTTTATT-AAT
1 TAAAT-AAATATTTTGATTAAAT
*
4926181 AAAAT-AATATTTTGGATTAAAT
1 TAAATAAATATTTT-GATTAAAT
4926203 TAAAT
1 TAAAT
4926208 TAAGTATGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
20 8 0.20
21 3 0.08
22 14 0.35
23 5 0.12
24 10 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATAAATATTTTGATTAAAT
Found at i:4933906 original size:98 final size:99
Alignment explanation
Indices: 4933657--4933920 Score: 279
Period size: 98 Copynumber: 2.6 Consensus size: 99
4933647 TTTTCAAATC
* *
4933657 AATCCAACCAAACTATTGAAGGATTTAAATCTTAAATTAAATCTTACAAACTATTGAAAATTTTA
1 AATCCTACCAAACTATTGAAGGATTTAAATCTCAAATTAAATCTTACAAACTATTGAAAATTTTA
* *
4933722 ATATTTCTTTTAAATGATTTTATAAACTAATTTTT
66 ATATTTCTTTTAAATAAATTTATAAACT-ATTTTT
** * * * * * *
4933757 AATATTACTAAATTATT-AGAGGATTTAAATCTCGAATTAAATTTTTTCAAACTATTGATAGA-T
1 AATCCTACCAAACTATTGA-AGGATTTAAATCTCAAATTAAA-TCTTACAAACTATTGA-AAATT
*
4933820 TTAAT-TTTTTTTTAAAGTTAAATTTAT-AA-T-TTTTT
63 TTAATATTTCTTTTAAA--TAAATTTATAAACTATTTTT
* *
4933855 AATCCTACCAAACTATTGAATGATTTAAATCTCAAATAAAATCTTACCAAACTATATGAAAATTT
1 AATCCTACCAAACTATTGAAGGATTTAAATCTCAAATTAAATCTTA-CAAACTAT-TGAAAATTT
4933920 T
64 T
4933921 GTTGATTTTG
Statistics
Matches: 132, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
97 3 0.02
98 47 0.36
99 8 0.06
100 43 0.33
101 22 0.17
102 9 0.07
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (99 bp):
AATCCTACCAAACTATTGAAGGATTTAAATCTCAAATTAAATCTTACAAACTATTGAAAATTTTA
ATATTTCTTTTAAATAAATTTATAAACTATTTTT
Found at i:4937760 original size:29 final size:30
Alignment explanation
Indices: 4937715--4937783 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
4937705 AATCTTTTTT
4937715 TTTTAATTTTTCCTTTT-AAAAG-AAAATCA
1 TTTTAATTTTTCCTTTTCAAAAGCAAAA-CA
*
4937744 TTTTAAGTTTTT-TTTTTCAAAAGCAAAACA
1 TTTTAA-TTTTTCCTTTTCAAAAGCAAAACA
*
4937774 ATTTAATTTT
1 TTTTAATTTT
4937784 AGATTAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 14 0.40
30 17 0.49
31 4 0.11
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTAATTTTTCCTTTTCAAAAGCAAAACA
Found at i:4938197 original size:19 final size:19
Alignment explanation
Indices: 4938173--4938224 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
4938163 TTAAGTTAGT
4938173 TTTAGGATTTAGGGGTTGG
1 TTTAGGATTTAGGGGTTGG
*
4938192 TTTAGGATTTGGGGGTTGG
1 TTTAGGATTTAGGGGTTGG
4938211 TTTAGGACTTTAGG
1 TTTAGGA-TTTAGG
4938225 TTAGGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.42
Consensus pattern (19 bp):
TTTAGGATTTAGGGGTTGG
Found at i:4938273 original size:13 final size:12
Alignment explanation
Indices: 4938238--4938348 Score: 73
Period size: 13 Copynumber: 8.8 Consensus size: 12
4938228 GGGTTTTGAT
4938238 TTTAGGGTTTAGG
1 TTTA-GGTTTAGG
* *
4938251 ATTA-GATTAGG
1 TTTAGGTTTAGG
4938262 TTTGAGGTTTAGGG
1 TTT-AGGTTTA-GG
* **
4938276 TTTAGGTTAAAA
1 TTTAGGTTTAGG
4938288 TTTAAGGTTTAGGG
1 TTT-AGGTTTA-GG
4938302 ATTT-GGTTTAGG
1 -TTTAGGTTTAGG
*
4938314 GTTAGGGTTTAGG
1 TTTA-GGTTTAGG
*
4938327 TTTAAAGTTTAGG
1 TTT-AGGTTTAGG
4938340 TTTAGGTTT
1 TTTAGGTTT
4938349 CCATAAGAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
11 10 0.13
12 11 0.15
13 45 0.60
14 6 0.08
15 3 0.04
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (12 bp):
TTTAGGTTTAGG
Found at i:4938328 original size:6 final size:6
Alignment explanation
Indices: 4938238--4938348 Score: 73
Period size: 6 Copynumber: 17.5 Consensus size: 6
4938228 GGGTTTTGAT
* * * **
4938238 TTTAGGG TTTAGG ATTA-G ATTAGG TTTGAGG TTTAGGG TTTAGG TTAAAA
1 TTTA-GG TTTAGG TTTAGG TTTAGG TTT-AGG TTTA-GG TTTAGG TTTAGG
* *
4938288 TTTAAGG TTTAGGG ATTT-GG TTTAGG GTTAGGG TTTAGG TTTAAAG TTTAGG
1 TTT-AGG TTTA-GG -TTTAGG TTTAGG TTTA-GG TTTAGG TTT-AGG TTTAGG
4938340 TTTAGG TTT
1 TTTAGG TTT
4938349 CCATAAGAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
5 8 0.10
6 40 0.48
7 32 0.39
8 3 0.04
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (6 bp):
TTTAGG
Found at i:4938341 original size:19 final size:19
Alignment explanation
Indices: 4938257--4938348 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
4938247 TAGGATTAGA
*
4938257 TTAGGTTTGAGGTTTAGGGT
1 TTAGGTTT-AGGTTTAAGGT
* **
4938277 TTAGGTTAAAATTTAAGGT
1 TTAGGTTTAGGTTTAAGGT
*
4938296 TTAGGGATTT-GGTTT-AGGG
1 TTA-GG-TTTAGGTTTAAGGT
*
4938315 TTAGGGTTTAGGTTTAAAGT
1 TTA-GGTTTAGGTTTAAGGT
4938335 TTAGGTTTAGGTTT
1 TTAGGTTTAGGTTT
4938349 CCATAAGAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 3 0.05
19 36 0.62
20 17 0.29
21 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (19 bp):
TTAGGTTTAGGTTTAAGGT
Found at i:4939298 original size:67 final size:68
Alignment explanation
Indices: 4939190--4939387 Score: 257
Period size: 67 Copynumber: 2.9 Consensus size: 68
4939180 TTCTTGAAAA
* *
4939190 TATTTTTTAATAATTTTATTTTCAAG-AAAATTGATACTGTCAACTTGTTTTT-AAAAATATATT
1 TATTTTTGAA-AATTTTATTTTTAAGAAAAATTGATACTGTCAACTT-TTTTTCAAAAATAT-TT
4939253 -TT-TT
63 ATTATT
4939257 TATTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTGTCAA-TTTTTTCTCAAAAATATTTAT
1 TATTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTGTCAACTTTTTT-TCAAAAATATTTAT
4939321 TATT
65 TATT
* *
4939325 T-TTTTTGAAAATTTTATTTTTAAAAAAAATTGATACAT-TTAACTTTTTTTTCAAAAATATTTA
1 TATTTTTGAAAATTTTATTTTTAAGAAAAATTGATAC-TGTCAAC-TTTTTTTCAAAAATATTTA
4939388 AAAAAAATTA
Statistics
Matches: 119, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
65 4 0.03
66 19 0.16
67 73 0.61
68 17 0.14
69 6 0.05
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.53
Consensus pattern (68 bp):
TATTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTGTCAACTTTTTTTCAAAAATATTTATT
ATT
Found at i:4939399 original size:14 final size:14
Alignment explanation
Indices: 4939377--4939420 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
4939367 CTTTTTTTTC
4939377 AAAAA-TATTTAAA
1 AAAAATTATTTAAA
*
4939390 AAAAATTATTTTAA
1 AAAAATTATTTAAA
* *
4939404 AAAAATCATTGAAA
1 AAAAATTATTTAAA
4939418 AAA
1 AAA
4939421 TTTTGAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAAATTATTTAAA
Found at i:4940448 original size:42 final size:43
Alignment explanation
Indices: 4940402--4940485 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
4940392 AGTAATAAAG
*
4940402 CTCCTCTAAACAAAGGC-TCAACAACTTTAAAAAAATAAATTT
1 CTCCTCTAAACAAAGGCAACAACAACTTTAAAAAAATAAATTT
* * * * *
4940444 CTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
1 CTCCTCTAAACAAAGGCAACAACAACTTTAAAAAAATAAATT
4940486 GGCTACCCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.27
Consensus pattern (43 bp):
CTCCTCTAAACAAAGGCAACAACAACTTTAAAAAAATAAATTT
Found at i:4940664 original size:195 final size:196
Alignment explanation
Indices: 4940291--4940681 Score: 775
Period size: 195 Copynumber: 2.0 Consensus size: 196
4940281 GGTGTCTATA
4940291 GCTACCCTTCTTTGCGCATTTCCTATGCAATAGGAATTGTGCAAAGACGTAGACATCCTGTATAT
1 GCTACCCTTCTTTGCGCATTTCCTATGCAATAGGAATTGTGCAAAGACGTAGACATCCTGTATAT
4940356 GATCATCCCAACGCATTATTTTTTTTTTTTTGAAAAAGTAATAAAGCTCCTCTAAACAAAGGCTC
66 GATCATCCCAACGCATTATTTTTTTTTTTTTGAAAAAGTAATAAAGCTCCTCTAAACAAAGGCTC
4940421 AACAACTTTAAAAAAATAAATTTCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
131 AACAACTTTAAAAAAATAAATTTCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
4940486 G
196 G
4940487 GCTACCCTTCTTTGCGCATTTCCTATGCAATAGGAATTGTGCAAAGACGTAGACATCCTGTATAT
1 GCTACCCTTCTTTGCGCATTTCCTATGCAATAGGAATTGTGCAAAGACGTAGACATCCTGTATAT
4940552 GATCATCCCAACGCATTA-TTTTTTTTTTTTGAAAAAGTAATAAAGCTCCTCTAAACAAAGGCTC
66 GATCATCCCAACGCATTATTTTTTTTTTTTTGAAAAAGTAATAAAGCTCCTCTAAACAAAGGCTC
4940616 AACAACTTTAAAAAAATAAATTTCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
131 AACAACTTTAAAAAAATAAATTTCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
4940681 G
196 G
4940682 CACCTTTAAA
Statistics
Matches: 195, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
195 112 0.57
196 83 0.43
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (196 bp):
GCTACCCTTCTTTGCGCATTTCCTATGCAATAGGAATTGTGCAAAGACGTAGACATCCTGTATAT
GATCATCCCAACGCATTATTTTTTTTTTTTTGAAAAAGTAATAAAGCTCCTCTAAACAAAGGCTC
AACAACTTTAAAAAAATAAATTTCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
G
Found at i:4940692 original size:43 final size:43
Alignment explanation
Indices: 4940596--4940942 Score: 382
Period size: 42 Copynumber: 8.1 Consensus size: 43
4940586 AAGTAATAAA
* * * *
4940596 GCTCCTCTAAACAAAGGC-TCAACAACTTTAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
* * * *
4940638 TCTCCTCTAAATAGAGGCAACCACAATTTTTAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
* * * * ** * *
4940681 GCACCTTTAAATAAAGGCAAGTACGACTTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAAC-TTTGAAAAAATAAATT
* * **
4940725 GCTCTTTTAAACAGAGGCAACCATGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
* *
4940768 GCTCCTCTAAACAGAGGTAA-CACAACTTT-AAAAAAAAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
* *
4940809 GCTCCTCTAAACAAAGGC-ACCACAACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
4940851 GCTCCTCTAAACAGAGGC-ACCACAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
* * *
4940893 GCTCCTCTAAATAGAGGCAACCGCGACTTTGAAAAAAATGAAA-T
1 GCTCCTCTAAACAGAGGCAACCACAACTTTG-AAAAAAT-AAATT
4940937 GCTCCT
1 GCTCCT
4940943 TGACAATCAT
Statistics
Matches: 258, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.00
41 36 0.14
42 89 0.34
43 81 0.31
44 48 0.19
45 3 0.01
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAATAAATT
Found at i:4940858 original size:83 final size:85
Alignment explanation
Indices: 4940596--4940942 Score: 371
Period size: 87 Copynumber: 4.1 Consensus size: 85
4940586 AAGTAATAAA
* * *
4940596 GCTCCTCTAAACAAAGGC-TCAACAACTTT-AAAAAAATAAATTTCTCCTCTAAATAGAGGCAAC
1 GCTCCTCTAAACAAAGGCAAC-ACAACTTTGAAAAAAA-AAATTGCTCCTCTAAACAGAGGCAAC
* *
4940659 CACAATTTTTAAAAAATAAATT
64 CACAACTTTGAAAAAATAAATT
* * * * * * * * *
4940681 GCACCTTTAAATAAAGGCAAGTACGACTTTTGGAAAAATAAATTGCTCTTTTAAACAGAGGCAAC
1 GCTCCTCTAAACAAAGGCAA-CACAAC-TTTGAAAAAAAAAATTGCTCCTCTAAACAGAGGCAAC
**
4940746 CATGACTTTGAAAAAATAAATT
64 CACAACTTTGAAAAAATAAATT
* * *
4940768 GCTCCTCTAAACAGAGGTAACACAACTTT-AAAAAAAAAATTGCTCCTCTAAACAAAGGC-ACCA
1 GCTCCTCTAAACAAAGGCAACACAACTTTGAAAAAAAAAATTGCTCCTCTAAACAGAGGCAACCA
*
4940831 CAACTTTGGAAAAATAAATT
66 CAACTTTGAAAAAATAAATT
* * * * *
4940851 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACCG
1 GCTCCTCTAAACAAAGGCAACACAACTTTGAAAAAAAAAATTGCTCCTCTAAACAGAGGCAACCA
*
4940916 CGACTTTGAAAAAAATGAAA-T
66 CAACTTTG-AAAAAAT-AAATT
4940937 GCTCCT
1 GCTCCT
4940943 TGACAATCAT
Statistics
Matches: 215, Mismatches: 39, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
83 48 0.22
84 52 0.24
85 28 0.13
86 21 0.10
87 61 0.28
88 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (85 bp):
GCTCCTCTAAACAAAGGCAACACAACTTTGAAAAAAAAAATTGCTCCTCTAAACAGAGGCAACCA
CAACTTTGAAAAAATAAATT
Found at i:4941897 original size:8 final size:8
Alignment explanation
Indices: 4941884--4941922 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
4941874 AATTCCAAAA
4941884 ATTTTTAT
1 ATTTTTAT
4941892 ATTTTTAT
1 ATTTTTAT
* *
4941900 GTTTTTCT
1 ATTTTTAT
4941908 ATATTTTAT
1 AT-TTTTAT
4941917 ATTTTT
1 ATTTTT
4941923 GTTTGAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:4942245 original size:15 final size:14
Alignment explanation
Indices: 4942192--4942243 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
4942182 AGAATTCATT
*
4942192 AAAATTTAATTCTC
1 AAAATTTAATTCAC
*
4942206 AAAATTTCAGTTTCACC
1 AAAATTT-A-ATTCA-C
*
4942223 AGAATTTAATTCAC
1 AAAATTTAATTCAC
4942237 AAAATTT
1 AAAATTT
4942244 TAGATGTGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 14 0.47
15 5 0.17
16 4 0.13
17 7 0.23
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (14 bp):
AAAATTTAATTCAC
Found at i:4942449 original size:21 final size:21
Alignment explanation
Indices: 4942432--4942514 Score: 105
Period size: 21 Copynumber: 3.9 Consensus size: 21
4942422 AAAATTCTTG
4942432 TTTGAAATTCAAAGATTCTCA
1 TTTGAAATTCAAAGATTCTCA
4942453 TTTGAAATTCAAAGATTCTCA
1 TTTGAAATTCAAAGATTCTCA
* *
4942474 TTTAAAATTCAAA-ATTTCGCA
1 TTTGAAATTCAAAGA-TTCTCA
* *
4942495 TTTGAGAACTCAAAAATTCT
1 TTTGA-AATTCAAAGATTCT
4942515 TATCAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.02
21 42 0.78
22 10 0.19
23 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
TTTGAAATTCAAAGATTCTCA
Found at i:4942877 original size:23 final size:23
Alignment explanation
Indices: 4942851--4942894 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4942841 TTGGAACAAG
*
4942851 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
4942874 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
4942895 CGTAGGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:4943700 original size:9 final size:8
Alignment explanation
Indices: 4943676--4943722 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
4943666 TTTTCTCTCA
4943676 TTTTCA-T
1 TTTTCATT
4943683 TTTTCATT
1 TTTTCATT
4943691 TTTCTCATTT
1 TTT-TCA-TT
*
4943701 TTTTAATT
1 TTTTCATT
4943709 TTTATCATT
1 TTT-TCATT
4943718 TTTTC
1 TTTTC
4943723 CCTTTCTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.18
8 11 0.32
9 12 0.35
10 5 0.15
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTCATT
Found at i:4943709 original size:18 final size:18
Alignment explanation
Indices: 4943682--4943721 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4943672 CTCATTTTCA
* *
4943682 TTTTTCATTTTTCTCATT
1 TTTTTAATTTTTATCATT
4943700 TTTTTAATTTTTATCATT
1 TTTTTAATTTTTATCATT
4943718 TTTT
1 TTTT
4943722 CCCTTTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTAATTTTTATCATT
Found at i:4944100 original size:18 final size:18
Alignment explanation
Indices: 4944072--4944110 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4944062 AGGTGTGGCA
4944072 TTTTTCTTTGCTTTTTTCT
1 TTTTTCTTTGCTTTTTT-T
4944091 TTTTTC-TTGCTTTTTTT
1 TTTTTCTTTGCTTTTTTT
4944108 TTT
1 TTT
4944111 AGACTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTGCTTTTTTT
Found at i:4948221 original size:18 final size:17
Alignment explanation
Indices: 4948182--4948220 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
4948172 TATTTTTATA
4948182 TTTTTATGTTTTCATTT
1 TTTTTATGTTTTCATTT
4948199 TTTTTAT-TATTTCATTT
1 TTTTTATGT-TTTCATTT
4948216 TTTTT
1 TTTTT
4948221 TGGTTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATGTTTTCATTT
Found at i:4948462 original size:12 final size:11
Alignment explanation
Indices: 4948439--4948500 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 11
4948429 ACTACGAAGG
*
4948439 AAAAAAAAACT
1 AAAAAAATACT
4948450 AAGAAAAATACT
1 AA-AAAAATACT
*
4948462 AAATAAAATAAAT
1 AAA-AAAAT-ACT
*
4948475 AAAAAAATACC
1 AAAAAAATACT
4948486 AAAGAAAA-ACT
1 AAA-AAAATACT
4948497 AAAA
1 AAAA
4948501 CGGCTCAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 1 0.02
11 12 0.29
12 24 0.57
13 5 0.12
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAAAATACT
Found at i:4948469 original size:24 final size:22
Alignment explanation
Indices: 4948439--4948500 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
4948429 ACTACGAAGG
*
4948439 AAAAAAAAACTAAGAAAAATACT
1 AAAAAAAAACTAA-AAAAATACC
*
4948462 AAATAAAATAAATAAAAAAATACC
1 AAA-AAAA-AACTAAAAAAATACC
*
4948486 AAAGAAAAACTAAAA
1 AAAAAAAAACTAAAA
4948501 CGGCTCAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 7 0.21
23 6 0.18
24 15 0.45
25 5 0.15
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (22 bp):
AAAAAAAAACTAAAAAAATACC
Found at i:4948769 original size:15 final size:15
Alignment explanation
Indices: 4948733--4948781 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4948723 ATGCTTCAAA
4948733 TCTTTCT-TTCCCTT
1 TCTTTCTCTTCCCTT
*
4948747 TCTCTCTCTTCCCTT
1 TCTTTCTCTTCCCTT
* * *
4948762 TTTTTCTCTCCCCTC
1 TCTTTCTCTTCCCTT
4948777 TCTTT
1 TCTTT
4948782 AAAAATTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTTTCTCTTCCCTT
Found at i:4949013 original size:12 final size:13
Alignment explanation
Indices: 4948996--4949025 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4948986 AAAATTTTTC
4948996 AAAAA-TTTCCAA
1 AAAAATTTTCCAA
4949008 AAAAATTTTCCAA
1 AAAAATTTTCCAA
4949021 AAAAA
1 AAAAA
4949026 AAATTGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATTTTCCAA
Found at i:4950891 original size:143 final size:141
Alignment explanation
Indices: 4950619--4950921 Score: 333
Period size: 143 Copynumber: 2.1 Consensus size: 141
4950609 ACATTGAAAA
* * *
4950619 GTCAAATTACAAAAATACCCCTTAAAAGTATTTTAGTAATTTCACACATTTCAAGGTGAGATCAA
1 GTCAAATTA-TAAAATACCCCTTAAAAGTATTTTAGTAATTTCACACATTTCAAGGCGAGACCAA
* *
4950684 GGTTTTTAATACACAAAAAATCATAGAATAATATGAAAACATGATTTTAAGTGTTTTGCAAAAAA
65 GGTTTTTAATACACAAAAAATCATAGAATAATATGAAAACATGATCTGAAGTGTTTT--AAAAAA
*
4950749 CCAACTTCGAGAAT
128 CCAACTTCAAGAAT
* *** * * *
4950763 GTCAAATTATAAAATACCCCTTAAGAGTATTTTAGTAATTTTGTACCTTTCGAGGCGCGACCAAG
1 GTCAAATTATAAAATACCCCTTAAAAGTATTTTAGTAATTTCACACATTTCAAGGCGAGACCAAG
* * * *
4950828 GTTTTTAATGCTCCAAAAATCAATAG-ATAATAT-AAAATCATGATCTGGAGCTTGTCTTT-AAA
66 GTTTTTAATACACAAAAAATC-ATAGAATAATATGAAAA-CATGATCTGAAG--TGT-TTTAAAA
*
4950890 AACTAACTTCAAGAAT
126 AACCAACTTCAAGAAT
*
4950906 GTTAAATTATGAAAAT
1 GTCAAATTAT-AAAAT
4950922 GTCCCTGAGG
Statistics
Matches: 134, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
142 4 0.03
143 106 0.79
144 18 0.13
145 3 0.02
146 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (141 bp):
GTCAAATTATAAAATACCCCTTAAAAGTATTTTAGTAATTTCACACATTTCAAGGCGAGACCAAG
GTTTTTAATACACAAAAAATCATAGAATAATATGAAAACATGATCTGAAGTGTTTTAAAAAACCA
ACTTCAAGAAT
Done.