Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3102597
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1834127 original size:18 final size:18
Alignment explanation
Indices: 1834090--1834127 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1834080 TAATAATATT
*
1834090 AAAACAAAATAATAATAA
1 AAAACAAAATAATAAAAA
1834108 AAAAC-AAATAAATAAAAA
1 AAAACAAAAT-AATAAAAA
1834126 AA
1 AA
1834128 CTAGTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAACAAAATAATAAAAA
Found at i:1834417 original size:18 final size:17
Alignment explanation
Indices: 1834380--1834416 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1834370 AACTTTAAAC
1834380 TTTAAAATATCAATACT
1 TTTAAAATATCAATACT
1834397 TTTACAAATATCAATA-T
1 TTTA-AAATATCAATACT
1834414 TTT
1 TTT
1834417 TTCTTGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAAATATCAATACT
Found at i:1844125 original size:351 final size:352
Alignment explanation
Indices: 1843459--1844161 Score: 1399
Period size: 351 Copynumber: 2.0 Consensus size: 352
1843449 ACCAAGCAAC
1843459 TTATGGAGTGTCTCAAGTTGGGTTTTGGTTAGGCGAATGTCGAGAGAATCATCTACAACAGTGGA
1 TTATGGAGTGTCTCAAGTTGGGTTTTGGTTAGGCGAATGTCGAGAGAATCATCTACAACAGTGGA
1843524 GGTATTAGTGGACAACATTGCAGTCTTGCTCCTTTTGGTTTCTTCCAGGATAGCCATGGTGTTTG
66 GGTATTAGTGGACAACATTGCAGTCTTGCTCCTTTTGGTTTCTTCCAGGATAGCCATGGTGTTTG
1843589 AAGCACTTTTCCTTTGTATGACCAGCACAATTGCAGTGGTTGCACCATGGTCTGTTTGACCCAGA
131 AAGCACTTTTCCTTTGTATGACCAGCACAATTGCAGTGGTTGCACCATGGTCTGTTTGACCCAGA
1843654 ATCATTTACAGCACGGAGATTGAGTACTTCTAGAGAAAATGGCAGAATTTTCATGAGGACGGTAA
196 ATCATTTACAGCACGGAGATTGAGTACTTCTAGAGAAAATGGCAGAATTTTCATGAGGACGGTAA
1843719 CCAATTGTTGTCACAGGTTTAAGTTCTTTTGGGTCTCCCATCATGAAAAGTCTTCGTTTTTCTTC
261 CCAATTGTTGTCACAGGTTTAAGTTCTTTTGGGTCTCCCATCATGAAAAGTCTTCGTTTTTCTTC
1843784 TCTTCTAATTTCTGCAAATGTTTCCCG
326 TCTTCTAATTTCTGCAAATGTTTCCCG
1843811 TTATGGAGTGTCTCAAGTTGGG-TTTGGTTAGGCGAATGTCGAGAGAATCATCTACAACAGTGGA
1 TTATGGAGTGTCTCAAGTTGGGTTTTGGTTAGGCGAATGTCGAGAGAATCATCTACAACAGTGGA
1843875 GGTATTAGTGGACAACATTGCAGTCTTGCTCCTTTTGGTTTCTTCCAGGATAGCCATGGTGTTTG
66 GGTATTAGTGGACAACATTGCAGTCTTGCTCCTTTTGGTTTCTTCCAGGATAGCCATGGTGTTTG
1843940 AAGCACTTTTCCTTTGTATGACCAGCACAATTGCAGTGGTTGCACCATGGTCTGTTTGACCCAGA
131 AAGCACTTTTCCTTTGTATGACCAGCACAATTGCAGTGGTTGCACCATGGTCTGTTTGACCCAGA
1844005 ATCATTTACAGCACGGAGATTGAGTACTTCTAGAGAAAATGGCAGAATTTTCATGAGGACGGTAA
196 ATCATTTACAGCACGGAGATTGAGTACTTCTAGAGAAAATGGCAGAATTTTCATGAGGACGGTAA
1844070 CCAATTGTTGTCACAGGTTTAAGTTCTTTTGGGTCTCCCATCATGAAAAGTCTTCGTTTTTCTTC
261 CCAATTGTTGTCACAGGTTTAAGTTCTTTTGGGTCTCCCATCATGAAAAGTCTTCGTTTTTCTTC
1844135 TCTTCTAATTTCTGCAAATGTTTCCCG
326 TCTTCTAATTTCTGCAAATGTTTCCCG
1844162 ATTGTTGCTA
Statistics
Matches: 351, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
351 329 0.94
352 22 0.06
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (352 bp):
TTATGGAGTGTCTCAAGTTGGGTTTTGGTTAGGCGAATGTCGAGAGAATCATCTACAACAGTGGA
GGTATTAGTGGACAACATTGCAGTCTTGCTCCTTTTGGTTTCTTCCAGGATAGCCATGGTGTTTG
AAGCACTTTTCCTTTGTATGACCAGCACAATTGCAGTGGTTGCACCATGGTCTGTTTGACCCAGA
ATCATTTACAGCACGGAGATTGAGTACTTCTAGAGAAAATGGCAGAATTTTCATGAGGACGGTAA
CCAATTGTTGTCACAGGTTTAAGTTCTTTTGGGTCTCCCATCATGAAAAGTCTTCGTTTTTCTTC
TCTTCTAATTTCTGCAAATGTTTCCCG
Found at i:1848452 original size:5 final size:5
Alignment explanation
Indices: 1848442--1848468 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1848432 TGAAGAGAAT
1848442 GATCG GATCG GATCG GATCG GATCG GA
1 GATCG GATCG GATCG GATCG GATCG GA
1848469 CCGCTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.41, T:0.19
Consensus pattern (5 bp):
GATCG
Found at i:1850630 original size:14 final size:14
Alignment explanation
Indices: 1850607--1850640 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1850597 TGAACAGTAA
*
1850607 AATACGGTATGAAC
1 AATACCGTATGAAC
1850621 AATACCGTATGAAC
1 AATACCGTATGAAC
*
1850635 AGTACC
1 AATACC
1850641 CCAAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (14 bp):
AATACCGTATGAAC
Found at i:1851290 original size:31 final size:31
Alignment explanation
Indices: 1851252--1851376 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
1851242 CCCGAAGGAC
* * *
1851252 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1851283 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1851314 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1851345 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1851376 C
1 C
1851377 CCTCAACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1854981 original size:14 final size:14
Alignment explanation
Indices: 1854958--1854991 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1854948 TGAACAGTAA
*
1854958 AATACGGTATGAAC
1 AATACCGTATGAAC
1854972 AATACCGTATGAAC
1 AATACCGTATGAAC
*
1854986 AGTACC
1 AATACC
1854992 CCAAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (14 bp):
AATACCGTATGAAC
Found at i:1855634 original size:31 final size:31
Alignment explanation
Indices: 1855596--1855720 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1855586 CCCGAAGGAC
* * *
1855596 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1855627 CAGTCCATATGTCCCGAAGAACATTGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1855658 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1855689 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1855720 C
1 C
1855721 CCTCAACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1856331 original size:19 final size:19
Alignment explanation
Indices: 1856280--1856332 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
1856270 TTTTTTATTT
1856280 AGGGGGAATCTGTT--CCC
1 AGGGGGAATCTGTTCCCCC
*
1856297 --GGGGAATC-GATACCCCC
1 AGGGGGAATCTG-TTCCCCC
1856314 AGGGGGAATCTGTTCCCCC
1 AGGGGGAATCTGTTCCCCC
1856333 TGCACATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 1 0.04
15 9 0.32
17 3 0.11
19 14 0.50
20 1 0.04
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (19 bp):
AGGGGGAATCTGTTCCCCC
Found at i:1859986 original size:31 final size:31
Alignment explanation
Indices: 1859948--1860072 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
1859938 CCCGAATGAC
* * *
1859948 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1859979 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1860010 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1860041 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1860072 C
1 C
1860073 CCTCAACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1862313 original size:65 final size:64
Alignment explanation
Indices: 1862180--1862335 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 64
1862170 ACACCCTATT
* * *
1862180 TCGAATGCATTTTGTTTACTGATGCACAACCATGCATTGATATACTCTTGAATTTATTGAAACA
1 TCGAATGCATTTTGTGTACTGATGCACAACCATGCATCGATACACTCTTGAATTTATTGAAACA
* * *
1862244 TCGAATGCATTTTGTGTACTGATGCATATACCATGCATCGATGCACT-TCTGGATCTT-TTGAAA
1 TCGAATGCATTTTGTGTACTGATGCACA-ACCATGCATCGATACACTCT-TGAAT-TTATTGAAA
1862307 CA
63 CA
* * * *
1862309 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACTGATGCAC
1862336 TAAGTCTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 27 0.35
65 49 0.63
66 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACTGATGCACAACCATGCATCGATACACTCTTGAATTTATTGAAACA
Found at i:1868104 original size:44 final size:44
Alignment explanation
Indices: 1868021--1868125 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
1868011 TTTGTGCAAA
* *
1868021 ATGCATCGATACAC-AAGAAAGTGTACCGATGCATCCCTTGAAT
1 ATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAAT
* * *
1868064 ATGCATCGGTACACTATGAATGTGCACCGATGCATTCCTTGAAT
1 ATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAAT
*
1868108 GTGCATCGATACACTATG
1 ATGCATCGATACACTATG
1868126 CAGTGCATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 13 0.24
44 41 0.76
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
ATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAAT
Found at i:1868633 original size:13 final size:13
Alignment explanation
Indices: 1868610--1868653 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
1868600 AAAACTAAAT
1868610 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
1868624 ATTGTTTTCAAAC
1 ATTGTTTTCAAAC
* *
1868637 ATAGTTTTCAAAA
1 ATTGTTTTCAAAC
1868650 ATTG
1 ATTG
1868654 CCCATTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:1870420 original size:12 final size:13
Alignment explanation
Indices: 1870394--1870427 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1870384 AGGGAGAGTA
*
1870394 ATTTTCAAAATTG
1 ATTTTCAAAAATG
1870407 ATTTT-AAAAATG
1 ATTTTCAAAAATG
1870419 ATTTTCAAA
1 ATTTTCAAA
1870428 GAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:1881440 original size:12 final size:12
Alignment explanation
Indices: 1881423--1881447 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1881413 GTTCTTTTTA
1881423 TTTTATTTTATT
1 TTTTATTTTATT
1881435 TTTTATTTTATT
1 TTTTATTTTATT
1881447 T
1 T
1881448 CTTGATTTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:1881450 original size:32 final size:30
Alignment explanation
Indices: 1881383--1881450 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 30
1881373 CAACCCAATT
*
1881383 TTTCTTTTTTTTTTTTCAATTTCTATTTTC
1 TTTCTTTTTTTTTTTTCAATTTCTATTTTA
* * * *
1881413 GTTCTTTTTATTTTATTTTATTTTTTATTTTA
1 TTTCTTTTT-TTTT-TTTCAATTTCTATTTTA
1881445 TTTCTT
1 TTTCTT
1881451 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 8 0.27
31 4 0.13
32 18 0.60
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTCTTTTTTTTTTTTCAATTTCTATTTTA
Found at i:1882738 original size:513 final size:515
Alignment explanation
Indices: 1881760--1882917 Score: 2108
Period size: 513 Copynumber: 2.2 Consensus size: 515
1881750 TTAGACCGAG
*
1881760 AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGTTCGTGATAGATATCGTGGTTAATGCTC
1 AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGCTCGTGATAGATATCGTGGTTAATGCTC
1881825 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGATACA
66 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGATACA
1881890 TTGAGGACAATGTATGGATTAAGTGTGGGGCAGAGTATTTCATATATGATTTTGCTTTGAACATA
131 TTGAGGACAATGTATGGATTAAGTGTGGGGCAGAGTATTTCATATATGATTTTGCTTTGAACATA
1881955 ATTTTCCTTCAATTTTTGGAAAAAAAATATGCTTTAGTTATTGTTTGTGATTTTTCTCTTCAAAA
196 ATTTTCCTTCAATTTTTGGAAAAAAAATATGCTTTAGTTATTGTTTGTGATTTTTCTCTTCAAAA
*
1882020 TTCCATATTCTTTCGATGTTTGTCCTTACATGATTCAGATTGTTTTGAATTATCGAATTAAGTTA
261 TTCCAGATTCTTTCGATGTTTG--C-TACA-GATTCAGATTGTTTTGAATTATCGAATTAAGTTA
*
1882085 AAGCATAATGGCAGATTAGCTTGAGTAGTTGAATTCTTATTTGTTGCACACTGGTTGATTACTCT
322 AAGCATAATGGCAGATTAGCTTGAGTAGTTGAATTCTTATTTGCTGCACACTGGTTGATTACTCT
*
1882150 TGATGATTGATTGAATGGAAAATGTGTGTGATTTGATACATGTTTACCCTTTTTGTGAGATTTTG
387 TGATGATTGATTGAATGGAAAATGTGTGTGATTTGATACATGTTTACCCTTTTTATGAGATTTTG
* * *
1882215 GGCTAATGAGCATTCATTTTTCAGCATGGTCCATTTCTTGATTGAGTGATTGCCATACATAGCT
452 GGCCAATGAGCATTCATTTTTCAGCATGGTCCATTTCTAGATTGAGTGATTGCCATACATAACT
1882279 AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGCTCGTGATAGATATCGTGGTTAATGCTC
1 AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGCTCGTGATAGATATCGTGGTTAATGCTC
1882344 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGATACA
66 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGATACA
* *
1882409 TTGAGGACAATGTATGGATTAAGTG-GGGGGAGAGTATTTCATATATGGTTTTGCTTTGAACATA
131 TTGAGGACAATGTATGGATTAAGTGTGGGGCAGAGTATTTCATATATGATTTTGCTTTGAACATA
*
1882473 ATTTTTCTTCAATTTTTGGAAAAAAAAAGTATGCTTTAGTTATTGTTTGTGATTTTTCTCTTCAA
196 ATTTTCCTTCAATTTTTGG-AAAAAAAA-TATGCTTTAGTTATTGTTTGTGATTTTTCTCTTCAA
1882538 AATTCCAGATTCTTTCGATGTTTG-T-C-GATTCAGATTGTTTTGAATTATCGAATTAAGTTAAA
259 AATTCCAGATTCTTTCGATGTTTGCTACAGATTCAGATTGTTTTGAATTATCGAATTAAGTTAAA
1882600 GCATAATGGCAGATTAGCTTGAGTAGTTGAATTCTTATTTGCTGCACACTGGTTGATTACTCTTG
324 GCATAATGGCAGATTAGCTTGAGTAGTTGAATTCTTATTTGCTGCACACTGGTTGATTACTCTTG
1882665 ATGATTGATTGAATGGAAAATGTGTGTGATTTGATACATGTTTACCCTTTTTATGAGATTTTGGG
389 ATGATTGATTGAATGGAAAATGTGTGTGATTTGATACATGTTTACCCTTTTTATGAGATTTTGGG
1882730 CCAATGAGCATTCATTTTTCAGCATGGTCCATTTCTAGATTGAGTGATTGCCATACATAACT
454 CCAATGAGCATTCATTTTTCAGCATGGTCCATTTCTAGATTGAGTGATTGCCATACATAACT
* * * *
1882792 AATCAACCCAGCCTGCACACAAAACCTTCACCCCCAACTCGTGACAGATATCGTAGTTAATGCTC
1 AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGCTCGTGATAGATATCGTGGTTAATGCTC
1882857 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGA
66 AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGA
1882918 ATTTTTGGAA
Statistics
Matches: 623, Mismatches: 14, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
513 345 0.55
515 1 0.00
516 1 0.00
518 55 0.09
519 162 0.26
520 59 0.09
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (515 bp):
AATCAACCCAGCCTGCACACAACACCTTCACCCCCAGCTCGTGATAGATATCGTGGTTAATGCTC
AACATTTTCAGGGGAGTTTTCTACTCTTATTCTTTTATGGTTTTTGAGCATCTACTTTTGATACA
TTGAGGACAATGTATGGATTAAGTGTGGGGCAGAGTATTTCATATATGATTTTGCTTTGAACATA
ATTTTCCTTCAATTTTTGGAAAAAAAATATGCTTTAGTTATTGTTTGTGATTTTTCTCTTCAAAA
TTCCAGATTCTTTCGATGTTTGCTACAGATTCAGATTGTTTTGAATTATCGAATTAAGTTAAAGC
ATAATGGCAGATTAGCTTGAGTAGTTGAATTCTTATTTGCTGCACACTGGTTGATTACTCTTGAT
GATTGATTGAATGGAAAATGTGTGTGATTTGATACATGTTTACCCTTTTTATGAGATTTTGGGCC
AATGAGCATTCATTTTTCAGCATGGTCCATTTCTAGATTGAGTGATTGCCATACATAACT
Found at i:1886419 original size:12 final size:11
Alignment explanation
Indices: 1886401--1886430 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
1886391 ACTTTGGGGG
1886401 AAGAAAAGAAA
1 AAGAAAAGAAA
1886412 AGAGAAAAGAAA
1 A-AGAAAAGAAA
1886424 AAGAAAA
1 AAGAAAA
1886431 TGGAAGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:1890733 original size:14 final size:14
Alignment explanation
Indices: 1890714--1890744 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1890704 AGGTAGTCAC
1890714 ACAGTTTCTGTATA
1 ACAGTTTCTGTATA
1890728 ACAGTTTCTGTATA
1 ACAGTTTCTGTATA
1890742 ACA
1 ACA
1890745 ATTACTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (14 bp):
ACAGTTTCTGTATA
Found at i:1891527 original size:25 final size:24
Alignment explanation
Indices: 1891476--1891558 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
1891466 TGCGGAATTA
* *
1891476 CACTAATATAAGAGTGCACGAATG
1 CACTAATATAAGAGTGCACAAAAG
* *
1891500 CACTAATTATATGAGTGCATAAAAG
1 CACTAA-TATAAGAGTGCACAAAAG
* * * *
1891525 CACTGATACT-GGAGTGCACATATG
1 CACTAATA-TAAGAGTGCACAAAAG
1891549 CACTAATATA
1 CACTAATATA
1891559 GAAGTACCCA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.02
24 25 0.54
25 20 0.43
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (24 bp):
CACTAATATAAGAGTGCACAAAAG
Found at i:1893000 original size:89 final size:91
Alignment explanation
Indices: 1892845--1893014 Score: 263
Period size: 89 Copynumber: 1.9 Consensus size: 91
1892835 TCCGTAGGGC
* * * *
1892845 TTACCCTCAGCACACAGCAAAAGGGGAGCCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTAC
1 TTACCCTAAGAACACAACAAAAGGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTAC
*
1892910 CCAATGGTATCCTTAGATCTGTAAGG
66 CCAAGGGTATCCTTAGATCTGTAAGG
* *
1892936 TTACCCTAAGAACACAAC-AAA-GGGAACCAACCTAAGGATATGCCTTGGGGCCTGTGGGCTTAC
1 TTACCCTAAGAACACAACAAAAGGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTAC
1892999 CCAAGGGTATCCTTAG
66 CCAAGGGTATCCTTAG
1893015 GTCCATAAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 54 0.75
90 3 0.04
91 15 0.21
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.21
Consensus pattern (91 bp):
TTACCCTAAGAACACAACAAAAGGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTAC
CCAAGGGTATCCTTAGATCTGTAAGG
Found at i:1895742 original size:13 final size:14
Alignment explanation
Indices: 1895724--1895753 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1895714 TTAACTTTTT
1895724 CGGTCAA-AGTCAA
1 CGGTCAACAGTCAA
1895737 CGGTCAACAGTCAA
1 CGGTCAACAGTCAA
1895751 CGG
1 CGG
1895754 GTCGGGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.13
Consensus pattern (14 bp):
CGGTCAACAGTCAA
Found at i:1895762 original size:13 final size:13
Alignment explanation
Indices: 1895746--1895787 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1895736 ACGGTCAACA
1895746 GTCAACGGGTCGG
1 GTCAACGGGTCGG
* *
1895759 GTCAACGGGTTGA
1 GTCAACGGGTCGG
*
1895772 GTCAATGGGTCGG
1 GTCAACGGGTCGG
1895785 GTC
1 GTC
1895788 GGGTTAACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.43, T:0.21
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:1897548 original size:37 final size:37
Alignment explanation
Indices: 1897494--1897579 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
1897484 TGGCAACCAA
1897494 CTTTGGAAAAAT-AGTTTTCAAAGTTTGGTAAATGTTT
1 CTTT-GAAAAATGAGTTTTCAAAGTTTGGTAAATGTTT
* *
1897531 CTTTGAAAAATGGGTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGAGTTTTCAAAGTTTGGTAAATGTTT
*
1897568 -GTTGAAAAATGA
1 CTTTGAAAAATGA
1897580 TAATGGGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 17 0.39
37 27 0.61
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (37 bp):
CTTTGAAAAATGAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:1898001 original size:16 final size:18
Alignment explanation
Indices: 1897980--1898015 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1897970 TACTATTCAC
1897980 GTGAATAG-T-AAATTTT
1 GTGAATAGTTAAAATTTT
1897996 GTGAATAGTTAAAATTTT
1 GTGAATAGTTAAAATTTT
1898014 GT
1 GT
1898016 CGGTGAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (18 bp):
GTGAATAGTTAAAATTTT
Found at i:1902140 original size:36 final size:36
Alignment explanation
Indices: 1902064--1902142 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 36
1902054 CCAACTTTGG
* * *
1902064 AAAAATAGTTTTCAAAGTTTGGTAAATATTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATATTTCGTTA
* *
1902100 AAAAATGGTTTTTCAAAGTTTGGTAGATGTTT-GTTA
1 AAAAATGG-TTTTCAAAGTTTGGTAAATATTTCGTTA
1902136 AAAAATG
1 AAAAATG
1902143 ATAATGGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.42
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATATTTCGTTA
Found at i:1904540 original size:30 final size:30
Alignment explanation
Indices: 1904504--1904569 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
1904494 AGTGAACCGG
*
1904504 CGGTTCAAACCGGTTTTGCCAGTTTTCAGT
1 CGGTTCAAACCGGTTTTACCAGTTTTCAGT
**
1904534 CGGTTCACTCCGGTTTTACCAGTTTTCAGT
1 CGGTTCAAACCGGTTTTACCAGTTTTCAGT
1904564 CGGTTC
1 CGGTTC
1904570 TATCGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTACCAGTTTTCAGT
Found at i:1912870 original size:60 final size:60
Alignment explanation
Indices: 1912733--1912876 Score: 159
Period size: 60 Copynumber: 2.4 Consensus size: 60
1912723 GTCCCTAAAA
* *
1912733 TTTTAAATATTCTAATTTCATCCCTAAACTATGACTATCATTCTAAATTAGTCCTTAAACC
1 TTTTAAA-ATTCTAATTTCATCCCCAAACTATGACTATCATTCTAAATTAGTCCTCAAACC
* * * * *
1912794 TATGAATATTTTAATTTCATCCCCAAACTATGACCT-TCATTCTAAATT-GCTCC-CAAACTT
1 TTTTAAAATTCTAATTTCATCCCCAAACTATGA-CTATCATTCTAAATTAG-TCCTCAAAC-C
*
1912854 TTTTAAAATTCCAATTTCATCCC
1 TTTTAAAATTCTAATTTCATCCC
1912877 AAAATATACC
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
59 5 0.07
60 57 0.84
61 6 0.09
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (60 bp):
TTTTAAAATTCTAATTTCATCCCCAAACTATGACTATCATTCTAAATTAGTCCTCAAACC
Found at i:1913109 original size:60 final size:58
Alignment explanation
Indices: 1913007--1913191 Score: 165
Period size: 60 Copynumber: 3.1 Consensus size: 58
1912997 TTCGGATGAA
* * ** *
1913007 TTTAGAGATGAAATTGGAAAATTCAAAAGTT-TGGAGATTAATTTAGAATGAGGGTCATAG
1 TTTAG-GATGAAATTAGAATATTCAAAAGTTCAAG-GACTAATTTAGAATGAGGGT-ATAG
* * * * * *
1913067 TTTATGGATGAAATTAGAATGTTCAAATGTTCAAGGACTAATTGAGAATGAAAGTTTTAG
1 TTTA-GGATGAAATTAGAATATTCAAAAGTTCAAGGACTAATTTAGAATG-AGGGTATAG
* * * * *
1913127 TTTGAGGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATAAGGGTATAG
1 TTT-AGGATGAAATTAGAATATTCAAAAGTTCAAGGACTAATTTAGAATGAGGGTATAG
1913186 TTTAGG
1 TTTAGG
1913192 GAGATATGAT
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
58 3 0.03
59 9 0.09
60 81 0.82
61 6 0.06
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.33
Consensus pattern (58 bp):
TTTAGGATGAAATTAGAATATTCAAAAGTTCAAGGACTAATTTAGAATGAGGGTATAG
Found at i:1919667 original size:159 final size:158
Alignment explanation
Indices: 1919465--1919884 Score: 565
Period size: 159 Copynumber: 2.6 Consensus size: 158
1919455 AATCTATTTT
* * * *
1919465 TTTCATTATTTCTTCAATTTCTCCTTCATTTTAAGTCCATTGTTTTACCAAATTTGAACCACATG
1 TTTCCTTATTTCTTCAA-TTCTCATTTATTTTAAGTCCTTTGTTTTACCAAATTTGAACCACATG
* *
1919530 CTCCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTGTT
65 CTCCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTCATAACAAATTTTTTATT
*
1919595 TTTCAATTTAGTCCTTTAATTTTTCATAA
130 TTTCAATTTAGTCCTTCAATTTTTCATAA
*
1919624 TTTCCTTATTTCTTCAATTCGTCATTTATTTTAAGTCCTTTGTTTTACCAAATTTGAGCCACATG
1 TTTCCTTATTTCTTCAATTC-TCATTTATTTTAAGTCCTTTGTTTTACCAAATTTGAACCACATG
*
1919689 CTCCTAAACCATAGTAGAATATATGTGTACTTTAAATTCCTCTTTTTCATAACAAATTTTTTATT
65 CTCCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTCATAACAAATTTTTTATT
*
1919754 TTTCAATTTAGTCCTTCAATTTTTTATAA
130 TTTCAATTTAGTCCTTCAATTTTTCATAA
* * * * * * * **
1919783 TCTCCTTATTCCTTCGATATATGATTTAGTTTAAGTCATTT-TTTTGTCAAATTTGAACCACATG
1 TTTCCTTATTTCTTCAAT-TCTCATTTATTTTAAGTCCTTTGTTTTACCAAATTTGAACCACATG
* * * * * *
1919847 CTCATATACCACAATAGAATACATATGTAAC-TTCAATT
65 CTCCTAAACCATAGTAGAATATATGTGT-ACTTTCAATT
1919885 GTTATTTTTT
Statistics
Matches: 231, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
158 51 0.22
159 179 0.77
160 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.46
Consensus pattern (158 bp):
TTTCCTTATTTCTTCAATTCTCATTTATTTTAAGTCCTTTGTTTTACCAAATTTGAACCACATGC
TCCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTCATAACAAATTTTTTATTT
TTCAATTTAGTCCTTCAATTTTTCATAA
Found at i:1920822 original size:17 final size:16
Alignment explanation
Indices: 1920777--1920823 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
1920767 ATTAATTATA
*
1920777 AAATTTTAATATTTAC
1 AAATTTTAATATTGAC
*
1920793 AAATATTAGATATGTGAC
1 AAATTTTA-ATAT-TGAC
1920811 AAATTTTAATATT
1 AAATTTTAATATT
1920824 ATATTGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.31
17 8 0.31
18 10 0.38
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (16 bp):
AAATTTTAATATTGAC
Found at i:1920890 original size:24 final size:25
Alignment explanation
Indices: 1920837--1920894 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
1920827 TTGTTTATGA
* *
1920837 AAATATTTT-ATAATTATATAATAT
1 AAATATTTTAATAAGTAGATAATAT
**
1920861 TTATATTTTAATAAGTAGATAA-AT
1 AAATATTTTAATAAGTAGATAATAT
1920885 AAATATTTTA
1 AAATATTTTA
1920895 GTATGGATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
AAATATTTTAATAAGTAGATAATAT
Found at i:1924333 original size:20 final size:20
Alignment explanation
Indices: 1924308--1924346 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1924298 TTTTCAAGGG
1924308 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1924328 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1924347 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1924497 original size:17 final size:19
Alignment explanation
Indices: 1924469--1924517 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1924459 TATTTTGAAA
1924469 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1924487 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1924506 CACCGATGCACT
1 CATCGATGCACT
1924518 GGGAGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1928405 original size:2 final size:2
Alignment explanation
Indices: 1928392--1928421 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
1928382 CATAATGGTT
1928392 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
1928422 GATAATGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1928718 original size:2 final size:2
Alignment explanation
Indices: 1928711--1928754 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1928701 ATAGTAGGCA
1928711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1928753 AT
1 AT
1928755 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1933812 original size:32 final size:32
Alignment explanation
Indices: 1933769--1933832 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1933759 ATGGATTGTA
* **
1933769 ACTACTATGCATTCTCTAAATGGGACACTAAC
1 ACTACTATGCATTATCTAAATGCAACACTAAC
*
1933801 ACTACTGTGCATTATCTAAATGCAACACTAAC
1 ACTACTATGCATTATCTAAATGCAACACTAAC
1933833 TAGTATATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (32 bp):
ACTACTATGCATTATCTAAATGCAACACTAAC
Found at i:1935500 original size:14 final size:13
Alignment explanation
Indices: 1935462--1935503 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1935452 AGGAAAAATT
1935462 AAAT-TTAAA-AA
1 AAATGTTAAATAA
*
1935473 AAATGTTATATAA
1 AAATGTTAAATAA
1935486 AAATGTTAAACTAA
1 AAATGTTAAA-TAA
1935500 AAAT
1 AAAT
1935504 CAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 11 0.42
14 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATGTTAAATAA
Found at i:1935542 original size:7 final size:7
Alignment explanation
Indices: 1935532--1935601 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
1935522 TACTAAATTT
1935532 TAAAAAA
1 TAAAAAA
*
1935539 TAAAATA
1 TAAAAAA
1935546 TAAAAAA
1 TAAAAAA
*
1935553 TAATTAAA
1 TAA-AAAA
* *
1935561 GAGAAAA
1 TAAAAAA
1935568 TAAAAAA
1 TAAAAAA
1935575 -AACAAAA
1 TAA-AAAA
*
1935582 TATAATAA
1 TA-AAAAA
*
1935590 TAATAAA
1 TAAAAAA
1935597 TAAAA
1 TAAAA
1935602 GGGAAATATA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
6 2 0.04
7 34 0.72
8 10 0.21
9 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:1935572 original size:36 final size:40
Alignment explanation
Indices: 1935532--1935629 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 40
1935522 TACTAAATTT
*
1935532 TAAAAAATAAAATATAA-AA-AAT-AATTAAAGAGAAAATA
1 TAAAAAATAAAATATAATAATAATAAATAAAAGAG-AAATA
* * *
1935570 AAAAAAACAAAATATAATAATAATAAATAAAAGGGAAATA
1 TAAAAAATAAAATATAATAATAATAAATAAAAGAGAAATA
1935610 TAATAAAATAATAA-ATAATA
1 TAA-AAAATAA-AATATAATA
1935630 GTAGTAAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
38 15 0.31
39 2 0.04
40 10 0.20
41 20 0.41
42 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.21
Consensus pattern (40 bp):
TAAAAAATAAAATATAATAATAATAAATAAAAGAGAAATA
Found at i:1935609 original size:40 final size:38
Alignment explanation
Indices: 1935533--1935617 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 38
1935523 ACTAAATTTT
* *
1935533 AAAAAATAAAATATAAAAAATAATTAAAGAGAAAATAA
1 AAAAAACAAAATATAAAAAATAATAAAAGAGAAAATAA
*
1935571 AAAAAACAAAATATAATAATAATAAATAAAAGGGAAATATAA
1 AAAAAACAAAATATAA-AA-AAT-AATAAAAGAGAAA-ATAA
*
1935613 TAAAA
1 AAAAA
1935618 TAATAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 15 0.38
39 2 0.05
40 3 0.08
41 11 0.28
42 8 0.21
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (38 bp):
AAAAAACAAAATATAAAAAATAATAAAAGAGAAAATAA
Found at i:1935691 original size:18 final size:18
Alignment explanation
Indices: 1935670--1935711 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1935660 GTTTTTTTAT
*
1935670 AATAAAAGATAAGAATTA
1 AATAAAAGAAAAGAATTA
*
1935688 AATAAAAGAAAATAATTA
1 AATAAAAGAAAAGAATTA
1935706 AATAAA
1 AATAAA
1935712 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AATAAAAGAAAAGAATTA
Found at i:1946474 original size:7 final size:7
Alignment explanation
Indices: 1946454--1946517 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
1946444 TTTAAAGAGA
1946454 AAATAA-
1 AAATAAT
1946460 AAATAAT
1 AAATAAT
*
1946467 ACATAAT
1 AAATAAT
1946474 AAATAAT
1 AAATAAT
1946481 AAATAA-
1 AAATAAT
**
1946487 AAGGAA-
1 AAATAAT
1946493 AATATAAT
1 AA-ATAAT
1946501 AAAATAAT
1 -AAATAAT
1946509 AAATAAT
1 AAATAAT
1946516 AA
1 AA
1946518 TAGTAAAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
6 12 0.25
7 29 0.60
8 5 0.10
9 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (7 bp):
AAATAAT
Found at i:1946494 original size:38 final size:36
Alignment explanation
Indices: 1946447--1946517 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 36
1946437 AAAAATATTT
1946447 AAAGAGAAAATAAAAATAATACATAATAAATAATAAATA
1 AAAGAGAAAAT-AAAATAA-A-ATAATAAATAATAAATA
*
1946486 AAAG-GAAAATATAATAAAATAATAAATAATAA
1 AAAGAGAAAATAAAATAAAATAATAAATAATAA
1946518 TAGTAAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 14 0.45
36 1 0.03
37 6 0.19
38 6 0.19
39 4 0.13
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (36 bp):
AAAGAGAAAATAAAATAAAATAATAAATAATAAATA
Found at i:1946578 original size:18 final size:18
Alignment explanation
Indices: 1946557--1946599 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1946547 GTTGTTTTTA
*
1946557 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
* *
1946575 AAATAAAAGAAAATATTT
1 AAATAAAAGAAAAGAATT
1946593 AAATAAA
1 AAATAAA
1946600 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:1947734 original size:15 final size:15
Alignment explanation
Indices: 1947711--1947740 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1947701 TCATGGTGTT
*
1947711 CTAACTTTCAATAAA
1 CTAAATTTCAATAAA
1947726 CTAAATTTCAATAAA
1 CTAAATTTCAATAAA
1947741 AATTAAATTT
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:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (15 bp):
CTAAATTTCAATAAA
Found at i:1947911 original size:4 final size:4
Alignment explanation
Indices: 1947904--1949885 Score: 3885
Period size: 4 Copynumber: 495.2 Consensus size: 4
1947894 CCCCTTTATT
*
1947904 TATG TATG TATG TATG AATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1947952 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948000 TATG TATG TATG TATG TATG TATG TATG T-TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1948047 TATG TATACA TATG CATG CATG CATG CATG TATG TATG TATG TATG TATG
1 TATG TAT--G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948097 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948145 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948193 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948241 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948289 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948337 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948385 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948433 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948481 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948529 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948577 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948625 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948673 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948721 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948769 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948817 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948865 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948913 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1948961 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949009 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949057 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949105 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949153 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949201 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949249 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949297 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949345 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949393 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949441 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949489 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949537 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949585 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949633 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949681 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949729 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949777 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949825 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1949873 TATG TATG TATG T
1 TATG TATG TATG T
1949886 TACATTTTGG
Statistics
Matches: 1969, Mismatches: 6, Indels: 6
0.99 0.00 0.00
Matches are distributed among these distances:
3 3 0.00
4 1963 1.00
6 3 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1955019 original size:33 final size:32
Alignment explanation
Indices: 1954945--1955048 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 32
1954935 GAGCAGTTGC
* * * * * *
1954945 AGGTGCACCTGTTAAAGAAGATTAAAACCTTG
1 AGGTGCACCAGTTGAAGATGATGAAACCCTGG
*
1954977 AGGTACACCAGTTGAAGATGACTGAAACCCTGG
1 AGGTGCACCAGTTGAAGATGA-TGAAACCCTGG
* * *
1955010 AGGTGCACCAATTGAAGATAATCGAAACCTTGG
1 AGGTGCACCAGTTGAAGATGAT-GAAACCCTGG
1955043 AGGTGC
1 AGGTGC
1955049 TGTAGTTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
32 18 0.31
33 41 0.69
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (32 bp):
AGGTGCACCAGTTGAAGATGATGAAACCCTGG
Found at i:1955924 original size:21 final size:21
Alignment explanation
Indices: 1955900--1955954 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
1955890 AGCAAGATTA
*
1955900 AAATTATTGAAAATAGTAAAT
1 AAATTATTGAAAAAAGTAAAT
*
1955921 AAATTATTAAAAAAAAGTAAAT
1 AAATTATT-GAAAAAAGTAAAT
1955943 AAATTATTGAAA
1 AAATTATTGAAA
1955955 TTATATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AAATTATTGAAAAAAGTAAAT
Found at i:1957545 original size:22 final size:22
Alignment explanation
Indices: 1957503--1957545 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1957493 AAAGTGAAGT
* *
1957503 AAAAGGAAAAGAAATATAAATG
1 AAAAGGAAAAGAAAAAAAAATG
*
1957525 AAAAGGAAAATAAAAAAAAAT
1 AAAAGGAAAAGAAAAAAAAAT
1957546 AAGTTATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAAGGAAAAGAAAAAAAAATG
Found at i:1960030 original size:2 final size:2
Alignment explanation
Indices: 1960023--1960052 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1960013 AACTATTTGG
1960023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1960053 CAAGGAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1962259 original size:32 final size:32
Alignment explanation
Indices: 1962223--1962287 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1962213 GTGTGTTATA
1962223 TATATTGTATTTACGTGAGAAAGAAGGTGGGG
1 TATATTGTATTTACGTGAGAAAGAAGGTGGGG
1962255 TATATTGTATTTACGTGAGAAAGAAGGTGGGG
1 TATATTGTATTTACGTGAGAAAGAAGGTGGGG
1962287 T
1 T
1962288 TAAATGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.32
Consensus pattern (32 bp):
TATATTGTATTTACGTGAGAAAGAAGGTGGGG
Found at i:1966835 original size:17 final size:18
Alignment explanation
Indices: 1966803--1966836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1966793 GCCATTTTTG
1966803 GTATCGATACCCAAGGGA
1 GTATCGATACCCAAGGGA
*
1966821 GTATTGATA-CCAAGGG
1 GTATCGATACCCAAGGG
1966837 TATAATATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (18 bp):
GTATCGATACCCAAGGGA
Found at i:1966951 original size:22 final size:21
Alignment explanation
Indices: 1966926--1966976 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
1966916 CTTAGTCCAA
1966926 TATCGATACCTTA-ACATGAGAG
1 TATCGATACCTTAGACA-G-GAG
1966948 TATCGATA-CTTAGACAGGAG
1 TATCGATACCTTAGACAGGAG
*
1966968 TATCAATAC
1 TATCGATAC
1966977 TACCCTTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.38
21 5 0.19
22 11 0.42
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (21 bp):
TATCGATACCTTAGACAGGAG
Found at i:1966970 original size:20 final size:21
Alignment explanation
Indices: 1966926--1966977 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1966916 CTTAGTCCAA
1966926 TATCGATACCTTAACATGAGAG
1 TATCGATA-CTTAACATGAGAG
1966948 TATCGATACTTAGACA-G-GAG
1 TATCGATACTTA-ACATGAGAG
*
1966968 TATCAATACT
1 TATCGATACT
1966978 ACCCTTCCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.43
21 5 0.18
22 11 0.39
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (21 bp):
TATCGATACTTAACATGAGAG
Found at i:1971239 original size:65 final size:64
Alignment explanation
Indices: 1971136--1971271 Score: 168
Period size: 65 Copynumber: 2.1 Consensus size: 64
1971126 ACACTAATTA
* * * *
1971136 CATTCGATGTTTCAAAAGAGCCATAAGTGTATCAATGCATGGTCTGTGCAGCGGTACATAAAATG
1 CATTCGATGTTTCAAAAGAACCATAAGTGCATCAATGCATGGT-TGTGCAGCGATACACAAAATG
* * *
1971201 CATTCGATGTTTCAATAA-AATCA-AGAGTGCATCGATGCATGGTTGTGCATCGATACACAAAAT
1 CATTCGATGTTTCAA-AAGAACCATA-AGTGCATCAATGCATGGTTGTGCAGCGATACACAAAAT
1971264 G
64 G
1971265 CATTCGA
1 CATTCGA
1971272 ATTAGGGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 26 0.42
65 34 0.55
66 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (64 bp):
CATTCGATGTTTCAAAAGAACCATAAGTGCATCAATGCATGGTTGTGCAGCGATACACAAAATG
Found at i:1971635 original size:12 final size:13
Alignment explanation
Indices: 1971613--1971646 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1971603 TAAGATTTTC
1971613 TTTGAAAATC-ATT
1 TTTG-AAATCAATT
1971626 TTTGAAATCAATT
1 TTTGAAATCAATT
1971639 TTTGAAAT
1 TTTGAAAT
1971647 TACTCTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (13 bp):
TTTGAAATCAATT
Found at i:1973836 original size:20 final size:20
Alignment explanation
Indices: 1973811--1973856 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1973801 AAACCCGACG
1973811 AGTGTATCGGTACACTGCAT
1 AGTGTATCGGTACACTGCAT
1973831 AGTGTATCGGTACACTGCAT
1 AGTGTATCGGTACACTGCAT
1973851 AGTGTA
1 AGTGTA
1973857 CCGATGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (20 bp):
AGTGTATCGGTACACTGCAT
Found at i:1973884 original size:23 final size:23
Alignment explanation
Indices: 1973858--1973993 Score: 158
Period size: 23 Copynumber: 6.1 Consensus size: 23
1973848 CATAGTGTAC
*
1973858 CGATGCACATTTAAGGCATGCAT
1 CGATGCACATTCAAGGCATGCAT
* *
1973881 CGATGCACCTTCATA-G--TGTAT
1 CGATGCACATTCA-AGGCATGCAT
1973902 CGATGCACATTCAAGGCATGCAT
1 CGATGCACATTCAAGGCATGCAT
1973925 CGATGCACATTCAAGGCATGCAT
1 CGATGCACATTCAAGGCATGCAT
*
1973948 CGATGCACATTCATA-G--TGTAT
1 CGATGCACATTCA-AGGCATGCAT
* *
1973969 CGATGCATATTCAAGGAATGCAT
1 CGATGCACATTCAAGGCATGCAT
1973992 CG
1 CG
1973994 GTACACTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.02
21 34 0.35
23 59 0.61
24 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
CGATGCACATTCAAGGCATGCAT
Found at i:1973911 original size:44 final size:44
Alignment explanation
Indices: 1973848--1973937 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
1973838 CGGTACACTG
* *
1973848 CATAGTGTACCGATGCACATTTAAGGCATGCATCGATGCACCTT
1 CATAGTGTACCGATGCACATTCAAGGCATGCATCGATGCACATT
*
1973892 CATAGTGTATCGATGCACATTCAAGGCATGCATCGATGCACATT
1 CATAGTGTACCGATGCACATTCAAGGCATGCATCGATGCACATT
1973936 CA
1 CA
1973938 AGGCATGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
CATAGTGTACCGATGCACATTCAAGGCATGCATCGATGCACATT
Found at i:1973941 original size:67 final size:67
Alignment explanation
Indices: 1973858--1973993 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
1973848 CATAGTGTAC
* * *
1973858 CGATGCACATTTAAGGCATGCATCGATGCACCTTCATAGTGTATCGATGCACATTCAAGGCATGC
1 CGATGCACATTCAAGGCATGCATCGATGCACATTCATAGTGTATCGATGCACATTCAAGGAATGC
1973923 AT
66 AT
*
1973925 CGATGCACATTCAAGGCATGCATCGATGCACATTCATAGTGTATCGATGCATATTCAAGGAATGC
1 CGATGCACATTCAAGGCATGCATCGATGCACATTCATAGTGTATCGATGCACATTCAAGGAATGC
1973990 AT
66 AT
1973992 CG
1 CG
1973994 GTACACTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (67 bp):
CGATGCACATTCAAGGCATGCATCGATGCACATTCATAGTGTATCGATGCACATTCAAGGAATGC
AT
Found at i:1973971 original size:44 final size:44
Alignment explanation
Indices: 1973900--1974012 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
1973890 TTCATAGTGT
* *
1973900 ATCGATGCACATTCA-AGGCATGCATCGATGCACATTCAAGGCATGC
1 ATCGATGCACATTCATA-G--TGTATCGATGCACATTCAAGGAATGC
*
1973946 ATCGATGCACATTCATAGTGTATCGATGCATATTCAAGGAATGC
1 ATCGATGCACATTCATAGTGTATCGATGCACATTCAAGGAATGC
* * *
1973990 ATCGGTACACTTTCATAGTGTAT
1 ATCGATGCACATTCATAGTGTAT
1974013 TAATGCATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 43 0.72
46 16 0.27
47 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCATAGTGTATCGATGCACATTCAAGGAATGC
Found at i:1980936 original size:65 final size:64
Alignment explanation
Indices: 1980863--1980995 Score: 178
Period size: 65 Copynumber: 2.1 Consensus size: 64
1980853 ACACTAATAA
* * *
1980863 CATTCGATGTTTCAA-AAGAGCCAGGAGCGTATCGATGCATGGTCTATGCATCGGTACATAAAAT
1 CATTCGATGTTTCAATAA-AACCAGGAGCGCATCGATGCATGG-CTATGCATCGGTACACAAAAT
1980927 G
64 G
** * *
1980928 CATTCGATGTTTCAATAAAATTAGGAGTGCATCGATGCATGGCTTTGCATCGGTACACAAAATG
1 CATTCGATGTTTCAATAAAACCAGGAGCGCATCGATGCATGGCTATGCATCGGTACACAAAATG
1980992 CATT
1 CATT
1980996 TGAATTAGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 24 0.40
65 34 0.57
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (64 bp):
CATTCGATGTTTCAATAAAACCAGGAGCGCATCGATGCATGGCTATGCATCGGTACACAAAATG
Found at i:1983415 original size:18 final size:19
Alignment explanation
Indices: 1983392--1983441 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
1983382 GCCATTTTTG
1983392 GTATCGATACTCAAGGGT-
1 GTATCGATACTCAAGGGTA
1983410 GTATCGATAC-CAAGGGTAGA
1 GTATCGATACTCAAGGGT--A
1983430 GTATCGATACTC
1 GTATCGATACTC
1983442 CCTATATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.25
18 10 0.36
20 10 0.36
21 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (19 bp):
GTATCGATACTCAAGGGTA
Found at i:1985269 original size:98 final size:99
Alignment explanation
Indices: 1985149--1985346 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 99
1985139 CTTTCATGGA
1985149 AAACCTCCAATGTTTTTTTTTTTTTTGATAAATCTGAAGTGAATACAAGATAGTATATGTTTTAA
1 AAACCTCCAATGTTTTTTTTTTTTTTGATAAATCTGAAGTGAATACAAGATAGTATATGTTTTAA
1985214 AAAAATTAACCCTTTAACAATAAA-GTTAATATT
66 AAAAATTAACCCTTTAACAATAAACGTTAATATT
1985247 AAACCTCCAATGTTTTTTTTTTTTTTGATAAATCTGAAGTGAATACAAGATAGTATATGTTTTAA
1 AAACCTCCAATGTTTTTTTTTTTTTTGATAAATCTGAAGTGAATACAAGATAGTATATGTTTTAA
1985312 AAAAATTAACCCTTTAACAATAAACGTTAATATT
66 AAAAATTAACCCTTTAACAATAAACGTTAATATT
1985346 A
1 A
1985347 GGGGTGTTCA
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 89 0.90
99 10 0.10
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (99 bp):
AAACCTCCAATGTTTTTTTTTTTTTTGATAAATCTGAAGTGAATACAAGATAGTATATGTTTTAA
AAAAATTAACCCTTTAACAATAAACGTTAATATT
Found at i:1987749 original size:2 final size:2
Alignment explanation
Indices: 1987742--1987774 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1987732 ATTAATATTA
1987742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1987775 ATGTCAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1988955 original size:243 final size:243
Alignment explanation
Indices: 1988527--1989000 Score: 885
Period size: 243 Copynumber: 2.0 Consensus size: 243
1988517 GAAGTAATGT
*
1988527 AGTGTAGCTATGGAGTATGAACAGGCTACACCACTTTTCCACTCGGCTGTGCTATCTTTGGTAAA
1 AGTGTAGCTATGGAGTATGAACAGGCTACACCACTTTTCCACTCGGCTGTGCTATCTTTGGCAAA
1988592 CATTAAAACTGAAGTTACTGAATATGGGAATTTTGCTAGATGAGTTCAAGTATGTTGGCATCCAT
66 CATTAAAACTGAAGTTACTGAATATGGGAATTTTGCTAGATGAGTTCAAGTATGTTGGCATCCAT
*
1988657 GATTCCGAAAGTTTACATTTTGTGCATGGCTAGGGCTTTAGAATTTGAGGTTAAGGCTCAAGTAC
131 GATTCCAAAAGTTTACATTTTGTGCATGGCTAGGGCTTTAGAATTTGAGGTTAAGGCTCAAGTAC
*
1988722 TCTAAGCTCTTTTCTAGAGTAAAGGGTCCTCGTGGAATTTTGCTATGG
196 TCTAAGCTCTTCTCTAGAGTAAAGGGTCCTCGTGGAATTTTGCTATGG
* *
1988770 AGTGTAGCTATGGAGTATGAACAGGCTACACCACTTTTCCTCTCGGCTGTGCTATCTTTGGCAAT
1 AGTGTAGCTATGGAGTATGAACAGGCTACACCACTTTTCCACTCGGCTGTGCTATCTTTGGCAAA
* *
1988835 CATTAAAACTGAAGTTACTGAATATGGGAATTTTGCTAGATGAGTTCAAGTATGTTGGCTTCTAT
66 CATTAAAACTGAAGTTACTGAATATGGGAATTTTGCTAGATGAGTTCAAGTATGTTGGCATCCAT
1988900 GATTCCAAAAGTTTACATTTTGTGCATGGCTAGGGCTTTAGAATTTGAGGTTAAGGCTCAAGTAC
131 GATTCCAAAAGTTTACATTTTGTGCATGGCTAGGGCTTTAGAATTTGAGGTTAAGGCTCAAGTAC
1988965 TCTAAGCTCTTCTCTAGAGTAAAGGGTCCTCGTGGA
196 TCTAAGCTCTTCTCTAGAGTAAAGGGTCCTCGTGGA
1989001 CGAGTGCAAG
Statistics
Matches: 224, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
243 224 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (243 bp):
AGTGTAGCTATGGAGTATGAACAGGCTACACCACTTTTCCACTCGGCTGTGCTATCTTTGGCAAA
CATTAAAACTGAAGTTACTGAATATGGGAATTTTGCTAGATGAGTTCAAGTATGTTGGCATCCAT
GATTCCAAAAGTTTACATTTTGTGCATGGCTAGGGCTTTAGAATTTGAGGTTAAGGCTCAAGTAC
TCTAAGCTCTTCTCTAGAGTAAAGGGTCCTCGTGGAATTTTGCTATGG
Found at i:1991456 original size:12 final size:12
Alignment explanation
Indices: 1991439--1991479 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1991429 AAAAATAGGT
*
1991439 AAAAATTTTTTA
1 AAAAATTTATTA
*
1991451 AAAAATATATTA
1 AAAAATTTATTA
*
1991463 AAAAATTTGTTA
1 AAAAATTTATTA
1991475 AAAAA
1 AAAAA
1991480 ATAAAGTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AAAAATTTATTA
Found at i:1991478 original size:25 final size:25
Alignment explanation
Indices: 1991439--1991495 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
1991429 AAAAATAGGT
* *
1991439 AAAAATTTTTTAAAAAATATA-TTA
1 AAAAATTTTTAAAAAAATAAAGTTA
1991463 AAAAATTTGTTAAAAAAATAAAGTTA
1 AAAAATTT-TTAAAAAAATAAAGTTA
1991489 AAAAATT
1 AAAAATT
1991496 GCATTTCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 8 0.28
25 11 0.38
26 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAATTTTTAAAAAAATAAAGTTA
Found at i:1991494 original size:13 final size:13
Alignment explanation
Indices: 1991448--1991494 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1991438 TAAAAATTTT
1991448 TTAAAAAATATA-
1 TTAAAAAATATAG
*
1991460 TTAAAAAAT-TTG
1 TTAAAAAATATAG
*
1991472 TTAAAAAAATAAAG
1 TT-AAAAAATATAG
1991486 TTAAAAAAT
1 TTAAAAAAT
1991495 TGCATTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 1 0.03
12 11 0.38
13 14 0.48
14 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TTAAAAAATATAG
Found at i:1992066 original size:17 final size:17
Alignment explanation
Indices: 1992044--1992082 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1992034 TCAATGCCGG
1992044 GTACATCTTAAAGCCAC
1 GTACATCTTAAAGCCAC
1992061 GTACATCTTAAAGCCAC
1 GTACATCTTAAAGCCAC
1992078 GTACA
1 GTACA
1992083 AATATGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (17 bp):
GTACATCTTAAAGCCAC
Found at i:1993332 original size:9 final size:9
Alignment explanation
Indices: 1993318--1993369 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
1993308 TGGGTACAGT
1993318 ACGAAATCC
1 ACGAAATCC
**
1993327 ACGAAATTGT
1 ACGAAA-TCC
*
1993337 AC-CAATCC
1 ACGAAATCC
1993345 ACGAAATCC
1 ACGAAATCC
1993354 ACGAAATCC
1 ACGAAATCC
1993363 ACGAAAT
1 ACGAAAT
1993370 TGTACCAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 3 0.09
9 29 0.83
10 3 0.09
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (9 bp):
ACGAAATCC
Found at i:1993345 original size:18 final size:18
Alignment explanation
Indices: 1993322--1993379 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
1993312 TACAGTACGA
1993322 AATCCACGAAATTGTACC
1 AATCCACGAAATTGTACC
** *
1993340 AATCCACGAAA-TCCACGA
1 AATCCACGAAATTGTAC-C
1993358 AATCCACGAAATTGTACC
1 AATCCACGAAATTGTACC
1993376 AATC
1 AATC
1993380 ACACCCTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.19
Consensus pattern (18 bp):
AATCCACGAAATTGTACC
Found at i:1994925 original size:64 final size:64
Alignment explanation
Indices: 1994778--1994927 Score: 207
Period size: 65 Copynumber: 2.3 Consensus size: 64
1994768 TGCACTAAGA
* *
1994778 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCAGAGTGTATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCACTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
* * *
1994842 GTGCATCGATGCATCAAATGCACTCGATGTTTTCATAAA-ATCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCACTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT
1994905 AT
64 -T
1994907 GTGCATCGATGCA-AAAATGCA
1 GTGCATCGATGCATAAAATGCA
1994928 TTTGATATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
64 35 0.45
65 39 0.51
66 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCACTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
Found at i:1994976 original size:65 final size:64
Alignment explanation
Indices: 1994778--1994979 Score: 207
Period size: 64 Copynumber: 3.1 Consensus size: 64
1994768 TGCACTAAGA
* * * *
1994778 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGTATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATATTTCAATATATCCATGAGTGCATCGATGCATGG-TT
* * * *
1994842 GTGCATCGATGCATCAAATGCACTCGATGTTTTC-ATAAAATCC-TGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGAT-ATTTCAAT-ATATCCATGAGTGCATCGATGCATGGT
1994905 AT
64 -T
* * *
1994907 GTGCATCGATGCA-AAAATGCATTTGATATTTCAATTTATTCCATG-GTGGATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATATTTCAATATA-TCCATGAGTGCATCGATGCATGG-T
1994970 T
64 T
1994971 GGTGCATCG
1 -GTGCATCG
1994980 GTGAATCACT
Statistics
Matches: 115, Mismatches: 14, Indels: 17
0.79 0.10 0.12
Matches are distributed among these distances:
63 5 0.04
64 60 0.52
65 50 0.43
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATATTTCAATATATCCATGAGTGCATCGATGCATGGTT
Found at i:1997694 original size:21 final size:21
Alignment explanation
Indices: 1997664--1997704 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1997654 GCGTGCATTG
*
1997664 ATGCATCTTCATGGTGTATCT
1 ATGCACCTTCATGGTGTATCT
1997685 ATGCACCTTCATGGTGTATC
1 ATGCACCTTCATGGTGTATC
1997705 GATATACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (21 bp):
ATGCACCTTCATGGTGTATCT
Found at i:1997716 original size:21 final size:21
Alignment explanation
Indices: 1997671--1997716 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1997661 TTGATGCATC
* * *
1997671 TTCATGGTGTATCTATGCACC
1 TTCATGGTGTATCGATACACA
*
1997692 TTCATGGTGTATCGATATACA
1 TTCATGGTGTATCGATACACA
1997713 TTCA
1 TTCA
1997717 AAGGGATGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (21 bp):
TTCATGGTGTATCGATACACA
Found at i:1997729 original size:24 final size:24
Alignment explanation
Indices: 1997702--1997755 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1997692 TTCATGGTGT
*
1997702 ATCGATATACATTCAAAGGGATGC
1 ATCGATACACATTCAAAGGGATGC
*
1997726 ATCGATGCACATTCAAAGGGATGC
1 ATCGATACACATTCAAAGGGATGC
1997750 ATCGAT
1 ATCGAT
1997756 GCACTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
ATCGATACACATTCAAAGGGATGC
Found at i:1997756 original size:24 final size:24
Alignment explanation
Indices: 1997710--1997759 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1997700 GTATCGATAT
1997710 ACATTCAAAGGGATGCATCGATGC
1 ACATTCAAAGGGATGCATCGATGC
1997734 ACATTCAAAGGGATGCATCGATGC
1 ACATTCAAAGGGATGCATCGATGC
1997758 AC
1 AC
1997760 TGTTAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
ACATTCAAAGGGATGCATCGATGC
Found at i:2001564 original size:22 final size:21
Alignment explanation
Indices: 2001522--2001561 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2001512 GAACTTATTT
*
2001522 TCATTTTTATATTTTGAAACA
1 TCATTTTTATATTTTAAAACA
2001543 TCATTTTTATATTTTAAAA
1 TCATTTTTATATTTTAAAA
2001562 ACAATTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTATATTTTAAAACA
Found at i:2003473 original size:64 final size:64
Alignment explanation
Indices: 2003390--2003523 Score: 179
Period size: 64 Copynumber: 2.1 Consensus size: 64
2003380 TGAACTAAGA
*
2003390 GTGCA-CGATGCATTAAATGCA-TTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGC
1 GTGCATCGATGCATCAAATGCACTT-GATGTTTTCATAAAT--CCAGAGTGCATCGATGCATGG-
2003451 T-T
62 TAT
*
2003453 GTGCATCGATGCATCAAATGCACTTGATGTTTTCATAAATCCCGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCACTTGATGTTTTCATAAATCCAGAGTGCATCGATGCATGGTAT
2003517 GTGCATC
1 GTGCATC
2003524 AATGTTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
63 6 0.09
64 47 0.73
65 7 0.11
66 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCACTTGATGTTTTCATAAATCCAGAGTGCATCGATGCATGGTAT
Found at i:2004892 original size:214 final size:215
Alignment explanation
Indices: 2004523--2004952 Score: 853
Period size: 214 Copynumber: 2.0 Consensus size: 215
2004513 TCATTCTTGA
2004523 ACTTACCCATATTCTAGAGATGGTCCTTTGTAAAGGCCTATGAACAAATTTCAAATAGCCGAAGT
1 ACTTACCCATATTCTAGAGATGGTCCTTTGTAAAGGCCTATGAACAAATTTCAAATAGCCGAAGT
2004588 GGCTAAATAATGCAGTACACAACAACAGTCATTGGAGACACTGTCGTTAGATTAATGATTTTACA
66 GGCTAAATAATGCAGTACACAACAACAGTCATTGGAGACACTGTCGTTAGATTAATGATTTTACA
2004653 ACTCAGATGATTCAATTAGCTATTTCCATGGATATGTGATTTTTGAAGGTTTAGAAAAGG-ATAT
131 ACTCAGATGATTCAATTAGCTATTTCCATGGATATGTGATTTTTGAAGGTTTAGAAAAGGAATAT
2004717 GAAATATCTCTAAGTACGTT
196 GAAATATCTCTAAGTACGTT
2004737 ACTTACCCATATTCTAGAGATGGTCCTTTGTAAAGGCCTATGAACAAATTTCAAATAGCCGAAGT
1 ACTTACCCATATTCTAGAGATGGTCCTTTGTAAAGGCCTATGAACAAATTTCAAATAGCCGAAGT
2004802 GGCTAAATAATGCAGTACACAACAACAGTCATTGGAGACACTGTCGTTAGATTAATGATTTTACA
66 GGCTAAATAATGCAGTACACAACAACAGTCATTGGAGACACTGTCGTTAGATTAATGATTTTACA
2004867 ACTCAGATGATTCAATTAGCTATTTCCATGGATATGTGATTTTTGAAGGTTTAGAAAAGGAATAT
131 ACTCAGATGATTCAATTAGCTATTTCCATGGATATGTGATTTTTGAAGGTTTAGAAAAGGAATAT
2004932 GAAATATCTCTAAGTACGTT
196 GAAATATCTCTAAGTACGTT
2004952 A
1 A
2004953 TATAAACTCT
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 190 0.88
215 25 0.12
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (215 bp):
ACTTACCCATATTCTAGAGATGGTCCTTTGTAAAGGCCTATGAACAAATTTCAAATAGCCGAAGT
GGCTAAATAATGCAGTACACAACAACAGTCATTGGAGACACTGTCGTTAGATTAATGATTTTACA
ACTCAGATGATTCAATTAGCTATTTCCATGGATATGTGATTTTTGAAGGTTTAGAAAAGGAATAT
GAAATATCTCTAAGTACGTT
Found at i:2012907 original size:15 final size:14
Alignment explanation
Indices: 2012889--2012926 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2012879 AAAAGGAAAA
2012889 AAATGAAAAAAAATG
1 AAAT-AAAAAAAATG
2012904 AAATAAAAAAAAT-
1 AAATAAAAAAAATG
*
2012917 AGATAAAAAA
1 AAATAAAAAA
2012927 GAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 9 0.41
15 4 0.18
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (14 bp):
AAATAAAAAAAATG
Found at i:2015051 original size:41 final size:41
Alignment explanation
Indices: 2014984--2015091 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
2014974 TGTGAGTAAG
** * * *
2014984 TCCTTCGGGCCATTAATAAAAATTTCGAG-AATGATGTTAAA
1 TCCTTCGGGCCATCCATAAGACTTTCGAGCAA-GATGATAAA
* * * * *
2015025 TCCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAG
1 TCCTTCGGGCCATCCATAAGACTTTCGAGCAAGATGATAAA
2015066 TCCTTCGGGCCATCCATAAGACTTTC
1 TCCTTCGGGCCATCCATAAGACTTTC
2015092 AGGTAGGATA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 51 0.96
42 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (41 bp):
TCCTTCGGGCCATCCATAAGACTTTCGAGCAAGATGATAAA
Found at i:2015254 original size:22 final size:22
Alignment explanation
Indices: 2015226--2015296 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
2015216 CAGGCCATCA
2015226 GTAAGTCTTTCGAGCATGATGT
1 GTAAGTCTTTCGAGCATGATGT
* *
2015248 GTAAGTCCTTCGAGCCATCA---
1 GTAAGTCTTTCGAG-CATGATGT
*
2015268 GTAAGCCTTTCGAGCATGATGT
1 GTAAGTCTTTCGAGCATGATGT
2015290 GTAAGTC
1 GTAAGTC
2015297 ATTTGGGCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 4 0.10
20 12 0.31
22 19 0.49
23 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (22 bp):
GTAAGTCTTTCGAGCATGATGT
Found at i:2015254 original size:42 final size:41
Alignment explanation
Indices: 2015207--2015367 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 41
2015197 CGAATCAGCT
* *
2015207 TAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGTG
1 TAAGTCCTTCGGGCCATCA-TAAGCCTTTCGAGCATGATGTG
*
2015249 TAAGTCCTTCGAGCCATCAGTAAGCCTTTCGAGCATGATGTG
1 TAAGTCCTTCGGGCCATCA-TAAGCCTTTCGAGCATGATGTG
* * * * *
2015291 TAAGTCATTTGGGCCATCTATAAGTCTTTCGAGCAAGATG-A
1 TAAGTCCTTCGGGCCATC-ATAAGCCTTTCGAGCATGATGTG
2015332 TAAGTCCTTCGGGCCATCCATAAGACCTTTCGAGCA
1 TAAGTCCTTCGGGCCAT-CATAAG-CCTTTCGAGCA
2015368 AGGTGTTTTC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 20 0.19
42 83 0.80
43 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
TAAGTCCTTCGGGCCATCATAAGCCTTTCGAGCATGATGTG
Found at i:2015279 original size:20 final size:20
Alignment explanation
Indices: 2015219--2015282 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
2015209 AGTCCTTCAG
*
2015219 GCCATCAGTAAGTCTTTCGA
1 GCCATCAGTAAGCCTTTCGA
*
2015239 G-CATGATGTGTAAGTCC-TTCGA
1 GCCATCA---GTAAG-CCTTTCGA
2015261 GCCATCAGTAAGCCTTTCGA
1 GCCATCAGTAAGCCTTTCGA
2015281 GC
1 GC
2015283 ATGATGTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 6 0.17
20 13 0.37
22 11 0.31
23 5 0.14
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (20 bp):
GCCATCAGTAAGCCTTTCGA
Found at i:2016307 original size:139 final size:139
Alignment explanation
Indices: 2015969--2016647 Score: 784
Period size: 139 Copynumber: 4.9 Consensus size: 139
2015959 GGGTAAACTA
* * * *
2015969 ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCTGACAGAAGGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAAGGAGAAGAAGTTCA
* * * * * *** *
2016034 TAATGAGAAGAGCTTGTTCGATCTATCA-CTCGATTCA-CA-ACAT----TTGAAATCAGTGACG
65 TAATGAGAAGAACTTGTTCAACCT-T-AGCTTGATTCATCACATATGGAGTTG-AATCAACAACA
* ** *
2016092 CCTCGCTTAAGGA
127 CCTCACTCGAGGG
* * * *
2016105 ATCAACATTTCTATTGGAAAGAGTTCATAATGACAAGAGCTCATCCGAT-AAGGGAGAAGAAGTT
1 ATCAACATTTCCAGTGG--AGAGTTCATAATGAGAAGAACTCATCCGATGAA-GGAGAAGAAGTT
* * *
2016169 CATAATGAGAAGAACTTGTTCAACCTTAGCTTGATTAATCGCATATGGAGTTGAATCAGCAACAC
63 CATAATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACAC
* *
2016234 CTCAATCGAGAG
128 CTCACTCGAGGG
* * * *
2016246 ATCAACATTTCCAGTGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAAAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* *
2016311 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATAGAGTTGAATCAACAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTC
2016376 ACTCGAGGG
131 ACTCGAGGG
* * *
2016385 ATCAACATTTCCAGTGGAGAGTTCAAAATGAGAATAACTCATCCGATGAAGGAGAATAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * * * *
2016450 AATGAAAATAACTTGTTCAACCGTAG-TTCGATTCATCATATATGGAGTTAAATCAACAACACCT
66 AATGAGAAGAACTTGTTCAACCTTAGCTT-GATTCATCACATATGGAGTTGAATCAACAACACCT
*
2016514 GACTCGAGGG
130 CACTCGAGGG
* *
2016524 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGTATAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * *
2016589 AATGAGAAGAACTTGTTCAACCTTAGCATGTTTCCATCACATAAGGAGTTAGAA-CAACA
66 AATGAGAAGAACTTGTTCAACCTTAGCTTGATT-CATCACATATGGAGTT-GAATCAACA
2016648 CCAACATTTC
Statistics
Matches: 464, Mismatches: 64, Indels: 26
0.84 0.12 0.05
Matches are distributed among these distances:
135 1 0.00
136 25 0.05
137 36 0.08
138 30 0.06
139 317 0.68
140 21 0.05
141 31 0.07
142 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTC
ACTCGAGGG
Found at i:2024644 original size:46 final size:46
Alignment explanation
Indices: 2024577--2024669 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
2024567 CAAACTTGGG
2024577 TGTGAGTTCCGTGATGCTGAGTGACCTTGAGCTACACCATAATGCT
1 TGTGAGTTCCGTGATGCTGAGTGACCTTGAGCTACACCATAATGCT
**
2024623 TGTGAGTTTTGTGATGCTGAGTGACCTTGAGCTACACCATAATGCT
1 TGTGAGTTCCGTGATGCTGAGTGACCTTGAGCTACACCATAATGCT
2024669 T
1 T
2024670 ACTTCGGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (46 bp):
TGTGAGTTCCGTGATGCTGAGTGACCTTGAGCTACACCATAATGCT
Found at i:2030153 original size:24 final size:20
Alignment explanation
Indices: 2030099--2030148 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
2030089 ATTCCTAGTG
*
2030099 AAAAATGATCTATCCCTCTA
1 AAAAAGGATCTATCCCTCTA
2030119 AAAAAGGATCTATCCCTCTA
1 AAAAAGGATCTATCCCTCTA
2030139 AAAAAGGATC
1 AAAAAGGATC
2030149 GATCTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (20 bp):
AAAAAGGATCTATCCCTCTA
Found at i:2035167 original size:65 final size:64
Alignment explanation
Indices: 2035042--2035194 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
2035032 CCCTATTTCG
* * * *
2035042 AATGCATTTTATATACCGATGCACAGCCATGCATCGATGCACTCTTAATTTTATTGAAACATCA
1 AATGCATTTTATGTACCGATGCACAGCCATGCATCGATGCACTCTGAATCTTATTAAAACATCA
* **
2035106 AATGCATTTTATGTACCGATGCATAGACCATGCATCGATGCACTCCTGGCTCTT-TTAAAACATC
1 AATGCATTTTATGTACCGATGCACAG-CCATGCATCGATGCACT-CTGAATCTTATTAAAACATC
*
2035170 G
64 A
* *
2035171 AATGTA-ATTAGTGTACCGATGCAC
1 AATGCATTTTA-TGTACCGATGCAC
2035195 CCCAAGTGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
64 27 0.36
65 43 0.57
66 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (64 bp):
AATGCATTTTATGTACCGATGCACAGCCATGCATCGATGCACTCTGAATCTTATTAAAACATCA
Found at i:2043635 original size:24 final size:24
Alignment explanation
Indices: 2043609--2043713 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 24
2043599 AAACAGAGAT
* *
2043609 ATCAGAAATCAAAACAAAATTCAT
1 ATCAGAAATCAGAACAAAATTCAG
* * * *
2043633 ATCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAAAATTCAG
* *
2043657 ATTAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACAAAATTCAG
*
2043681 ATCAGAAATCAGAACAAAATTCAA
1 ATCAGAAATCAGAACAAAATTCAG
*
2043705 ATCGGAAAT
1 ATCAGAAAT
2043714 TAGATAAAAC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAAAATTCAG
Found at i:2052893 original size:20 final size:20
Alignment explanation
Indices: 2052868--2052909 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2052858 ATCCCTAAGA
2052868 ATTTGCAAAACTATCCTCAG
1 ATTTGCAAAACTATCCTCAG
2052888 ATTTGCAAAACTATCCTCAG
1 ATTTGCAAAACTATCCTCAG
2052908 AT
1 AT
2052910 GTGCGCGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTGCAAAACTATCCTCAG
Found at i:2055980 original size:23 final size:23
Alignment explanation
Indices: 2055962--2056022 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2055952 CTCGTATAAA
*
2055962 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
**
2055985 TATACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
2056008 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
2056023 TATAAGATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2056746 original size:64 final size:65
Alignment explanation
Indices: 2056672--2056830 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 65
2056662 CTTGACAGGT
* * * *
2056672 GCATCGATGCACTATC-TATGCATCGATACA-TAAATCCCATTCGATGGTTTGTA-TTTAAGGGG
1 GCATCGATGCACTATCATGTGCATCGATACACT-AATCACATTCGAT-GTTTGTATTTTAAAGGA
2056734 GC
64 GC
* * * *
2056736 GCATCGATGCACTA-CTTGTGCATCGATACACTAATGACATTCGATGTTTTTATTTTAAAGGAGT
1 GCATCGATGCACTATCATGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAGGAGC
2056800 GCATCGATGCACT-TCATGTGCATCGATACAC
1 GCATCGATGCACTATCATGTGCATCGATACAC
2056831 CTTGAACAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 7 0.08
64 75 0.90
65 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (65 bp):
GCATCGATGCACTATCATGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAGGAGC
Found at i:2059624 original size:36 final size:36
Alignment explanation
Indices: 2059452--2059614 Score: 227
Period size: 36 Copynumber: 4.5 Consensus size: 36
2059442 TAGTAGATAG
*
2059452 GTTCATAACTCGCATGGCTACTTCTCCAATAGGTAA
1 GTTCATAACTCACATGGCTACTTCTCCAATAGGTAA
*
2059488 GTTCATAACTCGCATGGCTACTTCTCCAATAGGTAA
1 GTTCATAACTCACATGGCTACTTCTCCAATAGGTAA
*
2059524 GTTCATAACTCACATGGCTACTTCTCCAATAGGCAA
1 GTTCATAACTCACATGGCTACTTCTCCAATAGGTAA
* * * * * ** *
2059560 GTCCATAACTAACACGGCTGCTTTTTTAATAGATAA
1 GTTCATAACTCACATGGCTACTTCTCCAATAGGTAA
2059596 GTTCATAACTCACATGGCT
1 GTTCATAACTCACATGGCT
2059615 GCCTTTTTAA
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 113 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (36 bp):
GTTCATAACTCACATGGCTACTTCTCCAATAGGTAA
Found at i:2059822 original size:22 final size:22
Alignment explanation
Indices: 2059797--2059845 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2059787 TTGGCACAAG
2059797 CTAGGTGGATTGT-ACCTAACAT
1 CTAGGTGGATTGTCACC-AACAT
* *
2059819 CTAGCTGGATTGTCACCAACTT
1 CTAGGTGGATTGTCACCAACAT
2059841 CTAGG
1 CTAGG
2059846 AAACCAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
CTAGGTGGATTGTCACCAACAT
Found at i:2065857 original size:54 final size:54
Alignment explanation
Indices: 2065794--2065897 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
2065784 TGAACAAAAT
2065794 AAATAAATAGATTTAAACATTAATTATCCGTTAATAATATCAATAGGTTGAATA
1 AAATAAATAGATTTAAACATTAATTATCCGTTAATAATATCAATAGGTTGAATA
*
2065848 AAATAAATAGATTTAAGCATTAATTATCCGTTAATAATATCAATAGGTTG
1 AAATAAATAGATTTAAACATTAATTATCCGTTAATAATATCAATAGGTTG
2065898 GTGGTTGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.36
Consensus pattern (54 bp):
AAATAAATAGATTTAAACATTAATTATCCGTTAATAATATCAATAGGTTGAATA
Found at i:2065928 original size:45 final size:45
Alignment explanation
Indices: 2065868--2065971 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
2065858 ATTTAAGCAT
*
2065868 TAATTATCCGTTAATAATATC-AATAGGTTGGTGGTTGGTGGTTAA
1 TAATTATCCGTTAATAA-ATCTAATAGGTTAGTGGTTGGTGGTTAA
** * * *
2065913 TAATTATCTTTTAATAACTCTAGTAGGTTAGTGGTTGGTGGTTAT
1 TAATTATCCGTTAATAAATCTAATAGGTTAGTGGTTGGTGGTTAA
*
2065958 TAATTATCCATTAA
1 TAATTATCCGTTAA
2065972 CATCCTGGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 2 0.04
45 48 0.96
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (45 bp):
TAATTATCCGTTAATAAATCTAATAGGTTAGTGGTTGGTGGTTAA
Found at i:2065984 original size:45 final size:45
Alignment explanation
Indices: 2065891--2065993 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
2065881 ATAATATCAA
** *
2065891 TAGGTTGGTGGTTGGTGGTTAATAATTATCTTTTAATAACTCTAG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACTCTAG
* * * *
2065936 TAGGTTAGTGGTTGGTGGTTATTAATTATCCATTAACATC-CTGGG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACTCT-AG
2065981 TAGGTTGGTGGTT
1 TAGGTTGGTGGTT
2065994 AATGGTCCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.04
45 47 0.96
ACGTcount: A:0.21, C:0.08, G:0.28, T:0.43
Consensus pattern (45 bp):
TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACTCTAG
Found at i:2074516 original size:58 final size:57
Alignment explanation
Indices: 2074376--2074641 Score: 321
Period size: 58 Copynumber: 4.7 Consensus size: 57
2074366 TCCAATATGG
* * *
2074376 AAATTCATACACTTAGTATGAATCTCTTAA-TTTTTGCACACAAAGTG-CC----C-
1 AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACACAGAGTGCCCAATACA
* *
2074426 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACTA
1 AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACACAGAGTGCCCAATAC-A
* * * *
2074484 AAATTCATGCATTTAATATGAATTTCTTAACTTTTTACACACAGAGTGCCCAATACGG
1 AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACACAGAGTGCCCAATAC-A
* * * *
2074542 AAATTCATATACTTAATATGAATTTCTTTACTTTTTGCATACAGAGTGCCCGATACA
1 AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACACAGAGTGCCCAATACA
* *
2074599 GAAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACAC
1 -AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACAC
2074642 TTATTGCCAT
Statistics
Matches: 186, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
50 29 0.16
51 17 0.09
52 2 0.01
56 1 0.01
58 137 0.74
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (57 bp):
AAATTCATACACTTAATATGAATTTCTTAACTTTTTGCACACAGAGTGCCCAATACA
Found at i:2075016 original size:22 final size:20
Alignment explanation
Indices: 2074967--2075037 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 20
2074957 TGGCTCCTCA
*
2074967 GTATCGATAC-CCCTACCATG
1 GTATCGATACACCC-ACTATG
*
2074987 GTATCGATACTACCATACTATG
1 GTATCGATAC-ACC-CACTATG
*
2075009 GTACCGATA-ACCCACTATG
1 GTATCGATACACCCACTATG
2075028 GTATCGATAC
1 GTATCGATAC
2075038 CTTCCCTCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 14 0.33
20 13 0.31
22 15 0.36
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (20 bp):
GTATCGATACACCCACTATG
Found at i:2078730 original size:238 final size:238
Alignment explanation
Indices: 2078277--2078752 Score: 936
Period size: 238 Copynumber: 2.0 Consensus size: 238
2078267 GGGGATATCA
2078277 TGTAATCGCACTTTCGACACTCGAATGTCTATCACATTAGCTAGAAAAGCTAAGCATTCTTTTGA
1 TGTAATCGCACTTTCGACACTCGAATGTCTATCACATTAGCTAGAAAAGCTAAGCATTCTTTTGA
2078342 CATCATTTTTTTGTGGTCATGTCTGATATCACATTGGACAGGGATTTCACCTTCTTCCTATCACC
66 CATCATTTTTTTGTGGTCATGTCTGATATCACATTGGACAGGGATTTCACCTTCTTCCTATCACC
2078407 ATAATTTCGAAGCCATCCAAATCCTTAAGTTTCCGACGAAAATCTACCCATCCATGATGTGGAGA
131 ATAATTTCGAAGCCATCCAAATCCTTAAGTTTCCGACGAAAATCTACCCATCCATGATGTGGAGA
2078472 CAACCAATCCATGCCCCAAAATGATTTCAAACTCATCAAAGGG
196 CAACCAATCCATGCCCCAAAATGATTTCAAACTCATCAAAGGG
2078515 TGTAATCGCACTTTCGACACTCGAATGTCTATCACATTAGCTAGAAAAGCTAAGCATTCTTTTGA
1 TGTAATCGCACTTTCGACACTCGAATGTCTATCACATTAGCTAGAAAAGCTAAGCATTCTTTTGA
2078580 CATCATTTTTTTGTGGTCATGTCTGATATCACATTGGACAGGGATTTCACCTTCTCTCCTATCAC
66 CATCATTTTTTTGTGGTCATGTCTGATATCACATTGGACAGGGATTTCACCTTCT-TCCTATCAC
2078645 CATAATTTCGAAGCCATCCAAATCCTTAAGTTTCCGACGAAAATCTACCCATCCATGATGTGGAG
130 CATAATTTCGAAGCCATCCAAATCCTTAAGTTTCCGACGAAAATCTACCCATCCATGATGTGGAG
2078710 ACAACCAATCCATG-CCCAAAATGATTTCAAACTCATCAAAGGG
195 ACAACCAATCCATGCCCCAAAATGATTTCAAACTCATCAAAGGG
2078753 CAACTCCATC
Statistics
Matches: 237, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
238 149 0.63
239 88 0.37
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (238 bp):
TGTAATCGCACTTTCGACACTCGAATGTCTATCACATTAGCTAGAAAAGCTAAGCATTCTTTTGA
CATCATTTTTTTGTGGTCATGTCTGATATCACATTGGACAGGGATTTCACCTTCTTCCTATCACC
ATAATTTCGAAGCCATCCAAATCCTTAAGTTTCCGACGAAAATCTACCCATCCATGATGTGGAGA
CAACCAATCCATGCCCCAAAATGATTTCAAACTCATCAAAGGG
Found at i:2080967 original size:58 final size:58
Alignment explanation
Indices: 2080897--2081175 Score: 434
Period size: 58 Copynumber: 4.8 Consensus size: 58
2080887 CATATTTCCC
* * *
2080897 ATACGAAAATTCATACACTTAGTGTGAATCTCTTAACTTTTTGTACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
2080955 ATACGAAAATTCATACACTTAGTATGAGTTTCTTAATTTTTTGCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
2081013 ATACTAAAATTTATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTACCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
2081071 ATACGGAAATTCATACACTTAGTATGAATTTCTT-ATTTTTTGCATACAAAGTGCCTA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
2081128 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
2081176 TTAGTGCCAT
Statistics
Matches: 201, Mismatches: 19, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
57 53 0.26
58 148 0.74
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (58 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:2081564 original size:19 final size:19
Alignment explanation
Indices: 2081507--2081578 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
2081497 TGGCTCCTCA
* *
2081507 GTATTGATACCCCTACCATG
1 GTATCGATA-CCCTACTATG
2081527 GTATCGATACTACCATACTATG
1 GTATCGATAC--CC-TACTATG
*
2081549 GTACCGATACCCTACTATG
1 GTATCGATACCCTACTATG
2081568 GTATCGATACC
1 GTATCGATACC
2081579 ATTTTTTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 18 0.40
20 10 0.22
21 2 0.04
22 15 0.33
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:2084569 original size:40 final size:40
Alignment explanation
Indices: 2084514--2084672 Score: 300
Period size: 40 Copynumber: 4.0 Consensus size: 40
2084504 TGGAGGTTTA
2084514 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2084554 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
2084594 TAATACACTTCGGTGTGTATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
2084634 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGT
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGT
2084673 ATAGCACTAC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2084864 original size:46 final size:44
Alignment explanation
Indices: 2084772--2084894 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 44
2084762 GTAACCATGC
*
2084772 AAATAAGCTTACGAGCTTATGGA-ATAATGGAAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGTA
*
2084816 AAATAAGCTTATGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTAT-GGA-TAAATGGTAAGTATATTGGTA
2084862 AAATAAGCTTACGAGCTTATAGGATAAATGGTA
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGTA
2084895 TGAAATTTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 19 0.26
45 12 0.17
46 40 0.56
47 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
Found at i:2091193 original size:58 final size:58
Alignment explanation
Indices: 2090912--2091185 Score: 415
Period size: 58 Copynumber: 4.7 Consensus size: 58
2090902 TCCCATATGG
*
2090912 AAATTCATACACTTAGTATGAATCTCTTAACTTTTTGCACACAAAGTGCCCAATAC-A
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGA
* * * * *
2090969 GAAATTCATACAATTAGTATGAATTTCTTAATTTTTTGCACACAAAATGCCAAATACTA
1 -AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGA
* * * *
2091028 AAATACATACACTTAGTATGAGTTTCTTAACTTTTTGCACACAAAGTACCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGA
* * *
2091086 ATATTCATACACTTAGTATGAATTTCTTAACTTTTTGAACACAGAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGA
2091144 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
2091186 TTAGTGCCAT
Statistics
Matches: 192, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 191 0.99
59 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGA
Found at i:2091538 original size:19 final size:19
Alignment explanation
Indices: 2091514--2091558 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2091504 TCCTCAGTAT
2091514 CGATACCCTACTATGGTAC
1 CGATACCCTACTATGGTAC
*
2091533 CGATACCCTACTATGGTAT
1 CGATACCCTACTATGGTAC
2091552 CGATACC
1 CGATACC
2091559 ATTTTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (19 bp):
CGATACCCTACTATGGTAC
Found at i:2091618 original size:20 final size:19
Alignment explanation
Indices: 2091580--2091628 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2091570 CTGCTTTGAA
*
2091580 TGGTATAGATACCTTCCCT
1 TGGTATCGATACCTTCCCT
2091599 CTGGTATCGATA-CTTCCCCT
1 -TGGTATCGATACCTT-CCCT
2091619 TCGGTATCGA
1 T-GGTATCGA
2091629 CACTGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (19 bp):
TGGTATCGATACCTTCCCT
Found at i:2092547 original size:89 final size:89
Alignment explanation
Indices: 2092448--2092625 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
2092438 CATGTATGAT
2092448 TTTAATTTTATTTAAAACATGTGAATGGTTTTCTGAATTTTTATTATTTATAAATTGTTTTATGA
1 TTTAATTTTATTTAAAACATGTGAATGGTTTTCTGAATTTTTATTATTTATAAATTGTTTTATGA
2092513 TTTTATGCGTTCTAACAGAAATTA
66 TTTTATGCGTTCTAACAGAAATTA
2092537 TTTAATTTTATTTAAAACATGTGAATGGTTTTCTGAATTTTTATTATTTATAAATTGTTTTATGA
1 TTTAATTTTATTTAAAACATGTGAATGGTTTTCTGAATTTTTATTATTTATAAATTGTTTTATGA
2092602 TTTTATGCGTTCTAACAGAAATTA
66 TTTTATGCGTTCTAACAGAAATTA
2092626 AATTTTCTCA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (89 bp):
TTTAATTTTATTTAAAACATGTGAATGGTTTTCTGAATTTTTATTATTTATAAATTGTTTTATGA
TTTTATGCGTTCTAACAGAAATTA
Found at i:2093350 original size:25 final size:25
Alignment explanation
Indices: 2093308--2093381 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
2093298 ATTTTATATA
2093308 TATTAAC-T-TTAAAAATATTGTT-C
1 TATTAACTTATTAAAAATATT-TTAC
* *
2093331 TATTAACTTATTAAATATATTTTAT
1 TATTAACTTATTAAAAATATTTTAC
2093356 TATTAACTTAATTTAAAAATATTTTA
1 TATTAACTT-A-TTAAAAATATTTTA
2093382 TTTTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 7 0.16
24 3 0.07
25 19 0.44
26 1 0.02
27 13 0.30
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (25 bp):
TATTAACTTATTAAAAATATTTTAC
Found at i:2093378 original size:27 final size:27
Alignment explanation
Indices: 2093295--2093404 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
2093285 TTAAATTCAT
2093295 AATATTTTA-TA-TATA-TTAACTTTAAA
1 AATATTTTATTATTA-ACTTAA-TTTAAA
*
2093321 AATATTGTT-CTATTAACTT-A-TTAAA
1 AATATT-TTATTATTAACTTAATTTAAA
*
2093346 TATATTTTATTATTAACTTAATTTAAA
1 AATATTTTATTATTAACTTAATTTAAA
*
2093373 AATATTTTATT-TTAATTTTAATTTAAA
1 AATATTTTATTATTAA-CTTAATTTAAA
2093400 AATAT
1 AATAT
2093405 ATATTTTATG
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
24 2 0.03
25 19 0.26
26 11 0.15
27 36 0.50
28 4 0.06
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.53
Consensus pattern (27 bp):
AATATTTTATTATTAACTTAATTTAAA
Found at i:2093412 original size:31 final size:29
Alignment explanation
Indices: 2093343--2093431 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 29
2093333 TTAACTTATT
*
2093343 AAATATATTTTATTATTAACTTAATTT--A
1 AAATATATTTTATT-TTAATTTAATTTAAA
2093371 AAA-ATATTTTATTTTAATTTTAATTTAAA
1 AAATATATTTTATTTTAA-TTTAATTTAAA
*
2093400 AATATATATTTTATGTTAAAATTT-ATTTAAA
1 AA-ATATATTTTAT-TT-TAATTTAATTTAAA
2093431 A
1 A
2093432 GTAAGACTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.08
27 17 0.33
28 3 0.06
29 3 0.06
30 1 0.02
31 17 0.33
32 5 0.10
33 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTTTAATTTAATTTAAA
Found at i:2095839 original size:7 final size:7
Alignment explanation
Indices: 2095829--2095921 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
2095819 ATTCTAAATT
2095829 CTAAACC
1 CTAAACC
*
2095836 CTAAACT
1 CTAAACC
* *
2095843 ATAAACT
1 CTAAACC
*
2095850 ATAAACC
1 CTAAACC
*
2095857 ATAAACC
1 CTAAACC
2095864 CTAAATCC
1 CTAAA-CC
2095872 C-AAACC
1 CTAAACC
*
2095878 CTAAACT
1 CTAAACC
*
2095885 ATAAACC
1 CTAAACC
*
2095892 TTAAACC
1 CTAAACC
*
2095899 C-AAAGAC
1 CTAAA-CC
* *
2095906 CTAAGCT
1 CTAAACC
2095913 CTAAACC
1 CTAAACC
2095920 CT
1 CT
2095922 TAATCCGATT
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
6 6 0.09
7 56 0.84
8 5 0.07
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:2095839 original size:14 final size:14
Alignment explanation
Indices: 2095807--2095921 Score: 74
Period size: 14 Copynumber: 8.2 Consensus size: 14
2095797 TAGATTACAA
*
2095807 CCTAAACTCTAAAT
1 CCTAAACTCTAAAC
* *
2095821 TCTAAATTCTAAAC
1 CCTAAACTCTAAAC
*
2095835 CCTAAACTATAAAC
1 CCTAAACTCTAAAC
**
2095849 TATAAAC-CATAAAC
1 CCTAAACTC-TAAAC
*
2095863 CCTAAA-TCCCAAAC
1 CCTAAACT-CTAAAC
*
2095877 CCTAAACTATAAAC
1 CCTAAACTCTAAAC
* * *
2095891 CTTAAAC-CCAAAGA
1 CCTAAACTCTAAA-C
*
2095905 CCTAAGCTCTAAAC
1 CCTAAACTCTAAAC
2095919 CCT
1 CCT
2095922 TAATCCGATT
Statistics
Matches: 73, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
13 3 0.04
14 64 0.88
15 6 0.08
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (14 bp):
CCTAAACTCTAAAC
Found at i:2095847 original size:21 final size:21
Alignment explanation
Indices: 2095808--2095889 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
2095798 AGATTACAAC
* * *
2095808 CTAAACTCTAAATTCTAAATT
1 CTAAACCCTAAACTATAAATT
*
2095829 CTAAACCCTAAACTATAAACT
1 CTAAACCCTAAACTATAAATT
* * ** *
2095850 ATAAACCATAAACCCTAAATC
1 CTAAACCCTAAACTATAAATT
*
2095871 CCAAACCCTAAACTATAAA
1 CTAAACCCTAAACTATAAA
2095890 CCTTAAACCC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAAACCCTAAACTATAAATT
Found at i:2095868 original size:35 final size:35
Alignment explanation
Indices: 2095829--2095899 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
2095819 ATTCTAAATT
*
2095829 CTAAA-CCCTAAACTATAAACTATAAACCATAAACC
1 CTAAATCCC-AAACCATAAACTATAAACCATAAACC
* *
2095864 CTAAATCCCAAACCCTAAACTATAAACCTTAAACC
1 CTAAATCCCAAACCATAAACTATAAACCATAAACC
2095899 C
1 C
2095900 AAAGACCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (35 bp):
CTAAATCCCAAACCATAAACTATAAACCATAAACC
Found at i:2097331 original size:22 final size:23
Alignment explanation
Indices: 2097306--2097389 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
2097296 TGGCTAAGAT
* * *
2097306 TCGAGCTTGATTTGAGCTT-GAA
1 TCGAGCTTGAATCGAGCTTCAAA
2097328 TCGAGCTTGAATCGAGCTTCAAA
1 TCGAGCTTGAATCGAGCTTCAAA
* * * *
2097351 TCGAACTTGAATCAAGATTAAAA
1 TCGAGCTTGAATCGAGCTTCAAA
2097374 TCGAGCTTGAATCGAG
1 TCGAGCTTGAATCGAG
2097390 TTCGAGTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
22 17 0.33
23 35 0.67
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTTCAAA
Found at i:2097363 original size:11 final size:11
Alignment explanation
Indices: 2097306--2097389 Score: 87
Period size: 11 Copynumber: 7.5 Consensus size: 11
2097296 TGGCTAAGAT
*
2097306 TCGAGCTTGAT
1 TCGAGCTTGAA
*
2097317 TTGAGCTTGAA
1 TCGAGCTTGAA
2097328 TCGAGCTTGAA
1 TCGAGCTTGAA
*
2097339 TCGAGCTTCAAA
1 TCGAGCTT-GAA
*
2097351 TCGAACTTGAA
1 TCGAGCTTGAA
* * *
2097362 TCAAGATTAAAA
1 TCGAGCTT-GAA
2097374 TCGAGCTTGAA
1 TCGAGCTTGAA
2097385 TCGAG
1 TCGAG
2097390 TTCGAGTCTC
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
11 41 0.71
12 17 0.29
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (11 bp):
TCGAGCTTGAA
Done.