Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 53 of 135
Found at i:21642498 original size:33 final size:32
Alignment explanation
Indices: 21642427--21642502 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
21642417 GTATTTATAA
* * *
21642427 GTAAGACCATAGCTGGGATATGGCATTCTGAT
1 GTAAGACCATAACTGAGATATGGCATACTGAT
*
21642459 GATAAGACCATAACTGAGTTATGGCACTAC-GAAT
1 G-TAAGACCATAACTGAGATATGGCA-TACTG-AT
21642493 GTAAGACCAT
1 GTAAGACCAT
21642503 GGCTAGGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 1 0.03
33 31 0.84
34 5 0.14
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGAGATATGGCATACTGAT
Found at i:21642514 original size:101 final size:99
Alignment explanation
Indices: 21642321--21642502 Score: 220
Period size: 101 Copynumber: 1.8 Consensus size: 99
21642311 TGTGGCAATT
* * * * *
21642321 TTTATATGTAAGACCATAGCTGGGATGACATTTTAATGAAAAAACCATAATTGGGTTATGGCATT
1 TTTATAAGTAAGACCATAGCTGGGATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCACT
** *
21642386 TTGAACATAAGACCATAGTTGGACCATGACAGTA
66 ACGAACATAAGACCATAGTAGGACCATGACAGTA
* * * *
21642420 TTTATAAGTAAGACCATAGCTGGGATATGGCATTCTGATGATAAGACCATAACTGAGTTATGGCA
1 TTTATAAGTAAGACCATAGCTGGG--ATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCA
**
21642485 CTACGAATGTAAGACCAT
64 CTACGAACATAAGACCAT
21642503 GGCTAGGCCA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 23 0.34
101 45 0.66
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (99 bp):
TTTATAAGTAAGACCATAGCTGGGATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCACT
ACGAACATAAGACCATAGTAGGACCATGACAGTA
Found at i:21651040 original size:9 final size:9
Alignment explanation
Indices: 21651022--21651124 Score: 161
Period size: 9 Copynumber: 11.4 Consensus size: 9
21651012 GTAGTGATTC
21651022 AATTCGGTT
1 AATTCGGTT
*
21651031 AATTCAGTT
1 AATTCGGTT
*
21651040 AATTCGGGT
1 AATTCGGTT
21651049 AATTCGGTT
1 AATTCGGTT
*
21651058 AATTCAGTT
1 AATTCGGTT
*
21651067 AATTCGGGT
1 AATTCGGTT
21651076 AATTCGGTT
1 AATTCGGTT
21651085 AATTCGGTT
1 AATTCGGTT
*
21651094 AATTCGGGT
1 AATTCGGTT
21651103 AATTCGGTT
1 AATTCGGTT
21651112 AATTCGGTT
1 AATTCGGTT
21651121 AATT
1 AATT
21651125 TTTAACCAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 84 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:21651054 original size:27 final size:27
Alignment explanation
Indices: 21651022--21651124 Score: 188
Period size: 27 Copynumber: 3.8 Consensus size: 27
21651012 GTAGTGATTC
21651022 AATTCGGTTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
21651049 AATTCGGTTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
*
21651076 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
*
21651103 AATTCGGTTAATTCGGTTAATT
1 AATTCGGTTAATTCAGTTAATT
21651125 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCAGTTAATTCGGGT
Found at i:21651246 original size:28 final size:29
Alignment explanation
Indices: 21651187--21651246 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
21651177 GAATTAACCG
*** *
21651187 AAAAAATTTCGGTTCGATTAATTTTTTTA
1 AAAAAATTTCGGTTCGATTAATCAGTTAA
*
21651216 AAAAAATTTCGGTTCGGTTAA-CAGTTAA
1 AAAAAATTTCGGTTCGATTAATCAGTTAA
21651244 AAA
1 AAA
21651247 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (29 bp):
AAAAAATTTCGGTTCGATTAATCAGTTAA
Found at i:21655301 original size:16 final size:15
Alignment explanation
Indices: 21655275--21655306 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
21655265 TTTTAATGTG
21655275 ACATAATTATATTTA
1 ACATAATTATATTTA
21655290 ACATATATTATATTTA
1 ACATA-ATTATATTTA
21655306 A
1 A
21655307 AAAGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATAATTATATTTA
Found at i:21656083 original size:31 final size:31
Alignment explanation
Indices: 21656042--21656101 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
21656032 TATTCGGGTC
21656042 GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
1 GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
* *
21656073 GCGGGTCGGAGACTCGGATCCCTTTTAGG
1 GCGGGCCGGAGACCCGGATCCCTTTTAGG
21656102 TAGGGGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.22
Consensus pattern (31 bp):
GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
Found at i:21656184 original size:9 final size:9
Alignment explanation
Indices: 21656170--21656200 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21656160 GTTAAACGAA
21656170 TCGAGTTAT
1 TCGAGTTAT
*
21656179 TCGAGTTAA
1 TCGAGTTAT
21656188 TCGAGTTAT
1 TCGAGTTAT
21656197 TCGA
1 TCGA
21656201 ATTTCGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21656248 original size:9 final size:9
Alignment explanation
Indices: 21656231--21656267 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21656221 TGAGTTTTTA
21656231 AATTCGAAT
1 AATTCGAAT
*
21656240 AACTCGAAT
1 AATTCGAAT
*
21656249 AATTTGAAT
1 AATTCGAAT
21656258 AATTCGAAT
1 AATTCGAAT
21656267 A
1 A
21656268 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21657175 original size:5 final size:5
Alignment explanation
Indices: 21657165--21657191 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21657155 AAAAATTTTA
21657165 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
21657192 CCGAATGCTC
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:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:21662279 original size:56 final size:56
Alignment explanation
Indices: 21662193--21662306 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
21662183 TCACCCGCCC
* *
21662193 TTTCTATTGTTCCTGTTCCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
* *
21662249 TTTCTATTTTTCCTCTTTCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
21662305 TT
1 TT
21662307 GTTTCATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
Found at i:21663121 original size:355 final size:355
Alignment explanation
Indices: 21662470--21663177 Score: 1344
Period size: 355 Copynumber: 2.0 Consensus size: 355
21662460 AAAACAAGAA
*
21662470 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCTACATAGAATATCATGCCTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
*
21662535 GAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
21662600 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
* *
21662665 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACATAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAAGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
21662730 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
21662795 ACCTACAAAGTACACTGTAAATAGTATTAC
326 ACCTACAAAGTACACTGTAAATAGTATTAC
*
21662825 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
21662890 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
*
21662955 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
* *
21663020 ATAGGTCTCACTTGCCAAAAGCAAGAGAAAGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAAGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
21663085 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
21663150 ACCTACAAAGTACACTGTAAATAGTATT
326 ACCTACAAAGTACACTGTAAATAGTATT
21663178 CACTTTTTTC
Statistics
Matches: 345, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
355 345 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (355 bp):
AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
ATAGGTCTCACTGGCCAAAAGCAAGAGAAAGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
ACCTACAAAGTACACTGTAAATAGTATTAC
Found at i:21666521 original size:150 final size:146
Alignment explanation
Indices: 21666258--21666544 Score: 380
Period size: 150 Copynumber: 1.9 Consensus size: 146
21666248 AATTTAATTA
* * * *
21666258 AAAAATTATTAAAATATTTCTATACATAAAATAATATATATTATTATGAGGGTGTTTTTTCTTTT
1 AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTTCTTTT
* * * *
21666323 TATATTTTTATTTAAATTTTATATTAATATTAAGTCCTAAACTATGTTGGTATCACGAGTTAACA
66 TATATTTTTATTTAAAATCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAACA
21666388 TACACTAGTTCTGTTG
131 TACACTAGTTCTGTTG
* *
21666404 AAAAATTACTAAAATATATTATATATATAAACTGAGAGATATATTATCATGAGGGTGTTTTTATC
1 AAAAATTACTAAAATAT-TTATATACATAAAAT-A-AGATATATTATCATGAGGGTGTTTTT-TC
* * *
21666469 TTTTTGTATTTTT-TTTATAAATCTATACTT-ATATTAAGTCTTAAACTGTGTTGATATCACAAG
62 TTTTTATATTTTTATTTA-AAATCTATA-TTAATATTAAGTCCTAAACTATGTTGATATCACAAG
*
21666532 TTAATATACACTA
125 TTAACATACACTA
21666545 ATGCAAGTTT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
146 16 0.13
147 12 0.10
148 1 0.01
149 28 0.23
150 62 0.51
151 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (146 bp):
AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTTCTTTT
TATATTTTTATTTAAAATCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAACA
TACACTAGTTCTGTTG
Found at i:21667280 original size:31 final size:31
Alignment explanation
Indices: 21667241--21667301 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
21667231 AAAACAAACT
*
21667241 TTATTTTTTATTAAAAT-TCAATTTTTTAAC
1 TTATTTTTTATCAAAATCTCAATTTTTTAAC
* *
21667271 TTATATTTTTATCCAAATCTCCATTTTTTAA
1 TTAT-TTTTTATCAAAATCTCAATTTTTTAA
21667302 ACGGATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 11 0.42
32 11 0.42
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATTTTTTATCAAAATCTCAATTTTTTAAC
Found at i:21672108 original size:26 final size:26
Alignment explanation
Indices: 21672072--21672124 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21672062 AAGTTGTCAA
21672072 AATCATAGTAGAATGATGGCCAGTGT
1 AATCATAGTAGAATGATGGCCAGTGT
21672098 AATCATAGTAGAATGATGGCCAGTGT
1 AATCATAGTAGAATGATGGCCAGTGT
21672124 A
1 A
21672125 TCTCTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (26 bp):
AATCATAGTAGAATGATGGCCAGTGT
Found at i:21685463 original size:18 final size:20
Alignment explanation
Indices: 21685431--21685468 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
21685421 GTTAATTTTA
*
21685431 ATTTTTCAATATTATTTAAT
1 ATTTTTCAATATTATGTAAT
21685451 ATTTTTC-AT-TTATGTAAT
1 ATTTTTCAATATTATGTAAT
21685469 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTTCAATATTATGTAAT
Found at i:21687331 original size:26 final size:25
Alignment explanation
Indices: 21687296--21687482 Score: 82
Period size: 24 Copynumber: 7.6 Consensus size: 25
21687286 GCAGCTCTTA
*
21687296 TGAGCATCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* * *
21687322 TGAGCTTCCCGATTAAAGACTCTTTG
1 TGAGCTTCCCG-TTAATGGCTCTTCG
* * * *
21687348 TAAGCTTCCCGTTAGT-GCT-TGCT
1 TGAGCTTCCCGTTAATGGCTCTTCG
* * * *
21687371 TGAACTTCCTGTTATATGGCTATCCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* * **
21687397 -GTGCTTCCCATTAATTACTCTTCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
* * * *
21687421 -GAGCTACTCGTTAATTGCTCTTTG
1 TGAGCTTCCCGTTAATGGCTCTTCG
*
21687445 -GAG-TTACCCGTT-ATAGGCTCTTTG
1 TGAGCTT-CCCGTTAAT-GGCTCTTCG
*
21687469 TGAGCTTCCTGTTA
1 TGAGCTTCCCGTTA
21687483 TATTACCGGG
Statistics
Matches: 117, Mismatches: 35, Indels: 18
0.69 0.21 0.11
Matches are distributed among these distances:
23 15 0.13
24 44 0.38
25 23 0.20
26 32 0.27
27 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCG
Found at i:21687964 original size:11 final size:12
Alignment explanation
Indices: 21687948--21687997 Score: 59
Period size: 11 Copynumber: 4.3 Consensus size: 12
21687938 ATTTTTTAAA
21687948 TTTTAAAATA-T
1 TTTTAAAATACT
*
21687959 TTTTAAAATATT
1 TTTTAAAATACT
**
21687971 TTTTTTAATA-T
1 TTTTAAAATACT
21687982 TTTTAAAATACT
1 TTTTAAAATACT
21687994 TTTT
1 TTTT
21687998 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 19 0.58
12 14 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:21687974 original size:23 final size:24
Alignment explanation
Indices: 21687948--21687998 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
21687938 ATTTTTTAAA
21687948 TTTTAAAATATTTTTAAAATA-TT
1 TTTTAAAATATTTTTAAAATACTT
**
21687971 TTTTTTAATATTTTTAAAATACTT
1 TTTTAAAATATTTTTAAAATACTT
21687995 TTTT
1 TTTT
21687999 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTAAAATATTTTTAAAATACTT
Found at i:21688018 original size:21 final size:23
Alignment explanation
Indices: 21687954--21688019 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
21687944 TAAATTTTAA
*
21687954 AATATTTTTAAAATATTTTTTTT
1 AATATTTTTAAAATAATTTTTTT
*
21687977 AATATTTTTAAAATACTTTTTTT
1 AATATTTTTAAAATAATTTTTTT
*
21688000 -A-ATTTTTAAAATAAATTTTT
1 AATATTTTTAAAATAATTTTTT
21688020 GGTATTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.43
22 1 0.03
23 22 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
AATATTTTTAAAATAATTTTTTT
Found at i:21688019 original size:23 final size:23
Alignment explanation
Indices: 21687954--21688012 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
21687944 TAAATTTTAA
21687954 AATATTTTTAAAATATTTTTTTT
1 AATATTTTTAAAATATTTTTTTT
*
21687977 AATATTTTTAAAATACTTTTTTT
1 AATATTTTTAAAATATTTTTTTT
21688000 -A-ATTTTTAAAATA
1 AATATTTTTAAAATA
21688013 AATTTTTGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 12 0.34
22 1 0.03
23 22 0.63
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AATATTTTTAAAATATTTTTTTT
Found at i:21689890 original size:126 final size:126
Alignment explanation
Indices: 21689664--21689935 Score: 350
Period size: 126 Copynumber: 2.2 Consensus size: 126
21689654 TAAGACCAAA
* * * *
21689664 CAGGAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGGTTTTTTCATCAAATTTATTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGGTTTTTTCATCAAATTTACTGACAGTGC
*
21689729 ATCCTGATTGAAGCGTTTTTAACACCATTTGTTCAGAATTGTCTTCTCAAAATTATTTTTT
66 ATCCTGATTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
* * ** * * *
21689790 TAGGAACTACTATAGAAAAAGAGAGTTTACGTGAGAGTTTTTTTCAGT-AATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGGTTTTTTCA-TCAAATTTACTGACAGTG
* * * **
21689854 CATCTTGTTTGAAGCGTTTTTTACATTATCTT-TTCAGAATCGTCTTCTCAAAATTATTTTTT
65 CATCCTGATTGAAGCGTTTTTAACACCAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
*
21689916 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
21689936 AACAAAAGTT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
126 121 0.98
127 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGGTTTTTTCATCAAATTTACTGACAGTGC
ATCCTGATTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
Found at i:21690046 original size:34 final size:34
Alignment explanation
Indices: 21689994--21690059 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
21689984 CAAATTTATT
21689994 TTAAAAAAACTAAACCATAATTTAATTAATTTTC
1 TTAAAAAAACTAAACCATAATTTAATTAATTTTC
** * *
21690028 TTAAAAACCCTAATCCATAATTTAATTTATTT
1 TTAAAAAAACTAAACCATAATTTAATTAATTT
21690060 ATTTTAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (34 bp):
TTAAAAAAACTAAACCATAATTTAATTAATTTTC
Found at i:21703137 original size:86 final size:87
Alignment explanation
Indices: 21703027--21703204 Score: 349
Period size: 86 Copynumber: 2.1 Consensus size: 87
21703017 TATATATTAT
21703027 ATTTTAAATAAGAAGAATGACTGGATAAATTTTGATTATTGGACTATCTCAATTAAAGTAGTCAT
1 ATTTTAAATAAGAAGAATGACTGGATAAATTTTGATTATTGGACTATCTCAATTAAAGTAGTCAT
21703092 ATATAATTGATCAAATAGATTG
66 ATATAATTGATCAAATAGATTG
21703114 ATTTTAAATAAGAAG-ATGACTGGATAAATTTTGATTATTGGACTATCTCAATTAAAGTAGTCAT
1 ATTTTAAATAAGAAGAATGACTGGATAAATTTTGATTATTGGACTATCTCAATTAAAGTAGTCAT
21703178 ATATAATTGATCAAATAGATTG
66 ATATAATTGATCAAATAGATTG
21703200 ATTTT
1 ATTTT
21703205 TTTTAAATTT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 76 0.84
87 15 0.16
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (87 bp):
ATTTTAAATAAGAAGAATGACTGGATAAATTTTGATTATTGGACTATCTCAATTAAAGTAGTCAT
ATATAATTGATCAAATAGATTG
Found at i:21710236 original size:18 final size:18
Alignment explanation
Indices: 21710215--21710252 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21710205 TGTTTTAAAG
21710215 ATGTTCTTTTATTAAGTT
1 ATGTTCTTTTATTAAGTT
21710233 ATGTTCTTTTATTAAGTT
1 ATGTTCTTTTATTAAGTT
21710251 AT
1 AT
21710253 TCTTCTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.61
Consensus pattern (18 bp):
ATGTTCTTTTATTAAGTT
Found at i:21715261 original size:16 final size:16
Alignment explanation
Indices: 21715223--21715261 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21715213 TTTAATTTCG
21715223 TGATTTTATTTTATCA
1 TGATTTTATTTTATCA
* *
21715239 TGGTTTTATTTTATCT
1 TGATTTTATTTTATCA
21715255 TGATTTT
1 TGATTTT
21715262 TGTTTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (16 bp):
TGATTTTATTTTATCA
Found at i:21715563 original size:3 final size:3
Alignment explanation
Indices: 21715555--21715585 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21715545 GCATTTAATC
21715555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21715586 ACATAAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21720900 original size:18 final size:19
Alignment explanation
Indices: 21720860--21720904 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21720850 ACTTAACTTC
* *
21720860 TTTTTTAAATAGATCTTAT
1 TTTTTTAAATAAATCTTAA
*
21720879 TTTTTTAATTAAAT-TTAA
1 TTTTTTAAATAAATCTTAA
21720897 TTTTTTAA
1 TTTTTTAA
21720905 GCTTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTTAAATAAATCTTAA
Found at i:21728557 original size:20 final size:18
Alignment explanation
Indices: 21728517--21728569 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
21728507 TTTATATTTT
*
21728517 TAAAAAATTATAAAATTTA
1 TAAAAAA-TATAAAATATA
21728536 TAAAAAATATAACGAATATA
1 TAAAAAATATAA--AATATA
*
21728556 TAAAGAAATTTAAA
1 TAAA-AAATATAAA
21728570 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
20 9 0.31
21 7 0.24
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (18 bp):
TAAAAAATATAAAATATA
Found at i:21732770 original size:74 final size:74
Alignment explanation
Indices: 21732632--21732808 Score: 203
Period size: 74 Copynumber: 2.4 Consensus size: 74
21732622 GTTGACTTTG
* * * * * * * *
21732632 GTTGGAAAATAGAT-AATTAGAAAAATATGAATAATTATGGTACATTTGAAAAGCTAGTGGAACT
1 GTTGGAAAATAAATAAATGAG-AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACT
21732696 AAACTATTTA
65 AAACTATTTA
* * *
21732706 GTTGGAAAATACATAAATGAGAGAACATGAATAATTATGGGGCATTTAAAAAACAAGTGCAACTA
1 GTTGGAAAATAAATAAATGAGAAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTA
*
21732771 AATTATTTA
66 AACTATTTA
* * *
21732780 GTTGAAAAATAAACAAATGGGAAAACATG
1 GTTGGAAAATAAATAAATGAGAAAACATG
21732809 GGTAATTAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 81 0.94
75 5 0.06
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (74 bp):
GTTGGAAAATAAATAAATGAGAAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTA
AACTATTTA
Found at i:21735119 original size:114 final size:114
Alignment explanation
Indices: 21734931--21735830 Score: 1122
Period size: 114 Copynumber: 7.9 Consensus size: 114
21734921 AAAAATAAGC
* * * * * * *
21734931 TTTAGCGGCATTTTTCACAAAGCGCCGCGAAA-AACCTAAGCCCAACGACGCCATATT-CTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGT-TTCCTGAGC
* * *
21734994 TTTCGCAGATTTAGTGGCGATTTTAGTAAGCGCCGCTAATGCTCAGTGCT
65 TTTCGCGGATTTAGTGGCGTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
*
21735044 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGACGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
* * *
21735109 TTCACGGATTTAGTGACGTTTTTTAGTAAGCGCCGCTAATGCTCA-GACT
66 TTCGCGGATTTAGTGGCG-TTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
*
21735158 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
21735223 TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCA-GGCT
66 TTCGCGGATTTAGTGGCG-TTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
*
21735272 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
* * *
21735337 TTCGCGGATTTAGTGGCATTTTTTAGCAAGCGCCGCTAATGCTCAGGGCA
66 TTCGCGGATTTAGTGGC-GTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
21735387 GTT-GCGGCATTTTTTATG-AAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGC
* * *
21735450 TTTCGCGGATTTAGTGGCATTTTTTAGCAAGCGCCGCTAATGCTCAGGGCA
65 TTTCGCGGATTTAGTGGC-GTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * **
21735501 GTT-GCGGCATTTTTTATG-AAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTTTGAGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGC
* * * *
21735564 TTTCGCGGATTTAGCGGCGTTTCTTAATAAAGCGCCGCTAATGATGAGGGC-
65 TTTCGCGGATTTAGTGGCGTTT-TTAGT-AAGCGCCGCTAATGCTCAGGGCT
* * * * *
21735615 TTTAGCAGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACACCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
* * * *
21735680 TTTGCGGCTTTAGTGGCGTTTTTAGGGAAGCACCGCTAATGCTCAGGGCT
66 TTCGCGGATTTAGTGGCGTTTTTA-GTAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
21735730 TTTAGCGGCGTTTGTGAGAAAGTGCCGCAAAA-AGACATAAGCCCAACGATGCCGTTT-TTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAAC-TAAACCCAACGACGCCGTTTCCTGAGC
* *
21735793 TTTCAGGGGATTTAGCGGCGTTTTTTA-TGAAGCGCCGC
65 TTTC-GCGGATTTAGTGGCG-TTTTTAGT-AAGCGCCGC
21735831 AAAAAAAAAA
Statistics
Matches: 708, Mismatches: 63, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
113 33 0.05
114 481 0.68
115 188 0.27
116 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
TTCGCGGATTTAGTGGCGTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:21735948 original size:14 final size:14
Alignment explanation
Indices: 21735929--21735955 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21735919 GAGTATGGGT
21735929 TTAGGGATTATGGA
1 TTAGGGATTATGGA
21735943 TTAGGGATTATGG
1 TTAGGGATTATGG
21735956 TTTAAGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:21736033 original size:36 final size:36
Alignment explanation
Indices: 21735981--21736069 Score: 160
Period size: 36 Copynumber: 2.5 Consensus size: 36
21735971 TTAGAGGGTT
*
21735981 AGGGGTTTAGGGGTTAGACGTTTGGGGTTAAGAGTC
1 AGGGATTTAGGGGTTAGACGTTTGGGGTTAAGAGTC
21736017 AGGGATTTAGGGGTTAGACGTTTGGGGTTAAGAGTC
1 AGGGATTTAGGGGTTAGACGTTTGGGGTTAAGAGTC
*
21736053 AGGGATTTAGGGTTTAG
1 AGGGATTTAGGGGTTAG
21736070 GGATTCAGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.21, C:0.04, G:0.43, T:0.31
Consensus pattern (36 bp):
AGGGATTTAGGGGTTAGACGTTTGGGGTTAAGAGTC
Found at i:21736262 original size:15 final size:15
Alignment explanation
Indices: 21736242--21736272 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21736232 CATATTTTAA
21736242 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
21736257 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
21736272 G
1 G
21736273 ATTAGAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:21736316 original size:21 final size:22
Alignment explanation
Indices: 21736286--21736326 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21736276 AGAGACTATG
21736286 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
21736307 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
21736327 GGGGTTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:21736661 original size:26 final size:26
Alignment explanation
Indices: 21736624--21736676 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21736614 GTTTTATATA
21736624 AAAACGCCGCAAAAAATAAATAAATT
1 AAAACGCCGCAAAAAATAAATAAATT
*
21736650 AAAACGCTGCAAAAAATAAATAAATT
1 AAAACGCCGCAAAAAATAAATAAATT
21736676 A
1 A
21736677 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.13, G:0.08, T:0.17
Consensus pattern (26 bp):
AAAACGCCGCAAAAAATAAATAAATT
Found at i:21736835 original size:70 final size:70
Alignment explanation
Indices: 21736754--21736897 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
21736744 TAAAACGCCA
*
21736754 CAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
*
21736819 TTGTT
66 TCGTT
21736824 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
21736889 TCGTT
66 TCGTT
21736894 CAAA
1 CAAA
21736898 TTGAAATTGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.27
Consensus pattern (70 bp):
CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
TCGTT
Found at i:21736973 original size:175 final size:178
Alignment explanation
Indices: 21736676--21737003 Score: 504
Period size: 175 Copynumber: 1.9 Consensus size: 178
21736666 TAAATAAATT
** *
21736676 ATAAAAAATTATTTACATAGCAAAACGGCGCCATTTTTTTATGAAAATGAAATAGCGGCGTTTTT
1 ATAAAAAATTATTTACATAGCAAAACGGCGCCATTTTCGTATCAAAATGAAATAGCGGCGTTTTT
* *
21736741 CATTAAAACGCCACAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCA
66 CACTAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCA
21736806 AAACGGCGTCATTTTGTTCAAAAAATAAATCAATTTATAAAAAACAAA
131 AAACGGCGTCATTTTGTTCAAAAAATAAATCAATTTATAAAAAACAAA
* * * *
21736854 ATAAAAAATT-TTGTGCATAGCAAAACGGCGTCA-TTTCGT-TCAAATTGAAATTGCGGCGTTTT
1 ATAAAAAATTATT-TACATAGCAAAACGGCGCCATTTTCGTATCAAAATGAAATAGCGGCGTTTT
**
21736916 TC-CTACAAACGCTGCAAAAAATAAATCAATTTA-AAAAAACAAAATAAAAAATTTTGTGCATAG
65 TCACTA-AAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAG
21736979 CAAAACGGCGTCATTTTGTTCAAAA
129 CAAAACGGCGTCATTTTGTTCAAAA
21737004 TGAAATAATA
Statistics
Matches: 137, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
175 57 0.42
176 46 0.34
177 6 0.04
178 28 0.20
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.28
Consensus pattern (178 bp):
ATAAAAAATTATTTACATAGCAAAACGGCGCCATTTTCGTATCAAAATGAAATAGCGGCGTTTTT
CACTAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCA
AAACGGCGTCATTTTGTTCAAAAAATAAATCAATTTATAAAAAACAAA
Found at i:21736977 original size:105 final size:106
Alignment explanation
Indices: 21736824--21737516 Score: 472
Period size: 105 Copynumber: 6.4 Consensus size: 106
21736814 TCATTTTGTT
21736824 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
* * * *
21736889 TCGTTCAAATTGAAATTGCGGCGTTTTTCCTACAAACGCTG
66 TCGTTCAAAATGAAATTGCGGCGTTTTTACTAAAAACGCCG
21736930 CAAAAAATAAATCAATTTA-AAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
* *
21736994 TTGTTCAAAATGAAATAATATTTTGCGGTGATTTTTAC-AAAAACGCCG
66 TCGTTCAAAATG----AA-A--TTGCGGCG-TTTTTACTAAAAACGCCG
* * *
21737042 CAAAAGATAAGTAATAGCGGCATATATAAAACGTTGCAAAGAAAATAAATAAATTATAAAAAAAT
1 C-AAA-A-AA-TAA-A---TC--A-AT------TT----A-TAAA-AAACAAA--AT-AAAAAAT
* * * * *
21737107 TATT-TGCATAGCAAAACGGCGCCGTTTTTC-TTCAAAATAAAATAGCGGCGTTTTTACGAAAAA
40 T-TTGTGCATAGCAAAACGGCGTC--ATTTCGTTCAAAATGAAATTGCGGCGTTTTTACTAAAAA
21737170 CGCCG
102 CGCCG
21737175 CAAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCAT
1 CAAAAAA-TAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCAT
* * * ** *
21737240 TT-GGTCAAATTGAAGTTGCGGCGTTTTCCCTAAAAATGCCG
65 TTCGTTCAAAATGAAATTGCGGCGTTTTTACTAAAAACGCCG
*
21737281 CAAAAAATAAATCAATTT-TAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAATGGCGT-A--
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
* ** *
21737342 T-G--AAATAAT-ATTTTGTGGCGTTTTATA-TAAAAACGCCG
66 TCGTTCAA-AATGAAATTGCGGCGTTTT-TACTAAAAACGCCG
* * * * *
21737380 CAAAAAATAAAT-AAATTAT----AA-AAAAT------TATT-TGCATAGC-AAACGACGCCTTT
1 CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTC-AT
** *
21737431 TTTTTTCAAAATGAAATAGCGGCGTTTTTTA-TGAAAAACGCCG
65 TTCGTTCAAAATGAAATTGCGGCG-TTTTTACT-AAAAACGCCG
* *
21737474 CAAAAAGTAAATCAATTTATAAAAAAACAAAATAAATAATTTT
1 CAAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAAATTTT
21737517 TAGCATACCG
Statistics
Matches: 468, Mismatches: 52, Indels: 133
0.72 0.08 0.20
Matches are distributed among these distances:
86 6 0.01
87 8 0.02
88 3 0.01
90 1 0.00
92 3 0.01
93 12 0.03
94 30 0.06
95 8 0.02
98 4 0.01
99 37 0.08
100 4 0.01
101 7 0.01
103 1 0.00
104 41 0.09
105 66 0.14
106 58 0.12
107 5 0.01
108 26 0.06
109 4 0.01
110 1 0.00
111 6 0.01
112 19 0.04
113 10 0.02
114 1 0.00
115 2 0.00
116 3 0.01
117 3 0.01
120 1 0.00
122 1 0.00
123 4 0.01
124 1 0.00
126 1 0.00
129 3 0.01
130 6 0.01
131 1 0.00
132 10 0.02
133 18 0.04
135 4 0.01
136 8 0.02
138 2 0.00
139 26 0.06
140 10 0.02
141 3 0.01
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (106 bp):
CAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATT
TCGTTCAAAATGAAATTGCGGCGTTTTTACTAAAAACGCCG
Found at i:21737323 original size:104 final size:106
Alignment explanation
Indices: 21737151--21737340 Score: 321
Period size: 104 Copynumber: 1.8 Consensus size: 106
21737141 AAATAAAATA
*
21737151 GCGGCGTTTTTACGAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATT
1 GCGGCGTTTTCACGAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATT
21737216 TTGTGCATAGCAAAACGGCGTCATTTGGTCAAATTGAAGTT
66 TTGTGCATAGCAAAACGGCGTCATTTGGTCAAATTGAAGTT
* * *
21737257 GCGGCGTTTTCCCTAAAAATGCCGCAAAAAA-TAAATCAATTT-TAAAAAACAAAATAAAAAATT
1 GCGGCGTTTTCACGAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATT
*
21737320 TTGTGCATAGCAAAATGGCGT
66 TTGTGCATAGCAAAACGGCGT
21737341 ATGAAATAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 41 0.52
105 11 0.14
106 27 0.34
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (106 bp):
GCGGCGTTTTCACGAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAAATAAAAAATT
TTGTGCATAGCAAAACGGCGTCATTTGGTCAAATTGAAGTT
Found at i:21739714 original size:21 final size:21
Alignment explanation
Indices: 21739688--21739775 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
21739678 TACATAATAC
*
21739688 ATAACTTTCATAACTTACATA
1 ATAACTTTAATAACTTACATA
* *
21739709 ATAACTTAAATAAATTACATA
1 ATAACTTTAATAACTTACATA
* * **
21739730 ATACATTTTTAATCACTTGTATA
1 ATA-A-CTTTAATAACTTACATA
*
21739753 A-AACTTTCATAACTTACATA
1 ATAACTTTAATAACTTACATA
21739773 ATA
1 ATA
21739776 CATAGCCTGC
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
20 13 0.26
21 23 0.46
22 2 0.04
23 12 0.24
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.39
Consensus pattern (21 bp):
ATAACTTTAATAACTTACATA
Found at i:21739772 original size:43 final size:43
Alignment explanation
Indices: 21739672--21739868 Score: 135
Period size: 43 Copynumber: 4.3 Consensus size: 43
21739662 ACTTAATTAA
* * * ** **
21739672 ATAAATTACATAATACATAACTTTCATAACTTACATAATAACTTAA
1 ATAAATTACATAATACAT--TTTTAATCACTTGTATAA-AACTTTC
21739718 ATAAATTACATAATACATTTTTAATCACTTGTATAAAACTTTC
1 ATAAATTACATAATACATTTTTAATCACTTGTATAAAACTTTC
* ** ** *
21739761 ATAACTTACATAATACATAGCCTGCA-CGACTTGCATGATACACAACTTGC
1 ATAAATTACATAATACAT--TTTTAATC-ACTTG--T-ATA-A-AACTTTC
* * *
21739811 ATAAATTACATAATACATTTTTAATAACTTATATATAACTTTC
1 ATAAATTACATAATACATTTTTAATCACTTGTATAAAACTTTC
*
21739854 ATAACTTACATAATA
1 ATAAATTACATAATA
21739869 ACATAATAAC
Statistics
Matches: 119, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
43 42 0.35
44 14 0.12
45 10 0.08
46 19 0.16
47 1 0.01
48 9 0.08
49 1 0.01
50 23 0.19
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.36
Consensus pattern (43 bp):
ATAAATTACATAATACATTTTTAATCACTTGTATAAAACTTTC
Found at i:21739859 original size:9 final size:9
Alignment explanation
Indices: 21739845--21740299 Score: 89
Period size: 9 Copynumber: 51.9 Consensus size: 9
21739835 TAACTTATAT
*
21739845 ATAACTTTC
1 ATAACTTAC
21739854 ATAACTTAC
1 ATAACTTAC
*
21739863 ATAA-TAAC
1 ATAACTTAC
21739871 ATAATAACTTAC
1 ---ATAACTTAC
21739883 ATAA--TAC
1 ATAACTTAC
* * *
21739890 ATAGCCTAT
1 ATAACTTAC
* *
21739899 ATGACTTGC
1 ATAACTTAC
21739908 ATAA--TAC
1 ATAACTTAC
*
21739915 ACAACTTAC
1 ATAACTTAC
*
21739924 ATAAATTAC
1 ATAACTTAC
21739933 ATAA--TAC
1 ATAACTTAC
*
21739940 ATAACTTTC
1 ATAACTTAC
*
21739949 ATAACTTAT
1 ATAACTTAC
*
21739958 A-AATCATATC
1 ATAA-CTTA-C
21739968 ATAACTTAC
1 ATAACTTAC
21739977 ATAAC-T-C
1 ATAACTTAC
*
21739984 A-AATTTATC
1 ATAACTTA-C
* *
21739993 A-ATCATATC
1 ATAACTTA-C
*
21740002 ATAACTTAT
1 ATAACTTAC
*
21740011 A-AATCATATC
1 ATAA-CTTA-C
*
21740021 ATAACTTATAT
1 ATAAC-T-TAC
21740032 ATACACTTAC
1 ATA-ACTTAC
21740042 ATAA--TAC
1 ATAACTTAC
* *
21740049 CTAACTTAAATA
1 ATAACTT--A-C
*
21740061 ATAACCTAC
1 ATAACTTAC
21740070 ATAACTTAC
1 ATAACTTAC
*
21740079 ATAGAAACTTAT
1 AT---AACTTAC
*
21740091 ATAGAAACTTGC
1 AT---AACTTAC
*
21740103 ATAGCTTACC
1 ATAACTTA-C
*
21740113 A-CACTTA-
1 ATAACTTAC
* *
21740120 AAAACTTAG
1 ATAACTTAC
21740129 ATAA--TAC
1 ATAACTTAC
* *
21740136 ATAGCCTAC
1 ATAACTTAC
*
21740145 ATAACTTAT
1 ATAACTTAC
21740154 ATAACTTAC
1 ATAACTTAC
21740163 ATAA--TAC
1 ATAACTTAC
**
21740170 ACCACTTAC
1 ATAACTTAC
21740179 AT-A---A-
1 ATAACTTAC
*
21740183 ATAACTTGC
1 ATAACTTAC
21740192 ATAA--TAC
1 ATAACTTAC
* *
21740199 ATAGCCTAC
1 ATAACTTAC
21740208 ATAACTTAC
1 ATAACTTAC
*
21740217 TTAACTTAC
1 ATAACTTAC
21740226 ATAA--TAC
1 ATAACTTAC
**
21740233 ACCACTTAC
1 ATAACTTAC
*
21740242 ATAACTTAA
1 ATAACTTAC
21740251 ATAACTTAC
1 ATAACTTAC
21740260 ATAA--TAC
1 ATAACTTAC
*
21740267 TTAACTTTA-
1 ATAAC-TTAC
21740276 ATAA--TAC
1 ATAACTTAC
*
21740283 ACAACTTAC
1 ATAACTTAC
21740292 ATAACTTA
1 ATAACTTA
21740300 ATTACATTAT
Statistics
Matches: 319, Mismatches: 74, Indels: 106
0.64 0.15 0.21
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 4 0.01
7 57 0.18
8 14 0.04
9 177 0.55
10 20 0.06
11 13 0.04
12 30 0.09
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:21739877 original size:20 final size:20
Alignment explanation
Indices: 21739832--21739892 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
21739822 AATACATTTT
* *
21739832 TAATAACTTATAT-ATAACTT
1 TAATAACTTACATAATAAC-A
*
21739852 TCATAACTTACATAATAACA
1 TAATAACTTACATAATAACA
21739872 TAATAACTTACATAAT-ACA
1 TAATAACTTACATAATAACA
21739891 TA
1 TA
21739893 GCCTATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAACTTACATAATAACA
Found at i:21739905 original size:113 final size:113
Alignment explanation
Indices: 21739761--21739980 Score: 325
Period size: 113 Copynumber: 1.9 Consensus size: 113
21739751 TAAAACTTTC
* * *
21739761 ATAACTTACATAATACATAGCCTGCACGACTTGCATGATACACAACTTGCATAAATTACATAATA
1 ATAACTTACATAATACATAGCCTACACGACTTGCATAATACACAACTTACATAAATTACATAATA
* * *
21739826 CAT-TTTTAATAACTTATATATAACTTTCATAACTTACATAATAACATA
66 CATACTTTAATAACTTATAAATAA-TATCATAACTTACATAATAACATA
* *
21739874 ATAACTTACATAATACATAGCCTATATGACTTGCATAATACACAACTTACATAAATTACATAATA
1 ATAACTTACATAATACATAGCCTACACGACTTGCATAATACACAACTTACATAAATTACATAATA
* *
21739939 CATAACTTTCATAACTTATAAATCATATCATAACTTACATAA
66 CAT-ACTTTAATAACTTATAAATAATATCATAACTTACATAA
21739981 CTCAAATTTA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
113 63 0.66
114 16 0.17
115 16 0.17
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (113 bp):
ATAACTTACATAATACATAGCCTACACGACTTGCATAATACACAACTTACATAAATTACATAATA
CATACTTTAATAACTTATAAATAATATCATAACTTACATAATAACATA
Found at i:21739971 original size:19 final size:19
Alignment explanation
Indices: 21739947--21740030 Score: 97
Period size: 19 Copynumber: 4.6 Consensus size: 19
21739937 TACATAACTT
21739947 TCATAACTTATAAATCATA
1 TCATAACTTATAAATCATA
*
21739966 TCATAAC-T-TACAT-A-A
1 TCATAACTTATAAATCATA
* *
21739981 CTCA-AATTTATCAATCATA
1 -TCATAACTTATAAATCATA
21740000 TCATAACTTATAAATCATA
1 TCATAACTTATAAATCATA
21740019 TCATAACTTATA
1 TCATAACTTATA
21740031 TATACACTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.06
16 5 0.09
17 7 0.13
18 5 0.09
19 33 0.62
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (19 bp):
TCATAACTTATAAATCATA
Found at i:21739977 original size:53 final size:53
Alignment explanation
Indices: 21739917--21740055 Score: 149
Period size: 53 Copynumber: 2.6 Consensus size: 53
21739907 CATAATACAC
21739917 AACTTACATAAATTACATAATACATAACTTTCATAACTTATAAATCATATCAT
1 AACTTACATAAATTACATAATACATAACTTTCATAACTTATAAATCATATCAT
* ** *
21739970 AACTTACAT-AACT-CA-AATTTATCAATCATATCATAACTTATAAATCATATCAT
1 AACTTACATAAATTACATAATACAT-AA-C-TTTCATAACTTATAAATCATATCAT
* *
21740023 AACTTATATATACACTTACATAATACCTAACTT
1 AACTTACATA-A-A-TTACATAATACATAACTT
21740056 AAATAATAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
50 5 0.07
51 4 0.06
52 4 0.06
53 41 0.61
55 1 0.01
56 2 0.03
57 2 0.03
58 4 0.06
59 4 0.06
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (53 bp):
AACTTACATAAATTACATAATACATAACTTTCATAACTTATAAATCATATCAT
Found at i:21740061 original size:16 final size:17
Alignment explanation
Indices: 21740036--21740068 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21740026 TTATATATAC
*
21740036 ACTTACATAAT-ACCTA
1 ACTTAAATAATAACCTA
21740052 ACTTAAATAATAACCTA
1 ACTTAAATAATAACCTA
21740069 CATAACTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (17 bp):
ACTTAAATAATAACCTA
Found at i:21740087 original size:12 final size:12
Alignment explanation
Indices: 21740072--21740106 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21740062 TAACCTACAT
21740072 AACTTACATAGA
1 AACTTACATAGA
*
21740084 AACTTATATAGA
1 AACTTACATAGA
*
21740096 AACTTGCATAG
1 AACTTACATAG
21740107 CTTACCACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:21740167 original size:34 final size:33
Alignment explanation
Indices: 21740115--21740266 Score: 161
Period size: 34 Copynumber: 4.7 Consensus size: 33
21740105 AGCTTACCAC
*
21740115 ACTTAAA-AACTTAGATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
* *
21740148 ACTTATATAACTTACATAATAC--ACC-AC-TT
1 ACTTAAATAACTTACATAATACATACCTACATA
* *
21740177 ACATAAATAACTTGCATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
** * *
21740211 ACTTACTTAACTTACATAATACACCACTTACATA
1 ACTTAAATAACTTACATAATACA-TACCTACATA
21740245 ACTTAAATAACTTACATAATAC
1 ACTTAAATAACTTACATAATAC
21740267 TTAACTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
29 20 0.21
30 2 0.02
31 3 0.03
32 3 0.03
33 8 0.08
34 60 0.62
35 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (33 bp):
ACTTAAATAACTTACATAATACATACCTACATA
Found at i:21740178 original size:16 final size:16
Alignment explanation
Indices: 21740156--21740295 Score: 90
Period size: 16 Copynumber: 8.7 Consensus size: 16
21740146 TAACTTATAT
21740156 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
21740172 CACTTACAT-A-A-AT
1 AACTTACATAATACAC
* *
21740185 AACTTGCATAATACAT
1 AACTTACATAATACAC
* * **
21740201 AGCCTACATAACTTACTT
1 AACTTACATAA--TACAC
21740219 AACTTACATAATACAC
1 AACTTACATAATACAC
* * *
21740235 CACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
**
21740253 AACTTACATAATACTT
1 AACTTACATAATACAC
21740269 AACTTTA-ATAATACAC
1 AAC-TTACATAATACAC
21740285 AACTTACATAA
1 AACTTACATAA
21740296 CTTAATTACA
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
13 8 0.08
14 2 0.02
15 5 0.05
16 51 0.54
17 3 0.03
18 26 0.27
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:21740233 original size:25 final size:24
Alignment explanation
Indices: 21740205--21740301 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
21740195 ATACATAGCC
* *
21740205 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
21740230 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
21740255 CTTACATAA--TACTTAACTTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
21740280 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
21740302 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 5 0.09
25 39 0.67
26 3 0.05
27 5 0.09
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:21742484 original size:31 final size:31
Alignment explanation
Indices: 21742442--21742500 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
21742432 ATATATATTG
*
21742442 CGTTCCTAACTATGTGATTTATTTTTTAGGA
1 CGTTCCCAACTATGTGATTTATTTTTTAGGA
21742473 CGTTCCCAACTATGTGATTTATTTTTTA
1 CGTTCCCAACTATGTGATTTATTTTTTA
21742501 AGAAAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (31 bp):
CGTTCCCAACTATGTGATTTATTTTTTAGGA
Found at i:21742701 original size:21 final size:21
Alignment explanation
Indices: 21742675--21742724 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21742665 NNNNNNCTTA
* *
21742675 AAGCAGATGCGGTAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* *
21742696 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
21742717 AAGCAGAG
1 AAGCAGAG
21742725 CAGCGTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.44, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:21743207 original size:42 final size:42
Alignment explanation
Indices: 21743060--21743312 Score: 215
Period size: 43 Copynumber: 5.9 Consensus size: 42
21743050 GCATTTTTAA
** * * * *
21743060 AAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGACGATTCCA-
1 AAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTCAG
*
21743102 AAAGAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGCAA
1 AAA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-CAG
* * * *
21743146 AAAAAGCGCTGCTAAAGAACATGATCTGTAGCGGTGTTTTAG
1 AAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTCAG
* * *
21743188 ACAAAGCGCCGCTAAAGAACATAATCTTTAGCGGCGTTTGAGG
1 AAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTCA-G
* * * *
21743231 GATAAGCACCGCTAAAGTACATGA-CTTTTAGCGGCGCTTGT-AG
1 AAAAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TT-TCAG
* * * * *
21743274 GAAATGCGCCGCTAAAGACCCTGACCTTTAGCGGCGTTT
1 AAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
21743313 TTTTTGTAGC
Statistics
Matches: 174, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 44 0.25
43 121 0.70
44 7 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (42 bp):
AAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTCAG
Found at i:21743245 original size:85 final size:86
Alignment explanation
Indices: 21743106--21743312 Score: 233
Period size: 85 Copynumber: 2.4 Consensus size: 86
21743096 ATTCCAAAAG
* *
21743106 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGCAAAAAAAGCGCTGCTAAAGAACATGA-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGCAAAAAAAGCACCGCTAAAGAACATGAC
* *
21743170 TCTGTAGCGGTG-TTTTA-GACA
66 T-TGTAGCGGCGCTTGTAGGA-A
* ** * *
21743191 AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGTTTG-AGGGATAAGCACCGCTAAAGTACATGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGCA-AAAAAAGCACCGCTAAAGAACATGA
*
21743255 CTTTTAGCGGCGCTTGTAGGAA
65 CTTGTAGCGGCGCTTGTAGGAA
* * * *
21743277 ATGCGCCGCTAAAGACCCTGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
21743313 TTTTTGTAGC
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.01
85 63 0.61
86 37 0.36
87 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (86 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGCAAAAAAAGCACCGCTAAAGAACATGAC
TTGTAGCGGCGCTTGTAGGAA
Found at i:21748962 original size:31 final size:30
Alignment explanation
Indices: 21748912--21749019 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
21748902 TAATCAATCT
** *
21748912 TTTCTAAAAACTTCAAAGAAAAAAATGAAAA
1 TTTCTAAAAA-TTTGAAGAAAAAAATCAAAA
*** *
21748943 TTTCTAAAAATATTGAAGAAGCCTAATTAAAA
1 TTTCTAAAAAT-TTGAAGAA-AAAAATCAAAA
* *
21748975 TTTCATAAAAATTTGAAGAGAAAAATCAAGA
1 TTTC-TAAAAATTTGAAGAAAAAAATCAAAA
*
21749006 TTTCTTAAAATTTG
1 TTTCTAAAAATTTG
21749020 GAGGGACCAA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
30 10 0.16
31 26 0.43
32 18 0.30
33 7 0.11
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (30 bp):
TTTCTAAAAATTTGAAGAAAAAAATCAAAA
Found at i:21754380 original size:15 final size:15
Alignment explanation
Indices: 21754362--21754396 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21754352 AGAAAACAAG
21754362 GAAGAAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
21754377 GAAGCAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
21754392 CAAGA
1 GAAGA
21754397 TGCAGGAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAGAGAAGAAA
Found at i:21754414 original size:18 final size:17
Alignment explanation
Indices: 21754367--21754416 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
21754357 ACAAGGAAGA
21754367 AGAGAAGAAAGAAGCAG
1 AGAGAAGAAAGAAGCAG
*
21754384 AGAAGAA-ACAAGATGCAGG
1 AG-AGAAGA-AAGAAGCA-G
21754403 AGAGAAGAAAGAAG
1 AGAGAAGAAAGAAG
21754417 AAGATCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.34, T:0.02
Consensus pattern (17 bp):
AGAGAAGAAAGAAGCAG
Found at i:21754761 original size:17 final size:17
Alignment explanation
Indices: 21754739--21754773 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21754729 CAGATACTCT
21754739 ATATAGCAAACCAAAAA
1 ATATAGCAAACCAAAAA
21754756 ATATAGCAAACCAAAAA
1 ATATAGCAAACCAAAAA
21754773 A
1 A
21754774 ATGCCTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.17, G:0.06, T:0.11
Consensus pattern (17 bp):
ATATAGCAAACCAAAAA
Found at i:21755447 original size:18 final size:18
Alignment explanation
Indices: 21755424--21755460 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21755414 ATGCTGGAAA
21755424 AATGAGGCTAATTAAGAC
1 AATGAGGCTAATTAAGAC
*
21755442 AATGAGGCTAGTTAAGAC
1 AATGAGGCTAATTAAGAC
21755460 A
1 A
21755461 TGATCGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (18 bp):
AATGAGGCTAATTAAGAC
Found at i:21758257 original size:16 final size:18
Alignment explanation
Indices: 21758227--21758260 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
21758217 TGCATATTTG
21758227 TTTTATATTTAAATAATT
1 TTTTATATTTAAATAATT
21758245 TTTTA-ATTT-AATAATT
1 TTTTATATTTAAATAATT
21758261 CTAAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATTTAAATAATT
Found at i:21763980 original size:45 final size:46
Alignment explanation
Indices: 21763931--21764028 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
21763921 AGATAGAAAC
*
21763931 CAAAATATTATCTCTTAAAC-TTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
21763976 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
*
21764022 GAAAATA
1 CAAAATA
21764029 GATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (46 bp):
CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
Found at i:21772313 original size:45 final size:46
Alignment explanation
Indices: 21772264--21772361 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
21772254 AGATAGAAAC
*
21772264 CAAAATATTATCTCTTAAAC-TTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
21772309 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
*
21772355 GAAAATA
1 CAAAATA
21772362 GATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (46 bp):
CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
Found at i:21779933 original size:22 final size:22
Alignment explanation
Indices: 21779905--21779949 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21779895 AATTTCCAGT
21779905 AATGATTATGTCATCGACATAG
1 AATGATTATGTCATCGACATAG
21779927 AATGATTATGTCATCGACATAG
1 AATGATTATGTCATCGACATAG
21779949 A
1 A
21779950 CTAAGGCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (22 bp):
AATGATTATGTCATCGACATAG
Found at i:21783519 original size:19 final size:19
Alignment explanation
Indices: 21783497--21783534 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21783487 ACAGAATACT
*
21783497 AACTAACTACCTCAACTGC
1 AACTAACTACCACAACTGC
*
21783516 AACTAACTATCACAACTGC
1 AACTAACTACCACAACTGC
21783535 TTGCATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.21
Consensus pattern (19 bp):
AACTAACTACCACAACTGC
Found at i:21796012 original size:5 final size:5
Alignment explanation
Indices: 21796002--21796063 Score: 115
Period size: 5 Copynumber: 12.4 Consensus size: 5
21795992 GACCTTTCAC
*
21796002 TAGTA TAGTA TAGTA TGGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
1 TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
21796052 TAGTA TAGTA TA
1 TAGTA TAGTA TA
21796064 TGACAACTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TAGTA
Found at i:21798241 original size:2 final size:2
Alignment explanation
Indices: 21798234--21798276 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
21798224 TCTGTTACTA
21798234 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21798276 T
1 T
21798277 TATAATCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:21799761 original size:40 final size:39
Alignment explanation
Indices: 21799706--21799840 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
21799696 ACCAGTTTGG
* *
21799706 CACCTAGTGCCTCATCGGATAATTTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATTCGAAGT-ATAAATTGA
* * * * *
21799746 CACCTAGTGTCTCATCGGCTAAATCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGGATAATTCGAAGTATAAATTGA
* * * *
21799783 CACCCAGTACCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATTCGAAGTA-TAAATTGA
*
21799824 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
21799841 ACTCGAAGTC
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 21 0.28
38 7 0.09
40 25 0.33
41 22 0.29
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATTCGAAGTATAAATTGA
Found at i:21800142 original size:17 final size:17
Alignment explanation
Indices: 21800120--21800153 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21800110 AATAAAAATT
21800120 ACAACAATTAATAACTA
1 ACAACAATTAATAACTA
21800137 ACAACAATTAATAACTA
1 ACAACAATTAATAACTA
21800154 GCTTCGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
ACAACAATTAATAACTA
Found at i:21803156 original size:18 final size:19
Alignment explanation
Indices: 21803116--21803157 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
21803106 TTTTCTTCTT
* *
21803116 TTTTTTTTTTTTACCCATGA
1 TTTTTATTTCTTACCCA-GA
21803136 TTTTTATTTCTTACCCA-A
1 TTTTTATTTCTTACCCAGA
21803154 TTTT
1 TTTT
21803158 CTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
20 15 0.75
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTATTTCTTACCCAGA
Found at i:21805752 original size:91 final size:92
Alignment explanation
Indices: 21805590--21805756 Score: 210
Period size: 91 Copynumber: 1.8 Consensus size: 92
21805580 ATTTAAGTCC
* * * * * *
21805590 CTTTTTTTTTGTGCATTCAATTGAGCACTTTAACTTTCAAAATGCATCAAAAAGGCCCTCAAACT
1 CTTTTTTTTTGTCCACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAAT
21805655 ACTTCAAAAAAAGCTTAAGGGCCCTTG
66 ACTTCAAAAAAAGCTTAAGGGCCCTTG
* * * * *
21805682 CTTTTTTTTT-TCCACTCAATTGGGCACTTGAACTTTTAACATGTATAAAAAAGACCCTTAAAAT
1 CTTTTTTTTTGTCCACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAAT
**
21805746 TTTTCAAAAAA
66 ACTTCAAAAAA
21805757 GTAATTAAAC
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
91 52 0.84
92 10 0.16
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (92 bp):
CTTTTTTTTTGTCCACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAAT
ACTTCAAAAAAAGCTTAAGGGCCCTTG
Found at i:21806627 original size:20 final size:20
Alignment explanation
Indices: 21806604--21806649 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
21806594 TTAAATGACC
21806604 TTTTTAATGTAT-TTTATAAT
1 TTTTTAAT-TATATTTATAAT
21806624 TTTTT-ATTATATTTATAAT
1 TTTTTAATTATATTTATAAT
21806643 TTATTTA
1 TT-TTTA
21806650 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 12 0.52
20 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAATTATATTTATAAT
Found at i:21806628 original size:10 final size:10
Alignment explanation
Indices: 21806615--21806704 Score: 56
Period size: 10 Copynumber: 8.2 Consensus size: 10
21806605 TTTTAATGTA
21806615 TTTTATAATT
1 TTTTATAATT
*
21806625 TTTTATTA-T
1 TTTTATAATT
*
21806634 ATTTATAATT
1 TTTTATAATT
21806644 TATTTATAATT
1 T-TTTATAATT
*
21806655 TTTAATAAGATTT
1 TTTTAT-A-A-TT
*
21806668 ATTGATTTTAATT
1 -TT--TTATAATT
21806681 TTTTATAATTT
1 TTTTATAA-TT
21806692 CTTTTATAATT
1 -TTTTATAATT
21806703 TT
1 TT
21806705 GAATAAAAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
9 7 0.11
10 19 0.31
11 15 0.24
12 11 0.18
13 4 0.06
14 3 0.05
15 1 0.02
16 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:21806886 original size:90 final size:88
Alignment explanation
Indices: 21806715--21806888 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 88
21806705 GAATAAAAGC
** *
21806715 AGGGGATTAATTACTTTTTTTGAAAAAGTTTGAGGGTTTTTTGATACATTTTGAAAGTTCAAGTA
1 AGGGGATTAATTACTTTTTTTGAAAAAGTTTGAGACTTTTTTGATACATTTTGAAAATTCAAGTA
*
21806780 CCCAATTGATTACAAAAAAGAGT
66 CCCAATTGAGTACAAAAAAGAGT
* ** * *
21806803 AGGGGATTAATTGCTTTTTTTTGAAATGGTTTGAAGACTTTTTTTATGCATTTTGAAAATTCAAG
1 AGGGGATTAATTAC-TTTTTTTGAAAAAGTTTG-AGACTTTTTTGATACATTTTGAAAATTCAAG
*
21806868 TACCCAAATT-AGTGCAAAAAA
64 TACCC-AATTGAGTACAAAAAA
21806889 AGCATGGCCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 13 0.18
89 16 0.22
90 40 0.55
91 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (88 bp):
AGGGGATTAATTACTTTTTTTGAAAAAGTTTGAGACTTTTTTGATACATTTTGAAAATTCAAGTA
CCCAATTGAGTACAAAAAAGAGT
Found at i:21806911 original size:90 final size:89
Alignment explanation
Indices: 21806712--21806913 Score: 212
Period size: 90 Copynumber: 2.3 Consensus size: 89
21806702 TTTGAATAAA
* * ** *
21806712 AGCAGGGGATTAATTAC-TTTTTTTGAAAAAGTTTGAGGGTTTTTTGATACATTTTGAAAGTTCA
1 AGCAGGGCATTAATTGCTTTTTTTTGAAAAAGTTTGAGACTTTTTTGATACATTTTGAAAATTCA
*
21806776 AGTACCCAATTGATTACAAAAAAG
66 AGTACCCAATTGAGTACAAAAAAG
* * ** * *
21806800 AGTAGGGGATTAATTGCTTTTTTTTGAAATGGTTTGAAGACTTTTTTTATGCATTTTGAAAATTC
1 AGCAGGGCATTAATTGCTTTTTTTTGAAAAAGTTTG-AGACTTTTTTGATACATTTTGAAAATTC
*
21806865 AAGTACCCAAATT-AGTGCAAAAAA-
65 AAGTACCC-AATTGAGTACAAAAAAG
* * **
21806889 AGCATGGCCTTAATTTTTTTTTTTT
1 AGCAGGGCATTAATTGCTTTTTTTT
21806914 AAGTTTGAGG
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 15 0.16
89 35 0.37
90 40 0.43
91 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (89 bp):
AGCAGGGCATTAATTGCTTTTTTTTGAAAAAGTTTGAGACTTTTTTGATACATTTTGAAAATTCA
AGTACCCAATTGAGTACAAAAAAG
Found at i:21810030 original size:42 final size:42
Alignment explanation
Indices: 21809977--21810070 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
21809967 CCGTGTGGCT
* *
21809977 AGGCAGTGTGGCTCACACGGTCAAGAGACACACCCGTGTCTC
1 AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
**
21810019 AGGCCGTGTGGCTCACACGGTCAAGAGACATGCCCATGTCTC
1 AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
*
21810061 AGGTCGTGTG
1 AGGCCGTGTG
21810071 AGTATTCGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (42 bp):
AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
Found at i:21811199 original size:42 final size:42
Alignment explanation
Indices: 21811151--21811347 Score: 322
Period size: 42 Copynumber: 4.7 Consensus size: 42
21811141 TCGAAAGCTT
* *
21811151 AACAGAAGCTCATAAGAGCTGAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
21811193 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
*
21811235 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAAAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* *
21811277 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* * *
21811319 AATAGAAGCTCGTAAGAGCTAAATAGAAA
1 AACAGAAGCTCGTAAGAGCTGAACAGAAA
21811348 GTAAAACATG
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 146 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
Found at i:21811346 original size:21 final size:21
Alignment explanation
Indices: 21811132--21811338 Score: 238
Period size: 21 Copynumber: 10.0 Consensus size: 21
21811122 CTGATACGCC
*
21811132 AACAGAAGCTCG-AA-AGCTT
1 AACAGAAGCTCGTAAGAGCTG
*
21811151 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
21811172 AACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
21811193 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
21811214 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
21811235 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * * *
21811256 AACAGAAACTCATAAAAGTTG
1 AACAGAAGCTCGTAAGAGCTG
21811277 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * * * *
21811298 AACAGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTG
*
21811319 AATAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
21811339 AAATAGAAAG
Statistics
Matches: 154, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
19 11 0.07
20 2 0.01
21 141 0.92
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:21832741 original size:18 final size:17
Alignment explanation
Indices: 21832705--21832743 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
21832695 TTTAAAAATT
21832705 TTTAATTTCTTTATATC
1 TTTAATTTCTTTATATC
* *
21832722 TTTAATATTTTTTGTATC
1 TTTAAT-TTCTTTATATC
21832740 TTTA
1 TTTA
21832744 TTCTTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTAATTTCTTTATATC
Found at i:21836150 original size:30 final size:31
Alignment explanation
Indices: 21836084--21836153 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
21836074 TCCACCCTTA
* * * *
21836084 AAATATTTACACTATTGATCCTTCAACTTTT
1 AAATATTTACACTATTAACCCCTCAAATTTT
*
21836115 -CATATTTACACT-TTAACCCCTCAAATTTT
1 AAATATTTACACTATTAACCCCTCAAATTTT
21836144 AAATATTTAC
1 AAATATTTAC
21836154 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.43
Consensus pattern (31 bp):
AAATATTTACACTATTAACCCCTCAAATTTT
Found at i:21836662 original size:12 final size:13
Alignment explanation
Indices: 21836632--21836664 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
21836622 TTTTTATCTA
21836632 TAAAAAACAATAT
1 TAAAAAACAATAT
*
21836645 TAAAAAACAATTT
1 TAAAAAACAATAT
21836658 TAAAAAA
1 TAAAAAA
21836665 TGTATCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAACAATAT
Found at i:21849083 original size:24 final size:26
Alignment explanation
Indices: 21849014--21849083 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
21849004 AAAAGAGAAT
21849014 TTATACAAATTAAATTCAAATTAATTAAC
1 TTATA-AAA-TAAA-TCAAATTAATTAAC
* *
21849043 TTCTGAAAAAAATATCAAATTAATT-AC
1 TTAT-AAAATAA-ATCAAATTAATTAAC
21849070 TTAT-AAATAAATCA
1 TTATAAAATAAATCA
21849084 GATAAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
24 4 0.11
25 5 0.14
27 5 0.14
28 13 0.37
29 7 0.20
30 1 0.03
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (26 bp):
TTATAAAATAAATCAAATTAATTAAC
Found at i:21857842 original size:199 final size:198
Alignment explanation
Indices: 21857497--21857891 Score: 535
Period size: 199 Copynumber: 2.0 Consensus size: 198
21857487 CTTACATTAC
* * *
21857497 TCTATTGATTTCAATCTTTAAGTTGATTTTCTCTCTCCTTCAGCCTCTATTTCTTGAATCTAACT
1 TCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCCTTCAGCCTCTATTTCTTAAATCTAACT
* * * *
21857562 TGATATTCTAGCTCCCCATAGTCTCCTTATCAAATTTCTCTCTTGGTGGGTATGGAAATTTCTTT
66 TGATATTCTAGCTCCCCATAGTCTCATTATCAAATTTCTCTCTTGGTAGCTATGGAAAATTCTTT
* * *** *
21857627 GAATTCTAAGTGAAAATGGTGAATTTTTTGTGTGAGGACCAAATTGTAAAGAAAGCAAAACTTTC
131 GAATTCTAAGTGAAAATAGTGAATTTTTGGTAAAAGAACCAAATTGTAAAGAAAG-AAAACTTTC
21857692 TTGT
195 TTGT
* *
21857696 TCTATTGATTTCAATCATTAACTTGATTTTCTCTCT-CGTCTAGCTTCTATTTCTTAAATCTAAC
1 TCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCCTTC-AGCCTCTATTTCTTAAATCTAAC
* * **
21857760 TTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTAT-GAAAATTCTT
65 TTGATATTCTAGCTCCCCATAGTCTCATTATCAAATTTCTCTCTTGGTAGCTATGGAAAATTCTT
* * *
21857824 TTAATTTCTCAA-TGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAATTT
130 TGAA-TTCT-AAGTGAAAATAGTGAATTTTTGGTAAAAGAACCAAATTGTAAAGAAAGAAAACTT
21857888 TCTT
193 TCTT
21857892 TCTTCTCTTC
Statistics
Matches: 171, Mismatches: 22, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
198 25 0.15
199 144 0.84
200 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (198 bp):
TCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCCTTCAGCCTCTATTTCTTAAATCTAACT
TGATATTCTAGCTCCCCATAGTCTCATTATCAAATTTCTCTCTTGGTAGCTATGGAAAATTCTTT
GAATTCTAAGTGAAAATAGTGAATTTTTGGTAAAAGAACCAAATTGTAAAGAAAGAAAACTTTCT
TGT
Found at i:21857978 original size:11 final size:11
Alignment explanation
Indices: 21857962--21858006 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
21857952 TTATACTAAT
21857962 TAAAATAATAA
1 TAAAATAATAA
* *
21857973 TAAAATATCTCAT
1 TAAAATA-AT-AA
21857986 TAAAATAATAA
1 TAAAATAATAA
21857997 TAAAATAATA
1 TAAAATAATA
21858007 TTTATCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:21858033 original size:27 final size:27
Alignment explanation
Indices: 21857951--21858034 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 27
21857941 TCATCTTTTT
*
21857951 TTTATACTAATTAAAATAATAATAAAATA
1 TTTAT-CTAATT-AAATAATTATAAAATA
* * *
21857980 TCTCAT-TAA-AATAATAA-TAAAATAATA
1 T-TTATCTAATTA-AATAATTATAA-AATA
21858007 TTTATCTAATTAAATAATTATAAAATA
1 TTTATCTAATTAAATAATTATAAAATA
21858034 T
1 T
21858035 CATAAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
26 7 0.17
27 23 0.55
28 8 0.19
29 1 0.02
30 3 0.07
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTATCTAATTAAATAATTATAAAATA
Found at i:21858503 original size:16 final size:17
Alignment explanation
Indices: 21858476--21858507 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21858466 AACTATTTAT
21858476 TTAAAGATAATATTTTG
1 TTAAAGATAATATTTTG
21858493 TTAAA-ATAATATTTT
1 TTAAAGATAATATTTT
21858508 CCCTCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTAAAGATAATATTTTG
Found at i:21858850 original size:906 final size:906
Alignment explanation
Indices: 21857691--21859445 Score: 3501
Period size: 906 Copynumber: 1.9 Consensus size: 906
21857681 GCAAAACTTT
21857691 CTTGTTCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCGTCTAGCTTCTATTTCTTAAATC
1 CTTGTTCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCGTCTAGCTTCTATTTCTTAAATC
21857756 TAACTTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTATGAAAATT
66 TAACTTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTATGAAAATT
21857821 CTTTTAATTTCTCAATGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAAT
131 CTTTTAATTTCTCAATGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAAT
21857886 TTTCTTTCTTCTCTTCTCTTCTCACGTGAGTGCATTGAAAGATGATGAAAATTCTTCATCTTTTT
196 TTTCTTTCTTCTCTTCTCTTCTCACGTGAGTGCATTGAAAGATGATGAAAATTCTTCATCTTTTT
21857951 TTTATACTAATTAAAATAATAATAAAATATCTCATTAAAATAATAATAAAATAATATTTATCTAA
261 TTTATACTAATTAAAATAATAATAAAATATCTCATTAAAATAATAATAAAATAATATTTATCTAA
21858016 TTAAATAATTATAAAATATCATAAAAATATCTCTAATATCATCATTGCCTTCTACAGTTCTCTCT
326 TTAAATAATTATAAAATATCATAAAAATATCTCTAATATCATCATTGCCTTCTACAGTTCTCTCT
21858081 CTTTCTAATTGACCATTTCACCCTTTATGATATTTTAAAATTTCATCTTTAAGTCATCACTTAAT
391 CTTTCTAATTGACCATTTCACCCTTTATGATATTTTAAAATTTCATCTTTAAGTCATCACTTAAT
21858146 TTGGTAAAATTATGATTTAGTCTCTCATAATTCTTCACCTATTCAATTTGGTCCATTTTCCTTAG
456 TTGGTAAAATTATGATTTAGTCTCTCATAATTCTTCACCTATTCAATTTGGTCCATTTTCCTTAG
21858211 TTTCTAAATCATTCCACCCTTAAAATATTTGCACTATTGGTCTTTCAATTTTTTCATATTTACAC
521 TTTCTAAATCATTCCACCCTTAAAATATTTGCACTATTGGTCTTTCAATTTTTTCATATTTACAC
21858276 TTTATCCCCTCAAATTTTAAGTATTTACTCTTGGGCAACAAAACTCTTCTCACTTTTACGATTTA
586 TTTATCCCCTCAAATTTTAAGTATTTACTCTTGGGCAACAAAACTCTTCTCACTTTTACGATTTA
21858341 ATCCTTTCTTGAATTAATATGTCATAACTCAAAATTTTCCTTTTTGTCACTTTATTTCCTCATTT
651 ATCCTTTCTTGAATTAATATGTCATAACTCAAAATTTTCCTTTTTGTCACTTTATTTCCTCATTT
21858406 TACAATATATAAATGATACTATCTTACTTTCTTACTGTAATAATTTTCAAGGTATTACAAAACTA
716 TACAATATATAAATGATACTATCTTACTTTCTTACTGTAATAATTTTCAAGGTATTACAAAACTA
21858471 TTTATTTAAAGATAATATTTTGTTAAAATAATATTTTCCCTCTATTCCTATATTTAAATTTAATT
781 TTTATTTAAAGATAATATTTTGTTAAAATAATATTTTCCCTCTATTCCTATATTTAAATTTAATT
21858536 AATTACATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAATTTTGATGTTCTTAC
846 AATTACATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAATTTTGATGTTCTTAC
21858597 CTTGTTCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCGTCTAGCTTCTATTTCTTAAATC
1 CTTGTTCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCGTCTAGCTTCTATTTCTTAAATC
21858662 TAACTTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTATGAAAATT
66 TAACTTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTATGAAAATT
21858727 CTTTTAATTTCTCAATGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAAT
131 CTTTTAATTTCTCAATGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAAT
21858792 TTTCTTTCTTCTCTTCTCTTCTCACGTGAGTGCATTGAAAGATGATGAAAATTCTTCATCTTTTT
196 TTTCTTTCTTCTCTTCTCTTCTCACGTGAGTGCATTGAAAGATGATGAAAATTCTTCATCTTTTT
21858857 TTTATACTAATTAAAATAATAATAAAATATCTCATTAAAATAATAATAAAATAATATTTATCTAA
261 TTTATACTAATTAAAATAATAATAAAATATCTCATTAAAATAATAATAAAATAATATTTATCTAA
21858922 TTAAATAATTATAAAATATCATAAAAATATCTCTAATATCATCATTGCCTTCTACAGTTCTCTCT
326 TTAAATAATTATAAAATATCATAAAAATATCTCTAATATCATCATTGCCTTCTACAGTTCTCTCT
21858987 CTTTCTAATTGACCATTTCACCCTTTATGATATTTTAAAATTTCATCTTTAAGTCATCACTTAAT
391 CTTTCTAATTGACCATTTCACCCTTTATGATATTTTAAAATTTCATCTTTAAGTCATCACTTAAT
21859052 TTGGTAAAATTATGATTTAGTCTCTCATAATTCTTCACCTATTCAATTTGGTCCATTTTCCTTAG
456 TTGGTAAAATTATGATTTAGTCTCTCATAATTCTTCACCTATTCAATTTGGTCCATTTTCCTTAG
21859117 TTTCTAAATCATTCCACCCTTAAAATATTTGCACTATTGGTCTTTCAATTTTTTCATATTTACAC
521 TTTCTAAATCATTCCACCCTTAAAATATTTGCACTATTGGTCTTTCAATTTTTTCATATTTACAC
*
21859182 TTTATCCCCTCAAATTTTAAGTATTTACTCTTGGGCAACAAAACTTTTCTCACTTTTACGATTTA
586 TTTATCCCCTCAAATTTTAAGTATTTACTCTTGGGCAACAAAACTCTTCTCACTTTTACGATTTA
21859247 ATCCTTTCTTGAATTAATATGTCATAACTCAAAATTTTCCTTTTTGTCACTTTATTTCCTCATTT
651 ATCCTTTCTTGAATTAATATGTCATAACTCAAAATTTTCCTTTTTGTCACTTTATTTCCTCATTT
21859312 TACAATATATAAATGATACTATCTTACTTTCTTACTGTAATAATTTTCAAGGTATTACAAAACTA
716 TACAATATATAAATGATACTATCTTACTTTCTTACTGTAATAATTTTCAAGGTATTACAAAACTA
21859377 TTTATTTAAAGATAATATTTTGTTAAAATAATATTTTCCCTCTATTCCTATATTTAAATTTAATT
781 TTTATTTAAAGATAATATTTTGTTAAAATAATATTTTCCCTCTATTCCTATATTTAAATTTAATT
21859442 AATT
846 AATT
21859446 TAATTAATTT
Statistics
Matches: 848, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
906 848 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.45
Consensus pattern (906 bp):
CTTGTTCTATTGATTTCAATCATTAACTTGATTTTCTCTCTCGTCTAGCTTCTATTTCTTAAATC
TAACTTGATATTCTAGCTCCCCATTGTCTCATTATTATTTTTCTCTCTTGGTAGCTATGAAAATT
CTTTTAATTTCTCAATGAAAATAGTGAATTTTTGGTAAAATAACCAAATTGTAAAGAAAGAAAAT
TTTCTTTCTTCTCTTCTCTTCTCACGTGAGTGCATTGAAAGATGATGAAAATTCTTCATCTTTTT
TTTATACTAATTAAAATAATAATAAAATATCTCATTAAAATAATAATAAAATAATATTTATCTAA
TTAAATAATTATAAAATATCATAAAAATATCTCTAATATCATCATTGCCTTCTACAGTTCTCTCT
CTTTCTAATTGACCATTTCACCCTTTATGATATTTTAAAATTTCATCTTTAAGTCATCACTTAAT
TTGGTAAAATTATGATTTAGTCTCTCATAATTCTTCACCTATTCAATTTGGTCCATTTTCCTTAG
TTTCTAAATCATTCCACCCTTAAAATATTTGCACTATTGGTCTTTCAATTTTTTCATATTTACAC
TTTATCCCCTCAAATTTTAAGTATTTACTCTTGGGCAACAAAACTCTTCTCACTTTTACGATTTA
ATCCTTTCTTGAATTAATATGTCATAACTCAAAATTTTCCTTTTTGTCACTTTATTTCCTCATTT
TACAATATATAAATGATACTATCTTACTTTCTTACTGTAATAATTTTCAAGGTATTACAAAACTA
TTTATTTAAAGATAATATTTTGTTAAAATAATATTTTCCCTCTATTCCTATATTTAAATTTAATT
AATTACATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAATTTTGATGTTCTTAC
Found at i:21858884 original size:11 final size:11
Alignment explanation
Indices: 21858868--21858912 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
21858858 TTATACTAAT
21858868 TAAAATAATAA
1 TAAAATAATAA
* *
21858879 TAAAATATCTCAT
1 TAAAATA-AT-AA
21858892 TAAAATAATAA
1 TAAAATAATAA
21858903 TAAAATAATA
1 TAAAATAATA
21858913 TTTATCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:21858939 original size:27 final size:27
Alignment explanation
Indices: 21858857--21858940 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 27
21858847 TCATCTTTTT
*
21858857 TTTATACTAATTAAAATAATAATAAAATA
1 TTTAT-CTAATT-AAATAATTATAAAATA
* * *
21858886 TCTCAT-TAA-AATAATAA-TAAAATAATA
1 T-TTATCTAATTA-AATAATTATAA-AATA
21858913 TTTATCTAATTAAATAATTATAAAATA
1 TTTATCTAATTAAATAATTATAAAATA
21858940 T
1 T
21858941 CATAAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
26 7 0.17
27 23 0.55
28 8 0.19
29 1 0.02
30 3 0.07
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTATCTAATTAAATAATTATAAAATA
Found at i:21859409 original size:16 final size:17
Alignment explanation
Indices: 21859382--21859413 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21859372 AACTATTTAT
21859382 TTAAAGATAATATTTTG
1 TTAAAGATAATATTTTG
21859399 TTAAA-ATAATATTTT
1 TTAAAGATAATATTTT
21859414 CCCTCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTAAAGATAATATTTTG
Found at i:21866868 original size:51 final size:51
Alignment explanation
Indices: 21866786--21867000 Score: 333
Period size: 51 Copynumber: 4.2 Consensus size: 51
21866776 CGGATCACAT
*
21866786 TTATCACTTGTCATTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
* *
21866837 TTGTCACTTGTCACTTATCACTGATCTGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
* * * *
21866888 TTATTACTTGTCGCTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
* * *
21866938 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
21866989 TTATCACTTGTC
1 TTATCACTTGTC
21867001 GCTGATCAGA
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 47 0.31
51 104 0.69
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
Found at i:21866969 original size:101 final size:102
Alignment explanation
Indices: 21866786--21867008 Score: 340
Period size: 101 Copynumber: 2.2 Consensus size: 102
21866776 CGGATCACAT
** *
21866786 TTATCACTTGTCATTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTGTCACTTGTCAC
1 TTATCACTTGTCGCTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
* *
21866851 TTATCACTGATCTGATAAGTGCAACTAAAGCTACCAC
66 TTATCACTAATCAGATAAGTGCAACTAAAGCTACCAC
* * *
21866888 TTATTACTTGTCGCTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
1 TTATCACTTGTCGCTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
* *
21866952 TTATCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
66 TTATCACTAATCAGATAAGTGCAACTAAAGCTACCAC
*
21866989 TTATCACTTGTCGCTGATCA
1 TTATCACTTGTCGCTTATCA
21867009 GAAGTACTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 71 0.65
102 38 0.35
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (102 bp):
TTATCACTTGTCGCTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
TTATCACTAATCAGATAAGTGCAACTAAAGCTACCAC
Found at i:21867104 original size:17 final size:17
Alignment explanation
Indices: 21867082--21867114 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21867072 TATTATCAAT
21867082 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
21867099 TCATCATACAATATAT
1 TCATCATACAATATAT
21867115 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:21875458 original size:1 final size:1
Alignment explanation
Indices: 21875452--21875477 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21875442 NNCAAATTTA
21875452 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
21875478 AAAAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:21883120 original size:16 final size:16
Alignment explanation
Indices: 21883079--21883128 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
21883069 TTCACTTATG
21883079 TTTTA-AAAAATGAATAA
1 TTTTATAAAAAT-AAT-A
21883096 TTTT-T-AAAATAATA
1 TTTTATAAAAATAATA
21883110 TTTTATAAAAATAATA
1 TTTTATAAAAATAATA
21883126 TTT
1 TTT
21883129 CATCCAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 17 0.57
17 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTTATAAAAATAATA
Found at i:21885424 original size:2 final size:2
Alignment explanation
Indices: 21885417--21885446 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21885407 AGGATGTATA
*
21885417 TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21885447 AGTGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21894516 original size:31 final size:31
Alignment explanation
Indices: 21894476--21894538 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21894466 TTATCAGTCT
* *
21894476 AGTGGCTTAAATAAAAAATTTCAAATAGTTC
1 AGTGACTTAAATAAAAAATTTCAAATAATTC
* * *
21894507 AGTGACTTAAATGAAAACTTTCGAATAATTC
1 AGTGACTTAAATAAAAAATTTCAAATAATTC
21894538 A
1 A
21894539 ATGATCATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (31 bp):
AGTGACTTAAATAAAAAATTTCAAATAATTC
Found at i:21900572 original size:21 final size:21
Alignment explanation
Indices: 21900548--21900587 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21900538 AAACAATCAG
21900548 ATAACAACAACAACAATAATA
1 ATAACAACAACAACAATAATA
* *
21900569 ATAATAACAACAACGATAA
1 ATAACAACAACAACAATAA
21900588 AGAAAAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.17, G:0.03, T:0.15
Consensus pattern (21 bp):
ATAACAACAACAACAATAATA
Found at i:21907301 original size:19 final size:19
Alignment explanation
Indices: 21907275--21907320 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
21907265 AAGAACAAAT
21907275 GAGAAAAA-AAAGAGTCTGAC
1 GAGAAAAATAAA-AGT-TGAC
21907295 GAGAAAAATAAAAGTTGAC
1 GAGAAAAATAAAAGTTGAC
*
21907314 TAGAAAA
1 GAGAAAA
21907321 CAATTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 11 0.46
21 3 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.13
Consensus pattern (19 bp):
GAGAAAAATAAAAGTTGAC
Found at i:21910453 original size:21 final size:22
Alignment explanation
Indices: 21910428--21910471 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21910418 ATCATCTAAC
*
21910428 TATTAAGATTTTCAA-TTTAAT
1 TATTAAAATTTTCAATTTTAAT
*
21910449 TATTAAAATTTTTAATTTTAAT
1 TATTAAAATTTTCAATTTTAAT
21910471 T
1 T
21910472 TTTTTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTAAAATTTTCAATTTTAAT
Found at i:21910475 original size:15 final size:16
Alignment explanation
Indices: 21910443--21910480 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21910433 AGATTTTCAA
21910443 TTTAATTATTAAAATT
1 TTTAATTATTAAAATT
**
21910459 TTTAATT-TTAATTTT
1 TTTAATTATTAAAATT
21910474 TTTAATT
1 TTTAATT
21910481 GCTCTAGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTATTAAAATT
Found at i:21915585 original size:3 final size:3
Alignment explanation
Indices: 21915577--21915611 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21915567 TTAGTCAAGT
21915577 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21915612 GCATTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21926237 original size:6 final size:6
Alignment explanation
Indices: 21926226--21926254 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21926216 ACTTTTAGAC
21926226 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
21926255 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:21926278 original size:20 final size:20
Alignment explanation
Indices: 21926210--21926267 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
21926200 ATTAAATTAT
* *
21926210 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
21926231 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
21926249 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
21926268 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 10 0.30
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:21926323 original size:18 final size:18
Alignment explanation
Indices: 21926300--21926344 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
21926290 TTATGATTGG
21926300 GTTGGGTTGGGTAATTAA
1 GTTGGGTTGGGTAATTAA
*
21926318 GTTGGGTTGGGTAATTAG
1 GTTGGGTTGGGTAATTAA
21926336 GTTGGGTTG
1 GTTGGGTTG
21926345 AATGCTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (18 bp):
GTTGGGTTGGGTAATTAA
Found at i:21933334 original size:16 final size:16
Alignment explanation
Indices: 21933313--21933358 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
21933303 AGTTGATTTG
*
21933313 CTATTACATCTCTATT
1 CTATTACACCTCTATT
21933329 CTATTACACCTCTATT
1 CTATTACACCTCTATT
*
21933345 CCATTACACCTCTA
1 CTATTACACCTCTA
21933359 ATCCAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:21933363 original size:16 final size:16
Alignment explanation
Indices: 21933315--21933368 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
21933305 TTGATTTGCT
* *
21933315 ATTACATCTCTATTCT
1 ATTACACCTCTATTCC
21933331 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
21933347 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
21933363 AATACA
1 ATTACA
21933369 GCGGACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:21933611 original size:3 final size:3
Alignment explanation
Indices: 21933603--21933627 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21933593 CGGAGACAAG
21933603 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
21933628 GGAAGGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21937893 original size:22 final size:22
Alignment explanation
Indices: 21937866--21937909 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21937856 TATATATACT
*
21937866 TGTGCATATATAATTATCTTTA
1 TGTGCATATAAAATTATCTTTA
*
21937888 TGTGCATATAAAATTGTCTTTA
1 TGTGCATATAAAATTATCTTTA
21937910 AAATTGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (22 bp):
TGTGCATATAAAATTATCTTTA
Found at i:21946694 original size:2 final size:2
Alignment explanation
Indices: 21946689--21946713 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21946679 ACACACACAC
21946689 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 A
21946714 AATCCACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21959512 original size:30 final size:30
Alignment explanation
Indices: 21959478--21959540 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21959468 ACTTAACAAG
21959478 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
21959508 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
21959538 CAA
1 CAA
21959541 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:21959600 original size:33 final size:34
Alignment explanation
Indices: 21959547--21959614 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
21959537 ACAATAAAAT
21959547 AAGTTTTATACAATATCCAAACAATAACAACAAA
1 AAGTTTTATACAATATCCAAACAATAACAACAAA
21959581 AAGTTTTATA-AATATCCAAACAATAACAACAAA
1 AAGTTTTATACAATATCCAAACAATAACAACAAA
21959614 A
1 A
21959615 TACTAGCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (34 bp):
AAGTTTTATACAATATCCAAACAATAACAACAAA
Found at i:21965781 original size:19 final size:19
Alignment explanation
Indices: 21965758--21965807 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
21965748 TAAATATTAA
21965758 AAAATATTTTTATACTTTTT
1 AAAATATTTTTATA-TTTTT
21965778 -AAATATTTTTA-ATTTTT
1 AAAATATTTTTATATTTTT
21965795 AAAATATTTTTAT
1 AAAATATTTTTAT
21965808 TTGTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AAAATATTTTTATATTTTT
Found at i:21965799 original size:37 final size:37
Alignment explanation
Indices: 21965736--21965807 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
21965726 TTTAATTAAT
21965736 TTTTTAAATTTTTAAATATTAAAAAATATTTTTATAC
1 TTTTTAAATTTTTAAATATTAAAAAATATTTTTATAC
* **
21965773 TTTTTAAATATTTTTAAT-TTTTAAAATATTTTTAT
1 TTTTTAAAT-TTTTAAATATTAAAAAATATTTTTAT
21965808 TTGTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (37 bp):
TTTTTAAATTTTTAAATATTAAAAAATATTTTTATAC
Found at i:21967379 original size:16 final size:16
Alignment explanation
Indices: 21967343--21967375 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21967333 ATGGAAAATG
*
21967343 TTAATTTTATTATAAT
1 TTAAATTTATTATAAT
21967359 TTAAATTTATT-TAAT
1 TTAAATTTATTATAAT
21967374 TT
1 TT
21967376 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAAATTTATTATAAT
Found at i:21978687 original size:27 final size:28
Alignment explanation
Indices: 21978657--21978725 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 28
21978647 GTTAATTATC
21978657 CGAA-TTTGAACCAAATTAACCAATAAT
1 CGAACTTTGAACCAAATTAACCAATAAT
* *
21978684 CGAACTTTGAA--AAA--AATCATTAAT
1 CGAACTTTGAACCAAATTAACCAATAAT
*
21978708 CGAATTTTG-ACCAAATTA
1 CGAACTTTGAACCAAATTA
21978726 GATCTGTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
23 1 0.03
24 16 0.47
25 3 0.09
26 3 0.09
27 5 0.15
28 6 0.18
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (28 bp):
CGAACTTTGAACCAAATTAACCAATAAT
Found at i:21982829 original size:22 final size:22
Alignment explanation
Indices: 21982802--21982848 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
21982792 TTAATAGCTT
21982802 TTTAGTTTCAGTGCATTTATAG
1 TTTAGTTTCAGTGCATTTATAG
21982824 TTTAGTTTCAGTGCATTTATAG
1 TTTAGTTTCAGTGCATTTATAG
21982846 TTT
1 TTT
21982849 TTCTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTAGTTTCAGTGCATTTATAG
Found at i:21983614 original size:3 final size:3
Alignment explanation
Indices: 21983606--21983665 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
21983596 ATTGATGACT
21983606 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21983654 TAA TAA TAA TAA
1 TAA TAA TAA TAA
21983666 GCACTTCTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21985437 original size:26 final size:26
Alignment explanation
Indices: 21985375--21985446 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
21985365 AAGTTCAAGC
21985375 GAGCCA-ATATCGGGAAGCTC-CGAA
1 GAGCCATATATCGGGAAGCTCACGAA
*
21985399 GAGCTAT-TAATCGGGAAGCTCACGAA
1 GAGCCATAT-ATCGGGAAGCTCACGAA
* *
21985425 GAGCCATATATCGAGACGCTCA
1 GAGCCATATATCGGGAAGCTCA
21985447 TAAGAGCTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 6 0.15
25 12 0.30
26 21 0.52
27 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (26 bp):
GAGCCATATATCGGGAAGCTCACGAA
Done.