Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 51
Found at i:7763162 original size:16 final size:15
Alignment explanation
Indices: 7763155--7763192 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
7763145 AAAGAAAAAT
7763155 ATAGAAAATATAGAAA
1 ATAGAAAATATAG-AA
7763171 ATAGAAAATATAGAA
1 ATAGAAAATATAGAA
7763186 A-AGAAAA
1 ATAGAAAA
7763193 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 6 0.27
15 3 0.14
16 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
ATAGAAAATATAGAA
Found at i:7763196 original size:25 final size:25
Alignment explanation
Indices: 7763142--7763217 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
7763132 AAAAAGAGGG
* * *
7763142 AAAAAAGAAAAATATAGAAAATATAG
1 AAAAAAG-AAAATATAGAAAAGAAAA
*
7763168 AAAATAGAAAATATAGAAAAGAAAA
1 AAAAAAGAAAATATAGAAAAGAAAA
* * *
7763193 AAAAAAGAAAAAAGAAAAAAGAAAA
1 AAAAAAGAAAATATAGAAAAGAAAA
7763218 GAGGAAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 36 0.86
26 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (25 bp):
AAAAAAGAAAATATAGAAAAGAAAA
Found at i:7763225 original size:21 final size:20
Alignment explanation
Indices: 7763184--7763246 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 20
7763174 GAAAATATAG
7763184 AAAAGAAAAAA-AAAAGA-A
1 AAAAGAAAAAAGAAAAGAGA
7763202 AAAAGAAAAAAGAAAAGAGGA
1 AAAAGAAAAAAGAAAAGA-GA
*
7763223 AAAAGGAAAAAGGAAAA-AGA
1 AAAA-GAAAAAAGAAAAGAGA
7763243 AAAA
1 AAAA
7763247 AGTAAGAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 11 0.28
19 6 0.15
20 6 0.15
21 6 0.15
22 11 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAGAAAAGAGA
Found at i:7763226 original size:16 final size:16
Alignment explanation
Indices: 7763142--7763226 Score: 59
Period size: 16 Copynumber: 5.2 Consensus size: 16
7763132 AAAAAGAGGG
*
7763142 AAAAAAGAAAAATATAGA
1 AAAAAAG-AAAAGA-AGA
* *
7763160 AAATATAGAAAA-TAGA
1 AAA-AAAGAAAAGAAGA
* *
7763176 AAATATAGAAAAGAAAA
1 AAA-AAAGAAAAGAAGA
7763193 AAAAAAGAAAA-AAG-
1 AAAAAAGAAAAGAAGA
*
7763207 AAAAAAGAAAAGAGGA
1 AAAAAAGAAAAGAAGA
7763223 AAAA
1 AAAA
7763227 GGAAAAAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
14 11 0.20
15 4 0.07
16 26 0.46
17 5 0.09
18 7 0.12
19 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAAAGAAAAGAAGA
Found at i:7764222 original size:25 final size:26
Alignment explanation
Indices: 7764165--7764227 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
7764155 AGAAAGGGGC
7764165 AATATTTTTCAAAATTTTTCATATTA
1 AATATTTTTCAAAATTTTTCATATTA
* *
7764191 AACATTTTTCAAAATTATTTTA-ATT-
1 AATATTTTTCAAAATT-TTTCATATTA
*
7764216 GATATTTTTCAA
1 AATATTTTTCAA
7764228 TTTTTTGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 10 0.31
26 18 0.56
27 4 0.12
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (26 bp):
AATATTTTTCAAAATTTTTCATATTA
Found at i:7766951 original size:81 final size:81
Alignment explanation
Indices: 7766524--7767026 Score: 447
Period size: 82 Copynumber: 6.2 Consensus size: 81
7766514 TGAAAGAAAA
* * * * * * * *
7766524 GTGAAGCAGACCCGTCTTCTAACATTGATCTGTATACCCAAAAAAGATGCACAAATCAAGTCTGA
1 GTGAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCT-A
7766589 TTTCCCCTGAATGAATG
65 TTTCCCCTGAATGAATG
* * * * * * * * * * * *
7766606 GTGAAACAAACATGTCTACCAATATTGATTTGTTTACCTGAAAAACAAGCATATATCAAGTCTGA
1 GTGAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCT-A
7766671 TTTCCCCTGAATGAATG
65 TTTCCCCTGAATGAATG
* * * ** * * * *
7766688 GTGGAA-CAGACATGTCTTCCAACATTTATTTGTCTACCTGAAAAAGAGGCGCATATCAAGTATG
1 GT-GAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCT-
7766752 ATTTCCCCTGAATGAATG
64 ATTTCCCCTGAATGAATG
* * * * * * * *
7766770 GTGGAGTAGACACGTATT-TCAAAATAGATTTGTCTACCCAAAAAAGAGGCACAGATCTAGTATG
1 GTGAAGCAAACACGTCTTCT-AACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCT-
7766834 ATTTCCCCTGAATGAATG
64 ATTTCCCCTGAATGAATG
* * * * *
7766852 GTGAAGCAAACATGTCTTCTAACATAGATCTATCTACCCGATAAAGAGGCACAGATCGAGTCT-T
1 GTGAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCTAT
*
7766916 ATCCCCTTGAATGAATG
66 TTCCCC-TGAATGAATG
* * * *
7766933 GTGAAGCAAACACGTCTTCTAACATAGATATGTATACCCGAAAAAGAGACACAGATCGAGTCT-T
1 GTGAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCTAT
* * *
7766997 ATCTCCCTAAATGAATA
66 TTC-CCCTGAATGAATG
*
7767014 GTGGAGCAAACAC
1 GTGAAGCAAACAC
7767027 ATTTTTCAAA
Statistics
Matches: 355, Mismatches: 60, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
80 6 0.02
81 93 0.26
82 252 0.71
83 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (81 bp):
GTGAAGCAAACACGTCTTCTAACATAGATTTGTCTACCCGAAAAAGAGGCACAGATCAAGTCTAT
TTCCCCTGAATGAATG
Found at i:7767051 original size:81 final size:81
Alignment explanation
Indices: 7766790--7767070 Score: 230
Period size: 81 Copynumber: 3.5 Consensus size: 81
7766780 CACGTATTTC
* ** * * * * * * *
7766790 AAAATAGATTTGTCTACCCAAAAAAGAGGCACAGATCTAGTATGATTTCCCC-TGAATGAATGGT
1 AAAATAGATATGAATACCCGAAAAAGAGACACAGATCGAGTCT--TATCCCCTTAAATGAATAGT
*
7766854 GAAGCAAACATGTCTTCT
64 GAAGCAAACACGTCTTCT
* * * * * * *
7766872 AACATAGATCT-ATCTACCCGATAAAGAGGCACAGATCGAGTCTTATCCCCTTGAATGAATGGTG
1 AAAATAGATATGA-ATACCCGAAAAAGAGACACAGATCGAGTCTTATCCCCTTAAATGAATAGTG
7766936 AAGCAAACACGTCTTCT
65 AAGCAAACACGTCTTCT
* *
7766953 AACATAGATATGTATACCCGAAAAAGAGACACAGATCGAGTCTTATCTCCC-TAAATGAATAGTG
1 AAAATAGATATGAATACCCGAAAAAGAGACACAGATCGAGTCTTATC-CCCTTAAATGAATAGTG
* * *
7767017 GAGCAAACACAT-TTTT
65 AAGCAAACACGTCTTCT
* * * *
7767033 CAAAATTA-ATCTGAATACCAGAAAAAGTGAAACAGATC
1 -AAAA-TAGATATGAATACCCGAAAAAGAGACACAGATC
7767071 AAGTTTGACT
Statistics
Matches: 168, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
80 9 0.05
81 119 0.71
82 40 0.24
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (81 bp):
AAAATAGATATGAATACCCGAAAAAGAGACACAGATCGAGTCTTATCCCCTTAAATGAATAGTGA
AGCAAACACGTCTTCT
Found at i:7772444 original size:16 final size:17
Alignment explanation
Indices: 7772407--7772444 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7772397 GATAAAAAAA
*
7772407 TTAAACAAATTATTTGT
1 TTAAACAAATTATTTAT
7772424 TTAAACAAATTA-TTAT
1 TTAAACAAATTATTTAT
7772440 TTAAA
1 TTAAA
7772445 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAACAAATTATTTAT
Found at i:7772649 original size:29 final size:29
Alignment explanation
Indices: 7772613--7772694 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
7772603 AAAAATTCGG
*
7772613 TTAATTCGGTTCAGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
7772642 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
*
7772671 TTAATTCAGTTCGGTTAATAATTT
1 TTAATTCGGTTCGGTTAATAATTT
7772695 AAAAAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (29 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAA
Found at i:7772788 original size:29 final size:30
Alignment explanation
Indices: 7772755--7772818 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
7772745 GATTAATTCA
**
7772755 GTTAATAATTTTCAAATTTATTTT-GTTCG
1 GTTAATAATTTTCAAATAAATTTTGGTTCG
*
7772784 GTTAATAATTTTTAAATAAATTTTGGTTCG
1 GTTAATAATTTTCAAATAAATTTTGGTTCG
*
7772814 ATTAA
1 GTTAA
7772819 CCGAACCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.52
Consensus pattern (30 bp):
GTTAATAATTTTCAAATAAATTTTGGTTCG
Found at i:7772862 original size:103 final size:100
Alignment explanation
Indices: 7772651--7772869 Score: 287
Period size: 103 Copynumber: 2.2 Consensus size: 100
7772641 ATTAATTCGG
*
7772651 TTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTAAAAAAAATTGGTTTGATTAA
1 TTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTAAAAAAAATTGGTTCGATTAA
* * *
7772716 CCTAACCGAATTAACCAAACTTTTACTTCGATTAA
66 CCGAACCGAATTAACCAAACTTTTACTTCAATAAA
* * ** **
7772751 TTCAGTTAATAATTTTCAAATTTATTTTGTTCGGTTAATAATTTTTAAATAAATTTTGGTTCGAT
1 TTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAA--TTTAAA-AAAAATTGGTTCGAT
* *
7772816 TAACCGAACCGAATTAACCGAA-TATTTGCTTCAATAAA
63 TAACCGAACCGAATTAACCAAACT-TTTACTTCAATAAA
7772854 TTCGGTTAATAATTTT
1 TTCGGTTAATAATTTT
7772870 AAAAAAAATC
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
100 37 0.36
102 7 0.07
103 58 0.57
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (100 bp):
TTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTAAAAAAAATTGGTTCGATTAA
CCGAACCGAATTAACCAAACTTTTACTTCAATAAA
Found at i:7773038 original size:79 final size:80
Alignment explanation
Indices: 7772897--7773045 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 80
7772887 TAGTTCGGTA
* *
7772897 AATAATTTTCAAAATAAATTTTGATTCTATTAACCAAAACAAATTAACCAAATTTTTTCTTCGAT
1 AATAATTTTCAAAATAAATTTTGATTCAATTAACCAAAACAAATTAACCAAATTTTTGCTTCGAT
7772962 TAATTTATTCCTGTT
66 TAATTTATTCCTGTT
* * * **
7772977 AATAATTTTC-AAATAAATTTTGGTTCAATTAA-CGAAACGTTAATTAACTGAA-TTTTGCTTCG
1 AATAATTTTCAAAATAAATTTTGATTCAATTAACCAAAAC--AAATTAACCAAATTTTTGCTTCG
7773039 ATTAATT
64 ATTAATT
7773046 CGGTTTATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.08
79 36 0.60
80 19 0.32
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (80 bp):
AATAATTTTCAAAATAAATTTTGATTCAATTAACCAAAACAAATTAACCAAATTTTTGCTTCGAT
TAATTTATTCCTGTT
Found at i:7773104 original size:29 final size:29
Alignment explanation
Indices: 7773071--7773129 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
7773061 AACAAATTGG
* * *
7773071 TTAATTCGGTTTGGTTAATAGTTTTCAAA
1 TTAATTAGGTTCGGTTAATAATTTTCAAA
7773100 TTAATTAGGTTCGGTTAATAATTTTCAAA
1 TTAATTAGGTTCGGTTAATAATTTTCAAA
7773129 T
1 T
7773130 AAATATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (29 bp):
TTAATTAGGTTCGGTTAATAATTTTCAAA
Found at i:7781445 original size:18 final size:18
Alignment explanation
Indices: 7781396--7781439 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
7781386 TCCTTTATAT
7781396 CTAGAATAGACACAAGTC
1 CTAGAATAGACACAAGTC
7781414 CTAGAATAGACACAAGTC
1 CTAGAATAGACACAAGTC
*
7781432 TTAGAATA
1 CTAGAATA
7781440 TTCACACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (18 bp):
CTAGAATAGACACAAGTC
Found at i:7790107 original size:14 final size:15
Alignment explanation
Indices: 7790088--7790117 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7790078 ATTGTTGATT
7790088 TGAGTAAGAGG-AAA
1 TGAGTAAGAGGTAAA
7790102 TGAGTAAGAGGTAAA
1 TGAGTAAGAGGTAAA
7790117 T
1 T
7790118 ACGTTGTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (15 bp):
TGAGTAAGAGGTAAA
Found at i:7794334 original size:11 final size:11
Alignment explanation
Indices: 7794318--7794370 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
7794308 TCGAGTTAGT
7794318 AAAAAAATAAG
1 AAAAAAATAAG
7794329 AAAAAAATTGAAG
1 AAAAAAA-T-AAG
*
7794342 AAAAAAAGAAG
1 AAAAAAATAAG
*
7794353 AAAAAAA-AAC
1 AAAAAAATAAG
7794363 AAAAAAAT
1 AAAAAAAT
7794371 TTAAGAGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 9 0.24
11 17 0.46
12 1 0.03
13 10 0.27
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAG
Found at i:7794369 original size:24 final size:24
Alignment explanation
Indices: 7794318--7794369 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
7794308 TCGAGTTAGT
* *** *
7794318 AAAAAAATAAGAAAAAAATTGAAG
1 AAAAAAAGAAGAAAAAAAAACAAA
7794342 AAAAAAAGAAGAAAAAAAAACAAA
1 AAAAAAAGAAGAAAAAAAAACAAA
7794366 AAAA
1 AAAA
7794370 TTTAAGAGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAAAGAAGAAAAAAAAACAAA
Found at i:7795668 original size:173 final size:169
Alignment explanation
Indices: 7795359--7795700 Score: 639
Period size: 173 Copynumber: 2.0 Consensus size: 169
7795349 AAAGGGAAGT
7795359 TTCAATGAATCTGATTCTTGAGAATGTAAAGGGCCAAATTCCATTCATGACCTTTTGAATTTCTA
1 TTCAATGAATCTGATTCTTGAGAATGTAAAGGGCCAAATTCCATTCATGACCTTTTGAATTTCTA
*
7795424 TGTTCATTCATTTTATAATGGTGTTCCATGTTCTAACTTAGATTTATTTTGTAGAACATTGATTC
66 TGTTCATTCATTTTATAATGGTGTTCCATGTTCTAACTTAGATTTAATTTGTAGAACATTGATTC
7795489 ATGGAATTTCTTTTCCTTGTGATGATCGATTCTGATATG
131 ATGGAATTTCTTTTCCTTGTGATGATCGATTCTGATATG
7795528 TTCAATGAATCTGATTCTTGAGAATGTAAAGGGCCAAATTCCATTCATGACCTTTTATGAATTTT
1 TTCAATGAATCTGATTCTTGAGAATGTAAAGGGCCAAATTCCATTCATGACC-TTT-TGAA-TTT
7795593 CTATGTTCATTCATTTTATTAATGGTGTTCCATGTTCTAACTTAGATTTAATTTGTAGAACATTG
63 CTATGTTCATTCATTTTA-TAATGGTGTTCCATGTTCTAACTTAGATTTAATTTGTAGAACATTG
7795658 ATTCATGGAATTTCTTTTCCTTGTGATGATCGATTCTGATATG
127 ATTCATGGAATTTCTTTTCCTTGTGATGATCGATTCTGATATG
7795701 ATCCTGGTTA
Statistics
Matches: 168, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
169 52 0.31
170 3 0.02
171 4 0.02
172 21 0.12
173 88 0.52
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (169 bp):
TTCAATGAATCTGATTCTTGAGAATGTAAAGGGCCAAATTCCATTCATGACCTTTTGAATTTCTA
TGTTCATTCATTTTATAATGGTGTTCCATGTTCTAACTTAGATTTAATTTGTAGAACATTGATTC
ATGGAATTTCTTTTCCTTGTGATGATCGATTCTGATATG
Found at i:7799273 original size:13 final size:12
Alignment explanation
Indices: 7799249--7799289 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
7799239 CCGAGTTAGT
7799249 AAAAAAT-AAAA
1 AAAAAATCAAAA
7799260 AAAAAATCAGAAA
1 AAAAAATCA-AAA
7799273 AAAAAATTCAAAA
1 AAAAAA-TCAAAA
7799286 AAAA
1 AAAA
7799290 TTAAGAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.26
12 1 0.04
13 16 0.59
14 3 0.11
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (12 bp):
AAAAAATCAAAA
Found at i:7799275 original size:14 final size:13
Alignment explanation
Indices: 7799256--7799289 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7799246 AGTAAAAAAT
7799256 AAAAAAAAAATCA
1 AAAAAAAAAATCA
*
7799269 GAAAAAAAAATTCA
1 -AAAAAAAAAATCA
7799283 AAAAAAA
1 AAAAAAA
7799290 TTAAGAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATCA
Found at i:7800156 original size:21 final size:21
Alignment explanation
Indices: 7800132--7800171 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7800122 GAAACGAGAG
7800132 TTGAAAA-AGATATTGAGAGCA
1 TTGAAAAGAGA-ATTGAGAGCA
7800153 TTGAAAAGAGAATTGAGAG
1 TTGAAAAGAGAATTGAGAG
7800172 TGAAAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (21 bp):
TTGAAAAGAGAATTGAGAGCA
Found at i:7801388 original size:17 final size:16
Alignment explanation
Indices: 7801368--7801411 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
7801358 TTAATAAAGT
*
7801368 TAGTTCATTAATTAAAC
1 TAGTT-ATTAATCAAAC
*
7801385 TAGTTAATTCATCAAAC
1 TAGTT-ATTAATCAAAC
7801402 TAGTTATTAA
1 TAGTTATTAA
7801412 ACTAACTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (16 bp):
TAGTTATTAATCAAAC
Found at i:7804804 original size:31 final size:30
Alignment explanation
Indices: 7804739--7804806 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
7804729 ACAAGCCTTA
* * * *
7804739 GAAAA-TTTGGGGACCATTCTATAATTTTT
1 GAAAAGTTAGGGGACCATTCAACAATTTTG
*
7804768 AAAAAGTTAGGGGACCAATTCAACAATTTTG
1 GAAAAGTTAGGGGACC-ATTCAACAATTTTG
7804799 GAAAAGTT
1 GAAAAGTT
7804807 GTGAATGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 4 0.13
30 9 0.29
31 18 0.58
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (30 bp):
GAAAAGTTAGGGGACCATTCAACAATTTTG
Found at i:7809537 original size:131 final size:131
Alignment explanation
Indices: 7809368--7809603 Score: 384
Period size: 131 Copynumber: 1.8 Consensus size: 131
7809358 TTTTAGACGG
* *
7809368 AATATTAATATCTCTTTATTTCAATTGGGGTAATAAATGACTGTTTTAATGCACAAAAAT-TCAT
1 AATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGACTGTTTTAATGCAC-AAAATGTCAT
* * * *
7809432 TTATTCTAGATTGGAAATCATTATATGTTATCATTTTCACTTGAATCGATATTGACTTTTAAGAT
65 TTATTCTAGATTGGAAATAATAAGATATTATCATTTTCACTTGAATCGATATTGACTTTTAAGAT
7809497 GA
130 GA
7809499 AATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGACTGTTTTAATGCACAAAATGTCATT
1 AATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGACTGTTTTAATGCACAAAATGTCATT
* *
7809564 TATTCTCGATTGGAAATAATAAGATATTATCGTTTTCACT
66 TATTCTAGATTGGAAATAATAAGATATTATCATTTTCACT
7809604 CTTAAAATTA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
130 5 0.05
131 91 0.95
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (131 bp):
AATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGACTGTTTTAATGCACAAAATGTCATT
TATTCTAGATTGGAAATAATAAGATATTATCATTTTCACTTGAATCGATATTGACTTTTAAGATG
A
Found at i:7811360 original size:11 final size:11
Alignment explanation
Indices: 7811344--7811377 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7811334 CAACACCTTG
7811344 CATTGCATTTA
1 CATTGCATTTA
**
7811355 CATTGCATCCA
1 CATTGCATTTA
7811366 CATTGCATTTA
1 CATTGCATTTA
7811377 C
1 C
7811378 CTTTTCGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:7813095 original size:9 final size:9
Alignment explanation
Indices: 7813068--7813117 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
7813058 GTGGCAATTA
7813068 TTTTATACAT
1 TTTTAT-CAT
*
7813078 TTTCA-CAT
1 TTTTATCAT
7813086 TTTTATCAT
1 TTTTATCAT
7813095 TCTTTA-CAT
1 T-TTTATCAT
7813104 TCTTTATCAT
1 T-TTTATCAT
7813114 TTTT
1 TTTT
7813118 GACACTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 7 0.20
9 16 0.46
10 12 0.34
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTATCAT
Found at i:7813111 original size:19 final size:17
Alignment explanation
Indices: 7813068--7813116 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
7813058 GTGGCAATTA
7813068 TTTTATACATTTTCACAT
1 TTTTAT-CATTTTCACAT
*
7813086 TTTTATCATTCTTTACAT
1 TTTTATCATT-TTCACAT
7813104 TCTTTATCATTTT
1 T-TTTATCATTTT
7813117 TGACACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 15 0.54
19 9 0.32
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATCATTTTCACAT
Found at i:7813978 original size:1 final size:1
Alignment explanation
Indices: 7813972--7814245 Score: 332
Period size: 1 Copynumber: 274.0 Consensus size: 1
7813962 CATTCGAAAC
** ** ** ** **
7813972 AAAAAAAAAAAAAAAAAAAAAAAAAGGAAAAAGGAAAAAGGAAAAAGGAAAAAGGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
7814037 AAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
7814102 AAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
7814167 AAAAAAAAAAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAAAAGAAAAAAAGAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
7814232 AAAGAAAAAAAAAA
1 AAAAAAAAAAAAAA
7814246 GAAAGAAAGA
Statistics
Matches: 235, Mismatches: 38, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 235 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:7816356 original size:223 final size:223
Alignment explanation
Indices: 7815961--7816486 Score: 689
Period size: 223 Copynumber: 2.4 Consensus size: 223
7815951 TTTAATTTGC
* * ** * *
7815961 ATATTTTATATTCCCTGAGTGACAGCGGAACAAGTATGCCTTGATTCAATGGATCAACTCCTCAG
1 ATATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAT
* * *
7816026 ATCTGATATTCCCTTTAGAAGAAGTGGAACATATCCCTCTCTTCCCAGATTTGATATTCCCTGAG
66 ATCTGATATTCCCTTTAGAAGAAGTGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTAAG
* * *
7816091 TGAAAGCGGAATAAGTCTACCCCGATTCAATAGATCAACT-CCCTCAAATATGATATTCCCTTTA
131 TGAAAGCGGAACAAGTCTACCCCAATTCAATAGATCAACTCCCCT-AAATATAATATTCCCTTTA
*
7816155 GAAAAAGCGAAAC-ATGTCCCTCTCTTCCA
195 GAAAAAGCGAAACGA-ATCCCTCTCTTCCA
* * *
7816184 ATATTTGATATTCCCTGAGTGATAGCGAAACAAGTCGGCCCCGATTCAATGGATCAACTCCCCAT
1 ATATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAT
** * *
7816249 ATCTGATATTCCCTTTAGAAGAAGTGGATTAGATCCCTCTCTTCCAAGATTTTATATTTCCTAAG
66 ATCTGATATTCCCTTTAGAAGAAGTGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTAAG
* * * * *
7816314 TGACAA-CGGAACAAGTCTGCCCCAATTCAATGGATCAACTCCCCTAGATCTAATATTCCCTTTC
131 TGA-AAGCGGAACAAGTCTACCCCAATTCAATAGATCAACTCCCCTAAATATAATATTCCCTTTA
* * * *
7816378 GAAGAAGCGGAACGAATCTCTCTCTTTCA
195 GAAAAAGCGAAACGAATCCCTCTCTTCCA
* * * *
7816407 AGATTTGATATTTCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAATATCTCCA
1 ATATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAA-CTCCCCA
*
7816472 TATATGATATTCCCT
65 TATCTGATATTCCCT
7816487 GAGTAATAGC
Statistics
Matches: 262, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
223 236 0.90
224 26 0.10
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (223 bp):
ATATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAT
ATCTGATATTCCCTTTAGAAGAAGTGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTAAG
TGAAAGCGGAACAAGTCTACCCCAATTCAATAGATCAACTCCCCTAAATATAATATTCCCTTTAG
AAAAAGCGAAACGAATCCCTCTCTTCCA
Found at i:7816482 original size:112 final size:111
Alignment explanation
Indices: 7815963--7816486 Score: 654
Period size: 112 Copynumber: 4.7 Consensus size: 111
7815953 TAATTTGCAT
* * ** *
7815963 ATTTTATATTCCCTGAGTGACAGCGGAACAAGTATGCCTTGATTCAATGGATCAACTCCTCAGAT
1 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAGAT
* *
7816028 CTGATATTCCCTTTAGAAGAAGTGGAACATATCCCTCTCTTCCCAG
66 CTGATATTCCCTTTAGAAGAAGCGGAACATATCCCTCTCTTCCAAG
* * * * *
7816074 ATTTGATATTCCCTGAGTGAAAGCGGAATAAGTCTACCCCGATTCAATAGATCAACTCCCTCAAA
1 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCC-CAGA
* * * * *
7816139 TATGATATTCCCTTTAGAAAAAGCGAAACATGTCCCTCTCTTCCAAT
65 TCTGATATTCCCTTTAGAAGAAGCGGAACATATCCCTCTCTTCCAAG
* * * *
7816186 ATTTGATATTCCCTGAGTGATAGCGAAACAAGTCGGCCCCGATTCAATGGATCAACTCCCCATAT
1 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAGAT
* ** *
7816251 CTGATATTCCCTTTAGAAGAAGTGGATTAGATCCCTCTCTTCCAAG
66 CTGATATTCCCTTTAGAAGAAGCGGAACATATCCCTCTCTTCCAAG
* * * * *
7816297 ATTTTATATTTCCTAAGTGACAACGGAACAAGTCTGCCCCAATTCAATGGATCAACTCCCCTAGA
1 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC-AGA
* * * *
7816362 TCTAATATTCCCTTTCGAAGAAGCGGAACGA-ATCTCTCTCTTTCAAG
65 TCTGATATTCCCTTTAGAAGAAGCGGAAC-ATATCCCTCTCTTCCAAG
* * * *
7816409 ATTTGATATTTCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAATATCTCCATA
1 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAA-CTCCCCAGA
*
7816474 TATGATATTCCCT
65 TCTGATATTCCCT
7816487 GAGTAATAGC
Statistics
Matches: 351, Mismatches: 58, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
111 145 0.41
112 201 0.57
113 5 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (111 bp):
ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCAGAT
CTGATATTCCCTTTAGAAGAAGCGGAACATATCCCTCTCTTCCAAG
Found at i:7819040 original size:131 final size:131
Alignment explanation
Indices: 7818889--7819204 Score: 391
Period size: 131 Copynumber: 2.4 Consensus size: 131
7818879 TTAAGTTATA
* * * * * *
7818889 AGAGGTCATTTATTTTCGATTGGAAATAATTTGATATTGTCGTTTTCTCTCAAATTAATA-TCAA
1 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAATCAATATTCAA
* * * * *
7818953 TTTTTTAGACGGAATATTAATATATCTTTATTTCAATTGGGGTAATAAATTATTGTTTTAATGCA
66 -TTTTAAGACGAAATAGTAATATATCTTTATTTCAATTGGAGTAATAAATGATTGTTTTAATGCA
7819018 AG
130 AG
* * * * * ** * *
7819020 AGAGGTCATTTATTCACGATTGCAAATCATTAGATGTTATTATTTTCACTTGAATCAGTATTGAA
1 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAATCAATATTCAA
* * *
7819085 TTTTAAGATGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGTTTTAATGCAC
66 TTTTAAGACGAAATAGTAATATATCTTTATTTCAATTGGAGTAATAAATGATTGTTTTAATGCAA
7819150 G
131 G
* *
7819151 AAATGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAA
1 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAA
7819205 ATTATTTTGG
Statistics
Matches: 152, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
131 149 0.98
132 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (131 bp):
AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAATCAATATTCAA
TTTTAAGACGAAATAGTAATATATCTTTATTTCAATTGGAGTAATAAATGATTGTTTTAATGCAA
G
Found at i:7820155 original size:2 final size:2
Alignment explanation
Indices: 7820144--7820235 Score: 57
Period size: 2 Copynumber: 52.5 Consensus size: 2
7820134 GATCCCAAAA
* *
7820144 AT AT -T AT AT AT AT A- AT -T A- AT AT A- AA AT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7820180 AT -T AT AT AT AT AT A- AT -T A- AT AT A- AA AT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7820216 AT -T AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
7820236 ATCGGAGCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
1 13 0.18
2 60 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:7820195 original size:36 final size:36
Alignment explanation
Indices: 7820141--7820229 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 36
7820131 CCCGATCCCA
7820141 AAAATA-T-TATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATATAATTAATATAAAATATAT
7820175 AAAATATTATATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATATAATTAATATAAAATATAT
7820211 AAAATATTATATATATATA
1 AAAATATTATATATATATA
7820230 TATATAATCG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 6 0.11
35 1 0.02
36 46 0.87
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (36 bp):
AAAATATTATATATATATAATTAATATAAAATATAT
Found at i:7820210 original size:9 final size:9
Alignment explanation
Indices: 7820162--7820231 Score: 63
Period size: 9 Copynumber: 7.6 Consensus size: 9
7820152 TATATAATTA
7820162 ATATAAAAT
1 ATATAAAAT
7820171 ATATAAAAT
1 ATATAAAAT
*
7820180 AT-T-ATAT
1 ATATAAAAT
*
7820187 ATATATAATT
1 ATATA-AAAT
7820197 AATATAAAAT
1 -ATATAAAAT
7820207 ATATAAAAT
1 ATATAAAAT
*
7820216 ATTATATATAT
1 A-TATA-AAAT
7820227 ATATA
1 ATATA
7820232 TATAATCGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
7 5 0.10
8 2 0.04
9 21 0.42
10 13 0.26
11 9 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATAAAAT
Found at i:7827945 original size:32 final size:33
Alignment explanation
Indices: 7827904--7827972 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
7827894 CCTTACAAAC
* *
7827904 TCCCTAGTTTTTCA-GGGTTAAACTAGAACCAT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCAT
* *
7827936 TCCCTAGTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCAT
7827969 TCCC
1 TCCC
7827973 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCAT
Found at i:7828370 original size:19 final size:20
Alignment explanation
Indices: 7828321--7828377 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
7828311 CCGTTAGACA
*
7828321 GGGGGGAATCGGTACCCCTG
1 GGGGGGAATCTGTACCCCTG
7828341 GGGGGGAATCTGTACCCCT-
1 GGGGGGAATCTGTACCCCTG
*
7828360 GGGGGGAATCTTTACCCC
1 GGGGGGAATCTGTACCCC
7828378 CTGGACAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.16, C:0.26, G:0.39, T:0.19
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCTG
Found at i:7829961 original size:7 final size:7
Alignment explanation
Indices: 7829939--7830066 Score: 53
Period size: 7 Copynumber: 18.0 Consensus size: 7
7829929 TATAATGAAT
7829939 CCTAAAC
1 CCTAAAC
*
7829946 TCTTAAAC
1 -CCTAAAC
7829954 CCTAAAC
1 CCTAAAC
*
7829961 CATAATA-
1 CCTAA-AC
*
7829968 CCT-AGC
1 CCTAAAC
*
7829974 TCCTAATC
1 -CCTAAAC
7829982 CCTAAAC
1 CCTAAAC
7829989 CCTAAAC
1 CCTAAAC
** *
7829996 ATTAATC
1 CCTAAAC
*
7830003 CCTAACC
1 CCTAAAC
7830010 CTCTAAAC
1 C-CTAAAC
7830018 CCTAAAC
1 CCTAAAC
* *
7830025 CATAATC
1 CCTAAAC
* *
7830032 CTTAATC
1 CCTAAAC
* **
7830039 TCTAAGT
1 CCTAAAC
*
7830046 ACTAAAC
1 CCTAAAC
*
7830053 CCTAAAT
1 CCTAAAC
7830060 CCTAAAC
1 CCTAAAC
7830067 AATAAATAGT
Statistics
Matches: 88, Mismatches: 27, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
6 1 0.01
7 72 0.82
8 15 0.17
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.25
Consensus pattern (7 bp):
CCTAAAC
Found at i:7830001 original size:21 final size:22
Alignment explanation
Indices: 7829977--7830017 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7829967 ACCTAGCTCC
7829977 TAATCCCTAAACC-CTAAACAT
1 TAATCCCTAAACCTCTAAACAT
*
7829998 TAATCCCTAACCCTCTAAAC
1 TAATCCCTAAACCTCTAAAC
7830018 CCTAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
TAATCCCTAAACCTCTAAACAT
Found at i:7830017 original size:29 final size:28
Alignment explanation
Indices: 7829975--7830032 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
7829965 ATACCTAGCT
*
7829975 CCTAATCCCTAAACCCTAAA-CATTAATC
1 CCTAACCCCTAAACCCTAAACCA-TAATC
7830003 CCTAACCCTCTAAACCCTAAACCATAATC
1 CCTAACCC-CTAAACCCTAAACCATAATC
7830032 C
1 C
7830033 TTAATCTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.26
29 18 0.67
30 2 0.07
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (28 bp):
CCTAACCCCTAAACCCTAAACCATAATC
Found at i:7831850 original size:11 final size:11
Alignment explanation
Indices: 7831834--7831923 Score: 108
Period size: 11 Copynumber: 7.9 Consensus size: 11
7831824 CATTAACCTG
7831834 TCGAGCTTGAA
1 TCGAGCTTGAA
*
7831845 TCGAGCTTCAAA
1 TCGAGCTT-GAA
7831857 TCGAGCTTGAA
1 TCGAGCTTGAA
*
7831868 TCGAGCTTCAAA
1 TCGAGCTT-GAA
7831880 TCGAGCTTGAA
1 TCGAGCTTGAA
**
7831891 TCGAGCTCCAAA
1 TCGAGCT-TGAA
*
7831903 TCGAGCTTCAA
1 TCGAGCTTGAA
7831914 TCGAGCTTGA
1 TCGAGCTTGA
7831924 GTTTCGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
11 38 0.57
12 29 0.43
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:7831860 original size:23 final size:23
Alignment explanation
Indices: 7831834--7831921 Score: 158
Period size: 23 Copynumber: 3.8 Consensus size: 23
7831824 CATTAACCTG
7831834 TCGAGCTTGAATCGAGCTTCAAA
1 TCGAGCTTGAATCGAGCTTCAAA
7831857 TCGAGCTTGAATCGAGCTTCAAA
1 TCGAGCTTGAATCGAGCTTCAAA
*
7831880 TCGAGCTTGAATCGAGCTCCAAA
1 TCGAGCTTGAATCGAGCTTCAAA
*
7831903 TCGAGCTTCAATCGAGCTT
1 TCGAGCTTGAATCGAGCTT
7831922 GAGTTTCGAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTTCAAA
Found at i:7838795 original size:90 final size:90
Alignment explanation
Indices: 7838673--7838848 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 90
7838663 TAATCCCGAA
* * * *
7838673 TATTTAATTTCAATTAATTAAATATAGTTTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
7838738 TAGGGTAACTTGAATATAAAATGAT
66 TAGGGTAACTTGAATATAAAATGAT
*
7838763 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTATTATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
**
7838828 TAGGGTAACTTGGCTATAAAA
66 TAGGGTAACTTGAATATAAAA
7838849 GGGTGTGTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACTTGAATATAAAATGAT
Found at i:7845314 original size:59 final size:60
Alignment explanation
Indices: 7845239--7845389 Score: 214
Period size: 59 Copynumber: 2.5 Consensus size: 60
7845229 AGATTAGATC
* * **
7845239 CAACTTCAAAATGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAGTACTTGG-TTT
1 CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAACACTTGGATTT
* * *
7845298 CAACTTCACAACGAAGGATATCCAACTCAAAACTAATTTGGTGAAACAACCCTTGGATTT
1 CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAACACTTGGATTT
* *
7845358 CAACTTCACAACGAATGATATCCAATTCAAAG
1 CAACTTCACAACGAAGGATATCCAACTCAAAG
7845390 ATGAACTTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 49 0.60
60 32 0.40
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (60 bp):
CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAACACTTGGATTT
Found at i:7845463 original size:66 final size:66
Alignment explanation
Indices: 7845353--7845495 Score: 207
Period size: 66 Copynumber: 2.2 Consensus size: 66
7845343 ACAACCCTTG
* * *
7845353 GATTTCAACTTCACAACGAATGATATCCAATTCAAAGATGAACTTCACAACGAATGAGCCATCCA
1 GATTTCAACTTCACAACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAAGGAGCCATCCA
7845418 C
66 C
* * * *
7845419 GATTTCAACTTCACGACGAAGGATATCCAATTTC-AGGCTCAACTTCACAACGAAGGGGCCATCC
1 GATTTCAACTTCACAACGAAGGATATCCAA-TTCAAAGATCAACTTCACAACGAAGGAGCCATCC
7845483 AC
65 AC
7845485 GATTTCAACTT
1 GATTTCAACTT
7845496 TATGATGAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 66 0.96
67 3 0.04
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (66 bp):
GATTTCAACTTCACAACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAAGGAGCCATCCA
C
Found at i:7845564 original size:120 final size:120
Alignment explanation
Indices: 7845419--7845645 Score: 341
Period size: 120 Copynumber: 1.9 Consensus size: 120
7845409 AGCCATCCAC
* *
7845419 GATTTCAACTTCACGACGAAGGATATCCAATTTC-AGG-CTCAACTTCACAACGAAGGGGCCATC
1 GATTTAAACTTCACGACGAAAGATATCCAA-TTCAAGGAC-CAACTTCACAACGAAGGGGCCATC
* * *
7845482 CACGATTTCAACTTTATGATGAAGGACATCGTGCCCACAAGCAACATACAATACTTG
64 CACGATTTCAACTTCACGATGAAGGACATCGCGCCCACAAGCAACATACAATACTTG
* * *
7845539 GATTTAAACTTCACGATGAAAGATATCCAATTCAAGGACCAATTTCACAATGAAGGGGCCATCCA
1 GATTTAAACTTCACGACGAAAGATATCCAATTCAAGGACCAACTTCACAACGAAGGGGCCATCCA
*
7845604 CGATTTCAACTTCACGATGAAGGATATCGCGCCCACAAGCAA
66 CGATTTCAACTTCACGATGAAGGACATCGCGCCCACAAGCAA
7845646 AATCCTTCTC
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 3 0.03
120 92 0.96
121 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (120 bp):
GATTTAAACTTCACGACGAAAGATATCCAATTCAAGGACCAACTTCACAACGAAGGGGCCATCCA
CGATTTCAACTTCACGATGAAGGACATCGCGCCCACAAGCAACATACAATACTTG
Found at i:7851211 original size:21 final size:21
Alignment explanation
Indices: 7851185--7851229 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
7851175 GGGTATATAG
7851185 GGATTTTATCTCAGATTTAGA
1 GGATTTTATCTCAGATTTAGA
*
7851206 GGATTTTGTCTCAGATTTAGA
1 GGATTTTATCTCAGATTTAGA
7851227 GGA
1 GGA
7851230 GTTTGAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (21 bp):
GGATTTTATCTCAGATTTAGA
Found at i:7851234 original size:21 final size:21
Alignment explanation
Indices: 7851193--7851234 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7851183 AGGGATTTTA
*
7851193 TCTCAGATTTAGAGGATTTTG
1 TCTCAGATTTAGAGGAGTTTG
7851214 TCTCAGATTTAGAGGAGTTTG
1 TCTCAGATTTAGAGGAGTTTG
7851235 AGATTTCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (21 bp):
TCTCAGATTTAGAGGAGTTTG
Found at i:7854089 original size:20 final size:20
Alignment explanation
Indices: 7854066--7854107 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7854056 AAAAATAACT
*
7854066 TGGAAAACTAAAAAGGAAAA
1 TGGAAAACTAAAAAGAAAAA
* *
7854086 TGGAAAAGTAAATAGAAAAA
1 TGGAAAACTAAAAAGAAAAA
7854106 TG
1 TG
7854108 CCCAAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.14
Consensus pattern (20 bp):
TGGAAAACTAAAAAGAAAAA
Found at i:7854209 original size:19 final size:19
Alignment explanation
Indices: 7854185--7854230 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
7854175 TGCAATCCTA
*
7854185 AAAATAACTAAGATAATTC
1 AAAATAAATAAGATAATTC
7854204 AAAATAAATAAGATAATTC
1 AAAATAAATAAGATAATTC
*
7854223 TAAATAAA
1 AAAATAAA
7854231 AATTCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATAAATAAGATAATTC
Found at i:7854236 original size:13 final size:15
Alignment explanation
Indices: 7854208--7854242 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
7854198 TAATTCAAAA
7854208 TAAATAAGATAATTC
1 TAAATAAGATAATTC
7854223 TAAATAA-A-AATTC
1 TAAATAAGATAATTC
7854236 TAAATAA
1 TAAATAA
7854243 TACTAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 7 0.35
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAATAAGATAATTC
Found at i:7861855 original size:13 final size:13
Alignment explanation
Indices: 7861837--7861861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7861827 TTCTTTGAGT
7861837 AAAAAATTAATTA
1 AAAAAATTAATTA
7861850 AAAAAATTAATT
1 AAAAAATTAATT
7861862 TTTCAAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAATTAATTA
Found at i:7862781 original size:15 final size:16
Alignment explanation
Indices: 7862751--7862792 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7862741 ATACTAATCT
7862751 AATAAAAAGAGAGAAA
1 AATAAAAAGAGAGAAA
*
7862767 AATAAGAAG-GAGAAA
1 AATAAAAAGAGAGAAA
*
7862782 AGAAAAAAAGA
1 A-ATAAAAAGA
7862793 AGGGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (16 bp):
AATAAAAAGAGAGAAA
Found at i:7862792 original size:19 final size:20
Alignment explanation
Indices: 7862762--7862811 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7862752 ATAAAAAGAG
*
7862762 AGAAAAATAAGAA-GGAGAAA
1 AGAAAAA-AAGAAGGGAAAAA
7862782 AGAAAAAAAGAAGGGAAAAA
1 AGAAAAAAAGAAGGGAAAAA
7862802 AGAAAGAAAA
1 AGAAA-AAAA
7862812 AAAAGGGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 18 0.67
21 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AGAAAAAAAGAAGGGAAAAA
Found at i:7862805 original size:25 final size:25
Alignment explanation
Indices: 7862777--7862843 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
7862767 AATAAGAAGG
7862777 AGAAAAGAAAAAAAGAAGGGAAAAA
1 AGAAAAGAAAAAAAGAAGGGAAAAA
* *
7862802 AG-AAAGAAAAAAA-AGGGGGAAAAT
1 AGAAAAGAAAAAAAGA-AGGGAAAAA
*
7862826 AGAAAAGATAGAAAAGAA
1 AGAAAAGA-AAAAAAGAA
7862844 AAAGATAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 1 0.03
24 20 0.59
25 7 0.21
26 5 0.15
27 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (25 bp):
AGAAAAGAAAAAAAGAAGGGAAAAA
Found at i:7862848 original size:15 final size:15
Alignment explanation
Indices: 7862828--7862905 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 15
7862818 GGGAAAATAG
7862828 AAAAGATAGAAAAGA
1 AAAAGATAGAAAAGA
7862843 AAAAGATAGAAAAGA
1 AAAAGATAGAAAAGA
*
7862858 AAAA-ATAAGAAATGA
1 AAAAGAT-AGAAAAGA
* *
7862873 GGAAA-A-AGAAAAGG
1 -AAAAGATAGAAAAGA
* *
7862887 AAAAGAGAAAAAAGA
1 AAAAGATAGAAAAGA
7862902 AAAA
1 AAAA
7862906 AGAAAAAAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.06
14 9 0.17
15 36 0.69
16 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAAGATAGAAAAGA
Found at i:7862902 original size:7 final size:7
Alignment explanation
Indices: 7862837--7862914 Score: 61
Period size: 7 Copynumber: 10.7 Consensus size: 7
7862827 GAAAAGATAG
7862837 AAAAG-A
1 AAAAGAA
7862843 AAAAGATA
1 AAAAGA-A
7862851 GAAAAGAA
1 -AAAAGAA
*
7862859 AAAATAA
1 AAAAGAA
*
7862866 GAAATGAGGA
1 -AAA--AGAA
7862876 AAAAG-A
1 AAAAGAA
*
7862882 AAAGGAA
1 AAAAGAA
*
7862889 AAGAGAA
1 AAAAGAA
7862896 AAAAGAA
1 AAAAGAA
7862903 AAAAGAA
1 AAAAGAA
7862910 AAAAG
1 AAAAG
7862915 CGAGAGAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
6 10 0.17
7 32 0.55
8 5 0.09
9 9 0.16
10 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:7866816 original size:20 final size:20
Alignment explanation
Indices: 7866779--7866817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7866769 AGATTGAGTG
* * *
7866779 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGCTTGCAC
7866799 GATTTTAATGATGCTTGCA
1 GATTTTAATGATGCTTGCA
7866818 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGCTTGCAC
Found at i:7867031 original size:20 final size:21
Alignment explanation
Indices: 7866986--7867045 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
7866976 ATTCCCCTGT
7866986 GGGGGAATCGGTTCCCTTCAAA
1 GGGGGAATCGGTTCCC-TCAAA
7867008 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
7867028 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
7867046 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 16 0.44
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:7873089 original size:21 final size:23
Alignment explanation
Indices: 7873047--7873089 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
7873037 TAATTCTATC
7873047 GAATATACTTAGAAAATCATTTG
1 GAATATACTTAGAAAATCATTTG
*
7873070 GAATAT-CTTA-AAATTCATTT
1 GAATATACTTAGAAAATCATTT
7873090 AACTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (23 bp):
GAATATACTTAGAAAATCATTTG
Found at i:7874942 original size:45 final size:45
Alignment explanation
Indices: 7874850--7875016 Score: 151
Period size: 45 Copynumber: 3.7 Consensus size: 45
7874840 ACATATTGAT
* * *
7874850 AGAAGAGTCGACCTTTTAGTGTCGTC-TTCCTTGACTTTATCGCAA
1 AGAAGAGTCGATCTTTTAGTGTTGTCATT-CTTGACTTTATCACAA
* *
7874895 AGAAGAGTTGATCTTTTAGTGTTGTCATTCTTGACTTTATCATAA
1 AGAAGAGTCGATCTTTTAGTGTTGTCATTCTTGACTTTATCACAA
* * * * * *
7874940 AG-AGAAGTCAATCTTTCAGTGTTTTGATTCTTGACTTTCTCAGAA
1 AGAAG-AGTCGATCTTTTAGTGTTGTCATTCTTGACTTTATCACAA
* * * *
7874985 ATATGAGTCAAT-TTGTTAGTGATGTCATTCTT
1 AGAAGAGTCGATCTT-TTAGTGTTGTCATTCTT
7875017 AATTTGACTT
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
44 4 0.04
45 93 0.93
46 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (45 bp):
AGAAGAGTCGATCTTTTAGTGTTGTCATTCTTGACTTTATCACAA
Found at i:7876305 original size:81 final size:82
Alignment explanation
Indices: 7875781--7876333 Score: 536
Period size: 82 Copynumber: 6.7 Consensus size: 82
7875771 TGAAAGAAAA
* * * * **
7875781 GTGAAACAGACCCGTCTTCCAACATTGATCTGTATACCCAAAAAAAGAGGCACAGATCAAGTCTG
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTA-CCTGAAAAAGAGGCACAGATCAAGTCTG
7875846 ATTTCCCCTGAATGAATG
65 ATTTCCCCTGAATGAATG
* * * * * * *
7875864 GTGAAGCAGACATGTCTACCAACATTGATTTGTTTACCTGAAAAATAAGCACAGATCAAGTCTGA
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGTCTGA
7875929 TTTCCCCTGAATGAATG
66 TTTCCCCTGAATGAATG
* * * * * * *
7875946 GTGGAGTAGACATGTCTTCCAACATTGATTTGTCTACCTGAAAAAGAGGCGCAAATCAAGTCTGA
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGTCTGA
*
7876011 TTTCCCTTGAATGAATG
66 TTTCCCCTGAATGAATG
* * * * * * ** * *
7876028 GTGGAGTAGACACATATTTCAAAATAGATCTGTCTACCCAAAAAAAGAGGCACAGATCCAGTATG
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTA-CCTGAAAAAGAGGCACAGATCAAGTCTG
7876093 ATTTCCCCTGAATGAATG
65 ATTTCCCCTGAATGAATG
* * * **
7876111 GTGAAGCAAACACGTCTTCTAACATAGATCTGTCTACCCGAAAAAGAGGCACAGATTGAGTCT--
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGTCTGA
*
7876174 TATCCCCTTGAATGAATG
66 TTTCCCC-TGAATGAATG
* * * * * * *
7876192 GTAAAGCAAACACGTCTTCTAACATAGGTCTGACTACCTGAAAAAGAGGCACAGATCGAGTCTTA
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGTCTGA
* * *
7876257 TCT-CCCTAAATGAATA
66 TTTCCCCTGAATGAATG
* * * * * ** * * **
7876273 GTGGAGCAGACATGTTTTCCAAAATTGATCTGAATACCCGAAAAAGTGAAACAGATCAAGT
1 GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGT
7876334 GAGACTTATC
Statistics
Matches: 396, Mismatches: 70, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
80 6 0.02
81 122 0.31
82 169 0.43
83 99 0.25
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (82 bp):
GTGAAGCAGACACGTCTTCCAACATAGATCTGTCTACCTGAAAAAGAGGCACAGATCAAGTCTGA
TTTCCCCTGAATGAATG
Found at i:7881754 original size:16 final size:17
Alignment explanation
Indices: 7881717--7881754 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7881707 GATAAAAAAA
*
7881717 TTAAACAAATTATTTGT
1 TTAAACAAATTATTTAT
7881734 TTAAACAAATTA-TTAT
1 TTAAACAAATTATTTAT
7881750 TTAAA
1 TTAAA
7881755 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAACAAATTATTTAT
Found at i:7882060 original size:30 final size:29
Alignment explanation
Indices: 7881996--7882064 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
7881986 CTTCGATTAA
* * **
7881996 TTCGGTTAATAATTTTTAAATTTATTCTG
1 TTCGATTAATAATTTTCAAATAAATTCTG
*
7882025 TTCGATTAATAATTTTCAAATAAATTTTGG
1 TTCGATTAATAATTTTCAAATAAATTCT-G
7882055 TTCGATTAAT
1 TTCGATTAAT
7882065 CGAACTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (29 bp):
TTCGATTAATAATTTTCAAATAAATTCTG
Found at i:7882117 original size:73 final size:74
Alignment explanation
Indices: 7882030--7882191 Score: 247
Period size: 73 Copynumber: 2.2 Consensus size: 74
7882020 TTCTGTTCGA
* * *
7882030 TTAATAATTTTCAAATAAATTTTGGTTCGATTAATCG-AACTGAATTAACTGAATTTTT-CTTCA
1 TTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAAC-AAATTAACTGAATTTTTGCTTCA
7882093 ATAAATTCAG
65 ATAAATTCAG
*
7882103 TTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACTGAATTTTTGCTTCGA
1 TTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACTGAATTTTTGCTTCAA
* *
7882168 TTAATTCGG
66 TAAATTCAG
7882177 TTAATAATTTTCAAA
1 TTAATAATTTTCAAA
7882192 AAACAAATCG
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
73 51 0.63
74 30 0.37
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (74 bp):
TTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACTGAATTTTTGCTTCAA
TAAATTCAG
Found at i:7882341 original size:111 final size:113
Alignment explanation
Indices: 7882098--7882348 Score: 357
Period size: 111 Copynumber: 2.2 Consensus size: 113
7882088 CTTCAATAAA
*
7882098 TTCAGTTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACTGAATTTTTGC
1 TTCAGTTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACCGAATTTTTGC
* *
7882163 TTCGATTAATTCGGTTAATAATTTTCAAAAAACAAATCGGTTAATTCGG
66 TTCAATTAATTCGGTT-ATAATTTTCAAAAAACAAATCGGTTAATTCAG
* * *
7882212 TCCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCG-AACATTAATTAACCGAATTTTT
1 TTCAGTTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACA--AATTAACCGAATTTTT
* * *
7882276 TCTTCAATTAATTTGG-T-TAATTTTC-AAAAACAAATTGGTTAATTCAG
64 GCTTCAATTAATTCGGTTATAATTTTCAAAAAACAAATCGGTTAATTCAG
*
7882323 TTCAGTTAATAATTTTCAAATTAATT
1 TTCAGTTAATAATTTTCAAATAAATT
7882349 CAGCTCAGTT
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
111 43 0.35
112 8 0.07
113 4 0.03
114 40 0.33
115 28 0.23
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (113 bp):
TTCAGTTAATAATTTTCAAATAAATTTTGCTTCGATTAACCGAAACAAATTAACCGAATTTTTGC
TTCAATTAATTCGGTTATAATTTTCAAAAAACAAATCGGTTAATTCAG
Found at i:7882348 original size:29 final size:29
Alignment explanation
Indices: 7882314--7882372 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7882304 AACAAATTGG
*
7882314 TTAATTCAGTTCAGTTAATAATTTTCAAA
1 TTAATTCAGCTCAGTTAATAATTTTCAAA
7882343 TTAATTCAGCTCAGTTAATAATTTTCAAA
1 TTAATTCAGCTCAGTTAATAATTTTCAAA
7882372 T
1 T
7882373 ATATATTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (29 bp):
TTAATTCAGCTCAGTTAATAATTTTCAAA
Found at i:7882499 original size:68 final size:68
Alignment explanation
Indices: 7882393--7882535 Score: 200
Period size: 68 Copynumber: 2.1 Consensus size: 68
7882383 TCAATTAACC
* * * *
7882393 GAACCGAATTATCCGAATATTTTTCTTTAACCGTTAATCGAACTAAAATTAATTTGAAAATGATT
1 GAACCGAATTAACCAAATATTTTTCTTTAACCATTAATCAAACTAAAATTAATTTGAAAATGATT
7882458 AATT
66 -ATT
* * *
7882462 GAACCGAATTAACTAAAT-TTTTTCTTTAACCATTAATCAAACTAAAATTTATTTGAAAATTATT
1 GAACCGAATTAACCAAATATTTTTCTTTAACCATTAATCAAACTAAAATTAATTTGAAAATGATT
7882526 ATT
66 ATT
7882529 -AACCGAA
1 GAACCGAA
7882536 CCGAACAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 7 0.10
67 3 0.04
68 42 0.63
69 15 0.22
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (68 bp):
GAACCGAATTAACCAAATATTTTTCTTTAACCATTAATCAAACTAAAATTAATTTGAAAATGATT
ATT
Found at i:7886752 original size:107 final size:107
Alignment explanation
Indices: 7886563--7886789 Score: 359
Period size: 107 Copynumber: 2.1 Consensus size: 107
7886553 GTTCATATGG
*
7886563 TACCGATACCAAAGGTATGGGAAGTATCGATACTCACATGGTAGTACCGATACTACCAACATTGC
1 TACCGATACCAAAGGTATCGGAAGTATCGATACTCACATGGTAGTACCGATACTACCAACATTGC
7886628 TCAAATTCCAGAATGCAAAAATGGTACCGATATCC-AAAGGGA
66 TCAAATTCCAGAATGCAAAAATGGTACCGATA-CCAAAAGGGA
* *
7886670 TATCGATACCAAAGGTATCGGAAGTATCGATACTCACGA-GGTAGTATCGATACTACCAACATTG
1 TACCGATACCAAAGGTATCGGAAGTATCGATACTCAC-ATGGTAGTACCGATACTACCAACATTG
* * * *
7886734 CTCAAATTCTAGAATGCAAAAATGGTATCGGTACCAAAAGGGG
65 CTCAAATTCCAGAATGCAAAAATGGTACCGATACCAAAAGGGA
7886777 TACCGATACCAAA
1 TACCGATACCAAA
7886790 AGTAAGTATC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
106 2 0.02
107 107 0.97
108 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (107 bp):
TACCGATACCAAAGGTATCGGAAGTATCGATACTCACATGGTAGTACCGATACTACCAACATTGC
TCAAATTCCAGAATGCAAAAATGGTACCGATACCAAAAGGGA
Found at i:7894071 original size:21 final size:21
Alignment explanation
Indices: 7894047--7894095 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
7894037 TTTTCAATGA
*
7894047 TGACATGATATTTCCTTATAG
1 TGACATGACATTTCCTTATAG
*
7894068 TGACATGACATTTTCTTATAG
1 TGACATGACATTTCCTTATAG
7894089 TGACATG
1 TGACATG
7894096 CCAACATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (21 bp):
TGACATGACATTTCCTTATAG
Found at i:7894954 original size:31 final size:29
Alignment explanation
Indices: 7894876--7894958 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 29
7894866 TTCGACAATA
* *
7894876 TAATAATTATTTTATAGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTA-ATAAATT
* *
7894907 TATTAATAATTTATAATCTTTTAATAAATT
1 TAATAATATTTTATAAT-TTTTAATAAATT
7894937 TAATAAGTATTTTATAATTTTT
1 TAATAA-TATTTTATAATTTTT
7894959 TAAACTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 25 0.57
31 19 0.43
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TAATAATATTTTATAATTTTTAATAAATT
Found at i:7894960 original size:31 final size:30
Alignment explanation
Indices: 7894876--7894961 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
7894866 TTCGACAATA
* *
7894876 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* * *
7894907 TATTAATAATTTATAATCTTTTAATAAATT
1 TAATAATATTTTATAATTTTTTAATAAATT
7894937 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
7894962 ACTTTATTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 19 0.42
31 26 0.58
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:7895663 original size:11 final size:10
Alignment explanation
Indices: 7895637--7895720 Score: 59
Period size: 11 Copynumber: 8.3 Consensus size: 10
7895627 TCAATAAAGT
*
7895637 TTAAAAATTA
1 TTAAATATTA
*
7895647 TAAAATACTTA
1 TTAAATA-TTA
7895658 TTAAAT-TTA
1 TTAAATATTA
7895667 TTAAAATATTA
1 TT-AAATATTA
7895678 -TAAA-ATTA
1 TTAAATATTA
*
7895686 TTAAAAATTTA
1 TTAAATA-TTA
*
7895697 TTTAAATACTA
1 -TTAAATATTA
7895708 -TAAATAATTA
1 TTAAAT-ATTA
7895718 TTA
1 TTA
7895721 TATTATCGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
8 4 0.07
9 17 0.29
10 14 0.24
11 18 0.31
12 6 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAAATATTA
Found at i:7895681 original size:19 final size:21
Alignment explanation
Indices: 7895640--7895691 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
7895630 ATAAAGTTTA
7895640 AAAATTA-TAAAATACTTATT
1 AAAATTATTAAAATACTTATT
*
7895660 AAATTTATTAAAATA-TTA-T
1 AAAATTATTAAAATACTTATT
7895679 AAAATTATTAAAA
1 AAAATTATTAAAA
7895692 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 9 0.31
21 7 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTATTAAAATACTTATT
Found at i:7895694 original size:30 final size:31
Alignment explanation
Indices: 7895637--7895722 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
7895627 TCAATAAAGT
*
7895637 TTAAAA-ATTATAAAA-TACTTATTAAATTTA
1 TTAAAATATTATAAAATTA-TTATAAAATTTA
7895667 TTAAAATATTATAAAATTATTA-AAAATTTA
1 TTAAAATATTATAAAATTATTATAAAATTTA
* *
7895697 TTTAAATACTATAAATAATTATTATA
1 TTAAAATATTAT-AA-AATTATTATA
7895723 TTATCGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 23 0.48
31 14 0.29
32 10 0.21
33 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAAATATTATAAAATTATTATAAAATTTA
Found at i:7895703 original size:20 final size:19
Alignment explanation
Indices: 7895641--7895703 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
7895631 TAAAGTTTAA
*
7895641 AAATTA-TAAAATACTTATT
1 AAATTATTAAAA-ATTTATT
*
7895660 AAATTTATT-AAAATATTATA
1 AAA-TTATTAAAAAT-TTATT
7895680 AAATTATTAAAAATTTATTT
1 AAATTATTAAAAATTTA-TT
7895700 AAAT
1 AAAT
7895704 ACTATAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
19 12 0.33
20 23 0.64
21 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTATTAAAAATTTATT
Found at i:7897156 original size:20 final size:20
Alignment explanation
Indices: 7897131--7897196 Score: 132
Period size: 20 Copynumber: 3.3 Consensus size: 20
7897121 AACAAAAGTG
7897131 ATAGTTGAGGTACTAAACTT
1 ATAGTTGAGGTACTAAACTT
7897151 ATAGTTGAGGTACTAAACTT
1 ATAGTTGAGGTACTAAACTT
7897171 ATAGTTGAGGTACTAAACTT
1 ATAGTTGAGGTACTAAACTT
7897191 ATAGTT
1 ATAGTT
7897197 TACCCATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
ATAGTTGAGGTACTAAACTT
Found at i:7897219 original size:40 final size:40
Alignment explanation
Indices: 7897131--7897206 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
7897121 AACAAAAGTG
***
7897131 ATAGTTGAGGTACTAAACTTATAGTTGAGGTACTAAACTT
1 ATAGTTGAGGTACTAAACTTATAGTTGACCCACTAAACTT
*
7897171 ATAGTTGAGGTACTAAACTTATAGTTTACCCA-TAAA
1 ATAGTTGAGGTACTAAACTTATAGTTGACCCACTAAA
7897207 TCTTTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (40 bp):
ATAGTTGAGGTACTAAACTTATAGTTGACCCACTAAACTT
Found at i:7900812 original size:21 final size:21
Alignment explanation
Indices: 7900786--7900836 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
7900776 GGATTTAAAT
7900786 CCGATCCGGATCGGATAAAAA
1 CCGATCCGGATCGGATAAAAA
7900807 CCGATCCGGATCGGATAAAAA
1 CCGATCCGGATCGGATAAAAA
7900828 CCGATCCGG
1 CCGATCCGG
7900837 TTTTTTCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.14
Consensus pattern (21 bp):
CCGATCCGGATCGGATAAAAA
Found at i:7901617 original size:19 final size:20
Alignment explanation
Indices: 7901595--7901633 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7901585 TTTGGGAAAA
*
7901595 ATCGG-TTTTTTTTAACCGG
1 ATCGGATTTTTTTAAACCGG
7901614 ATCGGATTTTTTTAAACCGG
1 ATCGGATTTTTTTAAACCGG
7901634 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
ATCGGATTTTTTTAAACCGG
Found at i:7904018 original size:21 final size:21
Alignment explanation
Indices: 7903994--7904033 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7903984 GTTATTTTAT
7903994 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
7904015 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
7904034 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:7904126 original size:32 final size:32
Alignment explanation
Indices: 7904022--7904127 Score: 151
Period size: 32 Copynumber: 3.3 Consensus size: 32
7904012 GTAAACTTTG
7904022 TTTCAATTATCGAACTT-GAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
* *
7904053 TTTGAATTTATCGAACTTGAAAGTTTTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTTTTTAAGTA
* * *
7904086 TTTGAATTATCAAACTTGGAAGTATTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
7904118 TTTCAATTAT
1 TTTCAATTAT
7904128 GTTGAGTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
31 5 0.07
32 43 0.64
33 19 0.28
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
Found at i:7904616 original size:15 final size:15
Alignment explanation
Indices: 7904561--7904617 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
7904551 ATCTGGAATA
*
7904561 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
* *
7904576 TTATAACCGATTTTT
1 TTAAAACCGGTTTTT
*
7904591 TAAAAAAAACCGGTTTTT
1 T---TAAAACCGGTTTTT
7904609 TTAAAACCG
1 TTAAAACCG
7904618 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
15 20 0.62
18 12 0.38
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:7904734 original size:15 final size:17
Alignment explanation
Indices: 7904708--7904739 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7904698 TTCTATGAGA
7904708 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
7904724 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
7904740 CGGTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:7918822 original size:2 final size:2
Alignment explanation
Indices: 7918817--7918841 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7918807 TATATATATA
7918817 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7918842 ATGTATACAA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7920081 original size:37 final size:37
Alignment explanation
Indices: 7919981--7920191 Score: 171
Period size: 37 Copynumber: 5.9 Consensus size: 37
7919971 TTGGGTGTTA
** * *
7919981 TTTCTCTCGAAACAAAATGTCGTCTCGC-TGAAGACATT
1 TTTCTCTTAAAAC-AAATTTCGTCTCACTTG-AGACATT
*
7920019 ATTT-TCTTAAAAACAAATTTTGTCTCACTTGAGACATT
1 -TTTCTCTT-AAAACAAATTTCGTCTCACTTGAGACATT
* *
7920057 TTTCTCTTGAAACAAATTTCGTCTCACTTGAGTCA-T
1 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACATT
*
7920093 TTTCCCTTAGAACACAAA--T--T-TCA---GAG-C-TGT
1 TTTCTCTTA-AA-ACAAATTTCGTCTCACTTGAGACAT-T
*
7920123 TTT-TCTTAAAACAAATTTTGTCTCACTTGAGACATT
1 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACATT
*
7920159 TTTCTTTTAAAACAAATTTCGTCTCACTTGAGA
1 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGA
7920192 TGTTTTCCTT
Statistics
Matches: 141, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
27 5 0.04
28 2 0.01
29 6 0.04
30 7 0.05
31 1 0.01
32 3 0.02
33 3 0.02
34 1 0.01
35 3 0.02
36 14 0.10
37 57 0.40
38 30 0.21
39 9 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (37 bp):
TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACATT
Found at i:7920086 original size:21 final size:20
Alignment explanation
Indices: 7920029--7920087 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
7920019 ATTTTCTTAA
7920029 AAACAAATTTTGTCTCACTTG
1 AAACAAA-TTTGTCTCACTTG
* *
7920050 AGAC--ATTT-T-TCTCTTG
1 AAACAAATTTGTCTCACTTG
7920066 AAACAAATTTCGTCTCACTTG
1 AAACAAATTT-GTCTCACTTG
7920087 A
1 A
7920088 GTCATTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
16 9 0.31
17 1 0.03
18 7 0.24
19 1 0.03
20 1 0.03
21 10 0.34
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (20 bp):
AAACAAATTTGTCTCACTTG
Found at i:7920209 original size:102 final size:101
Alignment explanation
Indices: 7920020--7920300 Score: 329
Period size: 102 Copynumber: 2.8 Consensus size: 101
7920010 GAAGACATTA
*
7920020 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTGAAACAAATTTCGTCTCACT
1 TTTTCTT-AAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
*
7920085 TGAGTCATTTTCCCTTAGAACACAAATTTCAGAGCTGT
65 TGAG-CATTTTCCCTTAGAACACAAATTTCAAAGCTGT
*
7920123 TTTTCTTAAAACAAATTTTGTCTCACTTGAGACATTTTTCTTTTAAAACAAATTTCGTCTCACTT
1 TTTTCTTAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACTT
* * *
7920188 GAG-ATGTTTTCCTTCGAAACACAAATTTCAAAGTTGT
66 GAGCAT-TTTCCCTTAG-AACACAAATTTCAAAGCTGT
* * * * * ** *
7920225 TTTAT-TTGAACCAAA-TTTGTCT-AGCTTGAGACA-ATTTCTCTCAAAAAAAACATCGTCTCGC
1 TTT-TCTTAAAACAAATTTTGTCTCA-CTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCAC
*
7920286 TTGAGACATTCTCCC
64 TTGAG-CATTTTCCC
7920301 AAAATTTTGA
Statistics
Matches: 155, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
100 29 0.19
101 28 0.18
102 90 0.58
103 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (101 bp):
TTTTCTTAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACTT
GAGCATTTTCCCTTAGAACACAAATTTCAAAGCTGT
Found at i:7920416 original size:74 final size:73
Alignment explanation
Indices: 7920331--7920522 Score: 194
Period size: 74 Copynumber: 2.6 Consensus size: 73
7920321 ATAAAATTGA
* *
7920331 TCTCACATGAGATAGTTTTAC-AAATAACAAATTTTGTCTCCCTGGAGACAATT-TTCATT-AAA
1 TCTCACTTGAGATAGTTTTACTAAA-AACAAATTTTGTCTCCCTGGAGACAATTGCTC-TTGAAA
7920393 AAACGAATTTTG
64 AAA--AATTTTG
* * * * * *
7920405 TCTCACTTGAGACAATTTTTACTCAAAACAAATTTTGTCTCCCTTGAGACAGTTGCTCTTGAAAC
1 TCTCACTTGAGA-TAGTTTTACTAAAAACAAATTTTGTCTCCCTGGAGACAATTGCTCTTGAAAA
7920470 AAAATTTTG
65 AAAATTTTG
* **
7920479 TCTCCCTTGAGATAG-TTTATCTTGAAACAAAGTTTTGTCTCCCT
1 TCTCACTTGAGATAGTTTTA-CTAAAAACAAA-TTTTGTCTCCCT
7920523 TCAGGCAGTT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
72 4 0.04
73 10 0.10
74 41 0.41
75 35 0.35
76 9 0.09
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (73 bp):
TCTCACTTGAGATAGTTTTACTAAAAACAAATTTTGTCTCCCTGGAGACAATTGCTCTTGAAAAA
AAATTTTG
Found at i:7920523 original size:74 final size:72
Alignment explanation
Indices: 7920356--7920598 Score: 238
Period size: 73 Copynumber: 3.3 Consensus size: 72
7920346 TTTTACAAAT
* * * * * *
7920356 AACAAATTTTGTCTCCCTGGAGACAATTTTCATT-AAAAAACGAATTTTGTCTCACTTGAGACAA
1 AACAAATTTTGTCTCCCTTGAGACAGTTCTC-TTGAAACAA--AATTTTGTCTCCCTTGAGACAG
* **
7920420 TTTTTACTCAA
63 TTTAT-CTTGA
*
7920431 AACAAATTTTGTCTCCCTTGAGACAGTTGCTCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
1 AACAAATTTTGTCTCCCTTGAGACAGTT-CTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
7920496 TATCTTGA
65 TATCTTGA
* * * ** *
7920504 AACAAAGTTTTGTCTCCCTTCAGGCAGTTTCCCTTGAAAC-AAATTTCATCTCCCTTGAAACAGT
1 AACAAA-TTTTGTCTCCCTTGAGACAG-TTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGT
* *
7920568 TTCTCATGA
64 TTATCTTGA
7920577 AACAAAATTTTGTCTCCCTTGA
1 AAC-AAATTTTGTCTCCCTTGA
7920599 AACACAAAAT
Statistics
Matches: 143, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
73 53 0.37
74 53 0.37
75 30 0.21
76 7 0.05
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (72 bp):
AACAAATTTTGTCTCCCTTGAGACAGTTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTT
ATCTTGA
Found at i:7920533 original size:37 final size:36
Alignment explanation
Indices: 7920356--7920598 Score: 245
Period size: 37 Copynumber: 6.6 Consensus size: 36
7920346 TTTTACAAAT
* * *
7920356 AACAAATTTTGTCTCCCTGGAGACAATTT-TCATTAAAA
1 AACAAATTTTGTCTCCCTTGAGACAGTTTCTC-TT--GA
* * * * **
7920394 AACGAATTTTGTCTCACTTGAGACAATTTTTACTCAA
1 AACAAATTTTGTCTCCCTTGAGACAGTTTCT-CTTGA
*
7920431 AACAAATTTTGTCTCCCTTGAGACAGTTGCTCTTGA
1 AACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
* *
7920467 AACAAAATTTTGTCTCCCTTGAGATAGTTTATCTTGA
1 AAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
* * *
7920504 AACAAAGTTTTGTCTCCCTTCAGGCAGTTTCCCTTGA
1 AACAAA-TTTTGTCTCCCTTGAGACAGTTTCTCTTGA
** * *
7920541 AACAAATTTCATCTCCCTTGAAACAGTTTCTCATGA
1 AACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
7920577 AACAAAATTTTGTCTCCCTTGA
1 AAC-AAATTTTGTCTCCCTTGA
7920599 AACACAAAAT
Statistics
Matches: 172, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
36 35 0.20
37 108 0.63
38 26 0.15
39 2 0.01
40 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
AACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
Found at i:7920875 original size:77 final size:76
Alignment explanation
Indices: 7920625--7920955 Score: 363
Period size: 75 Copynumber: 4.4 Consensus size: 76
7920615 ATCTGATTCC
* ** *
7920625 CTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAATAATACATTTCATTTCACTCA
1 CTTAAAACAAGATTTGTCTCGCTTGAGACAACTTTTACTCAAAAAAATACATTTCATTTCACTCA
*
7920690 TGATTG-TTTT
66 AGATTGTTTTT
** * *
7920700 CTTAAAACAAGATTTGTCTCATTTGAGACAACTTTTGCT-AAAAAAATACATTTCATTTTACTCA
1 CTTAAAACAAGATTTGTCTCGCTTGAGACAACTTTTACTCAAAAAAATACATTTCATTTCACTCA
7920764 AGATTGTTTTT
66 AGATTGTTTTT
* * *
7920775 -TT-AAACAAGATTTGTCTCACTTGAGACAGA-TTTTGCTCGAAAAAAATACATTTCATTTTACT
1 CTTAAAACAAGATTTGTCTCGCTTGAGACA-ACTTTTACTC-AAAAAAATACATTTCATTTCACT
7920837 CAAGATTGTTTTT
64 CAAGATTGTTTTT
** * *
7920850 CTTAAAAC-AGACTTTGTCTCGCTTGAGA-ATTTTTTTTACTCAAAACAAGA-ATATTCATTTCA
1 CTTAAAACAAGA-TTTGTCTCGCTTGAGACA--ACTTTTACTCAAAAAAATACAT-TTCATTTCA
* *
7920912 ATCAAGATTGTTTTC
62 CTCAAGATTGTTTTT
* *
7920927 CTTAAAACCAAAATTTATCTCGCTTGAGA
1 CTTAAAA-CAAGATTTGTCTCGCTTGAGA
7920956 TAGTTTCCCT
Statistics
Matches: 224, Mismatches: 20, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
73 32 0.14
74 30 0.13
75 75 0.33
76 8 0.04
77 54 0.24
78 23 0.10
79 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (76 bp):
CTTAAAACAAGATTTGTCTCGCTTGAGACAACTTTTACTCAAAAAAATACATTTCATTTCACTCA
AGATTGTTTTT
Found at i:7921092 original size:53 final size:53
Alignment explanation
Indices: 7921021--7921263 Score: 213
Period size: 52 Copynumber: 4.5 Consensus size: 53
7921011 AAGTTTTTTT
* *
7921021 AGAAACTAAGCCTGATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTGAA
1 AGAAACTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTCAA
* * * * *
7921074 ATAAGCTAAGCCTAA-TTTTAGGGGTTTCCTAAAGTTTTCGAATGAATTTCAA
1 AGAAACTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTCAA
* * * * ** **
7921126 AGAAATTAAGCCTACTTTTTAGGGATTTCTTGATGTTTTCAAATGCGTTT-TT
1 AGAAACTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTCAA
* * * * * *
7921178 AGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGATAATTTTC-AATGATTTTTTAAA
1 AGAAACTAAGCCTAATTTTTAGGGGTTTCTT-A--AT-GTTTTCAAATGA--ATTTCAA
7921236 AGGAAACTAAGCCTAATTTTTAGGGGTT
1 A-GAAACTAAGCCTAATTTTTAGGGGTT
7921264 CCTTGGCAAC
Statistics
Matches: 146, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
52 69 0.47
53 39 0.27
55 6 0.04
56 5 0.03
57 3 0.02
58 1 0.01
59 23 0.16
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (53 bp):
AGAAACTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTCAA
Found at i:7921788 original size:133 final size:133
Alignment explanation
Indices: 7921548--7922287 Score: 933
Period size: 133 Copynumber: 5.6 Consensus size: 133
7921538 ACAACGACCC
* * * * *
7921548 ACGAGATGTTGGTGCTGATATACCTAATTTTGTTATAGAATCGAGTTAAAAGTTGACGCTGATCC
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
* * * * * *
7921613 AACTCCTCCTGTGATGGATTTTAGCAAAAATAAAAATTTCGATCCAGCTCTTTCTGTGATGGAAT
66 AACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
7921678 CGA
131 CGA
* * * * *
7921681 ATGAGATGTTGGTACTGATCTACCTCATTTTATGATAGAATCGAGTTAAAAGTT-ATCGCTGATC
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGA-CGCTGATC
*
7921745 CAACTCATTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAA
65 CAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAA
7921810 TCGA
130 TCGA
** * * * * * *
7921814 GTGAGATATTGGTGCTGATCTACATCCTTCTATGATAGAATCGAGCTAAAAGTTGACGTTGATCT
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
* * * * *
7921879 AAATCCTTCTGCGATGGATTTGAGCGAAAATAAAAATATCGATTCATCTTCTTCTGTGATGGAAT
66 AACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
7921944 CGA
131 CGA
* **
7921947 ACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACTTTGATCC
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
* *
7922012 AACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
66 AACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
7922077 CGA
131 CGA
* * * ** * * * *
7922080 ACAAGAAGTCGGTGCTGGCCTACTTCCTTCTGTGATAGAATCGAGCTAAAAGTTGATGCTGATAC
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
* * * * *
7922145 AAATCATTTTGCGATGGATTTGAGCAAAAATAAAAATGTCAATCCATCTCATTCTGTGATGGAAT
66 AACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
*
7922210 TGA
131 CGA
** * * * * * * *
7922213 ACGAGATGTTGACGCTGATCTACCTCCTTCTGTTATAGAATCGAGCCAAAAGTTAATGATAATCC
1 ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
7922278 AACTCCTTCT
66 AACTCCTTCT
7922288 TCTATGGAAT
Statistics
Matches: 526, Mismatches: 79, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
132 1 0.00
133 524 1.00
134 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (133 bp):
ACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCC
AACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCATCTCCTTCTGTGATGGAAT
CGA
Found at i:7922702 original size:39 final size:39
Alignment explanation
Indices: 7922660--7923311 Score: 957
Period size: 39 Copynumber: 16.8 Consensus size: 39
7922650 TGTTTAAAGA
* * * * *
7922660 GAAACTATCTTAAGTGAGATAAAATCTTTTGTTTCGAGA
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
*
7922699 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7922738 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTCCGAGA
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
7922777 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
7922816 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
*
7922855 GAAACCATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7922894 GAAACCATCTCAAGCGAGACAAAATCTTCTGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7922933 GAAACCATCTCAAGCGAGACAAAATCTTCTGTTTCCAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7922972 GAAACCATCTCAAGCGAGAC-AAATCTTATGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7923010 GAAACCATCTCAAGCGAGACAAAATCTTATGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* * * * *
7923049 GAAACCATCTCAAGCGAGATAACATATTCTGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7923088 GAAACTATCTCAAGCGAGAC-AAATCTTCTGTTTCAAGT
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* * **
7923126 GAAACTATCTCAAGCGAGACAAAATCTTATATTTTAAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
7923165 GAACCTATCTCAAGCGAGACAAAATCTTCTTTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* * *
7923204 GAAACCATCTCAAGCGAGACAAAATCTTCTATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* * *
7923243 GAAACTATCTCACGCGAGATAAAATCTTCTGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
*
7923282 GAAACTATCTCAAGCGAGATAAAATCTTCT
1 GAAACTATCTCAAGCGAGACAAAATCTTCT
7923312 TTAAAATAAT
Statistics
Matches: 569, Mismatches: 42, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
38 71 0.12
39 498 0.88
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (39 bp):
GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
Found at i:7923019 original size:22 final size:22
Alignment explanation
Indices: 7922994--7923058 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
7922984 AGCGAGACAA
7922994 ATCTTATGTTTCGAGGGAAACC
1 ATCTTATGTTTCGAGGGAAACC
* * **
7923016 ATCTCAAG---CGAGACAAA--
1 ATCTTATGTTTCGAGGGAAACC
7923033 ATCTTATGTTTCGAGGGAAACC
1 ATCTTATGTTTCGAGGGAAACC
7923055 ATCT
1 ATCT
7923059 CAAGCGAGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 6 0.20
19 7 0.23
20 7 0.23
22 10 0.33
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
ATCTTATGTTTCGAGGGAAACC
Found at i:7923434 original size:76 final size:77
Alignment explanation
Indices: 7923283--7923457 Score: 184
Period size: 76 Copynumber: 2.4 Consensus size: 77
7923273 GTTTCAAGGG
* * * * *
7923283 AAACTATCTCAAGCGAGATAAAATCTT-CTTT----AAAATAATCTTGAGTGAAATGAAATGTCT
1 AAACTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAAAAACAATATTGAGTGAAATGAAATGTCT
*
7923343 TCTTTTAAGTAA
66 TCTTTCAAGTAA
* *
7923355 AAACTGTCTCAAGGGAGA-AAAATCTTGTTTTAAGAAAAACAATATTGAGTGAAAT-AAATCTTC
1 AAACTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAAAAACAATATTGAGTGAAATGAAAT-GTC
* * *
7923418 TTGTTTCGAGTTA
65 TTCTTTCAAGTAA
*
7923431 AAACTGTCTCAAGCGAGACATAATCTT
1 AAACTGTCTCAAGCGAGACAAAATCTT
7923458 CTGTTTCAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
71 8 0.10
72 19 0.23
75 4 0.05
76 46 0.55
77 7 0.08
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (77 bp):
AAACTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAAAAACAATATTGAGTGAAATGAAATGTCT
TCTTTCAAGTAA
Found at i:7928525 original size:23 final size:22
Alignment explanation
Indices: 7928482--7928525 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7928472 ACAAAAGACG
* *
7928482 ATAAAAAAATTAAAAATATAAA
1 ATAAAAAAAATAAAAACATAAA
7928504 ATAAAATAAAATAAAAACATAA
1 ATAAAA-AAAATAAAAACATAA
7928526 TTGCATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (22 bp):
ATAAAAAAAATAAAAACATAAA
Found at i:7930289 original size:12 final size:12
Alignment explanation
Indices: 7930272--7930299 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7930262 TACTTTTTTT
7930272 AAAAAAATAAAA
1 AAAAAAATAAAA
7930284 AAAAAAATAAAA
1 AAAAAAATAAAA
7930296 AAAA
1 AAAA
7930300 CAAAAAAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:7934576 original size:13 final size:13
Alignment explanation
Indices: 7934558--7934586 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7934548 AAAACTTAAT
7934558 TAAATATTAAAAC
1 TAAATATTAAAAC
7934571 TAAATATTAAAAC
1 TAAATATTAAAAC
7934584 TAA
1 TAA
7934587 TAATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAATATTAAAAC
Found at i:7939336 original size:41 final size:40
Alignment explanation
Indices: 7939258--7939339 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
7939248 GTTGATTTGG
* **
7939258 CGCCACGTGGGGTATAGCGCGCCCCCTGTTCCGCGCTATA
1 CGCCACGTGGGGTATAGCGCGCCCCCTGCTCAACGCTATA
*
7939298 CGCCACGTAGGGGTATAGCGCGGCCCCTGCTCAACGCTATA
1 CGCCACGT-GGGGTATAGCGCGCCCCCTGCTCAACGCTATA
7939339 C
1 C
7939340 CTTGGTACGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.16, C:0.37, G:0.29, T:0.18
Consensus pattern (40 bp):
CGCCACGTGGGGTATAGCGCGCCCCCTGCTCAACGCTATA
Found at i:7943003 original size:26 final size:24
Alignment explanation
Indices: 7942974--7943045 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
7942964 AAAATCCAAC
7942974 AAATTTAACAAAATAAAGTAAGTATT
1 AAATTTAACAAAATAAAGTAA--ATT
*
7943000 AAA-TGAGA-AATAATAAA--AAATT
1 AAATTTA-ACAA-AATAAAGTAAATT
7943022 ACAATTTAACAAAATAAAGTAAAT
1 A-AATTTAACAAAATAAAGTAAAT
7943046 ACAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 6 0.16
25 8 0.22
26 10 0.27
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.26
Consensus pattern (24 bp):
AAATTTAACAAAATAAAGTAAATT
Found at i:7943177 original size:9 final size:9
Alignment explanation
Indices: 7943160--7943209 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
7943150 CTCGTTGTCA
7943160 TCATCATCG
1 TCATCATCG
*
7943169 TCATTATCG
1 TCATCATCG
* *
7943178 TCGTCATGG
1 TCATCATCG
7943187 TCATCATCG
1 TCATCATCG
* *
7943196 TCGTCGTCG
1 TCATCATCG
7943205 TCATC
1 TCATC
7943210 CTAAGCAGGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (9 bp):
TCATCATCG
Found at i:7943189 original size:18 final size:18
Alignment explanation
Indices: 7943163--7943209 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7943153 GTTGTCATCA
*
7943163 TCATCGTCATTATCGTCG
1 TCATCGTCATCATCGTCG
*
7943181 TCATGGTCATCATCGTCG
1 TCATCGTCATCATCGTCG
*
7943199 TCGTCGTCATC
1 TCATCGTCATC
7943210 CTAAGCAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (18 bp):
TCATCGTCATCATCGTCG
Found at i:7943576 original size:18 final size:18
Alignment explanation
Indices: 7943553--7943587 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7943543 ATGGAAAGGC
*
7943553 TGCGGCATCATATATGGT
1 TGCGGCATCATAAATGGT
7943571 TGCGGCATCATAAATGG
1 TGCGGCATCATAAATGG
7943588 CTACGGTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
TGCGGCATCATAAATGGT
Found at i:7945565 original size:18 final size:18
Alignment explanation
Indices: 7945542--7945581 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7945532 AAAAAAAAAA
7945542 ACTCACACAG-CATGTCAC
1 ACTCACA-AGCCATGTCAC
*
7945560 ACTCACATGCCATGTCAC
1 ACTCACAAGCCATGTCAC
7945578 ACTC
1 ACTC
7945582 GAAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.30, C:0.40, G:0.10, T:0.20
Consensus pattern (18 bp):
ACTCACAAGCCATGTCAC
Found at i:7946541 original size:15 final size:15
Alignment explanation
Indices: 7946521--7946553 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7946511 CAAGTTGACT
7946521 GAGTCAACTCAGATC
1 GAGTCAACTCAGATC
7946536 GAGTCAACTCAGATC
1 GAGTCAACTCAGATC
7946551 GAG
1 GAG
7946554 CTGAGTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (15 bp):
GAGTCAACTCAGATC
Found at i:7954764 original size:33 final size:33
Alignment explanation
Indices: 7954722--7954787 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
7954712 CGTGAATGTG
7954722 CCTTGAATGAAGTAAACAAGCATGGAATTACAT
1 CCTTGAATGAAGTAAACAAGCATGGAATTACAT
7954755 CCTTGAATGAAGTAAACAAGCATGGAATTACAT
1 CCTTGAATGAAGTAAACAAGCATGGAATTACAT
7954788 GCTCTTCGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (33 bp):
CCTTGAATGAAGTAAACAAGCATGGAATTACAT
Found at i:7962240 original size:21 final size:21
Alignment explanation
Indices: 7962215--7962277 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
7962205 AGTTGAAGCT
7962215 TGAAGATGAATTTGAACTGTG
1 TGAAGATGAATTTGAACTGTG
7962236 TGAAGATGAATTTGAACTGTG
1 TGAAGATGAATTTGAACTGTG
7962257 TGAAGATGAATTTGAACTGTG
1 TGAAGATGAATTTGAACTGTG
7962278 ATACTATTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (21 bp):
TGAAGATGAATTTGAACTGTG
Found at i:7964395 original size:61 final size:61
Alignment explanation
Indices: 7964272--7964393 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
7964262 GAAGGCTGAT
7964272 GATATTTTGGGCATAAAGTTATGCTTTTATATTCAACACCAAACGACGTCGTTTTTAAGGG
1 GATATTTTGGGCATAAAGTTATGCTTTTATATTCAACACCAAACGACGTCGTTTTTAAGGG
7964333 GATATTTTGGGCATAAAGTTATGCTTTTATATTCAACACCAAACGACGTCG-TTTTAAGGG
1 GATATTTTGGGCATAAAGTTATGCTTTTATATTCAACACCAAACGACGTCGTTTTTAAGGG
7964393 G
1 G
7964394 GACGGGTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 10 0.16
61 51 0.84
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (61 bp):
GATATTTTGGGCATAAAGTTATGCTTTTATATTCAACACCAAACGACGTCGTTTTTAAGGG
Found at i:7964951 original size:30 final size:30
Alignment explanation
Indices: 7964917--7965055 Score: 99
Period size: 30 Copynumber: 4.7 Consensus size: 30
7964907 CTTAATTTTA
*
7964917 TGTTTTTACTATTTTAGTTCTTTAAATGTT
1 TGTTTTTACTATTTTAGTCCTTTAAATGTT
** *
7964947 TGTTTTTGTTATTTTAGTCCTTTAAATGTC
1 TGTTTTTACTATTTTAGTCCTTTAAATGTT
* * * *
7964977 TATATTTT-CTATTTT--CCCCTTAAGT-TT
1 TGT-TTTTACTATTTTAGTCCTTTAAATGTT
* * * *
7965004 CTATTTTTACCATTTTAGTCCTTTGAGT-TT
1 -TGTTTTTACTATTTTAGTCCTTTAAATGTT
*
7965034 TGGTTTTTACTATTTTGGTCCT
1 T-GTTTTTACTATTTTAGTCCT
7965056 AAAGTTTATG
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
27 5 0.06
28 16 0.19
29 1 0.01
30 60 0.70
31 4 0.05
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.60
Consensus pattern (30 bp):
TGTTTTTACTATTTTAGTCCTTTAAATGTT
Found at i:7965874 original size:17 final size:17
Alignment explanation
Indices: 7965836--7965874 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7965826 GTAGACCAAC
7965836 TTTTTGTCTTAAAAATGG
1 TTTTTGTCTTAAAAAT-G
*
7965854 TTTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
7965870 TTTTT
1 TTTTT
7965875 AAAAGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:7967533 original size:27 final size:25
Alignment explanation
Indices: 7967494--7967543 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
7967484 GGATCAATAT
*
7967494 TTTTGCATCTGTATTTTCATCTTTTCA
1 TTTTGCATATGTA-TTTCAT-TTTTCA
7967521 TTTTGCATATGTATTTCATTTTT
1 TTTTGCATATGTATTTCATTTTT
7967544 AAGCATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 12 0.55
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTGCATATGTATTTCATTTTTCA
Found at i:7970994 original size:64 final size:63
Alignment explanation
Indices: 7970861--7971002 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
7970851 TTTTATCTCT
* * * * ** *
7970861 TTTGAGACAGTTTCTTTTGAGAAACTCTTCGAGTCTGTTTCTCTGGAAACAAAGTTGTGTCTC
1 TTTGAGATAGTTTCTTTTGAGAAAATCTTCGAGTCTGTTTCTCTGGAAAAAAAATTGTAACCC
* * *
7970924 TCTTGAGATAGTTTCTTTTGAGAAAAATCTTTGTGTCTGTTTCTTTGGAAAAAAAATT-TAACAC
1 T-TTGAGATAGTTTCTTTTGAG-AAAATCTTCGAGTCTGTTTCTCTGGAAAAAAAATTGTAAC-C
7970988 C
63 C
*
7970989 TTTGAGATTGTTTC
1 TTTGAGATAGTTTC
7971003 CCTTGAAACA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
63 1 0.02
64 33 0.51
65 31 0.48
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (63 bp):
TTTGAGATAGTTTCTTTTGAGAAAATCTTCGAGTCTGTTTCTCTGGAAAAAAAATTGTAACCC
Found at i:7971519 original size:133 final size:131
Alignment explanation
Indices: 7971280--7971741 Score: 556
Period size: 133 Copynumber: 3.5 Consensus size: 131
7971270 ACCATTAACC
** *
7971280 CTAAAGATGGCCTACCATCCTCATCACGTAGGAGCCGTGTCATCCCTCGACTAGACCTCCTCATC
1 CTAAAGATGGCCTACCATCCTCATCACGTAGGAATCGTGTCATCCCTCGACCAGACCTCCTCATC
* * *
7971345 ACGTAGGAGCCGTGTCACCCCTGATAA-CATGTCGTCCTCATCATGTAGGAACTGTGTTATCACC
66 ACGTAAGAGCCGTGTCACCCCTGATAACCA-GTCGTCCTCATCACGTAGGAACCGTGTTATCACC
7971409 CTT
130 C-T
* * * * *
7971412 CTTAAAGATGGCCTATCATCCTCATCATGTAAGAATCGTGTCATCCCTTGACCATACCTCCTCAT
1 C-TAAAGATGGCCTACCATCCTCATCACGTAGGAATCGTGTCATCCCTCGACCAGACCTCCTCAT
* * *
7971477 CACGTAAGAGCCATGTCACCCCTGATAACCAG-CTGTCCTCATCACGTAGGAACCATGTTATCAT
65 CACGTAAGAGCCGTGTCACCCCTGATAACCAGTC-GTCCTCATCACGTAGGAACCGTGTTATCAC
7971541 CC-
129 CCT
* * *
7971543 CTAAAGATGGCCTACCATCCTCATCACGTAGGAA-CTGTATCATCCCCCGACCAGACCTTCTCAT
1 CTAAAGATGGCCTACCATCCTCATCACGTAGGAATC-GTGTCATCCCTCGACCAGACCTCCTCAT
* * * *
7971607 CACGTAAGAGCCGTGTCACCCCTAGATAACCAGTCGTACTCATCGCATAGGAACCGTGTTGTCAC
65 CACGTAAGAGCCGTGTCACCCCT-GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCAC
7971672 CCT
129 CCT
* * * * * *
7971675 CCCTAAAGATGGCCAATAAC-TCTTCATCACGTATGATTAGTGTCATCCCTCGACCAGATCTCCT
1 --CTAAAGATGGCC--TACCATCCTCATCACGTAGGAATCGTGTCATCCCTCGACCAGACCTCCT
7971739 CAT
62 CAT
7971742 TATGTAGGAG
Statistics
Matches: 280, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
129 1 0.00
130 75 0.27
131 36 0.13
132 3 0.01
133 110 0.39
134 14 0.05
135 38 0.14
136 3 0.01
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (131 bp):
CTAAAGATGGCCTACCATCCTCATCACGTAGGAATCGTGTCATCCCTCGACCAGACCTCCTCATC
ACGTAAGAGCCGTGTCACCCCTGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCC
T
Found at i:7977244 original size:17 final size:17
Alignment explanation
Indices: 7977222--7977261 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
7977212 GTAATGATCT
7977222 CATGTATGAAGATCATA
1 CATGTATGAAGATCATA
7977239 CATGTATGAAGATCATA
1 CATGTATGAAGATCATA
7977256 CATGTA
1 CATGTA
7977262 GTCATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (17 bp):
CATGTATGAAGATCATA
Found at i:7982069 original size:31 final size:31
Alignment explanation
Indices: 7982025--7982194 Score: 250
Period size: 31 Copynumber: 5.5 Consensus size: 31
7982015 GTTTATTGTT
* * * *
7982025 ATTTGTAAAAAGTACGAGTTATTATTTTATA
1 ATTTCTAATAAGTATGAGTTGTTATTTTATA
* * *
7982056 ATTTCTAATAAGTACGAGTTATTAATTTATA
1 ATTTCTAATAAGTATGAGTTGTTATTTTATA
7982087 ATTTCTAATAAGTATGAGTTGTTATTTTATA
1 ATTTCTAATAAGTATGAGTTGTTATTTTATA
*
7982118 ATTTTTAATAAGTATGAGTTGTTATTTTATA
1 ATTTCTAATAAGTATGAGTTGTTATTTTATA
*
7982149 ATTTGTAATAAGTATGAGTTGTTATTTTATA
1 ATTTCTAATAAGTATGAGTTGTTATTTTATA
*
7982180 ATTTCTAAAAAGTAT
1 ATTTCTAATAAGTAT
7982195 ATGTAATTAT
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTTCTAATAAGTATGAGTTGTTATTTTATA
Found at i:7982292 original size:28 final size:27
Alignment explanation
Indices: 7982236--7982295 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
7982226 CATATGTGTG
7982236 ATTTATAAAAATAGTTGTTTGTATCATA
1 ATTTATAAAAATA-TTGTTTGTATCATA
* *
7982264 ATTTATAAAAGAT-TTGTCTTTTATTATA
1 ATTTATAAAA-ATATTGT-TTGTATCATA
7982292 ATTT
1 ATTT
7982296 TCTAAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 22 0.79
29 2 0.07
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (27 bp):
ATTTATAAAAATATTGTTTGTATCATA
Found at i:7982339 original size:29 final size:30
Alignment explanation
Indices: 7982300--7982356 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
7982290 TAATTTTCTA
*
7982300 AAAAGTGTTATCC-TTAATTTTAATTTATTG
1 AAAAGTGTTATCCTTTAA-TGTAATTTATTG
7982330 AAAA-TGTTATCCTTTAATGTAATTTAT
1 AAAAGTGTTATCCTTTAATGTAATTTAT
7982357 AAATGATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (30 bp):
AAAAGTGTTATCCTTTAATGTAATTTATTG
Found at i:7983581 original size:45 final size:45
Alignment explanation
Indices: 7983465--7983958 Score: 818
Period size: 45 Copynumber: 11.1 Consensus size: 45
7983455 ATCAATAAAT
* * * *
7983465 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
* *
7983510 TT-CCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
* *
7983554 TTACCATATATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983599 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983644 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
7983688 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983733 TTACCA-TTATTCCATAAGCTCGTAAGCCTTTTTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCC-TATTTTACCAATATAC
7983778 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983822 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983867 TTACCATTTATTCCATAAGCTTGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
7983912 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
7983956 TTA
1 TTA
7983959 TTCTATAAGC
Statistics
Matches: 432, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
44 168 0.39
45 264 0.61
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
Found at i:7983655 original size:89 final size:89
Alignment explanation
Indices: 7983465--7983958 Score: 821
Period size: 89 Copynumber: 5.5 Consensus size: 89
7983455 ATCAATAAAT
* * *
7983465 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTT-CCATTTATTCCATAAGC
1 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
* *
7983529 TCGTAAGCTTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAATATAC
7983554 TTACCATATATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
1 TTACCAT-TATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
*
7983619 TCGTAAGCCTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAATATAC
7983644 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
1 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
7983709 CGTAAGCCTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAATATAC
* *
7983733 TTACCATTATTCCATAAGCTCGTAAGCCTTTTTTTACCAATATACTTACCA-TTATTCCATAAGC
1 TTACCATTATTCCATAAGCTCGTAAGCC-TATTTTACCAACATACTTACCATTTATTCCATAAGC
7983797 TCGTAAGCCTATTTTACCAATATAC
65 TCGTAAGCCTATTTTACCAATATAC
* *
7983822 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGC
1 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
*
7983887 TTGTAAGCCTATTTTACCAATATAC
65 TCGTAAGCCTATTTTACCAATATAC
* *
7983912 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
1 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTA
7983959 TTCTATAAGC
Statistics
Matches: 390, Mismatches: 10, Indels: 10
0.95 0.02 0.02
Matches are distributed among these distances:
88 1 0.00
89 257 0.66
90 132 0.34
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (89 bp):
TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
CGTAAGCCTATTTTACCAATATAC
Done.