Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 138 of 216
Found at i:43751325 original size:81 final size:80
Alignment explanation
Indices: 43751151--43751307 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 80
43751141 ACTATGTTTA
* * * * *
43751151 GCACTTA-GTGTGCGATTTGAGATAGCTTCGGCTATTTATGACACTTAGTGTGCGATTGGGAATA
1 GCACTTAGGTGTGAGA-CTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGCGATTGAGAATA
43751215 GCTTCAGCTATATATG
65 GCTTCAGCTATATATG
* *
43751231 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGGATT-ATAA
1 GCACTTAG-GTGTGAGACTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGC--GATTGAGAA
*
43751295 TAGCTTCGGCTAT
63 TAGCTTCAGCTAT
43751308 GCAATGGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 7 0.11
81 33 0.51
82 21 0.32
83 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (80 bp):
GCACTTAGGTGTGAGACTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGCGATTGAGAATAG
CTTCAGCTATATATG
Found at i:43755018 original size:30 final size:30
Alignment explanation
Indices: 43754952--43755025 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
43754942 ATTATTATAA
* *
43754952 TATAATATAATATATATTTAAATTTTAATAT
1 TATAATAT-ATATATATTTAAATTTAAAAAT
*
43754983 TATAATATATATAT-TTTAACTTTAAAAAT
1 TATAATATATATATATTTAAATTTAAAAAT
43755012 TCATAATATATATA
1 T-ATAATATATATA
43755026 CACTTATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.33
30 18 0.46
31 8 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
TATAATATATATATATTTAAATTTAAAAAT
Found at i:43767138 original size:97 final size:100
Alignment explanation
Indices: 43767020--43767315 Score: 332
Period size: 97 Copynumber: 2.9 Consensus size: 100
43767010 TTTTGGGTAG
* *
43767020 ATTAAGATAATTAGGAGTTTAAAATAAATTAGGATCATTAGAGTTTTAATTTAGATAAGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
43767085 ACAAATTTAATTAATAGGTTAGATAA-A-T-TTT-A
66 A-AAATTTAATTAATAGGTTAGATAATATTATTTAA
* * ** *
43767117 ATTAAGATAATT-GGGGTTTTAAATTAAATTAGGATAATTAGAGTTCTAATTTATTTAATATAAT
1 ATTAAGATAATTAGGAG-TTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAAT
**
43767181 TAATAATTTAAATTAATATATTAGATAATATTTTAGATTTAA
65 TAA-AATTT-AATTAATAGGTTAGATAATA--TT--ATTTAA
* * * **
43767223 ATTAAGATATTTAGGAGTTTAAATTAAACTAGGATAATTAGATTTTTAATTTAGATGTGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
* *
43767288 AGGAATTTAATTAATAGGTTGGATAATA
66 A-AAATTTAATTAATAGGTTAGATAATA
43767316 ATTTAGATCT
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
96 4 0.02
97 60 0.37
98 16 0.10
99 1 0.01
102 1 0.01
105 20 0.12
106 58 0.36
107 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (100 bp):
ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
AAAATTTAATTAATAGGTTAGATAATATTATTTAA
Found at i:43767199 original size:22 final size:21
Alignment explanation
Indices: 43767163--43767209 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
43767153 ATTAGAGTTC
*
43767163 TAATTTATTTAATATAATTA-A
1 TAATTTAATTAATAT-ATTAGA
43767184 TAATTTAAATTAATATATTAGA
1 TAATTT-AATTAATATATTAGA
43767206 TAAT
1 TAAT
43767210 ATTTTAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTTAATTAATATATTAGA
Found at i:43767286 original size:106 final size:105
Alignment explanation
Indices: 43767111--43767323 Score: 250
Period size: 106 Copynumber: 2.0 Consensus size: 105
43767101 GGTTAGATAA
* * * **
43767111 ATTTTAATTAAGATAATTGGGGTTTTAAATTAAATTAGGATAATTAGAGTTCTAATTTATTTAAT
1 ATTTAAATTAAGATAATTGGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAAT
* * *
43767176 ATAATTAATAATTTAAATTAATATATTAGATAATATTTTAG
66 ATAATTAAGAATTT-AATTAATAGATTAGATAATAATTTAG
* * * *
43767217 ATTTAAATTAAGATATTTAGGAG-TTTAAATTAAACTAGGATAATTAGATTTTTAATTTAGAT-G
1 ATTTAAATTAAGATAATT-GGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAA
* * *
43767280 TGATAATTAGGAATTTAATTAATAGGTTGGATAATAATTTAG
65 T-ATAATTAAGAATTTAATTAATAGATTAGATAATAATTTAG
43767322 AT
1 AT
43767324 CTGGAAAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
105 25 0.28
106 62 0.69
107 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTGGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAAT
ATAATTAAGAATTTAATTAATAGATTAGATAATAATTTAG
Found at i:43768824 original size:26 final size:26
Alignment explanation
Indices: 43768793--43768870 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
43768783 ATTATTAAAA
43768793 TAAAATTAAAATATTAAATAATTTAT
1 TAAAATTAAAATATTAAATAATTTAT
* *
43768819 TAAAATAATAAATTATGTTAATAATTTAT
1 TAAAAT--TAAAATAT-TAAATAATTTAT
*
43768848 TATATGATT-AAATA-TAAATAATT
1 TA-A-AATTAAAATATTAAATAATT
43768871 AAATATGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
26 14 0.33
28 11 0.26
29 14 0.33
30 1 0.02
31 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TAAAATTAAAATATTAAATAATTTAT
Found at i:43770302 original size:20 final size:20
Alignment explanation
Indices: 43770266--43770307 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
43770256 AAACATTTAA
* *
43770266 ATAATATTATTTGAATAGTT
1 ATAATATTAATTGAATAATT
43770286 ATAATATTAAATT-AATAATT
1 ATAATATT-AATTGAATAATT
43770306 AT
1 AT
43770308 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
ATAATATTAATTGAATAATT
Found at i:43776336 original size:11 final size:11
Alignment explanation
Indices: 43776300--43776338 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43776290 ACTGAAAATA
43776300 TATTTATAATC
1 TATTTATAATC
* *
43776311 TATCTATAATA
1 TATTTATAATC
*
43776322 TATTTATATTC
1 TATTTATAATC
43776333 TATTTA
1 TATTTA
43776339 AAAATATGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTATAATC
Found at i:43785533 original size:40 final size:40
Alignment explanation
Indices: 43785435--43785697 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
43785425 TCCTCGTTCA
* * * * *
43785435 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43785474 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
43785514 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43785554 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43785594 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43785634 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43785674 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43785698 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43788910 original size:23 final size:23
Alignment explanation
Indices: 43788883--43788928 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43788873 TTATGGCACA
*
43788883 TTTGTGGCGTATTATGTGATGCC
1 TTTGTGGCGTATTATGTAATGCC
* *
43788906 TTTGTGGTGTATTTTGTAATGCC
1 TTTGTGGCGTATTATGTAATGCC
43788929 CTGGAGGCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.48
Consensus pattern (23 bp):
TTTGTGGCGTATTATGTAATGCC
Found at i:43795355 original size:21 final size:20
Alignment explanation
Indices: 43795329--43795369 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
43795319 TTTATGAACA
*
43795329 TTTATTAAAGGAATATTAAAT
1 TTTATTAAAGAAAT-TTAAAT
*
43795350 TTTATTTAAGAAATTTAAAT
1 TTTATTAAAGAAATTTAAAT
43795370 GTTTGAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
TTTATTAAAGAAATTTAAAT
Found at i:43806638 original size:18 final size:18
Alignment explanation
Indices: 43806612--43806646 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43806602 TGCAATATTA
43806612 ATTTAGCATTGTATTTGT
1 ATTTAGCATTGTATTTGT
*
43806630 ATTTGGCATTGTATTTG
1 ATTTAGCATTGTATTTG
43806647 GCGATACATA
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:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (18 bp):
ATTTAGCATTGTATTTGT
Found at i:43816857 original size:4 final size:4
Alignment explanation
Indices: 43816848--43816872 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43816838 TTGGAAATTT
43816848 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
43816873 AACAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:43817793 original size:16 final size:18
Alignment explanation
Indices: 43817767--43817799 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43817757 TTTAATTAGA
43817767 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
43817784 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
43817800 CCCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:43821505 original size:22 final size:22
Alignment explanation
Indices: 43821492--43821553 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
43821482 TTTTGACTAG
43821492 ATAGATAATCTATTTAAACATA
1 ATAGATAATCTATTTAAACATA
*
43821514 TTAGATAATCTATTTAAACATA
1 ATAGATAATCTATTTAAACATA
* *
43821536 GTATATAAT-TATGTTAAA
1 ATAGATAATCTAT-TTAAA
43821554 TAAGTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAGATAATCTATTTAAACATA
Found at i:43821744 original size:15 final size:15
Alignment explanation
Indices: 43821714--43821742 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43821704 ACTATTAGTA
43821714 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
43821729 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
43821743 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:43828239 original size:248 final size:247
Alignment explanation
Indices: 43827017--43828745 Score: 3007
Period size: 247 Copynumber: 7.0 Consensus size: 247
43827007 AAAACCTTCA
**
43827017 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAAATTTCCTCTCAAAATTCAAGAT-CA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
43827081 CCATTAAAGCACCTTAAGCTTTTGAAGAATATGACAGTAATAAAAAATCATGCAATTAT-ATCTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA-CTC
* *
43827145 AAATCATGTAAATATGCTTCTAATCATCACAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
* * *
43827210 CGTTCCAAATCCTTTGATTGAAAATCTTGATTCAAAAATCTTGAGAAATTTCT
195 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
43827263 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* * *
43827328 TCATTAAAGCACCTTAAGATTTTGAAGAAGATGACACTAATAAAAAATCATGCAATTATCACTCA
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
43827393 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
131 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
* *
43827458 GTTT-TAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
196 -TTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
43827510 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
43827575 CCATTAAAGCACCTTAAGATTTTGAAGAAGATGACATTAATAAAAGATCATGCAATTATCACTCA
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
*
43827640 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATTC
131 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
43827705 GTTT-TAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
196 -TTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
*
43827757 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTTAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
43827822 CCATTAAAGCACCTTAAGCTTTTGAAAAAGATGACATTAATAAAAAATCATGCAATTATCACTCG
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
43827887 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
131 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
* * *
43827952 TTTCTAAATCCTTTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCT
196 TTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
43828004 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
43828069 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATTCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAA-TCATGCAATTATCACTC
*
43828134 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGAAT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
* * *
43828199 CTTTCTAAATCCTTTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCT
195 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
* * * *
43828252 AATAGATTCATTTTGAGTTGGAACATCCATTGAGTTGTAGATTTCTTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
*
43828317 CCATTAAAGCACCTTAAGATTTTGAAGAAGATGACATTAATAAAAAAATCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTC
43828382 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
43828447 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
195 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
*
43828500 AATAGATCCATTTTGAGTTGGAACATCCACTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* * *
43828565 CCATTAAAACACCTTAAGCTTTTGAAGAATATGACATTAATAAAAAAATTATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTC
* * *
43828630 AAATCATGTAAATATGCTTCTAATCAGCATAAAAATAAGTTTAGAAATAATAATTACATTTTATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
* *
43828695 CGTTCTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTT
195 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTT
43828746 TAGAATATTT
Statistics
Matches: 1422, Mismatches: 55, Indels: 10
0.96 0.04 0.01
Matches are distributed among these distances:
246 63 0.04
247 753 0.53
248 600 0.42
249 6 0.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (247 bp):
AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
TTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
Found at i:43829478 original size:22 final size:20
Alignment explanation
Indices: 43829450--43829502 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
43829440 ACGCACCGTG
*
43829450 TGTTGAGCCATAGCAACTCCTA
1 TGTTGAGCCATAG-AA-GCCTA
* *
43829472 TGTTGAGCCTTAGTAGCCTA
1 TGTTGAGCCATAGAAGCCTA
43829492 TGTTGAGCCAT
1 TGTTGAGCCAT
43829503 GGCCTGAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 12 0.44
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (20 bp):
TGTTGAGCCATAGAAGCCTA
Found at i:43831711 original size:20 final size:21
Alignment explanation
Indices: 43831686--43831724 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
43831676 GTTATTTGAT
*
43831686 CCATTAAATTG-ATTTTTTAG
1 CCATTAAATCGCATTTTTTAG
43831706 CCATTAAATCGCATTTTTT
1 CCATTAAATCGCATTTTTT
43831725 TAAATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (21 bp):
CCATTAAATCGCATTTTTTAG
Found at i:43833065 original size:17 final size:18
Alignment explanation
Indices: 43833034--43833070 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
43833024 TTTACTTCCT
43833034 ATTGGTTTTAATTAGTTA
1 ATTGGTTTTAATTAGTTA
*
43833052 ATTGG-TTTATTTAGTTA
1 ATTGGTTTTAATTAGTTA
43833069 AT
1 AT
43833071 GTGAAAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (18 bp):
ATTGGTTTTAATTAGTTA
Found at i:43833229 original size:41 final size:41
Alignment explanation
Indices: 43833184--43833266 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
43833174 AATTAAATGT
*
43833184 TAAATTAGTAAAAAGCAAAAAAGAAAGTGTCATCTCTTTCA
1 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
43833225 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
1 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
43833266 T
1 T
43833267 TTTAATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (41 bp):
TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
Found at i:43838797 original size:17 final size:17
Alignment explanation
Indices: 43838771--43838808 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
43838761 AATATATTGT
*
43838771 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
43838788 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
43838805 ATAT
1 ATAT
43838809 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:43839792 original size:24 final size:24
Alignment explanation
Indices: 43839765--43839811 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
43839755 TACTCATACA
* *
43839765 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGCTCCATCATCTCAACT
* *
43839789 TTGCCTTGCTCTATCATTTCAAC
1 TTGCCTTGCTCCATCATCTCAAC
43839812 CATTTCAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.45
Consensus pattern (24 bp):
TTGCCTTGCTCCATCATCTCAACT
Found at i:43839817 original size:9 final size:9
Alignment explanation
Indices: 43839803--43839829 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43839793 CTTGCTCTAT
43839803 CATTTCAAC
1 CATTTCAAC
43839812 CATTTCAAC
1 CATTTCAAC
43839821 CATTTCAAC
1 CATTTCAAC
43839830 TCTGCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (9 bp):
CATTTCAAC
Found at i:43840449 original size:20 final size:20
Alignment explanation
Indices: 43840387--43840449 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
43840377 CTTGGAAACT
43840387 GAAAATTAGTTAATTACAGG
1 GAAAATTAGTTAATTACAGG
* * * *
43840407 GAAAA--A-CTATAGTCCAAG
1 GAAAATTAGTTA-ATTACAGG
43840425 GAAAATTAGTTAATTACAGG
1 GAAAATTAGTTAATTACAGG
43840445 GAAAA
1 GAAAA
43840450 ACTATAGAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (20 bp):
GAAAATTAGTTAATTACAGG
Found at i:43849711 original size:17 final size:17
Alignment explanation
Indices: 43849689--43849820 Score: 62
Period size: 17 Copynumber: 7.8 Consensus size: 17
43849679 AGAGCTCGCA
*
43849689 GGTGAGCTCTCA-TGCTT
1 GGTGAGCTCGCAGTG-TT
43849706 GGTGAGCTCGCAGTGTT
1 GGTGAGCTCGCAGTGTT
43849723 GGTGAGCT---A-T-TCT
1 GGTGAGCTCGCAGTGT-T
**
43849736 GGTGAGCTCGCAGTTCGCA
1 GGTGAGCTCGCAG-T-GTT
* *
43849755 GGTGAGCTCACAGTCTT
1 GGTGAGCTCGCAGTGTT
* * *
43849772 GGTGAGCTTGCATCTTTT
1 GGTGAGCTCGCA-GTGTT
* * *
43849790 AGTGAGCTTGCACAT-TT
1 GGTGAGCTCGCA-GTGTT
43849807 GGTGAGCTCGCAGT
1 GGTGAGCTCGCAGT
43849821 TCACAGTTAG
Statistics
Matches: 88, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 10 0.11
14 1 0.01
16 2 0.02
17 43 0.49
18 19 0.22
19 12 0.14
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.32
Consensus pattern (17 bp):
GGTGAGCTCGCAGTGTT
Found at i:43849855 original size:17 final size:17
Alignment explanation
Indices: 43849833--43849918 Score: 91
Period size: 17 Copynumber: 4.7 Consensus size: 17
43849823 ACAGTTAGCA
*
43849833 GGTGAGCTCGCACTCTT
1 GGTGAGCTCGCACTTTT
*
43849850 GGTGAGCTCGCTTCTTTT
1 GGTGAGCTCGC-ACTTTT
43849868 GGTGAGCGAGCTCGCATCTTTT
1 GGT----GAGCTCGCA-CTTTT
*
43849890 GGTGAGCTCGCACATTT
1 GGTGAGCTCGCACTTTT
43849907 GGTGAGCTCGCA
1 GGTGAGCTCGCA
43849919 GTTCACAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
17 27 0.46
18 16 0.27
22 16 0.27
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (17 bp):
GGTGAGCTCGCACTTTT
Found at i:43849881 original size:22 final size:22
Alignment explanation
Indices: 43849853--43849896 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
43849843 CACTCTTGGT
*
43849853 GAGCTCGCTTCTTTTGGTGAGC
1 GAGCTCGCATCTTTTGGTGAGC
43849875 GAGCTCGCATCTTTTGGTGAGC
1 GAGCTCGCATCTTTTGGTGAGC
43849897 TCGCACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.23, G:0.32, T:0.34
Consensus pattern (22 bp):
GAGCTCGCATCTTTTGGTGAGC
Found at i:43852413 original size:13 final size:13
Alignment explanation
Indices: 43852395--43852421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43852385 ACACATTTTC
43852395 TTTTTCATTGCAT
1 TTTTTCATTGCAT
43852408 TTTTTCATTGCAT
1 TTTTTCATTGCAT
43852421 T
1 T
43852422 GGGGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTTCATTGCAT
Found at i:43852832 original size:26 final size:26
Alignment explanation
Indices: 43852780--43852832 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
43852770 ATTTTAATAA
*
43852780 TTTTTAATTTAAAAAAAGTTATAAAT
1 TTTTTAATTTAAAAAAAGTAATAAAT
*
43852806 TTTTTGAATTTAAAAAAA-TAATTAAT
1 TTTTT-AATTTAAAAAAAGTAATAAAT
43852832 T
1 T
43852833 GCTAACGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTTTAATTTAAAAAAAGTAATAAAT
Found at i:43861453 original size:40 final size:40
Alignment explanation
Indices: 43861408--43861492 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
43861398 ATAAAAAAAT
43861408 GCCGCTATAGATCGAGCATTAGCGGCG-TT-TTTCAAAAGGC
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTCTTT-AAAA-GC
*
43861448 GCCGCTATAGGTCGAGCATTAGCGGCGCTTCTTTAAAAGC
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTCTTTAAAAGC
43861488 GCCGC
1 GCCGC
43861493 AAAAAAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 33 0.79
41 6 0.14
42 3 0.07
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (40 bp):
GCCGCTATAGATCGAGCATTAGCGGCGCTTCTTTAAAAGC
Found at i:43861723 original size:142 final size:139
Alignment explanation
Indices: 43861468--43861748 Score: 429
Period size: 142 Copynumber: 2.0 Consensus size: 139
43861458 GTCGAGCATT
*
43861468 AGCGGCGCTTCTTTAAAAGCGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
1 AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
* * *
43861533 TGGCATTAGCGGCGCTTCTTAAAAAACGCCGCTATAGATCAAGTATTAGTGGCACTTTTTGATAA
66 TGGCATTAGCGGCGCTTCTTAAAAAACGCCACTATAGATCAAGCATTAGCGGCACTTTTTGA-AA
43861598 A-CGCCGCTA
130 ATCGCCGCTA
* *
43861607 AGCGGCGCTTCTTTAAAAATGCCGCAAAAAAATTAAGCACAATGCCATCGTTTTATGTTGAGCTT
1 AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCA---TTTTATGTTGAGCTT
* * * *
43861672 TGGTGGCATTAGCGGTGCTTTTTAGAAAACGCCACTATAGATCAAGCATTAGCGGCGCTTTTTGA
63 TGGTGGCATTAGCGGCGCTTCTTAAAAAACGCCACTATAGATCAAGCATTAGCGGCACTTTTTGA
43861737 AAATCGCCGCTA
128 AAATCGCCGCTA
43861749 TAGGTTGAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
139 44 0.34
141 3 0.02
142 81 0.63
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (139 bp):
AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
TGGCATTAGCGGCGCTTCTTAAAAAACGCCACTATAGATCAAGCATTAGCGGCACTTTTTGAAAA
TCGCCGCTA
Found at i:43861732 original size:40 final size:40
Alignment explanation
Indices: 43861677--43861780 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
43861667 AGCTTTGGTG
*
43861677 GCATTAGCGGTGCTTTTTAGAAAA-CGCCACTATAGATCAA
1 GCATTAGCGGCGCTTTTT-GAAAATCGCCACTATAGATCAA
* * **
43861717 GCATTAGCGGCGCTTTTTGAAAATCGCCGCTATAGGTTGA
1 GCATTAGCGGCGCTTTTTGAAAATCGCCACTATAGATCAA
43861757 GCATTAGCGGCGCTTTTTTGAAAA
1 GCATTAGCGGCGC-TTTTTGAAAA
43861781 ACACCGCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 5 0.09
40 42 0.74
41 10 0.18
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAATCGCCACTATAGATCAA
Found at i:43862102 original size:14 final size:14
Alignment explanation
Indices: 43862085--43862145 Score: 86
Period size: 14 Copynumber: 4.3 Consensus size: 14
43862075 ATCATTATAA
*
43862085 TTTAGGGTTTATGG
1 TTTAGGGATTATGG
43862099 TTTAGGGATTATGTG
1 TTTAGGGATTATG-G
43862114 TTTAGGGATTATGG
1 TTTAGGGATTATGG
* *
43862128 ATTATGGATTATGG
1 TTTAGGGATTATGG
43862142 TTTA
1 TTTA
43862146 AGGGTTGGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
14 28 0.67
15 14 0.33
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
TTTAGGGATTATGG
Found at i:43862119 original size:29 final size:28
Alignment explanation
Indices: 43862085--43862151 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
43862075 ATCATTATAA
*
43862085 TTTAGGGTTTATGGTTTAGGGATTATGTG
1 TTTAGGGTTTATGGATTAGGGATTATG-G
* *
43862114 TTTAGGGATTATGGATTATGGATTATGG
1 TTTAGGGTTTATGGATTAGGGATTATGG
43862142 TTTAAGGGTT
1 TTT-AGGGTT
43862152 GGGGGTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (28 bp):
TTTAGGGTTTATGGATTAGGGATTATGG
Found at i:43862157 original size:7 final size:7
Alignment explanation
Indices: 43862147--43862216 Score: 113
Period size: 7 Copynumber: 9.9 Consensus size: 7
43862137 TATGGTTTAA
*
43862147 GGGTTGG
1 GGGTTAG
43862154 GGGTTAG
1 GGGTTAG
43862161 GGGTTAG
1 GGGTTAG
*
43862168 AGGTTAG
1 GGGTTAG
43862175 GGGTTAG
1 GGGTTAG
43862182 GGGTTAG
1 GGGTTAG
43862189 GGGTTAG
1 GGGTTAG
43862196 GGGTTAG
1 GGGTTAG
43862203 GGGTTTAG
1 GGG-TTAG
43862211 GGGTTA
1 GGGTTA
43862217 AGGTTTATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
7 52 0.88
8 7 0.12
ACGTcount: A:0.14, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:43862244 original size:7 final size:7
Alignment explanation
Indices: 43862085--43862246 Score: 76
Period size: 7 Copynumber: 22.9 Consensus size: 7
43862075 ATCATTATAA
43862085 TTTAGGG
1 TTTAGGG
*
43862092 TTTATGG
1 TTTAGGG
43862099 TTTAGGG
1 TTTAGGG
* *
43862106 ATTATGTG
1 TTTA-GGG
43862114 TTTAGGG
1 TTTAGGG
* *
43862121 ATTATGG
1 TTTAGGG
* *
43862128 ATTATGG
1 TTTAGGG
* *
43862135 ATTATGG
1 TTTAGGG
43862142 TTTAAGGG
1 TTT-AGGG
*
43862150 -TTGGGG
1 TTTAGGG
*
43862156 GTTAGGG
1 TTTAGGG
*
43862163 GTTAGAGG
1 TTTAG-GG
43862171 -TTAGGG
1 TTTAGGG
*
43862177 GTTAGGG
1 TTTAGGG
*
43862184 GTTAGGG
1 TTTAGGG
*
43862191 GTTAGGG
1 TTTAGGG
*
43862198 GTTAGGGG
1 TTTA-GGG
43862206 TTTAGGG
1 TTTAGGG
* *
43862213 GTTAAGG
1 TTTAGGG
* *
43862220 TTTATGA
1 TTTAGGG
* *
43862227 TTTATGA
1 TTTAGGG
43862234 TTTAGGG
1 TTTAGGG
43862241 TTTAGG
1 TTTAGG
43862247 AGATAGGGGT
Statistics
Matches: 129, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
6 5 0.04
7 108 0.84
8 16 0.12
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:43864485 original size:31 final size:31
Alignment explanation
Indices: 43864450--43864512 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
43864440 TATTGGGTCT
43864450 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
43864481 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
43864512 A
1 A
43864513 CACTTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
AATTATATGTGTTTTTTGGACTTTTAACCCA
Found at i:43893850 original size:55 final size:56
Alignment explanation
Indices: 43893732--43893945 Score: 234
Period size: 55 Copynumber: 3.9 Consensus size: 56
43893722 TTCATATAGA
* * * * *
43893732 CATTTCATATAATGCCAGGGGTCTTAACCACATGGTTTTACATACATTCTTTCAAT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * *
43893788 CATTTCATATATTGTAATGGGTTTTAACCACATGTTTTTA-ATTCATTCATTCAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * * * * *
43893843 CATTTCATAGCTCGTCATGGGTCTTAACCATATGGTCTTACA-TCATTCATTTAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
* * * *
43893898 CATTTCATATCTTGCCATGGGTTTTAACCACATGGTCTTACATACATT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATT
43893946 TATGTATCGT
Statistics
Matches: 132, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
55 93 0.70
56 39 0.30
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (56 bp):
CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
Found at i:43898223 original size:18 final size:18
Alignment explanation
Indices: 43898196--43898230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43898186 GAATTTGTCA
*
43898196 TTTATTTTTGTGTCCATC
1 TTTATCTTTGTGTCCATC
*
43898214 TTTATCTTTGTTTCCAT
1 TTTATCTTTGTGTCCAT
43898231 TTCCAACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTATCTTTGTGTCCATC
Found at i:43899818 original size:28 final size:28
Alignment explanation
Indices: 43899762--43899818 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
43899752 GTAACAGTGT
* * *
43899762 AATGTGGGCCTTAGCCCATTTCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGAAAC
43899790 AATGTGGGCCTTAGCCCAATACAGAAAC
1 AATGTGGGCCTTAGCCCAATACAGAAAC
43899818 A
1 A
43899819 GTATAGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAGAAAC
Found at i:43900265 original size:81 final size:81
Alignment explanation
Indices: 43900150--43900390 Score: 272
Period size: 81 Copynumber: 3.0 Consensus size: 81
43900140 GGGTATAACA
* * *
43900150 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCATTTAGGGGAATTTCGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
43900215 CTTC-AGGGGTATTTTG
66 CTTCGA-GGGTATTTCG
* * * * * *
43900231 GTCATTTTACCCTTTGAAGGTATTTCAGTTATTTTACCCTTCGGGGGTATTTTGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
43900296 CTTCGAGGGTGTTTCG
66 CTTCGAGGGTATTTCG
* ** * * * *
43900312 GTTATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTC-GAAGGTA-TTCGGTCATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAG-GGGAATTTCGATCATTTTAC
*
43900375 CCTTCGAGGGTGTTTC
65 CCTTCGAGGGTATTTC
43900391 AGTTATTTAC
Statistics
Matches: 139, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 29 0.21
81 109 0.78
82 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
CTTCGAGGGTATTTCG
Found at i:43900402 original size:26 final size:27
Alignment explanation
Indices: 43900150--43900390 Score: 247
Period size: 27 Copynumber: 9.0 Consensus size: 27
43900140 GGGTATAACA
* *
43900150 GTCATTTTACCCTAT-GGGGGTATTTCA
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * *
43900177 GTCATTTTACCATT-TAGGGGAATTTCG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* *
43900204 ATCATTTTACCCTTC-AGGGGTATTTTG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * *
43900231 GTCATTTTACCCTTTGAAGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
43900258 GTTATTTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
43900285 ATCATTTTACCCTTCGAGGGTGTTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
43900312 GTTATTTTACCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
43900339 GTCATTTTACCCTTCGAAGGTA-TTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
43900365 GTCATTTTACCCTTCGAGGGTGTTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
43900391 AGTTATTTAC
Statistics
Matches: 174, Mismatches: 36, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
26 24 0.14
27 149 0.86
28 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:43904342 original size:25 final size:25
Alignment explanation
Indices: 43904307--43904367 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
43904297 ACCTACCGCT
*
43904307 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCGCCACACACTGTC
43904332 CCTTCAGAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCGCCACACACTGTC
43904357 CCTTCAGAGTT
1 CCTTCAGAGTT
43904368 TATCACACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (25 bp):
CCTTCAGAGTTCGCCACACACTGTC
Found at i:43904374 original size:25 final size:25
Alignment explanation
Indices: 43904307--43904376 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
43904297 ACCTACCGCT
* *
43904307 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCACCACACACTGTC
*
43904332 CCTTCAGAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCACCACACACTGTC
* *
43904357 CCTTCAGAGTTTATCACACA
1 CCTTCAGAGTTCACCACACA
43904377 TTCTAACCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.37, G:0.13, T:0.26
Consensus pattern (25 bp):
CCTTCAGAGTTCACCACACACTGTC
Found at i:43904550 original size:28 final size:28
Alignment explanation
Indices: 43904509--43904564 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
43904499 TTCATCATTT
43904509 GCCACAAAAGCTTTCCTTTCCTTAGATC
1 GCCACAAAAGCTTTCCTTTCCTTAGATC
43904537 GCCA-AAAAGGCTTTCCTTTCCTTAGATC
1 GCCACAAAA-GCTTTCCTTTCCTTAGATC
43904565 ACTATAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (28 bp):
GCCACAAAAGCTTTCCTTTCCTTAGATC
Found at i:43904573 original size:28 final size:28
Alignment explanation
Indices: 43904514--43904577 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
43904504 CATTTGCCAC
*
43904514 AAAA-GCTTTCCTTTCCTTAGATCGCCA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
43904541 AAAAGGCTTTCCTTTCCTTAGATCACTA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
43904569 TAAAGGCTT
1 AAAAGGCTT
43904578 CGATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (28 bp):
AAAAGGCTTTCCTTTCCTTAGATCACCA
Found at i:43909173 original size:39 final size:38
Alignment explanation
Indices: 43909122--43909261 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 38
43909112 TGTAATTATA
*
43909122 CCCTGATTGCATATACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTA-TTCGGTAC
* * * *
43909161 CCCTGAATGCATATATGTGGCCCTATTGTAATTCGATAC
1 CCCTGATTGCATATATGTGCCCCTGTTGT-ATTCGGTAC
* * **
43909200 CCTTGATTGCACATATGTGCCAGTGTTGTATTGCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTATT-CGGTAC
*
43909239 CTCTGATTTGCACT-TATGTGCCC
1 CCCTGA-TTGCA-TATATGTGCCC
43909262 TTCATTACAT
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 3 0.04
39 63 0.79
40 14 0.17
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (38 bp):
CCCTGATTGCATATATGTGCCCCTGTTGTATTCGGTAC
Found at i:43913936 original size:24 final size:25
Alignment explanation
Indices: 43913909--43913979 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
43913899 ACTGATTCTT
43913909 AGCTCGTATGAGCTTACCAATT-GC
1 AGCTCGTATGAGCTTACCAATTCGC
* *
43913933 AGCTCGTGA-GAGCTTACCGATTCTC
1 AGCTCGT-ATGAGCTTACCAATTCGC
* * *
43913958 AACTCATATGAGCATACCAATT
1 AGCTCGTATGAGCTTACCAATT
43913980 TACAGCTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCAATTCGC
Found at i:43913955 original size:49 final size:49
Alignment explanation
Indices: 43913897--43914011 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
43913887 TCATTAGGGA
* * *
43913897 TTACTGATTCTTAGCTCGTATGAGCTTACCAA-TTGCAGCTCGTGAGAG
1 TTACTGATTCTTAGCTCATATGAGCATACCAATTTACAGCTCGTGAGAG
* * * *
43913945 CTTACCGATTCTCAACTCATATGAGCATACCAATTTACAGCTCTTGAGAG
1 -TTACTGATTCTTAGCTCATATGAGCATACCAATTTACAGCTCGTGAGAG
*
43913995 TATACTGATTCATAGCT
1 T-TACTGATTCTTAGCT
43914012 TGTCTAAGCA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
49 28 0.53
50 25 0.47
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (49 bp):
TTACTGATTCTTAGCTCATATGAGCATACCAATTTACAGCTCGTGAGAG
Found at i:43920280 original size:25 final size:25
Alignment explanation
Indices: 43920192--43920281 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
43920182 CATTAGGGAC
*
43920192 TACCGATTCTCAGCTCAT-ATGAGCT
1 TACCGATTCACAGCTCATGA-GAGCT
* *
43920217 TACCAATT-GCAGCTCATGAGAGCT
1 TACCGATTCACAGCTCATGAGAGCT
* *
43920241 TACCGATTTACAGCTCTTGAGAG-T
1 TACCGATTCACAGCTCATGAGAGCT
*
43920265 ATACCGATTCATAGCTC
1 -TACCGATTCACAGCTC
43920282 GTATAAGCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 21 0.38
25 34 0.62
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (25 bp):
TACCGATTCACAGCTCATGAGAGCT
Found at i:43920481 original size:30 final size:30
Alignment explanation
Indices: 43920442--43920503 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
43920432 TACATGAAAT
43920442 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
43920473 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
43920502 AC
1 AC
43920504 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:43928022 original size:27 final size:27
Alignment explanation
Indices: 43927967--43928018 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
43927957 AAATTGCAAA
43927967 AAGGAAAAAGAGCCAAAGAAAAGAAAG
1 AAGGAAAAAGAGCCAAAGAAAAGAAAG
* *
43927994 AAGG-AAAATAGCCAAAGAGAAGAAA
1 AAGGAAAAAGAGCCAAAGAAAAGAAA
43928019 AGAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.65, C:0.08, G:0.25, T:0.02
Consensus pattern (27 bp):
AAGGAAAAAGAGCCAAAGAAAAGAAAG
Found at i:43930058 original size:12 final size:11
Alignment explanation
Indices: 43930033--43930066 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
43930023 TTTTTCCAAC
*
43930033 TTATTTTTCTT
1 TTATTTCTCTT
43930044 TTATTTCTCTCT
1 TTATTTCTCT-T
43930056 TTATTTCTCTT
1 TTATTTCTCTT
43930067 CGAGATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTCTCTT
Found at i:43930329 original size:17 final size:17
Alignment explanation
Indices: 43930307--43930344 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
43930297 TCATGCCTGG
43930307 TTCATCAAGAAAATGGA
1 TTCATCAAGAAAATGGA
*
43930324 TTCATCATGAAAATGGA
1 TTCATCAAGAAAATGGA
43930341 TTCA
1 TTCA
43930345 AACTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (17 bp):
TTCATCAAGAAAATGGA
Found at i:43941161 original size:21 final size:19
Alignment explanation
Indices: 43941137--43941186 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 19
43941127 TGAAGTGCAA
43941137 TCTTCATCTTTCCTCAATTG
1 TCTTCATCTTTCCTC-ATTG
43941157 CTCTTCCATACTTTCCTCATTG
1 -TCTT-CAT-CTTTCCTCATTG
43941179 TCTTCATC
1 TCTTCATC
43941187 CACCTCGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 8 0.30
22 7 0.26
23 8 0.30
ACGTcount: A:0.14, C:0.34, G:0.04, T:0.48
Consensus pattern (19 bp):
TCTTCATCTTTCCTCATTG
Found at i:43951855 original size:16 final size:16
Alignment explanation
Indices: 43951836--43951892 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
43951826 TAATCTTTTG
43951836 AAAATTATAAAAATAT
1 AAAATTATAAAAATAT
*
43951852 AAAA-TATTAAAATATT
1 AAAATTATAAAAATA-T
*
43951868 AAAATAAT-AAAATAAT
1 AAAATTATAAAAAT-AT
43951884 AAAATTATA
1 AAAATTATA
43951893 TTTTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.26
16 22 0.65
17 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:43951870 original size:24 final size:24
Alignment explanation
Indices: 43951836--43951888 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
43951826 TAATCTTTTG
* *
43951836 AAAATTATAAAAAT-ATAAAATATT
1 AAAA-TATTAAAATAATAAAATAAT
43951860 AAAATATTAAAATAATAAAATAAT
1 AAAATATTAAAATAATAAAATAAT
43951884 AAAAT
1 AAAAT
43951889 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATATTAAAATAATAAAATAAT
Found at i:43960704 original size:4 final size:4
Alignment explanation
Indices: 43960695--43960720 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43960685 AATTTACAAC
43960695 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
43960721 GGTCCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:43974643 original size:21 final size:20
Alignment explanation
Indices: 43974597--43974645 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
43974587 ATGCCAAAAT
*
43974597 GATATCGAT-ATTTATATGA
1 GATATCGATAATTTATATAA
*
43974616 G-TATCGATAATTTTTCATAA
1 GATATCGATAATTTAT-ATAA
43974636 GATATCGATA
1 GATATCGATA
43974646 CTCTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 4 0.16
21 8 0.32
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (20 bp):
GATATCGATAATTTATATAA
Found at i:43975827 original size:38 final size:38
Alignment explanation
Indices: 43975776--43975852 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
43975766 GCGTGGTGGG
** *
43975776 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGATATT
1 GGAGTGTTGGAGTGACATTAGGAGGAAAATATGAGATT
*
43975814 GGAGTGTTTGAGTGACATTAGGAGGAAAATATGAGATT
1 GGAGTGTTGGAGTGACATTAGGAGGAAAATATGAGATT
43975852 G
1 G
43975853 TGAAGTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.01, G:0.35, T:0.31
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACATTAGGAGGAAAATATGAGATT
Found at i:43982513 original size:40 final size:40
Alignment explanation
Indices: 43982415--43982637 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 40
43982405 TCCTCGTTCA
* * * ** *
43982415 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
43982454 AATGCCTTCGGGACATAACCAGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
43982494 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
43982534 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
43982574 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
43982614 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43982638 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 36 0.23
40 111 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:43982559 original size:80 final size:79
Alignment explanation
Indices: 43982413--43982637 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
43982403 GCTCCTCGTT
* * * * * * *
43982413 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCAGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
43982478 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* *
43982492 CGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
43982557 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
43982572 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
43982636 GA
64 GA
43982638 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:43985853 original size:38 final size:38
Alignment explanation
Indices: 43985799--43985871 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
43985789 GGTGGGGGCA
* *
43985799 TGTTGGAGTGATTTTAGGAGGAAAATATGATATTGGAG
1 TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGAG
43985837 TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
1 TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
43985872 TAGAGTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.01, G:0.34, T:0.33
Consensus pattern (38 bp):
TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGAG
Found at i:43986657 original size:23 final size:23
Alignment explanation
Indices: 43986626--43986676 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
43986616 CACACTAGCA
* *
43986626 TGTGGGAATATTAGGCCAGAGCG
1 TGTGAGAATATTAGGCCAGACCG
*
43986649 TGTGAGAATATTAGGGCAGACCG
1 TGTGAGAATATTAGGCCAGACCG
43986672 TGTGA
1 TGTGA
43986677 ACCACACGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (23 bp):
TGTGAGAATATTAGGCCAGACCG
Found at i:43989004 original size:46 final size:46
Alignment explanation
Indices: 43988941--43989060 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
43988931 GCAACTAAAT
* *
43988941 TTGCAGTTAAACTGCCAGATCAGATATATGTGGTCAAGCCACTAT-A
1 TTGCAGTCAAGCTGCCAGAT-AGATATATGTGGTCAAGCCACTATAA
* *
43988987 TTGTAGTCAAGCTGCCAGAGTAGATATATGTGGTCTAGCCACTATAA
1 TTGCAGTCAAGCTGCCAGA-TAGATATATGTGGTCAAGCCACTATAA
*
43989034 TTGCAGTCAAGCCGCCAGAATAGATAT
1 TTGCAGTCAAGCTGCCAG-ATAGATAT
43989061 GTGGTTAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
46 39 0.60
47 25 0.38
48 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TTGCAGTCAAGCTGCCAGATAGATATATGTGGTCAAGCCACTATAA
Found at i:43989060 original size:47 final size:46
Alignment explanation
Indices: 43988954--43989075 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
43988944 CAGTTAAACT
* * *
43988954 GCCAG-ATCAGATATATGTGGTCAAGCCACTATATTGTAGTCAAGCT
1 GCCAGAAT-AGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
*
43989000 GCCAGAGTAGATATATGTGGTCTAGCCACTATAATTGCAGTCAAGCC
1 GCCAGAATAGATATATGTGGTCTAGCCACTAT-ATTGCAGTCAAGCC
43989047 GCCAGAATAG--ATATGTGGT-TAGACCACTA
1 GCCAGAATAGATATATGTGGTCTAG-CCACTA
43989076 GATAGTTCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 3 0.04
45 15 0.22
46 28 0.41
47 22 0.32
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
GCCAGAATAGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
Found at i:43991525 original size:31 final size:32
Alignment explanation
Indices: 43991489--43991553 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
43991479 CTTAGATAAT
43991489 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
43991520 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
43991552 TT
1 TT
43991554 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:43992147 original size:41 final size:39
Alignment explanation
Indices: 43992097--43992188 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 39
43992087 TTCTTTAAAT
* *
43992097 AAAAGCAAAAAAAATAGCAAAAAGCGCAAAAAAAGCAGAA
1 AAAAGCAAAAAAAAGAGCAAAAAGCGCAAAAAAA-AAGAA
* *
43992137 AAAGCGCAAAAAAAAGAGTAAAAAGCGCAAAAAAAAAGAA
1 AAA-AGCAAAAAAAAGAGCAAAAAGCGCAAAAAAAAAGAA
43992177 AAAAGCAAAAAA
1 AAAAGCAAAAAA
43992189 GCGCAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 8 0.17
40 10 0.22
41 28 0.61
ACGTcount: A:0.72, C:0.11, G:0.15, T:0.02
Consensus pattern (39 bp):
AAAAGCAAAAAAAAGAGCAAAAAGCGCAAAAAAAAAGAA
Found at i:43992200 original size:20 final size:20
Alignment explanation
Indices: 43992101--43992188 Score: 110
Period size: 21 Copynumber: 4.4 Consensus size: 20
43992091 TTAAATAAAA
*
43992101 GCAAAAAAAATAGCAAAAAGC
1 GCAAAAAAAAGAG-AAAAAGC
43992122 GC-AAAAAAAGCAGAAAAAGC
1 GCAAAAAAAAG-AGAAAAAGC
43992142 GCAAAAAAAAGAGTAAAAAGC
1 GCAAAAAAAAGAG-AAAAAGC
*
43992163 GCAAAAAAAA-AGAAAAA-A
1 GCAAAAAAAAGAGAAAAAGC
43992181 GCAAAAAA
1 GCAAAAAA
43992189 GCGCAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.13
19 5 0.08
20 20 0.32
21 29 0.47
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.02
Consensus pattern (20 bp):
GCAAAAAAAAGAGAAAAAGC
Found at i:43995382 original size:31 final size:32
Alignment explanation
Indices: 43995346--43995410 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
43995336 CTTAGATAAT
43995346 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
43995377 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
43995409 TT
1 TT
43995411 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:43996206 original size:20 final size:20
Alignment explanation
Indices: 43996172--43996213 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43996162 AACTATATAA
** *
43996172 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
43996192 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
43996212 AT
1 AT
43996214 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:43999356 original size:23 final size:23
Alignment explanation
Indices: 43999313--43999362 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
43999303 GTATAAGGAC
* * *
43999313 TAAATTGTATATAAGGTAAAAGT
1 TAAATTATATATAAAGTAAAAAT
43999336 TAAATTATATATTAAAG-AAAAAT
1 TAAATTATATA-TAAAGTAAAAAT
43999359 TAAA
1 TAAA
43999363 GGGACTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
TAAATTATATATAAAGTAAAAAT
Found at i:43999581 original size:21 final size:21
Alignment explanation
Indices: 43999521--43999581 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
43999511 AAAACAAATT
*
43999521 AAAGAAAAAGAAATAGAAAAAG
1 AAAGAAAAAGGAA-AGAAAAAG
*
43999543 -AA-AAAAAGTGAAACGAAACAG
1 AAAGAAAAAG-GAAA-GAAAAAG
43999564 AAAGAAAAAGGAAAGAAA
1 AAAGAAAAAGGAAAGAAA
43999582 GAAGGAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 7 0.21
21 14 0.42
22 6 0.18
23 6 0.18
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGGAAAGAAAAAG
Found at i:43999960 original size:20 final size:20
Alignment explanation
Indices: 43999924--43999961 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43999914 GTGAAATTTG
*
43999924 TGTGAAAATATAGAATTAAT
1 TGTGAAAATATAAAATTAAT
43999944 TGTGAAGAA-ATAAAATTA
1 TGTGAA-AATATAAAATTA
43999962 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAT
Found at i:44001709 original size:26 final size:25
Alignment explanation
Indices: 44001670--44001723 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
44001660 TCGATATCTG
44001670 GACCAAAATACCCT-GTAGGGTAAAAT
1 GACCAAAATACCCTGGT-GGGT-AAAT
* *
44001696 GACCATAATGCCCTGGTGGGTAAAT
1 GACCAAAATACCCTGGTGGGTAAAT
44001721 GAC
1 GAC
44001724 TATTTTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 16 0.64
27 2 0.08
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
GACCAAAATACCCTGGTGGGTAAAT
Found at i:44002019 original size:32 final size:32
Alignment explanation
Indices: 44001925--44002092 Score: 133
Period size: 32 Copynumber: 5.2 Consensus size: 32
44001915 GCTGCGATAC
* * * **
44001925 TACTGATGGCTT-TGTGCCAATCATATTACCGT
1 TACTGATGG-TTGTGTACCGATCATATCACTAT
* * *
44001957 TACCGATGGTTGTGTGCCGATCATTTCACTAT
1 TACTGATGGTTGTGTACCGATCATATCACTAT
* * *
44001989 TACTGTTGGTTGTGTACCGATCATAACACTAC
1 TACTGATGGTTGTGTACCGATCATATCACTAT
* * * **
44002021 TATTGATGGCTT-TGTACGGATCATATTACCGT
1 TACTGATGG-TTGTGTACCGATCATATCACTAT
* **
44002053 TACTGATGGCTGTGTACCGATCATATCACTGC
1 TACTGATGGTTGTGTACCGATCATATCACTAT
44002085 TACTGATG
1 TACTGATG
44002093 AATTTGTGCC
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
31 3 0.03
32 102 0.95
33 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (32 bp):
TACTGATGGTTGTGTACCGATCATATCACTAT
Found at i:44002029 original size:64 final size:64
Alignment explanation
Indices: 44001973--44002092 Score: 152
Period size: 64 Copynumber: 1.9 Consensus size: 64
44001963 TGGTTGTGTG
* * * *
44001973 CCGATCAT-TTCACTATTACTGTTGGTTGTGTACCGATCATAACACTACTATTGATGGCTTTGTA
1 CCGATCATATT-ACCATTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGGCTTTGTA
* * * *
44002037 CGGATCATATTACCGTTACTGATGGCTGTGTACCGATCATATCACTGCTACTGATG
1 CCGATCATATTACCATTACTGATGGCTGTGTACCGATCATAACACTACTACTGATG
44002093 AATTTGTGCC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
64 45 0.96
65 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (64 bp):
CCGATCATATTACCATTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGGCTTTGTA
Found at i:44010813 original size:47 final size:47
Alignment explanation
Indices: 44010761--44011166 Score: 614
Period size: 47 Copynumber: 8.6 Consensus size: 47
44010751 GATAATTGTG
* * * *
44010761 ATGTGAATGTATATATATGTGATAAGGCTTAATGGCAGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
44010808 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44010855 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
44010904 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44010951 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44011000 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44011047 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
44011094 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44011141 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
44011167 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 239 0.73
49 90 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44010868 original size:96 final size:96
Alignment explanation
Indices: 44010761--44011166 Score: 671
Period size: 96 Copynumber: 4.3 Consensus size: 96
44010751 GATAATTGTG
* *
44010761 ATGTG-AA-TGTATATATATGTGATAAGGCTTAATGGCAGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
44010824 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
44010855 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
44010920 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
44010951 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
44011016 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
44011047 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
44011110 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
44011141 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
44011167 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 15, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
94 99 0.34
95 3 0.01
96 191 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:44010908 original size:143 final size:143
Alignment explanation
Indices: 44010761--44011166 Score: 624
Period size: 143 Copynumber: 2.9 Consensus size: 143
44010751 GATAATTGTG
* * *
44010761 ATGTGAATGTATATATATGTGATAAGGCTTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
*
44010826 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
44010891 GCCGATGTGATGA
131 GCCGATGTGATGA
*
44010904 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA-ATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAAGTG--TATA
* *
44010968 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
63 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
44011031 ATAGCCGATGTGATGA
128 ATAGCCGATGTGATGA
* *
44011047 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
44011112 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
44011167 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
141 50 0.21
142 2 0.01
143 141 0.59
144 2 0.01
145 45 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
GCCGATGTGATGA
Found at i:44015564 original size:24 final size:24
Alignment explanation
Indices: 44015519--44015567 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44015509 ATATTAGTTA
**
44015519 AAAAATATAAATATGTACATATAT
1 AAAAATATAAATACATACATATAT
* *
44015543 AAAAATATATATACATATATATAT
1 AAAAATATAAATACATACATATAT
44015567 A
1 A
44015568 GATTTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATATAAATACATACATATAT
Found at i:44017782 original size:169 final size:169
Alignment explanation
Indices: 44017542--44018043 Score: 762
Period size: 169 Copynumber: 3.0 Consensus size: 169
44017532 TCTTTTAAAT
* * * **
44017542 TGCAATGTTAGGGAAACAAGATT---TGCCGTCGTAGCTTCAAGATGTTCCACTATAATACCAAA
1 TGCAATGCTAGGGAAACAAGATTCACTACC-TC-TAGCTTTAATCTGTTCCACTATAATACCAAA
* *
44017604 GAGATAGGATTCGCTTCCCACATCTTTAATCCACTCCACTTCAGCTATTTCAAGTCTTAACACCA
64 GAGATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCA
*
44017669 GGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGC
129 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* * *
44017710 TGCAATGCTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTATAATTCCAAAGG
1 TGCAATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATCTGTTCCACTATAATACCAAAGA
* * *
44017775 GATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTGAACACCAGA
66 GATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
* * *
44017840 GAGATAAGATTGGCCGCCCTCAACTTTAATCTGCTCCGC
131 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* *
44017879 TGCAATGCTAGGGAAACAAGATTCGCTACCTCTAGCTTTAATCTGTTCCACTATAATGCCAAAGA
1 TGCAATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATCTGTTCCACTATAATACCAAAGA
*
44017944 GATAGGATTCGC-TGCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACATCC-G
66 GATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA-CCAG
44018007 GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
130 GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
44018044 TGCTATAACG
Statistics
Matches: 302, Mismatches: 28, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
168 100 0.33
169 198 0.66
170 1 0.00
171 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (169 bp):
TGCAATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATCTGTTCCACTATAATACCAAAGA
GATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
Found at i:44018112 original size:44 final size:44
Alignment explanation
Indices: 44018063--44018240 Score: 259
Period size: 44 Copynumber: 4.0 Consensus size: 44
44018053 GTCAGGAAAG
* *
44018063 TAAGATTCACGATCTTCAACCTATTCCACTGCTAACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* *
44018107 TAAGATTCACAACCTTCAACCTATTCCACTGCTGACTAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* *
44018151 TAGGATTCACAACCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* * *
44018195 TAGGATTCACAATCTTCAACCTATTCTACTGCTATA-CAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTA-ACCAGGGAGA
44018239 TA
1 TA
44018241 GGGCTGGGGT
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 123 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
Found at i:44023295 original size:26 final size:26
Alignment explanation
Indices: 44023245--44023296 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44023235 AAATATTAGT
* *
44023245 TAAAAAAATATAAATATGTACATATA
1 TAAAAAAATATAAACATATACATATA
* *
44023271 TAAAAAAATATATACATATATATATA
1 TAAAAAAATATAAACATATACATATA
44023297 GATTTTAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAAAAAATATAAACATATACATATA
Found at i:44029115 original size:21 final size:19
Alignment explanation
Indices: 44029078--44029152 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
44029068 AATCATATCT
44029078 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
44029097 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
44029118 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
44029137 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
44029153 CTTGAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:44030655 original size:28 final size:28
Alignment explanation
Indices: 44030615--44030686 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
44030605 AAACCAAAAG
* *
44030615 TGCAAGCTAAAGTGGCAGACAGTCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
44030643 TGCAAGCCAAAGTGGCAGACAATCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
44030671 TGCAAGCCAAAAGTGG
1 TGCAAGCC-AAAGTGG
44030687 GTGCAAGCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 34 0.83
29 7 0.17
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAA
Found at i:44030692 original size:45 final size:45
Alignment explanation
Indices: 44030643--44030814 Score: 195
Period size: 45 Copynumber: 3.9 Consensus size: 45
44030633 ACAGTCTAAA
*
44030643 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTGGG
* * * * * * *
44030688 TGCAAGCCCAATTGG-TGACAGTTTAAGTGAAAGCC-AAAGTTGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTGGG
* *
44030731 TGCAAGCCATAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTGGG
** * * *
44030776 TGCAAGCCAAAGTGGTGGATAGTCTAAGTGCGAGCCAAA
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAA
44030815 GAGGCAGACA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
43 19 0.18
44 30 0.29
45 54 0.52
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (45 bp):
TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTGGG
Found at i:44030773 original size:88 final size:89
Alignment explanation
Indices: 44030643--44030815 Score: 258
Period size: 88 Copynumber: 2.0 Consensus size: 89
44030633 ACAGTCTAAA
* *
44030643 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCCAATTGGT-GAC
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAC
*
44030707 AGTTTAAGTGAAAGCCAAAGTTGG
66 AGTCTAAGTGAAAGCCAAAGTTGG
* * * *
44030731 TGCAAGCCATAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAT
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAC
**
44030796 AGTCTAAGTGCGAGCCAAAG
66 AGTCTAAGTGAAAGCCAAAG
44030816 AGGCAGACAG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 56 0.75
89 19 0.25
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (89 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAC
AGTCTAAGTGAAAGCCAAAGTTGG
Found at i:44030789 original size:16 final size:17
Alignment explanation
Indices: 44030759--44030790 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44030749 ATAGTCTAAA
44030759 TGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAAGTGGG
44030776 TGCAAGCC-AAAGTGG
1 TGCAAGCCAAAAGTGG
44030791 TGGATAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (17 bp):
TGCAAGCCAAAAGTGGG
Found at i:44030815 original size:28 final size:28
Alignment explanation
Indices: 44030775--44030902 Score: 159
Period size: 28 Copynumber: 4.6 Consensus size: 28
44030765 CCAAAAGTGG
44030775 GTGCAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* * ** *
44030803 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* *
44030831 GTGCAAACCAAAGTGGCGGGA-AGTCTAA
1 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
* *
44030859 ATACAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
44030887 GTGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGG
44030903 CAGGCAGTCT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 3 0.04
28 77 0.94
29 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGTGGATAGTCTAA
Found at i:44030842 original size:56 final size:56
Alignment explanation
Indices: 44030775--44030926 Score: 171
Period size: 56 Copynumber: 2.7 Consensus size: 56
44030765 CCAAAAGTGG
* * * *
44030775 GTGCAAGCCAAAGTGG-TGGATAGTCTAAGTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGA-AGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * ** *
44030831 GTGCAAACCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * * *
44030887 GTGCAAGCCAAAGTGGCAGGCAGTCTAAATGCAAGTCAAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAA
44030927 AGTAGCGGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 78 0.96
57 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (56 bp):
GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
Found at i:44030911 original size:28 final size:28
Alignment explanation
Indices: 44030775--44030926 Score: 146
Period size: 28 Copynumber: 5.4 Consensus size: 28
44030765 CCAAAAGTGG
* *
44030775 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
* * *
44030803 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * *
44030831 GTGCAAACCAAAGTGGCGGGAAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * * *
44030859 ATACAAGCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
44030887 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* *
44030915 ATGCAAGTCAAA
1 GTGCAAGCCAAA
44030927 AGTAGCGGTA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
27 2 0.02
28 94 0.95
29 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCAGGCAGTCTAA
Found at i:44032416 original size:23 final size:22
Alignment explanation
Indices: 44032358--44032428 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 22
44032348 CTCTAAAAAA
*
44032358 CCTTTGTGACATATTTTATGATG
1 CCTTT-TGACATATTTTGTGATG
*
44032381 CC-TTTGCAGCATATTCTGTGATG
1 CCTTTTG-A-CATATTTTGTGATG
44032404 CCTTTATGACATATTTTGTGATG
1 CCTTT-TGACATATTTTGTGATG
44032427 CC
1 CC
44032429 CTCATAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 31 0.76
24 3 0.07
25 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (22 bp):
CCTTTTGACATATTTTGTGATG
Found at i:44034539 original size:49 final size:49
Alignment explanation
Indices: 44034486--44034594 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
44034476 GTCGTGATAG
* * ** *
44034486 TTGCTAACCATATTAGTGTATG-TGTTGGGCCA-TAGGTAGGGCATGTTAA
1 TTGCTAACCAGATTAGTGGA-GATGACGGGCCACTA-GTAGAGCATGTTAA
* *
44034535 TTGCTAACCAGATTGGTGGAGATGACGGGCCACTAGTAGAGCATGTTAG
1 TTGCTAACCAGATTAGTGGAGATGACGGGCCACTAGTAGAGCATGTTAA
44034584 TTGCTAACCAG
1 TTGCTAACCAG
44034595 CCTAGCATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
48 1 0.02
49 48 0.94
50 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (49 bp):
TTGCTAACCAGATTAGTGGAGATGACGGGCCACTAGTAGAGCATGTTAA
Found at i:44039383 original size:28 final size:28
Alignment explanation
Indices: 44039339--44039431 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
44039329 AAGTGGGGGC
** *
44039339 AAGCCAAAGTGATAGACAATCTAAGTGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
**
44039367 AAGCCAAAGTGGCAGACAATCTAAATAC
1 AAGCCAAAGTGGCAGACAATCTAAATGT
*
44039395 AAGCCAAAGTGGCAGACAATCTAAACGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
44039423 AAGCCAAAG
1 AAGCCAAAG
44039432 ATGGTGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.15
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGT
Found at i:44039445 original size:72 final size:72
Alignment explanation
Indices: 44039367--44039542 Score: 183
Period size: 72 Copynumber: 2.4 Consensus size: 72
44039357 ATCTAAGTGT
* * * * *
44039367 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAGTGGCAGACAATCTAAACGTAAGCCAAAG
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
44039432 ATGGTGC
66 ATGGTGC
* * * * * * ** *
44039439 AAGCCAAAGTGAC-GAAAAATTTAAATGCAAGCCAAAGTTGCGGATAGTCTAAGTGCAAGTAAAA
1 AAGCCAAAGTGGCAG-AAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAA
*
44039503 CTTGGTGC
65 CATGGTGC
* *
44039511 AAGACAAAGTGGCAGAGAATCTAAATGCAAGC
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGC
44039543 AAAAATGGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
71 1 0.01
72 81 0.98
73 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (72 bp):
AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
ATGGTGC
Found at i:44042006 original size:15 final size:15
Alignment explanation
Indices: 44041986--44042014 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44041976 GACTACTCGG
44041986 TTTTGGAAAATTTTA
1 TTTTGGAAAATTTTA
44042001 TTTTGGAAAATTTT
1 TTTTGGAAAATTTT
44042015 TAAAGCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTGGAAAATTTTA
Found at i:44050677 original size:44 final size:44
Alignment explanation
Indices: 44050610--44050786 Score: 183
Period size: 44 Copynumber: 4.0 Consensus size: 44
44050600 ACGGTCTAAA
* ** * * *
44050610 TGCAAGCCAATGTGGTGGGCAATCTAAGTGCAAGCCAAAGTTGG
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGGG
44050654 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGGG
**** *
44050698 TGCAAGCCAAAACAACAAACAATCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGGG
* ** ** *
44050743 TGCAAGCCAAAGAGGTGGACGGTTTAAATGCAAGCCAAAAGTGG
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGG
44050787 TGGATAGTCT
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 69 0.62
45 42 0.38
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.15
Consensus pattern (44 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGGG
Found at i:44050880 original size:28 final size:28
Alignment explanation
Indices: 44050771--44050913 Score: 126
Period size: 28 Copynumber: 5.1 Consensus size: 28
44050761 ACGGTTTAAA
** *
44050771 TGCAAGCCAAAAGTGGTGGATAGTCTAAG
1 TGCAAGCC-AAAGTGGCAGATAGTCCAAG
* ** * * *
44050800 TGCAAGCCAAAGTGGCGGGCAATCAAAA
1 TGCAAGCCAAAGTGGCAGATAGTCCAAG
44050828 TGCAAGCCAAAGTGGC-GAATAGTCCAAG
1 TGCAAGCCAAAGTGGCAG-ATAGTCCAAG
44050856 TGCAAGCCAAAGTGGCAGATAGTCCAAG
1 TGCAAGCCAAAGTGGCAGATAGTCCAAG
* * * * * *
44050884 TGGAAGACAAAATGACAGACAATCCAAG
1 TGCAAGCCAAAGTGGCAGATAGTCCAAG
44050912 TG
1 TG
44050914 TAAGACACTC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.01
28 85 0.89
29 9 0.09
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGATAGTCCAAG
Found at i:44051884 original size:31 final size:31
Alignment explanation
Indices: 44051849--44051907 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
44051839 GTTATCAGAG
* *
44051849 AAACTACAATGTAAAATTTTATTTTTTATAT
1 AAACTACAATGTAAAATTCTATATTTTATAT
** *
44051880 AAACTTTAGTGTAAAATTCTATATTTTA
1 AAACTACAATGTAAAATTCTATATTTTA
44051908 AATTTATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AAACTACAATGTAAAATTCTATATTTTATAT
Found at i:44060858 original size:20 final size:20
Alignment explanation
Indices: 44060833--44060884 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
44060823 AACAATGAAT
44060833 TTGTTCATCAAGAGATACAA
1 TTGTTCATCAAGAGATACAA
*
44060853 TTGTTCA--AA-AAATACAA
1 TTGTTCATCAAGAGATACAA
* *
44060870 CTGTTTATCAAGAGA
1 TTGTTCATCAAGAGA
44060885 CAGAACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 12 0.48
18 2 0.08
19 2 0.08
20 9 0.36
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTTCATCAAGAGATACAA
Found at i:44061433 original size:28 final size:28
Alignment explanation
Indices: 44061402--44061540 Score: 179
Period size: 28 Copynumber: 4.9 Consensus size: 28
44061392 CAGTCCGCCT
*
44061402 TTTTGGCTTGCATTTGGACTGTCTATCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* * *
44061430 TTTTGGCTTGCATTTGGACTATCCGCCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* * *
44061458 CTTTGGATTGCACTTTGGACTGTTTGTCA
1 TTTTGGCTTGCA-TTTGGACTGTCTGTCA
*
44061487 TTTTGGCTTGCACTTGGACTGTCTGTCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
*
44061515 TTTTGGCTTGCACTTTGGACTATCTG
1 TTTTGGCTTGCA-TTTGGACTGTCTG
44061541 CATGATCTTC
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
28 60 0.65
29 33 0.35
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (28 bp):
TTTTGGCTTGCATTTGGACTGTCTGTCA
Found at i:44061495 original size:57 final size:57
Alignment explanation
Indices: 44061403--44061535 Score: 187
Period size: 57 Copynumber: 2.4 Consensus size: 57
44061393 AGTCCGCCTT
*
44061403 TTTGGCTTGCA-TTTGGACTGTCTATCATTTTGGCTTGCATTTGGACTATCCGCCAC
1 TTTGGCTTGCACTTTGGACTGTCTATCATTTTGGCTTGCACTTGGACTATCCGCCAC
* * * * * * *
44061459 TTTGGATTGCACTTTGGACTGTTTGTCATTTTGGCTTGCACTTGGACTGTCTGTCAT
1 TTTGGCTTGCACTTTGGACTGTCTATCATTTTGGCTTGCACTTGGACTATCCGCCAC
44061516 TTTGGCTTGCACTTTGGACT
1 TTTGGCTTGCACTTTGGACT
44061536 ATCTGCATGA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
56 10 0.15
57 57 0.85
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (57 bp):
TTTGGCTTGCACTTTGGACTGTCTATCATTTTGGCTTGCACTTGGACTATCCGCCAC
Found at i:44066017 original size:51 final size:51
Alignment explanation
Indices: 44065959--44066062 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
44065949 AACCATCACA
* *
44065959 AATTTTGTTCTTTC-AAATATTGATATATTAGCTCTTCTGGAGCTTTTAACT
1 AATTTTGTTC-TACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
* *
44066010 AATTTTGTTCTACGAAATATTGATATATTTGCTCTTTTGGAGCTTTCAACT
1 AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
44066061 AA
1 AA
44066063 GTTTCATATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (51 bp):
AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
Found at i:44066793 original size:21 final size:21
Alignment explanation
Indices: 44066767--44066812 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44066757 TTAATAAAAA
* *
44066767 TAATT-ATAACTAATAATGAAT
1 TAATTAATAA-TAAAAATAAAT
44066788 TAATTAATAATAAAAATAAAT
1 TAATTAATAATAAAAATAAAT
44066809 TAAT
1 TAAT
44066813 CAAATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTAATAATAAAAATAAAT
Found at i:44074656 original size:24 final size:24
Alignment explanation
Indices: 44074618--44074734 Score: 92
Period size: 24 Copynumber: 4.9 Consensus size: 24
44074608 GACTCCTGGT
** *
44074618 GATTTGTTCAAATATTTTTCTAGC
1 GATTTGTTCGCATATTATTCTAGC
* *
44074642 GATTTTTTCGCATATTATTCTGGC
1 GATTTGTTCGCATATTATTCTAGC
* * *
44074666 GATCTGTTCACATATTATTCTCGC
1 GATTTGTTCGCATATTATTCTAGC
* * * *
44074690 GACTTGTTCGTATATTGTGCT-GAC
1 GATTTGTTCGCATATTATTCTAG-C
* *
44074714 GATTTGTTCACATATTGTTCT
1 GATTTGTTCGCATATTATTCT
44074735 GGTGGTTTGT
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
23 1 0.01
24 72 0.99
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (24 bp):
GATTTGTTCGCATATTATTCTAGC
Found at i:44074705 original size:48 final size:48
Alignment explanation
Indices: 44074613--44074734 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
44074603 TTTTGGACTC
* * * * * *
44074613 CTGGTGATTTGTTCAAATATTTTTCTAGCGATTTTTTCGCATATTATT
1 CTGGCGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* * * *
44074661 CTGGCGATCTGTTCACATATTATTCTCGCGACTTGTTCGTATATTGTG
1 CTGGCGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* *
44074709 CTGACGATTTGTTCACATATTGTTCT
1 CTGGCGATTTGTTCACATATTATTCT
44074735 GGTGGTTTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (48 bp):
CTGGCGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
Found at i:44076910 original size:42 final size:42
Alignment explanation
Indices: 44076847--44076931 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
44076837 AATTCATTAG
44076847 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
* * *
44076889 AACCCTAAATATGAAATTAATTATGAACACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
44076931 A
1 A
44076932 TCTTCTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.27
Consensus pattern (42 bp):
AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
Found at i:44078341 original size:19 final size:20
Alignment explanation
Indices: 44078309--44078348 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
44078299 ATTTAGGCTT
44078309 TATATATCATCCATCACACA
1 TATATATCATCCATCACACA
*
44078329 TATATAT-ATCCATTACACA
1 TATATATCATCCATCACACA
44078348 T
1 T
44078349 TCTTCTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATATCATCCATCACACA
Found at i:44082487 original size:91 final size:88
Alignment explanation
Indices: 44082306--44082487 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
44082296 TTCACCGTTA
* * *
44082306 AAAATTAGTGGTGGAGGAGGTGTAAAGCTGACTGAAGACATTTTTACAAAAAACAACAAGGAAAC
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
**
44082371 ATATGTTTTTTCTTTTAGGAAAC
66 ATATGTTTTTTCTTTTAAAAAAC
* * *
44082394 AAAATTGGTGGTGGAAGAGATGTAAAGCTGGCTGAAGACGTTTTTACAAAAAAAAACTATAAGGA
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAAC---AAGGA
44082459 AACATATGTTTTTTCTTTTAAAAAAC
63 AACATATGTTTTTTCTTTTAAAAAAC
44082485 AAA
1 AAA
44082488 GGCCCTCAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 51 0.61
91 32 0.39
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (88 bp):
AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
ATATGTTTTTTCTTTTAAAAAAC
Found at i:44083012 original size:29 final size:29
Alignment explanation
Indices: 44082968--44083035 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
44082958 CACCTTTTTG
*
44082968 GCTTGCA-TTTGAACTG-TCTGTCACTTTA
1 GCTTGCACTTTGAACTGTTC-ATCACTTTA
* *
44082996 GCTTGCACTTTGGACTGTTCATCACTTTG
1 GCTTGCACTTTGAACTGTTCATCACTTTA
*
44083025 GCTTGTACTTT
1 GCTTGCACTTT
44083036 AGACAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 25 0.74
30 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (29 bp):
GCTTGCACTTTGAACTGTTCATCACTTTA
Found at i:44086834 original size:7 final size:7
Alignment explanation
Indices: 44086822--44086847 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44086812 TAGTCTCATC
44086822 TTTATAT
1 TTTATAT
44086829 TTTATAT
1 TTTATAT
44086836 TTTATAT
1 TTTATAT
44086843 TTTAT
1 TTTAT
44086848 GCTGCCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:44090189 original size:35 final size:35
Alignment explanation
Indices: 44090149--44090216 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
44090139 AGCTGGTTTC
**
44090149 GGTTGGATTAGCTCTTTTGAGCATTGGCGTGTTGT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
*
44090184 GGTTGGATTAAATCTTTTGAGTATTGGCGTGTT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTT
44090217 TAGGGTGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (35 bp):
GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
Found at i:44090240 original size:35 final size:34
Alignment explanation
Indices: 44090160--44090253 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
44090150 GTTGGATTAG
* * *
44090160 CTCTTTTGAGCATTGGCGTGTTGTGGTTGGATTAA
1 CTCTTTTGAGTATTGGCGTGTT-TGGGTGGACTAA
*
44090195 ATCTTTTGAGTATTGGCGTGTTTAGGGTGGACTAA
1 CTCTTTTGAGTATTGGCGTGTTT-GGGTGGACTAA
* *
44090230 CTCTTGTGAGTACTTGGTGTGTTT
1 CTCTTTTGAGTA-TTGGCGTGTTT
44090254 TGGAGGGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 39 0.78
36 10 0.20
ACGTcount: A:0.15, C:0.11, G:0.31, T:0.44
Consensus pattern (34 bp):
CTCTTTTGAGTATTGGCGTGTTTGGGTGGACTAA
Found at i:44092188 original size:16 final size:16
Alignment explanation
Indices: 44092167--44092199 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44092157 TGAATGATTT
44092167 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
44092183 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
44092199 A
1 A
44092200 TAATACTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (16 bp):
AAGTTACATTTTTATG
Found at i:44098669 original size:12 final size:12
Alignment explanation
Indices: 44098652--44098677 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44098642 TGCCCATTGA
44098652 ACCATTTAGAAT
1 ACCATTTAGAAT
44098664 ACCATTTAGAAT
1 ACCATTTAGAAT
44098676 AC
1 AC
44098678 TGTCGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (12 bp):
ACCATTTAGAAT
Found at i:44100161 original size:20 final size:21
Alignment explanation
Indices: 44100121--44100161 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44100111 TATAATTTGA
*
44100121 TTTAATAAAAAGTTTGATTTT
1 TTTAATAAAAAGGTTGATTTT
44100142 TTTAATAAAAAGGTTG-TTTT
1 TTTAATAAAAAGGTTGATTTT
44100162 AAATTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TTTAATAAAAAGGTTGATTTT
Found at i:44100356 original size:11 final size:12
Alignment explanation
Indices: 44100336--44100372 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
44100326 TTTATTATCT
44100336 TTTATA-AAAAA
1 TTTATAGAAAAA
44100347 TTTA-AGAAAAA
1 TTTATAGAAAAA
*
44100358 ATTATAGAAAAA
1 TTTATAGAAAAA
44100370 TTT
1 TTT
44100373 CCCAAACGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 1 0.05
11 12 0.55
12 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
TTTATAGAAAAA
Found at i:44100648 original size:27 final size:29
Alignment explanation
Indices: 44100583--44100648 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
44100573 AACTATTTGG
44100583 AAGTTTTCATTTAAGTCACTGAACTATTCA
1 AAGTTTTCATTTAAGTCACTGAACTATT-A
* * *
44100613 ATAGTTTTTATTTAAGTCATTGGACTATT-
1 A-AGTTTTCATTTAAGTCACTGAACTATTA
44100642 AAGTTTT
1 AAGTTTT
44100649 TTTTTAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 1 0.03
30 1 0.03
31 24 0.75
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (29 bp):
AAGTTTTCATTTAAGTCACTGAACTATTA
Done.