Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 249 of 284
Found at i:83624636 original size:30 final size:30
Alignment explanation
Indices: 83624602--83624668 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
83624592 ATATTAAATA
*
83624602 TAAATTGATAGCTAATTAAAGTACAATAAT
1 TAAATTGATAACTAATTAAAGTACAATAAT
*
83624632 TAAATTGATAACTAATTAAAGTACGATAAT
1 TAAATTGATAACTAATTAAAGTACAATAAT
83624662 TAAATTG
1 TAAATTG
83624669 TAAAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (30 bp):
TAAATTGATAACTAATTAAAGTACAATAAT
Found at i:83624649 original size:16 final size:16
Alignment explanation
Indices: 83624602--83624651 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
83624592 ATATTAAATA
*
83624602 TAAATTGATAGCTAAT
1 TAAATTGATAACTAAT
* *
83624618 TAAAGT-ACAA-TAAT
1 TAAATTGATAACTAAT
83624632 TAAATTGATAACTAAT
1 TAAATTGATAACTAAT
83624648 TAAA
1 TAAA
83624652 GTACGATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 9 0.33
15 5 0.19
16 13 0.48
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (16 bp):
TAAATTGATAACTAAT
Found at i:83624906 original size:34 final size:34
Alignment explanation
Indices: 83624863--83624935 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
83624853 ATATGGAAAG
83624863 AAAAAGAATTTATCTTCATCTTCTTCTCACCACC
1 AAAAAGAATTTATCTTCATCTTCTTCTCACCACC
83624897 AAAAAGAATTTATCTTCATCTTCTTCTCACCACC
1 AAAAAGAATTTATCTTCATCTTCTTCTCACCACC
83624931 AAAAA
1 AAAAA
83624936 TACCATAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (34 bp):
AAAAAGAATTTATCTTCATCTTCTTCTCACCACC
Found at i:83625882 original size:42 final size:42
Alignment explanation
Indices: 83625822--83626023 Score: 172
Period size: 42 Copynumber: 4.8 Consensus size: 42
83625812 CAATTTATTT
83625822 GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
1 GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
* * * * *
83625864 GATGATACTCTTACGTGTCAATATATTTTCTTCGGTATATCC
1 GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
* * * ** * *
83625906 AATGATGCACGTATGTGCCAGTATATTTTCTTTGGTACATCT
1 GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
* * * * * * * * *
83625948 GATAATGCACTTACGTGCCAGCATAATTGCTTCGGTTTATCT
1 GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
* *
83625990 GATGATGCAC-TATGTTTTCCAGTATATTTCCTTC
1 GATGATGCACTTATG-TGT-CAGTATATTTTCTTC
83626024 GGTTTACTCG
Statistics
Matches: 126, Mismatches: 32, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
41 3 0.02
42 111 0.88
43 12 0.10
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (42 bp):
GATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCC
Found at i:83625964 original size:84 final size:83
Alignment explanation
Indices: 83625823--83626023 Score: 204
Period size: 84 Copynumber: 2.4 Consensus size: 83
83625813 AATTTATTTG
* * * * * *
83625823 ATGATGCACTTATGTGTCAGTATATTTTCTTCAGTATATCCGATGATACTCTTACGTGTCAATAT
1 ATGATGCAC-TATGTGCCAGTATATTTTCTTCAGTACATCCGATAATACACTTACGTGCCAACAT
* *
83625888 ATTTTCTTCGGTATATCCA
65 AATTGCTTCGGTATATCCA
** * * *
83625907 ATGATGCACGTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATGCACTTACGTGCCAGCAT
1 ATGATGCAC-TATGTGCCAGTATATTTTCTTCAGTACATCCGATAATACACTTACGTGCCAACAT
* **
83625972 AATTGCTTCGGTTTATCTG
65 AATTGCTTCGGTATATCCA
* *
83625991 ATGATGCACTATGTTTTCCAGTATATTTCCTTC
1 ATGATGCACTATG--TGCCAGTATATTTTCTTC
83626024 GGTTTACTCG
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
83 4 0.04
84 76 0.80
85 15 0.16
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (83 bp):
ATGATGCACTATGTGCCAGTATATTTTCTTCAGTACATCCGATAATACACTTACGTGCCAACATA
ATTGCTTCGGTATATCCA
Found at i:83638213 original size:17 final size:17
Alignment explanation
Indices: 83638191--83638289 Score: 57
Period size: 17 Copynumber: 5.8 Consensus size: 17
83638181 TGAATCCTCC
83638191 TATTTTTTA-TTTATTCT
1 TATTTTTTATTTTATT-T
83638208 TA-TTTTTATTTTATTT
1 TATTTTTTATTTTATTT
83638224 TATTTATTT-TCTTT-TTCT
1 TATTT-TTTAT-TTTATT-T
* *
83638242 TTTTCTTTTGTTTT-TTT
1 TATT-TTTTATTTTATTT
* *
83638259 TA-TTTTCATTTCAATTT
1 TATTTTTTATTT-TATTT
83638276 TATTATTTTATTTT
1 TATT-TTTTATTTT
83638290 GAAAAAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
15 6 0.09
16 10 0.16
17 20 0.31
18 19 0.30
19 9 0.14
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (17 bp):
TATTTTTTATTTTATTT
Found at i:83638215 original size:16 final size:16
Alignment explanation
Indices: 83638194--83638289 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 16
83638184 ATCCTCCTAT
83638194 TTTTTA-TTTATTCTTA
1 TTTTTATTTTATT-TTA
83638210 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
* *
83638226 --TTTATTTTCTTTTTC
1 TTTTTATTTT-ATTTTA
* *
83638241 TTTTTCTTTT-GTTT-
1 TTTTTATTTTATTTTA
*
83638255 TTTTTATTTTCATTTCA
1 TTTTTATTTT-ATTTTA
*
83638272 ATTTTA--TTATTTTA
1 TTTTTATTTTATTTTA
83638286 TTTT
1 TTTT
83638290 GAAAAAGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
14 25 0.40
15 9 0.14
16 11 0.17
17 18 0.29
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:83638217 original size:12 final size:11
Alignment explanation
Indices: 83638191--83638289 Score: 57
Period size: 11 Copynumber: 9.0 Consensus size: 11
83638181 TGAATCCTCC
83638191 TATTTT-TTATT
1 TATTTTATT-TT
83638202 TATTCTTATTTT
1 TATT-TTATTTT
83638214 TATTTTA-TTT
1 TATTTTATTTT
83638224 TA-TTTATTTT
1 TATTTTATTTT
*
83638234 CT-TTTTCTTTT
1 -TATTTTATTTT
* *
83638245 TCTTTT-GTTT
1 TATTTTATTTT
83638255 T-TTTTATTTT
1 TATTTTATTTT
* *
83638265 CATTTCAATTTTAT
1 TATTT-TA-TTT-T
83638279 TATTTTATTTT
1 TATTTTATTTT
83638290 GAAAAAGATA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
9 8 0.11
10 16 0.23
11 23 0.33
12 12 0.17
13 6 0.09
14 5 0.07
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:83638226 original size:26 final size:25
Alignment explanation
Indices: 83638195--83638289 Score: 93
Period size: 26 Copynumber: 3.7 Consensus size: 25
83638185 TCCTCCTATT
83638195 TTTTATTTATTCTTATTTTTATTTTA
1 TTTTATTTATT-TTATTTTTATTTTA
* * *
83638221 TTTTATTTATTTTCTTTTTCTTTTTC
1 TTTTATTTATTTTATTTTT-ATTTTA
* * * *
83638247 TTTTGTTTTTTTTATTTTCATTTCAA
1 TTTTATTTATTTTATTTTTATTT-TA
83638273 TTTTA-TTATTTTATTTT
1 TTTTATTTATTTTATTTT
83638290 GAAAAAGATA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
25 21 0.38
26 34 0.62
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTTATTTATTTTATTTTTATTTTA
Found at i:83638261 original size:31 final size:31
Alignment explanation
Indices: 83638193--83638265 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
83638183 AATCCTCCTA
*
83638193 TTTTTTA-TTTATTCTTATTTTTATTTTATT
1 TTTTTTATTTTCTTCTTATTTTTATTTTATT
* * * * *
83638223 TTATTTATTTTCTTTTTCTTTTTCTTTTGTT
1 TTTTTTATTTTCTTCTTATTTTTATTTTATT
83638254 TTTTTTATTTTC
1 TTTTTTATTTTC
83638266 ATTTCAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.11, C:0.07, G:0.01, T:0.81
Consensus pattern (31 bp):
TTTTTTATTTTCTTCTTATTTTTATTTTATT
Found at i:83638269 original size:6 final size:5
Alignment explanation
Indices: 83638195--83638289 Score: 56
Period size: 5 Copynumber: 18.8 Consensus size: 5
83638185 TCCTCCTATT
* *
83638195 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTCT TTTTCT
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A
* * *
83638242 TTTTC TTTTG TTTT- TTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
83638290 GAAAAAGATA
Statistics
Matches: 75, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.04
4 12 0.16
5 34 0.45
6 24 0.32
7 2 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:83641313 original size:40 final size:39
Alignment explanation
Indices: 83641282--83641491 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
83641272 GGACTAAGAT
* *
83641282 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
83641322 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
83641362 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
83641402 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
83641442 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
83641481 CCGAAGGCATT
1 CCGAAGGCATT
83641492 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:83641445 original size:120 final size:120
Alignment explanation
Indices: 83641229--83641491 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
83641219 TTGAATGCTG
* *
83641229 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
83641293 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
83641349 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
83641412 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
83641468 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83641492 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:83641511 original size:79 final size:80
Alignment explanation
Indices: 83641282--83641526 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
83641272 GGACTAAGAT
* * * * * * * ** *
83641282 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
83641345 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
83641362 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
83641427 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
83641442 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
83641506 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
83641520 CCGAAGG
1 CCGAAGG
83641527 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:83647090 original size:64 final size:64
Alignment explanation
Indices: 83646985--83647113 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
83646975 GCTATTTGAT
*
83646985 AGGCCCATAATACATCATCGAGCCTCCGAGACCAATCTTTTCTGCTAGGGCGTGCTACCTTTTC
1 AGGCCCATAATACATCATCGAGCCTCCGAGACCAATCTTTTCTGCTAGGGCATGCTACCTTTTC
* *
83647049 AGGCCCATAATGCATCATCGAGCCTCCGAGACCAATTTTTTCTGCTAGGGCATGCTACCTTTTC
1 AGGCCCATAATACATCATCGAGCCTCCGAGACCAATCTTTTCTGCTAGGGCATGCTACCTTTTC
83647113 A
1 A
83647114 AGGATACGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (64 bp):
AGGCCCATAATACATCATCGAGCCTCCGAGACCAATCTTTTCTGCTAGGGCATGCTACCTTTTC
Found at i:83649353 original size:13 final size:13
Alignment explanation
Indices: 83649326--83649402 Score: 100
Period size: 13 Copynumber: 5.9 Consensus size: 13
83649316 ACACTTAAAT
*
83649326 TTTTCCAAAGCAC
1 TTTTCAAAAGCAC
* *
83649339 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
83649352 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
83649365 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
83649378 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
83649391 TTTTCAAAAGCA
1 TTTTCAAAAGCA
83649403 AAGAAGAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:83649377 original size:39 final size:39
Alignment explanation
Indices: 83649326--83649402 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
83649316 ACACTTAAAT
*
83649326 TTTTCCAAAGCACTTCTCAAAAGTACTTCTCAAAAGCAC
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
* * *
83649365 TTTTCCACAGCACTTTTCAAAAGCACTTTTCAAAAGCA
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCA
83649403 AAGAAGAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (39 bp):
TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
Found at i:83650414 original size:11 final size:11
Alignment explanation
Indices: 83650395--83650431 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
83650385 AGAATGATGA
*
83650395 ATGAGTGAGGG
1 ATGATTGAGGG
83650406 ATGATTGAGGG
1 ATGATTGAGGG
*
83650417 GTGATTGAGGG
1 ATGATTGAGGG
83650428 ATGA
1 ATGA
83650432 GGGATGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.49, T:0.24
Consensus pattern (11 bp):
ATGATTGAGGG
Found at i:83653143 original size:37 final size:37
Alignment explanation
Indices: 83653093--83653171 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
83653083 TTATTACGAA
* * *
83653093 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
83653130 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
83653167 GTCTT
1 GTCTT
83653172 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:83653440 original size:22 final size:22
Alignment explanation
Indices: 83653365--83653440 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
83653355 TTTCACATTC
83653365 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
83653387 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTAGGCCTT
83653411 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
83653434 ATCACAT
1 ATCACAT
83653441 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:83653511 original size:49 final size:47
Alignment explanation
Indices: 83653290--83653579 Score: 436
Period size: 47 Copynumber: 6.1 Consensus size: 47
83653280 CCCTTCGGGA
* * * * * * *
83653290 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
83653337 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83653384 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83653431 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83653478 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83653527 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83653576 CTTA
1 CTTA
83653580 CTATCATTTC
Statistics
Matches: 228, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 137 0.60
49 91 0.40
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83660248 original size:40 final size:40
Alignment explanation
Indices: 83660204--83660465 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
83660194 GCTCCTCGTT
* *
83660204 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
83660244 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
83660284 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
83660323 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
83660362 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
83660401 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
83660442 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83660466 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:83661562 original size:14 final size:14
Alignment explanation
Indices: 83661543--83661569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83661533 AGGATGAGCA
83661543 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
83661557 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
83661570 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:83666627 original size:2 final size:2
Alignment explanation
Indices: 83666620--83666663 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
83666610 AGGATAAAAA
83666620 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
83666662 GT
1 GT
83666664 AATGAATGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:83668787 original size:14 final size:12
Alignment explanation
Indices: 83668759--83668801 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
83668749 TAAAATTATT
83668759 TATTATTTATAA
1 TATTATTTATAA
83668771 TATTATTTGAGTAA
1 TATTATTT-A-TAA
*
83668785 TATTATCTATAA
1 TATTATTTATAA
83668797 -ATTAT
1 TATTAT
83668802 CTATCAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 11 0.39
13 2 0.07
14 10 0.36
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (12 bp):
TATTATTTATAA
Found at i:83669134 original size:92 final size:89
Alignment explanation
Indices: 83668984--83669197 Score: 245
Period size: 91 Copynumber: 2.4 Consensus size: 89
83668974 CTCCTCAATT
* * *
83668984 TTTTTCAAAAAATGCAATTAAGTCTCTTTCTCTCTCTTTTGCATCAATTAAACACTTGAACTTTC
1 TTTTTCAAAAAAAGCAATTAAG-CTCCTGCTCTCTCTTTTGCATCAATTAAACACTTGAACTTTC
* *
83669049 AAAATGCATCAA-ATAGGCCCTCAAA
65 AAAATACATCAAGA-AGACCCTCAAA
* * * ***
83669074 TTTCTTCAAAAAAAGCAATTAAGCTCCTGCTTCTTTTTTTTTCACTCAATTAGGTACTTGAACTT
1 TTT-TTCAAAAAAAGCAATTAAGCTCCTGC-TCTCTCTTTTGCA-TCAATTAAACACTTGAACTT
83669139 TCAAAATACATCAAGAAGACCCTCAAAA
63 TCAAAATACATCAAGAAGACCCTC-AAA
83669167 TTTTTC-AAAAAAGCAATTAAGC-CCATGCTCT
1 TTTTTCAAAAAAAGCAATTAAGCTCC-TGCTCT
83669198 TATTAAAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
90 13 0.12
91 47 0.44
92 40 0.37
93 7 0.07
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (89 bp):
TTTTTCAAAAAAAGCAATTAAGCTCCTGCTCTCTCTTTTGCATCAATTAAACACTTGAACTTTCA
AAATACATCAAGAAGACCCTCAAA
Found at i:83669301 original size:10 final size:8
Alignment explanation
Indices: 83669213--83669300 Score: 88
Period size: 8 Copynumber: 10.6 Consensus size: 8
83669203 AAAATTAGAA
83669213 AAAAATTAT
1 AAAAA-TAT
83669222 AAAAA-AT
1 AAAAATAT
*
83669229 AAAAAAAT
1 AAAAATAT
* * *
83669237 TAAATTTT
1 AAAAATAT
83669245 AAAAATAT
1 AAAAATAT
83669253 AAAAATAT
1 AAAAATAT
83669261 AAAAATAT
1 AAAAATAT
83669269 AAAAATAT
1 AAAAATAT
*
83669277 AAAATTTTAT
1 AAAA--ATAT
83669287 AAAAATCAT
1 AAAAAT-AT
83669296 AAAAA
1 AAAAA
83669301 AACTAGGGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
7 7 0.11
8 40 0.61
9 12 0.18
10 7 0.11
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAATAT
Found at i:83669479 original size:20 final size:18
Alignment explanation
Indices: 83669448--83669486 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
83669438 TCTAAAATTT
*
83669448 ATTTTTTTATTTTTTATA
1 ATTTTTTTATTTTTAATA
83669466 ATTTTTTCTAATTTTTAATA
1 ATTTTTT-T-ATTTTTAATA
83669486 A
1 A
83669487 AGCCAAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTATTTTTAATA
Found at i:83671389 original size:241 final size:241
Alignment explanation
Indices: 83670926--83671485 Score: 654
Period size: 241 Copynumber: 2.3 Consensus size: 241
83670916 ATTTAGGGGG
* *
83670926 AAAA-ATAGGATTGTAGAATTCTAAATTTATATTCAATTAAATCAGCCTAACATTTTTGTTAATA
1 AAAATATAGGATCGTAGAA-TCTAAATTTATATTCAATTAAATCAGCCTAACATTTTTGTTAATT
* * * * * *
83670990 ATTGTTTTTAATAAAGTTTCGTAGCTAATAAATTTATTAATCTGAATTATTATTTATTTTTCGAA
65 ATTG--TTTAAT--A-TTCCGTACCTAACAAATTGAATAATCTGAATAATTATTTATTTTT--AA
* * *
83671055 ATTTGATAAAAAAGTTATGTTGTTTTTTCTTTGTCTTCATTTTTGTTTCTCAATTGTTAATTCCA
123 ATTTGATAAAAAAGTTAGGTTGTTTTTTCTTTGTCATCATTTTTGTTTCTCAATTATTAATTCCA
*
83671120 ATGCGCTAGTTTGTGGAAGTAGGTTTTTCATTTC-GAGTTGTATATAGGGG-AAA
188 ATGCGCCAGTTTGTGGAAGTAGGTTTTTCATTTCGGA-TTGTATATAGGGGAAAA
* * *
83671173 AGAA-A-A-GATCGTAGAATCTAAATTTATAGTCAATTATATCAGCCTAACATTTTTGTTAATTA
1 AAAATATAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCTAACATTTTTGTTAATTA
* *
83671235 TTGTTTCAT-TTCCGTACCTAACAAATTGAATAATCTGAATAAGTTATTTATTATTT-ATTTTGC
66 TTGTTTAATATTCCGTACCTAACAAATTGAATAATCTGAATAA-TTATTTATT-TTTAAATTTG-
* *
83671298 ACTGATAAAAGATTAGGTTGTTTTTTCTTTGTCATCATTTTT-TCTTCTCAATTATTAATTTCAA
128 A-T-AAAAAAG-TTAGGTTGTTTTTTCTTTGTCATCATTTTTGT-TTCTCAATTATTAATTCCAA
* * * *
83671362 TGCGCCATTTTGTGGAATTTA-GTTTTTCATTTTGGATTGTATTTAGGGGAAAA
189 TGCGCCAGTTTGTGGAA-GTAGGTTTTTCATTTCGGATTGTATATAGGGGAAAA
* * * *
83671415 AAAATATAGGATCTTGGAATCGAAATTTATATTCAATTAAATCAGCCTAATATTTTTGTTAATTA
1 AAAATATAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCTAACATTTTTGTTAATTA
83671480 TTGTTT
66 TTGTTT
83671486 GTTTCTAATC
Statistics
Matches: 270, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
237 5 0.02
238 28 0.10
239 10 0.04
240 10 0.04
241 84 0.31
242 15 0.06
243 1 0.00
244 47 0.17
245 65 0.24
246 1 0.00
247 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (241 bp):
AAAATATAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCTAACATTTTTGTTAATTA
TTGTTTAATATTCCGTACCTAACAAATTGAATAATCTGAATAATTATTTATTTTTAAATTTGATA
AAAAAGTTAGGTTGTTTTTTCTTTGTCATCATTTTTGTTTCTCAATTATTAATTCCAATGCGCCA
GTTTGTGGAAGTAGGTTTTTCATTTCGGATTGTATATAGGGGAAAA
Found at i:83684619 original size:23 final size:23
Alignment explanation
Indices: 83684591--83684636 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
83684581 ATGTGGTACA
83684591 TGAATTTTGATTTTGTGCAATTG
1 TGAATTTTGATTTTGTGCAATTG
*
83684614 TGAATTTTGATTTTGTGTAATTG
1 TGAATTTTGATTTTGTGCAATTG
83684637 CATACATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (23 bp):
TGAATTTTGATTTTGTGCAATTG
Found at i:83684646 original size:29 final size:27
Alignment explanation
Indices: 83684586--83684646 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 27
83684576 TCTATATGTG
83684586 GTACATGAATTTTGATTTTGTGCAATT
1 GTACATGAATTTTGATTTTGTGCAATT
*
83684613 G----TGAATTTTGATTTTGTGTAATT
1 GTACATGAATTTTGATTTTGTGCAATT
83684636 GCATACATGAA
1 G--TACATGAA
83684647 ATTTCAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
23 22 0.81
27 1 0.04
29 4 0.15
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.46
Consensus pattern (27 bp):
GTACATGAATTTTGATTTTGTGCAATT
Found at i:83685102 original size:31 final size:31
Alignment explanation
Indices: 83685066--83685153 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
83685056 AATGTTTATG
*
83685066 ATTGAATCAATATCAAAGTTTCATATATATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* * * *
83685097 ATTGAATTAAAATCAAATTTTCATGTGTATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* *
83685128 A-TAATATC-ACATCAAAG-TTCATATAT
1 ATTGA-ATCAAAATCAAAGTTTCATATAT
83685154 TACAATGTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
31 29 0.64
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTGAATCAAAATCAAAGTTTCATATATATA
Found at i:83688451 original size:31 final size:31
Alignment explanation
Indices: 83688375--83688473 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 31
83688365 ATTATTTACA
* * *
83688375 TAAGGGTCAAAAATTTTAAAA--TGATCAAA
1 TAAGGGCCAAAACTTTTAAAATGTGATCAAG
*** *
83688404 TAAGGATTAAATCTTTTAAAATGTGATCAAG
1 TAAGGGCCAAAACTTTTAAAATGTGATCAAG
* *
83688435 TAAGGGCCAAAACTTTTTAAATG-G-TTAAG
1 TAAGGGCCAAAACTTTTAAAATGTGATCAAG
*
83688464 TAAGAGCCAA
1 TAAGGGCCAA
83688474 TTTTTTTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
29 30 0.54
30 1 0.02
31 25 0.45
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.29
Consensus pattern (31 bp):
TAAGGGCCAAAACTTTTAAAATGTGATCAAG
Found at i:83694167 original size:20 final size:21
Alignment explanation
Indices: 83694132--83694174 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
83694122 AATCTCAAAT
83694132 ATTGAGATTAAAAAAAATTAA
1 ATTGAGATTAAAAAAAATTAA
83694153 ATTGAGATT-AAAAAAATTAA
1 ATTGAGATTAAAAAAAATTAA
83694173 AT
1 AT
83694175 ATCAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATTGAGATTAAAAAAAATTAA
Found at i:83694183 original size:21 final size:20
Alignment explanation
Indices: 83694142--83694185 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
83694132 ATTGAGATTA
* *
83694142 AAAAAAATTAAATTGAGATT
1 AAAAAAATTAAATTCAAATT
83694162 AAAAAAATTAAATATCAAATT
1 AAAAAAATTAAAT-TCAAATT
83694183 AAA
1 AAA
83694186 GAACAAGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAAATTAAATTCAAATT
Found at i:83696749 original size:44 final size:44
Alignment explanation
Indices: 83696691--83696795 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
83696681 ATTTCCGATA
* * * *
83696691 TCTGTTCTGTGTGTAAGACCATGTCTATGACGTTGGCATCG-ACT
1 TCTGTTTTGCGTGTAAGACCATGTCTAGGACATTGGCATCGTA-T
*
83696735 TCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TCTGTTTTGCGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
83696779 T-TGATTT-CGTGTAAGAC
1 TCTGTTTTGCGTGTAAGAC
83696796 TCTGTCTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 10 0.19
43 5 0.09
44 38 0.70
45 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (44 bp):
TCTGTTTTGCGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:83696816 original size:42 final size:43
Alignment explanation
Indices: 83696744--83696847 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 43
83696734 TTCTGTTTTG
* * *
83696744 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGATTA
* * *
83696786 CGTGTAAGACTC-TGTCTGTGATAGTAGCATCGATGTTTGATTA
1 CGTGTAAGAC-CATGTCTGGGACAGTAGCATCGATATTTGATTA
* *
83696829 CATGTAAGACCACGTCTGG
1 CGTGTAAGACCATGTCTGG
83696848 ACGTCAGCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGATTA
Found at i:83702371 original size:28 final size:28
Alignment explanation
Indices: 83702331--83702399 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
83702321 CATTGGCTAG
83702331 GACACGGGCGTGTCATGGCCGTGAGAAA
1 GACACGGGCGTGTCATGGCCGTGAGAAA
*
83702359 GACACGGGCGTGTCATGGCCGTGTGAAA
1 GACACGGGCGTGTCATGGCCGTGAGAAA
83702387 GACACGGGCGTGT
1 GACACGGGCGTGT
83702400 TTCAGGCCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.16
Consensus pattern (28 bp):
GACACGGGCGTGTCATGGCCGTGAGAAA
Found at i:83706210 original size:44 final size:43
Alignment explanation
Indices: 83706112--83706231 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
83706102 GGATTTCCGA
* * * ** *
83706112 TATCTGTTCTGCATGTAAGACCACGTCTATGACGTTGGCATCG
1 TATCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG
83706155 -ACTTCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG
1 TA--TCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG
83706199 TATCTGATTTT--GTGTAAGATCC-TGTCTGGGACA
1 TATCTG-TTTTGCGTGTAAGA-CCATGTCTGGGACA
83706232 GTGACATCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 20 0.30
43 6 0.09
44 39 0.59
45 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (43 bp):
TATCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG
Found at i:83707697 original size:103 final size:104
Alignment explanation
Indices: 83707453--83707718 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
83707443 GTTGTACATA
** *
83707453 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
83707518 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
83707557 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
83707622 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
83707660 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
83707719 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:83715189 original size:103 final size:104
Alignment explanation
Indices: 83714945--83715210 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
83714935 GTTGTACATA
** *
83714945 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
83715010 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
83715049 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
83715114 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
83715152 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
83715211 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:83718232 original size:89 final size:88
Alignment explanation
Indices: 83718059--83718303 Score: 265
Period size: 89 Copynumber: 2.8 Consensus size: 88
83718049 GGGCTATCAG
* * * * * *
83718059 TAAGCTGTACGGTGCCATGCAGAAGACCGTGGTACAGACATGCAATATTAATTGCCAGATCAGAT
1 TAAGCTGTACTGTGCAATGC-GAAGACCGCGGTACAGACATGCAGTATAAACTGCCAGATCAGAT
*
83718124 ATTTTACACAGCAAAGCTAGCGTA
65 ATATTACACAGCAAAGCTAGCGTA
* * * * *
83718148 TAAGTTGTACTGTGCAATGCGGAAGACCGCGGTATAGACATGCAGTATGAACTGGCAGATTAGAT
1 TAAGCTGTACTGTGCAATGC-GAAGACCGCGGTACAGACATGCAGTATAAACTGCCAGATCAGAT
*** * *
83718213 ATATTGTGCAGTAAGGCTAGCGTA
65 ATATTACACAGCAAAGCTAGCGTA
* * * * *
83718237 TAAGCTGTACTATGCAATGCGATAAACTGCAGTACAGACATGTAGTATAAACTGCCAGATCAGAT
1 TAAGCTGTACTGTGCAATGCGA-AGACCGCGGTACAGACATGCAGTATAAACTGCCAGATCAGAT
83718302 AT
65 AT
83718304 TGGCACGTAG
Statistics
Matches: 128, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
88 2 0.02
89 126 0.98
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (88 bp):
TAAGCTGTACTGTGCAATGCGAAGACCGCGGTACAGACATGCAGTATAAACTGCCAGATCAGATA
TATTACACAGCAAAGCTAGCGTA
Found at i:83721611 original size:40 final size:40
Alignment explanation
Indices: 83721532--83721708 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
83721522 CGGATGATAA
* * * *
83721532 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
83721572 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
83721612 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
83721652 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
83721692 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
83721709 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:83721976 original size:22 final size:22
Alignment explanation
Indices: 83721936--83721977 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
83721926 GAATGTGCAT
*
83721936 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
83721958 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
83721978 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:83733185 original size:16 final size:16
Alignment explanation
Indices: 83733164--83733195 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83733154 ATTTTACTAT
83733164 ATAGTGGTTCATAAAA
1 ATAGTGGTTCATAAAA
83733180 ATAGTGGTTCATAAAA
1 ATAGTGGTTCATAAAA
83733196 GGTTGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATAGTGGTTCATAAAA
Found at i:83737966 original size:5 final size:5
Alignment explanation
Indices: 83737956--83738106 Score: 106
Period size: 5 Copynumber: 31.0 Consensus size: 5
83737946 AAGATGACTT
* * * * *
83737956 TATAA TATAA TATAA TATAA -AAAA TAAAA AATAA -AAAA T-TAT TA-AA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
83738002 TATTAA -ATAT TA-AA TATTAA -ATAT TA-AA TATTAA -ATAT TA-AA
1 TA-TAA TATAA TATAA TA-TAA TATAA TATAA TA-TAA TATAA TATAA
83738044 TATTAAA TATTAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TA-TA-A TAT-AA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
83738092 TATAA TATAA TATAA
1 TATAA TATAA TATAA
83738107 ATAGTTTTTA
Statistics
Matches: 117, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
4 26 0.22
5 75 0.64
6 12 0.10
7 4 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:83738005 original size:7 final size:7
Alignment explanation
Indices: 83737995--83738056 Score: 124
Period size: 7 Copynumber: 8.9 Consensus size: 7
83737985 AATAAAAAAT
83737995 TATTAAA
1 TATTAAA
83738002 TATTAAA
1 TATTAAA
83738009 TATTAAA
1 TATTAAA
83738016 TATTAAA
1 TATTAAA
83738023 TATTAAA
1 TATTAAA
83738030 TATTAAA
1 TATTAAA
83738037 TATTAAA
1 TATTAAA
83738044 TATTAAA
1 TATTAAA
83738051 TATTAA
1 TATTAA
83738057 TATAATATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATTAAA
Found at i:83738597 original size:20 final size:19
Alignment explanation
Indices: 83738550--83738588 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
83738540 GTTATTAAAA
*
83738550 ATATTTTTTTATAATTTTT
1 ATATTTTTTAATAATTTTT
*
83738569 AGACTTTTTTAATAATTTTT
1 ATA-TTTTTTAATAATTTTT
83738589 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
ATATTTTTTAATAATTTTT
Found at i:83740883 original size:129 final size:129
Alignment explanation
Indices: 83740653--83740895 Score: 373
Period size: 129 Copynumber: 1.9 Consensus size: 129
83740643 TTTGAATGCT
* * *
83740653 TCTTTGATAGGTTTTCAGGCTTAGGGAGTGTTTCTACATCGAAATCGAACCAGGTGTGTACCCAA
1 TCTTTGATAGGTTTTCAGGCTTAGGGAGTGTTTCGACATCGAAATCGAACCAAGTGTATACCCAA
* *
83740718 AAATGCAGAAAATAGGGTTTCAGCAAAAGTCAAAAACCCTACTGTCGACACCACACGAGCGTCC
66 AAATACAAAAAATAGGGTTTCAGCAAAAGTCAAAAACCCTACTGTCGACACCACACGAGCGTCC
* * *
83740782 TCTTTGATAGGTTTTTAGGCTTAGGGAGTGTTTCGACATCGAAATCGAATCAAGTGTATACCCGA
1 TCTTTGATAGGTTTTCAGGCTTAGGGAGTGTTTCGACATCGAAATCGAACCAAGTGTATACCCAA
*
83740847 AAATACAAAAAATAGGGTTTC-GACAAAAG-CTAAAAACTCTACTGTCGAC
66 AAATACAAAAAATAGGGTTTCAG-CAAAAGTC-AAAAACCCTACTGTCGAC
83740896 GCTACACAGG
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 2 0.02
129 101 0.98
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (129 bp):
TCTTTGATAGGTTTTCAGGCTTAGGGAGTGTTTCGACATCGAAATCGAACCAAGTGTATACCCAA
AAATACAAAAAATAGGGTTTCAGCAAAAGTCAAAAACCCTACTGTCGACACCACACGAGCGTCC
Found at i:83742515 original size:17 final size:17
Alignment explanation
Indices: 83742489--83742527 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
83742479 GATTGTGTAT
83742489 ACTGAAACTGTAGT-AAA
1 ACTGAAACTGTA-TCAAA
*
83742506 ACTGAGACTGTATCAAA
1 ACTGAAACTGTATCAAA
83742523 ACTGA
1 ACTGA
83742528 TAGAGACTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (17 bp):
ACTGAAACTGTATCAAA
Found at i:83747678 original size:18 final size:18
Alignment explanation
Indices: 83747655--83747745 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
83747645 CGAGGACTTC
*
83747655 AAAAATGTGAAGAACATT
1 AAAAATGTAAAGAACATT
83747673 AAAAATGTAAAGAACATT
1 AAAAATGTAAAGAACATT
* *
83747691 AAATCAA-GCTACGAGGAC-TT
1 AAA--AATG-TA-AAGAACATT
83747711 CAAAAATGTAAAGAACATT
1 -AAAAATGTAAAGAACATT
83747730 AAAAATGTAAAGAACA
1 AAAAATGTAAAGAACA
83747746 CTTACAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
18 40 0.66
19 7 0.11
20 7 0.11
21 7 0.11
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (18 bp):
AAAAATGTAAAGAACATT
Found at i:83747705 original size:57 final size:58
Alignment explanation
Indices: 83747633--83747759 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 58
83747623 TGAAAATAGG
*
83747633 TAAATCAAGCTACGAGGACTTCAAAAATGTGAAGAACATTAAAAATGTAAAGAACA-T
1 TAAATCAAGCTACGAGGACTTCAAAAATGTAAAGAACATTAAAAATGTAAAGAACACT
83747690 TAAATCAAGCTACGAGGACTTCAAAAATGTAAAGAACATTAAAAATGTAAAGAACACT
1 TAAATCAAGCTACGAGGACTTCAAAAATGTAAAGAACATTAAAAATGTAAAGAACACT
83747748 TACAATCAAGCT
1 TA-AATCAAGCT
83747760 TGAAAGTTGA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
57 55 0.82
58 3 0.04
59 9 0.13
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (58 bp):
TAAATCAAGCTACGAGGACTTCAAAAATGTAAAGAACATTAAAAATGTAAAGAACACT
Found at i:83750142 original size:21 final size:20
Alignment explanation
Indices: 83750118--83750163 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
83750108 TGAAATGCAA
83750118 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
83750139 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
83750159 T-AACC
1 TCAACC
83750164 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:83751011 original size:22 final size:22
Alignment explanation
Indices: 83750983--83751026 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
83750973 AAATCTATTC
*
83750983 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
*
83751005 AAAATTAATTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
83751027 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:83751024 original size:10 final size:10
Alignment explanation
Indices: 83750983--83751025 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
83750973 AAATCTATTC
*
83750983 AAAATTAATC
1 AAAATTAATT
*
83750993 AAAATTTATTAT
1 AAAA-TTAAT-T
83751005 AAAATTAATT
1 AAAATTAATT
83751015 AAAATTAATT
1 AAAATTAATT
83751025 A
1 A
83751026 TGTTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:83760297 original size:13 final size:13
Alignment explanation
Indices: 83760279--83760304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83760269 ATGATTACTG
83760279 ATATATATATATA
1 ATATATATATATA
83760292 ATATATATATATA
1 ATATATATATATA
83760305 TGTATACGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:83767850 original size:16 final size:16
Alignment explanation
Indices: 83767829--83767861 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
83767819 CACAATGACA
83767829 TTACTTTCAATTAGAG
1 TTACTTTCAATTAGAG
83767845 TTACTTTCAATTAGAG
1 TTACTTTCAATTAGAG
83767861 T
1 T
83767862 ATTAACTTTT
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:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (16 bp):
TTACTTTCAATTAGAG
Found at i:83771405 original size:2 final size:2
Alignment explanation
Indices: 83771398--83771448 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
83771388 ATCAATTAAA
83771398 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
83771440 AG AG AG AG A
1 AG AG AG AG A
83771449 AATTAGAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:83778097 original size:30 final size:30
Alignment explanation
Indices: 83778057--83778116 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
83778047 ATAGGCAGTG
83778057 TTTGCAAGTCAACCATAGCCCTTGGCACAT
1 TTTGCAAGTCAACCATAGCCCTTGGCACAT
*
83778087 TTTGCCAGTCAACCATAGCCCTTGGCACAT
1 TTTGCAAGTCAACCATAGCCCTTGGCACAT
83778117 ACTCTTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (30 bp):
TTTGCAAGTCAACCATAGCCCTTGGCACAT
Found at i:83780276 original size:27 final size:25
Alignment explanation
Indices: 83780246--83780300 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
83780236 GGAGCTTTTT
* *
83780246 GATTAAAGGCTTTTTCATGAGCTTCCC
1 GATTAAAGGCTCTCT-A-GAGCTTCCC
*
83780273 GATTAATGGCTCTCTAGAGCTTCCC
1 GATTAAAGGCTCTCTAGAGCTTCCC
83780298 GAT
1 GAT
83780301 ATTGGCTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.48
26 1 0.04
27 12 0.48
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (25 bp):
GATTAAAGGCTCTCTAGAGCTTCCC
Found at i:83780298 original size:25 final size:24
Alignment explanation
Indices: 83780264--83780406 Score: 94
Period size: 24 Copynumber: 5.8 Consensus size: 24
83780254 GCTTTTTCAT
83780264 GAGCTTCCCGATTAATGGCTCTCTA
1 GAGCTTCCCG-TTAATGGCTCTCTA
* * *
83780289 GAGCTTCCCGATATTGGCT-TGCTT
1 GAGCTTCCCGTTAATGGCTCT-CTA
* * * * *
83780313 GAACTTCTCGATATTGGCTC-GTA
1 GAGCTTCCCGTTAATGGCTCTCTA
* *
83780336 TGAGCTTCTCGTTAATGGCTCTCCA
1 -GAGCTTCCCGTTAATGGCTCTCTA
* *
83780361 GAGCTTCTCGTTACATGGCTCACGT-
1 GAGCTTCCCGTTA-ATGGCTCTC-TA
*
83780386 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCCGTTA-ATGGCTC
83780407 AAAAGAGCTT
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
23 2 0.02
24 56 0.59
25 37 0.39
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTCTA
Found at i:83780439 original size:25 final size:25
Alignment explanation
Indices: 83780316--83780439 Score: 98
Period size: 25 Copynumber: 5.0 Consensus size: 25
83780306 CTTGCTTGAA
* *
83780316 CTTCTCGATAT-TGGCTCGTATGAG
1 CTTCTCGTTATATGGCTCATATGAG
83780340 CTTCTCGTTA-ATGGCTC-TCCA-GAG
1 CTTCTCGTTATATGGCTCAT--ATGAG
* **
83780364 CTTCTCGTTACATGGCTCACGTGAG
1 CTTCTCGTTATATGGCTCATATGAG
* *
83780389 CTTC-CTGTTATATGGCTCAAAAGAG
1 CTTCTC-GTTATATGGCTCATATGAG
*
83780414 CTTCTCGTT-TATGTGCTCGTATGAG
1 CTTCTCGTTATATG-GCTCATATGAG
83780439 C
1 C
83780440 AATCCCGAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
23 1 0.01
24 33 0.41
25 46 0.57
26 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (25 bp):
CTTCTCGTTATATGGCTCATATGAG
Found at i:83780439 original size:50 final size:49
Alignment explanation
Indices: 83780327--83780439 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 49
83780317 TTCTCGATAT
***
83780327 TGGCTCGTATGAGCTTCTCGTTAATGGCTCTCCAGAGCTTCTCGTTACA
1 TGGCTCGTATGAGCTTCTCGTTAATGGCTCAAAAGAGCTTCTCGTTACA
*** *
83780376 TGGCTCACGTGAGCTTC-CTGTTATATGGCTCAAAAGAGCTTCTCGTT-TA
1 TGGCTCGTATGAGCTTCTC-GTTA-ATGGCTCAAAAGAGCTTCTCGTTACA
83780425 TGTGCTCGTATGAGC
1 TG-GCTCGTATGAGC
83780440 AATCCCGAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.02
49 21 0.41
50 29 0.57
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (49 bp):
TGGCTCGTATGAGCTTCTCGTTAATGGCTCAAAAGAGCTTCTCGTTACA
Found at i:83784898 original size:43 final size:45
Alignment explanation
Indices: 83784777--83784898 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 45
83784767 TTGAGATGTG
* * * *
83784777 ATTACATGTAAGACCCTGTGTGGGACAGTGGTAT--TGTATTACG
1 ATTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATGTAATACC
* * *
83784820 ATTACGTGTAATACCATGTGTGGGACA-TCGACATCAT-TAAT-CC
1 ATTACGTGTAAGACCCTGTGTGGGACAGT-GGCATCATGTAATACC
83784863 ACTT-CGTGTAAGACCCTGTGTGGGACAGTGGCATCA
1 A-TTACGTGTAAGACCCTGTGTGGGACAGTGGCATCA
83784899 ATAAGTGTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.02
43 56 0.88
44 6 0.09
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (45 bp):
ATTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATGTAATACC
Found at i:83785804 original size:21 final size:21
Alignment explanation
Indices: 83785778--83785819 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
83785768 TGAAGTCTGC
83785778 ACCTTAATTTTGGAATTTTAT
1 ACCTTAATTTTGGAATTTTAT
83785799 ACCTTAATTTTGGAATTTTAT
1 ACCTTAATTTTGGAATTTTAT
83785820 TTGCCACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
ACCTTAATTTTGGAATTTTAT
Found at i:83792440 original size:43 final size:45
Alignment explanation
Indices: 83792319--83792440 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 45
83792309 TTGAGATGTG
* * * *
83792319 ATTACATGTAAGACCCTGTGTGGGACAGTGGTAT--TGTATTACG
1 ATTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATGTAATACC
* * *
83792362 ATTACGTGTAATACCATGTGTGGGACA-TCGACATCAT-TAAT-CC
1 ATTACGTGTAAGACCCTGTGTGGGACAGT-GGCATCATGTAATACC
83792405 ACTT-CGTGTAAGACCCTGTGTGGGACAGTGGCATCA
1 A-TTACGTGTAAGACCCTGTGTGGGACAGTGGCATCA
83792441 ATAAGTGTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.02
43 56 0.88
44 6 0.09
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (45 bp):
ATTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATGTAATACC
Found at i:83805311 original size:4 final size:4
Alignment explanation
Indices: 83805302--83805331 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
83805292 GTTTTTTATG
83805302 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
83805332 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:83805438 original size:22 final size:18
Alignment explanation
Indices: 83805405--83805448 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 18
83805395 TTTGAAATTA
83805405 ATTTTTTAAATACTAAATAT
1 ATTTTTTAAATA-TAAA-AT
83805425 ATTTTTTAATAATATAAAAT
1 ATTTTTT-A-AATATAAAAT
83805445 ATTT
1 ATTT
83805449 AAATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 5 0.23
22 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTTTAAATATAAAAT
Found at i:83806535 original size:22 final size:24
Alignment explanation
Indices: 83806504--83806561 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 24
83806494 AAAAAAACCC
83806504 TTTTA-AATATTATTTAATT-TG-
1 TTTTATAATATTATTTAATTATGA
*
83806525 TTTTATAATATT-TTAAATTATGA
1 TTTTATAATATTATTTAATTATGA
83806548 TTTT-TAA-ATTATTT
1 TTTTATAATATTATTT
83806562 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 14 0.45
22 13 0.42
23 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATAATATTATTTAATTATGA
Found at i:83806855 original size:17 final size:17
Alignment explanation
Indices: 83806833--83806899 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
83806823 AATTAAAAAA
*
83806833 TAAAAAAATATATTTGT
1 TAAAAAAATATATTTAT
*
83806850 TAAAAAAGATTTATTTAT
1 TAAAAAA-ATATATTTAT
* * *
83806868 TGAAAAACTAAATTTATT
1 TAAAAAAATATATTTA-T
*
83806886 TAAAAATATATATT
1 TAAAAAAATATATT
83806900 AAAAATTATA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
17 13 0.34
18 25 0.66
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (17 bp):
TAAAAAAATATATTTAT
Found at i:83806903 original size:13 final size:13
Alignment explanation
Indices: 83806885--83806933 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
83806875 CTAAATTTAT
83806885 TTAAAAATATATA
1 TTAAAAATATATA
*
83806898 TTAAAAATTATAAA
1 TTAAAAA-TATATA
*
83806912 TTAAAAATACATA
1 TTAAAAATATATA
83806925 TTATAAAAT
1 TTA-AAAAT
83806934 TACATCATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAAATATATA
Found at i:83807414 original size:40 final size:41
Alignment explanation
Indices: 83807369--83807453 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
83807359 GTGTTGGTTA
* *
83807369 TAATTTTTTAATTTTAATACACATTTATGAATTTATATA-T
1 TAATTTTTTAATTTTAATACACATTCATAAATTTATATACT
* *
83807409 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAATACACATTCATAAATTTATATACT
83807450 TAAT
1 TAAT
83807454 ATATATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAATACACATTCATAAATTTATATACT
Found at i:83807464 original size:40 final size:40
Alignment explanation
Indices: 83807377--83807467 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
83807367 TATAATTTTT
* * * *
83807377 TAATTTTAATACACATTTATGAATTTATATATTAATTTTT
1 TAATTTTAATACACATTCATAAATTTATATATTAATTATA
* *
83807417 TAATTTTAGTACACATTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAATACACATTCATAAATTTATATA-TTAATTATA
*
83807457 TATTTTTAATA
1 TAATTTTAATA
83807468 GGTAAGGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
TAATTTTAATACACATTCATAAATTTATATATTAATTATA
Found at i:83807626 original size:71 final size:72
Alignment explanation
Indices: 83807515--83807667 Score: 245
Period size: 71 Copynumber: 2.1 Consensus size: 72
83807505 TTTTAAAAAC
*
83807515 TTAAAGAAATTAAATATATTAAAAAAATGTTAAGCATAACCAATTTTAAAATTTTAATATATTTA
1 TTAAA-AAATTAAATATATTAAAAAAATGTTAAGCATAACCAATTTTAAAATTTTAATATATTCA
83807580 ATATAGTT
65 ATATAGTT
* *
83807588 TTAAAAAATTAAATATGTT-AAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAA
1 TTAAAAAATTAAATATATTAAAAAAATGTTAAGCATAACCAATTTTAAAATTTTAATATATTCAA
*
83807652 TATATTT
66 TATAGTT
*
83807659 TTTAAAAAT
1 TTAAAAAAT
83807668 ATATTTTAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
71 57 0.76
72 13 0.17
73 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (72 bp):
TTAAAAAATTAAATATATTAAAAAAATGTTAAGCATAACCAATTTTAAAATTTTAATATATTCAA
TATAGTT
Found at i:83807780 original size:16 final size:17
Alignment explanation
Indices: 83807758--83807795 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
83807748 AAAAACGTAA
*
83807758 AAAAATTTAAATATATT
1 AAAATTTTAAATATATT
*
83807775 AAAATTTTAAATATGTT
1 AAAATTTTAAATATATT
83807792 AAAA
1 AAAA
83807796 GAAAATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:83810939 original size:13 final size:14
Alignment explanation
Indices: 83810918--83810946 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
83810908 TAAAAAATAG
83810918 ATTAGAAAATATTT
1 ATTAGAAAATATTT
83810932 ATTA-AAAATATTT
1 ATTAGAAAATATTT
83810945 AT
1 AT
83810947 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:83811423 original size:23 final size:23
Alignment explanation
Indices: 83811397--83811447 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
83811387 TGTATGGTAT
*
83811397 GTATA-ATGACATGTGTAATATTA
1 GTATACAT-ACATGTGTAAAATTA
*
83811420 GTATACATACATTTGTAAAATTA
1 GTATACATACATGTGTAAAATTA
*
83811443 ATATA
1 GTATA
83811448 TGTTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (23 bp):
GTATACATACATGTGTAAAATTA
Found at i:83811955 original size:15 final size:15
Alignment explanation
Indices: 83811932--83811979 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
83811922 TATCAAATTT
83811932 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
83811947 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
83811962 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
83811976 ATAT
1 ATAT
83811980 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:83812518 original size:21 final size:23
Alignment explanation
Indices: 83812476--83812518 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83812466 TAATATTCCG
*
83812476 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTAGGATATTCT
83812499 GGTGTGTTTGGG-AGGA-ATTC
1 GGTGTGTTTGGGTAGGATATTC
83812519 GCGTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTAGGATATTCT
Found at i:83812636 original size:18 final size:19
Alignment explanation
Indices: 83812615--83812655 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
83812605 AATGAAATGA
83812615 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
83812633 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
83812652 GAAA
1 GAAA
83812656 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:83814395 original size:22 final size:22
Alignment explanation
Indices: 83814338--83814401 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
83814328 AATTTTAAAA
83814338 TTAATAATTTATAAAAAAT-ATAT
1 TTAA-AATTTA-AAAAAATAATAT
**
83814361 TTAGTATTT-AAAAAATAATAT
1 TTAAAATTTAAAAAAATAATAT
*
83814382 TTAAAATTTAAAAAAGTAAT
1 TTAAAATTTAAAAAAATAAT
83814402 TTCAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.21
21 11 0.32
22 13 0.38
23 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
TTAAAATTTAAAAAAATAATAT
Found at i:83814403 original size:20 final size:20
Alignment explanation
Indices: 83814349--83814437 Score: 75
Period size: 21 Copynumber: 4.7 Consensus size: 20
83814339 TAATAATTTA
**
83814349 TAAAAAATATATTTAGTATT
1 TAAAAAATATATTTAAAATT
83814369 TAAAAAATAATATTTAAAATT
1 TAAAAAAT-ATATTTAAAATT
83814390 TAAAAAAGTA-A--T----TT
1 TAAAAAA-TATATTTAAAATT
*
83814404 CAAAAAATATATTTAAAATT
1 TAAAAAATATATTTAAAATT
83814424 TAGAAAAATATATT
1 TA-AAAAATATATT
83814438 ATTAATAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 2 0.04
14 9 0.16
16 1 0.02
18 1 0.02
20 12 0.22
21 29 0.53
22 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAAAAATATATTTAAAATT
Found at i:83814409 original size:34 final size:35
Alignment explanation
Indices: 83814366--83814431 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
83814356 TATATTTAGT
83814366 ATTT-AAAAAATAATATTTAAAATTTA-AAAAAGTA
1 ATTTAAAAAAAT-ATATTTAAAATTTAGAAAAAGTA
*
83814400 ATTTCAAAAAATATATTTAAAATTTAGAAAAA
1 ATTTAAAAAAATATATTTAAAATTTAGAAAAA
83814432 TATATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (35 bp):
ATTTAAAAAAATATATTTAAAATTTAGAAAAAGTA
Found at i:83814487 original size:4 final size:4
Alignment explanation
Indices: 83814478--83814507 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
83814468 TAATAATAAT
83814478 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
83814508 CATAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:83814534 original size:20 final size:21
Alignment explanation
Indices: 83814511--83814555 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
83814501 AAATAAACAT
*
83814511 AAAAAA-CAAAACA-TAAGAAA
1 AAAAAATCAAAAAAGTAA-AAA
83814531 AAAAAATCAAAAAAGTAAAAA
1 AAAAAATCAAAAAAGTAAAAA
83814552 AAAA
1 AAAA
83814556 GGAAACTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 13 0.59
22 3 0.14
ACGTcount: A:0.82, C:0.07, G:0.04, T:0.07
Consensus pattern (21 bp):
AAAAAATCAAAAAAGTAAAAA
Found at i:83814719 original size:10 final size:10
Alignment explanation
Indices: 83814704--83814749 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
83814694 ATTCATAATT
83814704 TAAAATATTA
1 TAAAATATTA
83814714 TAAAATAAATTA
1 TAAAAT--ATTA
83814726 -AATAATATT-
1 TAA-AATATTA
83814735 TAAAATATTA
1 TAAAATATTA
83814745 TAAAA
1 TAAAA
83814750 CTAATAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 16 0.52
11 2 0.06
12 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATTA
Found at i:83814810 original size:22 final size:21
Alignment explanation
Indices: 83814782--83814848 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
83814772 AAAATATTTA
*
83814782 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
83814805 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
* * *
83814825 AATATTTAAAATTTTAAAAGT
1 AATATTTAATATTTAAAAAAT
83814846 AAT
1 AAT
83814849 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.23
21 21 0.54
22 9 0.23
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:83814822 original size:21 final size:22
Alignment explanation
Indices: 83814782--83814843 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
83814772 AAAATATTTA
*
83814782 AATATTTTATATTATTAAAAAAT
1 AATATTTAATATT-TTAAAAAAT
83814805 -ATATTTAATA-TTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
*
83814825 AATATTTAAAATTTTAAAA
1 AATATTTAATATTTTAAAA
83814844 GTAATTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 9 0.26
21 10 0.29
22 16 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:83814848 original size:21 final size:21
Alignment explanation
Indices: 83814796--83814862 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 21
83814786 TTTTATATTA
*
83814796 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
83814816 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
* * *
83814837 TTTAAAAGTAAT-TTCAAAAT
1 TTAAAAAATAATATTTAAAAT
*
83814857 ATAAAA
1 TTAAAA
83814863 TTAAAATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 20 0.50
21 20 0.50
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:83823316 original size:4 final size:4
Alignment explanation
Indices: 83823307--83823339 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
83823297 TTTTCCTTAT
83823307 TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
83823340 CATATTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 6 0.21
4 22 0.79
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:83823345 original size:14 final size:13
Alignment explanation
Indices: 83823307--83823347 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
83823297 TTTTCCTTAT
83823307 TTTATTTAT-TTA
1 TTTATTTATATTA
83823319 TTTATTTATTATTA
1 TTTATTTA-TATTA
83823333 TTTATTTCATATTA
1 TTTATTT-ATATTA
83823347 T
1 T
83823348 GAAAAATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.31
13 1 0.04
14 16 0.62
15 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:83823843 original size:32 final size:30
Alignment explanation
Indices: 83823807--83823868 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
83823797 AAACATAAAG
83823807 ACTAAAATTGAT-AAATTCAAAACCTACAAAAA
1 ACTAAAATTGATCAAATT-AAAA--TACAAAAA
* *
83823839 ACTAAATTTTATCAAATTAAAATACAAAAA
1 ACTAAAATTGATCAAATTAAAATACAAAAA
83823869 TTAAATTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 8 0.30
32 14 0.52
33 5 0.19
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.26
Consensus pattern (30 bp):
ACTAAAATTGATCAAATTAAAATACAAAAA
Found at i:83824097 original size:28 final size:28
Alignment explanation
Indices: 83824057--83824113 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
83824047 TCTCAAAGTT
*
83824057 AGACAACTTTTCTCAATTTGTTTCATGA
1 AGACAACTTTTCTCAATTTGTTCCATGA
83824085 AGACAACTTTTCTCAATTTGTTCCATGA
1 AGACAACTTTTCTCAATTTGTTCCATGA
83824113 A
1 A
83824114 CTTGAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (28 bp):
AGACAACTTTTCTCAATTTGTTCCATGA
Found at i:83828508 original size:6 final size:6
Alignment explanation
Indices: 83828493--83828536 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
83828483 GAAGGAAGAA
* *
83828493 ATGAAG ATGAAT ATGAAG ATGAAG GTGGAAG -TGAAG ATGAAG AT
1 ATGAAG ATGAAG ATGAAG ATGAAG AT-GAAG ATGAAG ATGAAG AT
83828537 AAAAAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.12
6 25 0.76
7 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.20
Consensus pattern (6 bp):
ATGAAG
Found at i:83828953 original size:76 final size:74
Alignment explanation
Indices: 83828750--83828953 Score: 218
Period size: 76 Copynumber: 2.7 Consensus size: 74
83828740 TCATAAAATT
* **
83828750 TATTTTAT-TGTATTTTACATCAATAATATAT-TTATTTACAATCTAGAAAAAA-ATTAAAAATT
1 TATTTT-TCTGTATTTTACATCAATAATATATATTATTTACAATCTATAAAAAATAAAAAAAATT
*
83828812 ATTTGTATTG
65 ATTTATATTG
* * * * *
83828822 TATTCTACTGTATTTCATATAAATAATATATACTTATTTACAATCTATAAAAAAATAAAAAAAAT
1 TATTTTTCTGTATTTTACATCAATAATATATA-TTATTTACAATCTAT-AAAAAATAAAAAAAAT
83828887 T-TCTTATATTG
64 TAT-TTATATTG
* * *
83828898 TATTTTTCTGTATTTTACATCAATAGTATATCAATATTTACAATTTACTAAAAAAT
1 TATTTTTCTGTATTTTACATCAATAATATAT-ATTATTTACAATCTA-TAAAAAAT
83828954 TAGAAGAAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
72 25 0.23
74 14 0.13
75 7 0.07
76 59 0.55
77 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (74 bp):
TATTTTTCTGTATTTTACATCAATAATATATATTATTTACAATCTATAAAAAATAAAAAAAATTA
TTTATATTG
Found at i:83831454 original size:18 final size:18
Alignment explanation
Indices: 83831428--83831462 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
83831418 GTTCGATTAA
*
83831428 CCAATTAACCTATTTCAT
1 CCAAATAACCTATTTCAT
83831446 CCAAATAACCTATTTCA
1 CCAAATAACCTATTTCA
83831463 CATATTTAAA
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:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (18 bp):
CCAAATAACCTATTTCAT
Found at i:83838947 original size:20 final size:20
Alignment explanation
Indices: 83838911--83838948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83838901 TGAGTTGGTT
*
83838911 TATTTTGACATGTTTTGACA
1 TATTTTGACATGGTTTGACA
83838931 TATTTTGA-ATAGGTTTGA
1 TATTTTGACAT-GGTTTGA
83838949 ATGTTGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.50
Consensus pattern (20 bp):
TATTTTGACATGGTTTGACA
Found at i:83847097 original size:7 final size:7
Alignment explanation
Indices: 83847082--83847120 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
83847072 AGAGATGGAG
*
83847082 AGAATAA
1 AGAACAA
83847089 AGAACAA
1 AGAACAA
83847096 AGAACAA
1 AGAACAA
83847103 AGAACAA
1 AGAACAA
*
83847110 ATAACAA
1 AGAACAA
83847117 AGAA
1 AGAA
83847121 AATATGGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (7 bp):
AGAACAA
Found at i:83847400 original size:18 final size:20
Alignment explanation
Indices: 83847361--83847399 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
83847351 TTAATCGTAA
83847361 TATATATTAATATAAAATTT
1 TATATATTAATATAAAATTT
*
83847381 TATATATTACT-TAAAATTT
1 TATATATTAATATAAAATTT
83847400 AAAATATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATATTAATATAAAATTT
Found at i:83848019 original size:14 final size:14
Alignment explanation
Indices: 83847985--83848019 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
83847975 TTGTTTGACT
*
83847985 GAAAATAATTTCCG
1 GAAAATGATTTCCG
*
83847999 GAAAATGATTTCTG
1 GAAAATGATTTCCG
83848013 GAAAATG
1 GAAAATG
83848020 GCTTACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:83848958 original size:33 final size:34
Alignment explanation
Indices: 83848920--83849001 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 34
83848910 GCCTAAGCCC
*
83848920 ATTCAGATAACAGTGATACTGGGCCAGAG-CCCTT
1 ATTCAGATAACAGT-AAACTGGGCCAGAGCCCCTT
* * **
83848954 -TTCAGATTACAATAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTAAACTGGGCCAGAGCCCCTT
83848987 ATTCAGATAACAGTA
1 ATTCAGATAACAGTA
83849002 CGGCCTATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 11 0.28
33 16 0.41
34 12 0.31
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (34 bp):
ATTCAGATAACAGTAAACTGGGCCAGAGCCCCTT
Found at i:83849347 original size:25 final size:27
Alignment explanation
Indices: 83849310--83849362 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
83849300 TCAAACATGC
83849310 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGTCAATTTATCTCCTAGGGGT
*
83849336 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTATCTCCTAGGGGT
83849362 A
1 A
83849363 AAACTGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTATCTCCTAGGGGT
Found at i:83849371 original size:26 final size:25
Alignment explanation
Indices: 83849319--83849371 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
83849309 CATTTAGGTC
***
83849319 AATTTACTCCTAGGGGTATTTCGGT
1 AATTTACTCCTAGGGGTAAAACGGT
*
83849344 AATTTATCTCCTAGGGGTAAAACTGT
1 AATTTA-CTCCTAGGGGTAAAACGGT
83849370 AA
1 AA
83849372 ATTTTCCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (25 bp):
AATTTACTCCTAGGGGTAAAACGGT
Found at i:83850649 original size:24 final size:24
Alignment explanation
Indices: 83850617--83850723 Score: 169
Period size: 24 Copynumber: 4.4 Consensus size: 24
83850607 AACTCCTGCT
*
83850617 CCTTGATCAGCTCCTAAATCTTCTC
1 CCTT-ATCAGCTCCTAAATCCTCTC
* *
83850642 CTTTATCATCTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
*
83850666 CCTTATTAGCTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
83850690 CCTTATCAGCTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
83850714 CCTTATCAGC
1 CCTTATCAGC
83850724 CTTTCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
24 72 0.96
25 3 0.04
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCCTCTC
Found at i:83853645 original size:14 final size:14
Alignment explanation
Indices: 83853626--83853653 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
83853616 AAAAAGTAAG
83853626 AATATCAGAATTCC
1 AATATCAGAATTCC
83853640 AATATCAGAATTCC
1 AATATCAGAATTCC
83853654 GTTCAACTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
AATATCAGAATTCC
Found at i:83854224 original size:6 final size:6
Alignment explanation
Indices: 83854213--83854256 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
83854203 GCAATGAAAG
* * *
83854213 GAAGGA GAAGGA TAAGGA GAAGGA GAAGGA AAAGGG GAAGGA GA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GA
83854257 GAGCGTTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (6 bp):
GAAGGA
Found at i:83854236 original size:18 final size:18
Alignment explanation
Indices: 83854213--83854256 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
83854203 GCAATGAAAG
*
83854213 GAAGGAGAAGGATAAGGA
1 GAAGGAGAAGGAAAAGGA
*
83854231 GAAGGAGAAGGAAAAGGG
1 GAAGGAGAAGGAAAAGGA
83854249 GAAGGAGA
1 GAAGGAGA
83854257 GAGCGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (18 bp):
GAAGGAGAAGGAAAAGGA
Found at i:83858463 original size:30 final size:30
Alignment explanation
Indices: 83858427--83858486 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
83858417 ATGGTTTATA
83858427 TACATAACTGTACCATCTCGTATCAATCTC
1 TACATAACTGTACCATCTCGTATCAATCTC
83858457 TACATAACTGTACCATCTCGTATCAATCTC
1 TACATAACTGTACCATCTCGTATCAATCTC
83858487 ATACTCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (30 bp):
TACATAACTGTACCATCTCGTATCAATCTC
Found at i:83867181 original size:33 final size:33
Alignment explanation
Indices: 83867144--83867260 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 33
83867134 ATGGTCCTTT
* * * *
83867144 CCTTTTCTAGTTGTACACCCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * *
83867177 CCTTTTCAAGTGGTACAGACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * * *
83867210 CCTTTTCAATTTGTACACACAAAGTGCACGTAA
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
83867243 CCTTTTCAAG-TGTACACA
1 CCTTTTCAAGTTGTACACA
83867261 TATAGTGTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
32 8 0.12
33 61 0.88
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATAC
Found at i:83867279 original size:32 final size:33
Alignment explanation
Indices: 83867177--83867349 Score: 143
Period size: 33 Copynumber: 5.3 Consensus size: 33
83867167 GTGCACATTC
* * * * **
83867177 CCTTTTCAAGTGGTACAGACGAAGTGTACATAC
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
* * ** * **
83867210 CCTTTTCAATTTGTACACACAAAGTGCACGTAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
* * *
83867243 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
*
83867275 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
* **
83867308 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTTT
83867341 CCTTTTCAA
1 CCTTTTCAA
83867350 ATTGTACCAT
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
32 27 0.23
33 90 0.76
34 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTTT
Found at i:83874725 original size:40 final size:40
Alignment explanation
Indices: 83874663--83874739 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
83874653 ACGGTACCTT
*
83874663 TTGGTGTGTAGGGTTGAATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGAATGGGTCGATTATATCCCCATAC
* *
83874703 TTGGTGTGTAGGGTT-AGGTGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTGA-ATGGGTCGATTATATCCCCA
83874740 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGAATGGGTCGATTATATCCCCATAC
Found at i:83882574 original size:29 final size:29
Alignment explanation
Indices: 83882510--83882632 Score: 105
Period size: 29 Copynumber: 4.3 Consensus size: 29
83882500 GAAGTCTATA
* *
83882510 AGGATTATCTGATATGTGGAAAGT-TCGCT
1 AGGACTATCTGATATGTGGAAAGTAT-GCC
* *
83882539 AGAACTATTTGATATGTGGAAAGTATGCC
1 AGGACTATCTGATATGTGGAAAGTATGCC
*
83882568 AGGACTATCT--TATGCGG-AAGTCCATG--
1 AGGACTATCTGATATGTGGAAAGT--ATGCC
* *
83882594 AGGACTATATGATATGTGGAAAGTCTGCC
1 AGGACTATCTGATATGTGGAAAGTATGCC
*
83882623 AAGACTATCT
1 AGGACTATCT
83882633 TAATATGGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
26 13 0.18
27 8 0.11
28 9 0.12
29 43 0.58
30 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (29 bp):
AGGACTATCTGATATGTGGAAAGTATGCC
Found at i:83882655 original size:55 final size:55
Alignment explanation
Indices: 83882542--83882656 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
83882532 GTTCGCTAGA
* * *
83882542 ACTATTTGATATGTGGAAAGTATGCCAGGACTATCTTATGCGGAAGTCCATGAGG
1 ACTATATGATATGTGGAAAGTATGCCAAGACTATCTTATACGGAAGTCCATGAGG
* * * *
83882597 ACTATATGATATGTGGAAAGTCTGCCAAGACTATCTTAATATGGGAGTCCAT-ATG
1 ACTATATGATATGTGGAAAGTATGCCAAGACTATCTT-ATACGGAAGTCCATGAGG
83882652 ACTAT
1 ACTAT
83882657 CGTATAAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
55 41 0.79
56 11 0.21
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (55 bp):
ACTATATGATATGTGGAAAGTATGCCAAGACTATCTTATACGGAAGTCCATGAGG
Found at i:83884680 original size:62 final size:62
Alignment explanation
Indices: 83884577--83884712 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 62
83884567 TGTAGAATGG
* * *
83884577 TTCAGAAGGTCTCAGAAAGTTACATAACCTAGAGACTTGACCATGGGACCACATTTCAAATA
1 TTCACAAGGTCTCAGAAAGTTACACAACCTAGAGACATGACCATGGGACCACATTTCAAATA
* * * * ** *
83884639 TTCACAAGGTCTCAGAAAGTTACACGATCTAGAGACATGACCGTGTGACTTCATTTCGAATA
1 TTCACAAGGTCTCAGAAAGTTACACAACCTAGAGACATGACCATGGGACCACATTTCAAATA
*
83884701 TTCACACGGTCT
1 TTCACAAGGTCT
83884713 AAGACATAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (62 bp):
TTCACAAGGTCTCAGAAAGTTACACAACCTAGAGACATGACCATGGGACCACATTTCAAATA
Found at i:83887951 original size:22 final size:22
Alignment explanation
Indices: 83887923--83887973 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
83887913 GGCAATGATA
83887923 GCATATTCAATTAGCCTTTGTG
1 GCATATTCAATTAGCCTTTGTG
*
83887945 GCATATTCTATTAGCCTTTGTG
1 GCATATTCAATTAGCCTTTGTG
*
83887967 GCGTATT
1 GCATATT
83887974 TCATATGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (22 bp):
GCATATTCAATTAGCCTTTGTG
Found at i:83892475 original size:27 final size:27
Alignment explanation
Indices: 83892445--83892510 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
83892435 ACATTTAACA
* * * *
83892445 TCCTAATGGACTATCCTATTTTTAATG
1 TCCTAATGAACTATCCCATGTTAAATG
**
83892472 TCCTGGTGAACTATCCCATGTTAAATG
1 TCCTAATGAACTATCCCATGTTAAATG
*
83892499 TCCTGATGAACT
1 TCCTAATGAACT
83892511 GTTTATACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (27 bp):
TCCTAATGAACTATCCCATGTTAAATG
Found at i:83894661 original size:201 final size:200
Alignment explanation
Indices: 83894316--83894702 Score: 591
Period size: 201 Copynumber: 1.9 Consensus size: 200
83894306 TTTCCTTATA
* * *
83894316 TGAGTTCCTCCTCATTTTTCCTAGATCGTTTCACGGTACATTTCGTAAGTACTTTCTTAAATCTC
1 TGAGTTCCTCCTCATTTTTCCTAGATCATTTCACGATACATTTCG-AAGTAATTTCTTAAATCTC
*
83894381 TTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAAGAATAGCATCGCAAGGGCATCA
65 TTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAACAATAGCATCGCAAGGGCATCA
83894446 GTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTAGCCACAGA
130 GTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTAGCCACAGA
83894511 CTCATC
195 CTCATC
* * *
83894517 TGAGTTCCTCCTC-TTTTTCCCTAGATCATTTCTCGATACGTTTTCCG-GGTAATTTCTTAAATC
1 TGAGTTCCTCCTCATTTTT-CCTAGATCATTTCACGATAC-ATTT-CGAAGTAATTTCTTAAATC
* * **
83894580 TCTTTTTGTTTCCTTCGTCTTTCCCCCAAAATGGT-AAAATTTAAACAATGGCATCGTGAGGGCA
63 TCTTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAA-TTAAACAATAGCATCGCAAGGGCA
* *
83894644 TCAGTTATCACAGTAATGAGACTGAGAGGGATTTTGGTGGCAACGAGGTTGGACCTAGT
127 TCAGTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGT
83894703 GGCTGCGGAG
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
200 9 0.05
201 155 0.92
202 3 0.02
203 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (200 bp):
TGAGTTCCTCCTCATTTTTCCTAGATCATTTCACGATACATTTCGAAGTAATTTCTTAAATCTCT
TTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAACAATAGCATCGCAAGGGCATCAG
TTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTAGCCACAGAC
TCATC
Found at i:83897570 original size:130 final size:131
Alignment explanation
Indices: 83897332--83897670 Score: 415
Period size: 130 Copynumber: 2.6 Consensus size: 131
83897322 AGTTTTGTAA
* * *
83897332 TCATGTCTTTAAAAATTCTTTAAAACGAAAGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATCCTTTAAAACGAAAGCAATGTTCGATGTTAGGAAATTCGGGGAATCGTG
*
83897397 CCCAATCGTGCTGGGTTGCAATTCCCCGTTTGTTCAAAATAATCGAATATTCCTTT-GGATTTCA
66 CCCAATCGTGCTGGGTTGCAATTCCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
83897461 C
131 C
* * * *
83897462 TCATTTCTTTAAAAATCCTTTAAAAC-AAAGGCAGTGTTCGATGTTAGGCAATTCGGGGAATTGT
1 TCATGTCTTTAAAAATCCTTTAAAACGAAA-GCAATGTTCGATGTTAGGAAATTCGGGGAATCGT
* * *
83897526 GCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTTAAAATAATCGAATATTCCTTTAGAATTTC
65 GCCCAATCGTGCTGGGTTGCAATTCCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTC
83897591 AC
130 AC
** * * * * **
83897593 TCATGT-TTTCTAAAT--TCTAAAA-TAAGGCAATGTTCAATGTCTA-GAAATTCAAGGAATCGT
1 TCATGTCTTTAAAAATCCTTTAAAACGAAAGCAATGTTCGATGT-TAGGAAATTCGGGGAATCGT
*
83897653 GCCCTA-CTGTGCTGGGTT
65 GCCCAATC-GTGCTGGGTT
83897671 TCGGTTTTTT
Statistics
Matches: 182, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
126 1 0.01
127 41 0.23
128 10 0.05
129 3 0.02
130 114 0.63
131 13 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (131 bp):
TCATGTCTTTAAAAATCCTTTAAAACGAAAGCAATGTTCGATGTTAGGAAATTCGGGGAATCGTG
CCCAATCGTGCTGGGTTGCAATTCCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
C
Found at i:83907025 original size:6 final size:6
Alignment explanation
Indices: 83907014--83907052 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
83907004 TCAATTATTA
* *
83907014 TCACTT TCACTT TCAATT TCAATT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
83907053 ATTTTGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:83907039 original size:12 final size:12
Alignment explanation
Indices: 83907018--83907056 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
83907008 TTATTATCAC
83907018 TTTCACTTTCAA
1 TTTCACTTTCAA
* *
83907030 TTTCAATTTCAC
1 TTTCACTTTCAA
83907042 TTTCACTTTCAA
1 TTTCACTTTCAA
83907054 TTT
1 TTT
83907057 TGATCACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTCACTTTCAA
Done.