Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 67 of 126
Found at i:19525545 original size:127 final size:126
Alignment explanation
Indices: 19525319--19525636 Score: 434
Period size: 127 Copynumber: 2.5 Consensus size: 126
19525309 CCGAGTCAAA
* *
19525319 AGTCTTCCTTTAAACAT-A---ATGCTCATCCTGAATCACGAGTCTTCCTTTAAACATATTCTCA
1 AGTCTTCCTTTAAACATAATCTATGCTCATCCCGAGTCACGAGTCTTCCTTTAAACATATTCTCA
* * * *
19525380 TGGTCTTTCTGAGTCACGAGTTTTCCTTTTAAACATAATCTCTTG-CTCATCCCCAAACATG
66 TGCTCTTTCTGAGTCACAAGTCTTCCTTTTAAACATAATCTCATGCCT-ATCCCCAAACATG
*
19525441 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGCCACGAGTCTTCCTTTAAACATATTCTC
1 AGTCTTCCTTTAAACATAATCT-ATGCTCATCCCGAGTCACGAGTCTTCCTTTAAACATATTCTC
* * * *
19525506 ATGCTCTTT-TCGAGTCACAAGTCTTCCTTTTAAATATAATCTCATGCCTATCTCGAGACATG
65 ATGCTCTTTCT-GAGTCACAAGTCTTCCTTTTAAACATAATCTCATGCCTATCCCCAAACATG
* *
19525568 A-TCTTCCTTTAAACATAATCTAATGCTCATCCCAAGTCACAAGTCTTCCTTTAAACATATTCTC
1 AGTCTTCCTTTAAACATAATCT-ATGCTCATCCCGAGTCACGAGTCTTCCTTTAAACATATTCTC
19525632 ATGCT
65 ATGCT
19525637 TATCCCGAGA
Statistics
Matches: 174, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
122 17 0.10
123 1 0.01
126 65 0.37
127 89 0.51
128 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (126 bp):
AGTCTTCCTTTAAACATAATCTATGCTCATCCCGAGTCACGAGTCTTCCTTTAAACATATTCTCA
TGCTCTTTCTGAGTCACAAGTCTTCCTTTTAAACATAATCTCATGCCTATCCCCAAACATG
Found at i:19528052 original size:28 final size:27
Alignment explanation
Indices: 19527961--19528125 Score: 114
Period size: 30 Copynumber: 5.6 Consensus size: 27
19527951 GAAGGTCCCT
*
19527961 GAACTTTCCAAAAATCATATTTTGACCCCC
1 GAAC-TTCCAAAAATCACATTTT--CCCCC
* * * *
19527991 TAAACTTCCAAAAATTACAAATTTACCCCT
1 -GAACTTCCAAAAA-T-CACATTTTCCCCC
19528021 GAACTTCTCAAAAATCACATTTTCCCCC
1 GAACTTC-CAAAAATCACATTTTCCCCC
* *
19528049 GAACTTCCAAAAATTACATTTTTACCCTC
1 GAACTTCCAAAAATCACA-TTTT-CCCCC
* * *
19528078 AAATTTTCCCAAAATGACACATTTTTGCCCCC
1 GAA-CTTCCAAAAAT--CACA-TTTT-CCCCC
19528110 GAACTTCCAAAAATCA
1 GAACTTCCAAAAATCA
19528126 TGTTTTTACC
Statistics
Matches: 107, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
27 10 0.09
28 21 0.20
29 15 0.14
30 28 0.26
31 13 0.12
32 20 0.19
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (27 bp):
GAACTTCCAAAAATCACATTTTCCCCC
Found at i:19528160 original size:29 final size:28
Alignment explanation
Indices: 19527961--19528165 Score: 151
Period size: 29 Copynumber: 7.0 Consensus size: 28
19527951 GAAGGTCCCT
* *
19527961 GAACTTTCCAAAAATCATATTTTGACCCCC
1 GAAC-TTCCAAAAATCACATTTTTA-CCCC
* * **
19527991 TAAACTTCCAAAAATTACAAATTTACCCC
1 -GAACTTCCAAAAATCACATTTTTACCCC
*
19528020 TGAACTTCTCAAAAATCACA-TTTTCCCCC
1 -GAACTTC-CAAAAATCACATTTTTACCCC
*
19528049 GAACTTCCAAAAATTACATTTTTACCCTC
1 GAACTTCCAAAAATCACATTTTTACCC-C
* * * *
19528078 AAATTTTCCCAAAATGACACATTTTTGCCCCC
1 GAA-CTTCCAAAAAT--CACATTTTT-ACCCC
**
19528110 GAACTTCCAAAAATCATGTTTTTACCCC
1 GAACTTCCAAAAATCACATTTTTACCCC
* * *
19528138 GAATTTTCCTAAAATGACATTTTTACCC
1 GAA-CTTCCAAAAATCACATTTTTACCC
19528166 TTAAAACTTT
Statistics
Matches: 138, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
27 10 0.07
28 21 0.15
29 47 0.34
30 34 0.25
31 12 0.09
32 11 0.08
33 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (28 bp):
GAACTTCCAAAAATCACATTTTTACCCC
Found at i:19528181 original size:90 final size:88
Alignment explanation
Indices: 19528016--19528182 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 88
19528006 TACAAATTTA
* * * *
19528016 CCCCTGAACTTCTCAAAAATCACATTTTCCCCCGAACTTCCAAAAATTACATTTTTACCCTCAAA
1 CCCCCGAACTTCTCAAAAATCACATTTTACCCCGAACTTCCAAAAATGACATTTTTACCCTAAAA
19528081 TTTTCCCAAAATGACACATTTTTG
66 TTTT-CCAAAATGACACATTTTTG
** * *
19528105 CCCCCGAACTTC-CAAAAATCATGTTTTTACCCCGAATTTTCCTAAAATGACATTTTTACCCTTA
1 CCCCCGAACTTCTCAAAAATCA-CATTTTACCCCGAA-CTTCCAAAAATGACATTTTTACCC-TA
19528169 AAACTTTT-CAAAAT
63 AAA-TTTTCCAAAAT
19528183 TGCATTTTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
88 9 0.14
89 22 0.33
90 27 0.41
91 4 0.06
92 4 0.06
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.34
Consensus pattern (88 bp):
CCCCCGAACTTCTCAAAAATCACATTTTACCCCGAACTTCCAAAAATGACATTTTTACCCTAAAA
TTTTCCAAAATGACACATTTTTG
Found at i:19546424 original size:21 final size:21
Alignment explanation
Indices: 19546400--19546453 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
19546390 GTTGAGATGG
**
19546400 TTCTACTGATACAAGAGTTAC
1 TTCTACTGATACAAGACATAC
* * * *
19546421 TTCTTCCGAAACAAGACATGC
1 TTCTACTGATACAAGACATAC
19546442 TTCTACTGATAC
1 TTCTACTGATAC
19546454 TAAAAACTCT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (21 bp):
TTCTACTGATACAAGACATAC
Found at i:19547118 original size:42 final size:42
Alignment explanation
Indices: 19547067--19547421 Score: 424
Period size: 42 Copynumber: 8.4 Consensus size: 42
19547057 CCGAGTCAAA
*** *
19547067 AGTCTTCCTTTAAACATAATCTCATGCTCATTTTGAGTCATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
*
19547109 AGTCTTCCTTTTAAACATAATCTCATGCTCATCCCAAGACATG
1 AGTCTTCC-TTTAAACATAATCTCATGCTCATCCCGAGACATG
* * * *
19547152 AGTCTTCTTTTAAACTTAATCTCATGCTCATCCCGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
* * * * ** *
19547194 AGTCTTCCTTTCAGA-ATATTCTTATGCTCTTTTCGAGTCATG
1 AGTCTTCCTTT-AAACATAATCTCATGCTCATCCCGAGACATG
19547236 AGTCTTCCTTTTAAACATAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCC-TTTAAACATAATCTCATGCTCATCCCGAGACATG
*
19547279 AGTCTTCCTTTAAACGTAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
* * ** *
19547321 AGTCTTCCTTTAAACATAATCTCATGCTCATCTCAAGTTACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
* ** * *
19547363 AGTCTTCTTTTAAACATTTTCTTATGCTCATCCCAAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
*
19547405 AGTCTTCCTTTATACAT
1 AGTCTTCCTTTAAACAT
19547422 CGAGTGATTC
Statistics
Matches: 266, Mismatches: 43, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
42 196 0.74
43 70 0.26
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
Found at i:19547283 original size:127 final size:127
Alignment explanation
Indices: 19547057--19547416 Score: 519
Period size: 127 Copynumber: 2.8 Consensus size: 127
19547047 CATATAACAA
*
19547057 CCGAGTCAAAAGTCTTCCTTTAAACATAATCTCATGCTCATTTT-GAGTCATGAGTCTTCCTTTT
1 CCGAGTCAAGAGTCTTCCTTTAAACATAATCTCATGCTC-TTTTCGAGTCATGAGTCTTCCTTTT
* *
19547121 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCTTTTAAACTTAATCTCATGCTCATC
65 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACGTAATCTCATGCTCATC
* * * *
19547184 CCGAGTCACGAGTCTTCCTTTCAGA-ATATTCTTATGCTCTTTTCGAGTCATGAGTCTTCCTTTT
1 CCGAGTCAAGAGTCTTCCTTT-AAACATAATCTCATGCTCTTTTCGAGTCATGAGTCTTCCTTTT
*
19547248 AAACATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAACGTAATCTCATGCTCATC
65 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACGTAATCTCATGCTCATC
* * * * * * *
19547311 CCGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCTCAAGTTACGAGTCTT-CTTTTA
1 CCGAGTCAAGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCATGAGTCTTCCTTTTA
** *
19547375 AACATTTTCTTATGCTCATCCCAAGACATGAGTCTTCCTTTA
66 AACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTA
19547417 TACATCGAGT
Statistics
Matches: 208, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
126 50 0.24
127 156 0.75
128 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (127 bp):
CCGAGTCAAGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCATGAGTCTTCCTTTTA
AACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACGTAATCTCATGCTCATC
Found at i:19547343 original size:169 final size:170
Alignment explanation
Indices: 19547057--19547415 Score: 499
Period size: 169 Copynumber: 2.1 Consensus size: 170
19547047 CATATAACAA
** *** *
19547057 CCGAGTCAAAAGTCTTCC-TTTAAACATAATCTCATGCTCATTTTGAGTCATGAGTCTTCCTTTT
1 CCGAGTCATGAGTCTTCCTTTTAAACATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTT
* *
19547121 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCTTTTAAACTTAATCTCATGCTCATCCC
66 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* * * *
19547186 GAGTCACGAGTCTTCCTTTCAGA-ATATTCTTATGCTCTTT
131 AAGTCACGAGTCTT-CTTTCAAACATATTCTTATGCTCATC
*
19547226 TCGAGTCATGAGTCTTCCTTTTAAACATAATCTCATGCTCATCCCGAGACATGAGTCTTCC-TTT
1 CCGAGTCATGAGTCTTCCTTTTAAACATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTT
* * *
19547290 AAACGTAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCTC
66 AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* * *
19547355 AAGTTACGAGTCTTCTTTTAAACATTTTCTTATGCTCATC
131 AAGTCACGAGTCTTCTTTCAAACATATTCTTATGCTCATC
* *
19547395 CCAAGACATGAGTCTTCCTTT
1 CCGAGTCATGAGTCTTCCTTT
19547416 ATACATCGAG
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
168 6 0.04
169 122 0.73
170 38 0.23
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (170 bp):
CCGAGTCATGAGTCTTCCTTTTAAACATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTT
AAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
AAGTCACGAGTCTTCTTTCAAACATATTCTTATGCTCATC
Found at i:19553122 original size:30 final size:29
Alignment explanation
Indices: 19553088--19553161 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
19553078 GCATAGAAGA
* * *
19553088 TGCGAGCATTGAAGCTGTGATCACTGATGT
1 TGCGAGCATCGAA-CTGCGAACACTGATGT
* *
19553118 TGCGAGCACTCGCATTGCGAACACTGATGT
1 TGCGAGCA-TCGAACTGCGAACACTGATGT
19553148 TGCGAGCAT-GAACT
1 TGCGAGCATCGAACT
19553162 AAGGGCAAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 3 0.08
29 1 0.03
30 29 0.81
31 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (29 bp):
TGCGAGCATCGAACTGCGAACACTGATGT
Found at i:19554647 original size:20 final size:21
Alignment explanation
Indices: 19554622--19554660 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19554612 TGCATTTTTA
*
19554622 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
19554642 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
19554661 TGCTCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:19558272 original size:20 final size:21
Alignment explanation
Indices: 19558247--19558286 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19558237 TGCATTTTTA
*
19558247 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
19558267 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
19558287 GCTCGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:19558434 original size:18 final size:18
Alignment explanation
Indices: 19558411--19558488 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
19558401 CTTTAGGTTT
19558411 AAATTTATTATTAAA-TTA
1 AAATTTATT-TTAAATTTA
19558429 AAATTTATTTTAAATTTA
1 AAATTTATTTTAAATTTA
*
19558447 AAA-ATATTTGAAATAAATTTA
1 AAATTTATTT----TAAATTTA
*
19558468 AAATTTAAATTTAAA-TTA
1 AAATTT-ATTTTAAATTTA
19558486 AAA
1 AAA
19558489 GTCCAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
17 10 0.20
18 21 0.42
19 4 0.08
21 11 0.22
22 1 0.02
23 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
AAATTTATTTTAAATTTA
Found at i:19558441 original size:17 final size:19
Alignment explanation
Indices: 19558411--19558449 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
19558401 CTTTAGGTTT
19558411 AAATTTATTATTAAA-TTA
1 AAATTTATTATTAAATTTA
19558429 AAATTTATT-TTAAATTTA
1 AAATTTATTATTAAATTTA
19558447 AAA
1 AAA
19558450 ATATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTATTATTAAATTTA
Found at i:19559242 original size:18 final size:18
Alignment explanation
Indices: 19559208--19559255 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
19559198 AATAATGGGT
19559208 TTAATAATAAATATAATA
1 TTAATAATAAATATAATA
*
19559226 TTAATGAT-AATATTAATAA
1 TTAATAATAAATA-TAAT-A
*
19559245 ATAATAATAAA
1 TTAATAATAAA
19559256 AAGAAAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 7 0.29
20 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TTAATAATAAATATAATA
Found at i:19560133 original size:162 final size:156
Alignment explanation
Indices: 19559946--19560273 Score: 496
Period size: 162 Copynumber: 2.1 Consensus size: 156
19559936 TTCAATTTAA
* *
19559946 TCCTTCGACTATTTGACTGCACCAGAGG-CTGCCGCGTGTCACTTTTTGGCTTATTTGTGCATTT
1 TCCTTTGACTATTTGACTGCACCAGAGGAC-GCCACGTGTCACTTTTTGGCTTATTTGTGCATTT
*
19560010 AGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTAAATTACAAAAT
65 AGTCCCTATCATTTTTAATTTG---T--TTTAATCCTCAAATCAACTTTCACTAAATTACAAAAT
* *
19560075 TGATCCAGGAATTTTTTGAGATTTTTAAATTAG
125 TGACCCAGGAA-TTTTTAAGATTTTTAAATTAG
* *
19560108 TCCTTTGACTGTTTGACTGCACCAGAGGACGTCACGTGTCACTTTTTGGCTTATTTGTGCATTTA
1 TCCTTTGACTATTTGACTGCACCAGAGGACGCCACGTGTCACTTTTTGGCTTATTTGTGCATTTA
* * *
19560173 GTCCCTGTCATTTTTAATTTGTTTTAATCCTCAAATCAACTTTCGCTTAATTACAAAATTGACCC
66 GTCCCTATCATTTTTAATTTGTTTTAATCCTCAAATCAACTTTCACTAAATTACAAAATTGACCC
19560238 AGGAATTTTTAAGATTTTTAAATTAG
131 AGGAATTTTTAAGATTTTTAAATTAG
19560264 TCCTTTGACT
1 TCCTTTGACT
19560274 TCTGGATGCC
Statistics
Matches: 155, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
156 30 0.19
157 44 0.28
159 1 0.01
162 79 0.51
163 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (156 bp):
TCCTTTGACTATTTGACTGCACCAGAGGACGCCACGTGTCACTTTTTGGCTTATTTGTGCATTTA
GTCCCTATCATTTTTAATTTGTTTTAATCCTCAAATCAACTTTCACTAAATTACAAAATTGACCC
AGGAATTTTTAAGATTTTTAAATTAG
Found at i:19560477 original size:59 final size:59
Alignment explanation
Indices: 19560347--19560893 Score: 669
Period size: 59 Copynumber: 9.4 Consensus size: 59
19560337 GGACTGTCTG
*** *
19560347 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCC-GTTTTAACCCC-GATTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTCATCA
* * * *
19560405 AAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCTAGTTTTATAA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * *
19560464 AAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCAATTTCA-CC
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * * *
19560522 AAAATTATCATTTTACCCTCGAGCTTTCCAAAATTTCATTTTTAACCCCAATTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* *
19560581 AAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCTC-GATTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTCATCA
* ** * *
19560640 AAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CCCGGTCTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * *
19560698 AAAATTACCATTTTACCCCAGAACTTTCCAAAATTCCATTATTAACCCCGGTCTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* *
19560757 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * * * *
19560816 AAAATTACCA-TTTA-CCCCAAACTTTCCAAGATTCTATTTTTAA-CCCTGATCTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTCATCA
* *
19560873 AAAATTACCAGTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
19560894 TGCATCCAAA
Statistics
Matches: 429, Mismatches: 51, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
56 4 0.01
57 41 0.10
58 140 0.33
59 243 0.57
60 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
Found at i:19560553 original size:117 final size:118
Alignment explanation
Indices: 19560347--19560893 Score: 726
Period size: 117 Copynumber: 4.7 Consensus size: 118
19560337 GGACTGTCTG
* * *
19560347 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCC-GTTTTAACCCCGATTTCATCAAAAATT
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
* * * *
19560411 ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCTAGTTTTATAA
66 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * *
19560464 AAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCAATTTCA-CCAAAATT
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
* * * * *
19560528 ATCATTTTACCCTCGAGCTTTCCAAAATTTCATTTTTAACCCCAATTTCATCA
66 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * *
19560581 AAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCTCGATTTCATCAAAAATT
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
* ** * *
19560646 ATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CCCGGTCTCATCA
66 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * *
19560698 AAAATTACCATTTTACCCCAGAACTTTCCAAAATTCCATTATTAACCCCGGTCTCATCAAAAATT
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
* *
19560763 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCATCA
66 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
* * * * * *
19560816 AAAATTACCA-TTTACCCC-AAACTTTCCAAGATTCTATTTTTAACCCTGATCTCACCAAAAATT
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
* *
19560879 ACCAGTTTGCCCCCG
66 ACCATTTTACCCCCG
19560894 TGCATCCAAA
Statistics
Matches: 378, Mismatches: 49, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
116 51 0.13
117 248 0.66
118 79 0.21
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATT
ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCA
Found at i:19560645 original size:176 final size:175
Alignment explanation
Indices: 19560347--19560882 Score: 740
Period size: 176 Copynumber: 3.1 Consensus size: 175
19560337 GGACTGTCTG
** **
19560347 AAAATTACCATTTTACCCTTAAACTTTCCAAAA-TTCCGTTTTAACCCCGATTTCATCAAAAATT
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATCAAAAATT
* * *
19560411 ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCTAGTTTTATAAAAAATTACCATT
66 ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCGA-TTTCATCAAAAATTACCATT
* * * *
19560476 TTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCAATTTCACC
130 TTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACC
* * *
19560522 AAAATTATCATTTTACCCTCGAGCTTTCCAAAATTTCATTTTTAACCCCAATTTCATCAAAAATT
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATCAAAAATT
*
19560587 ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCTCGATTTCATCAAAAATTATCATT
66 ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACC-CGATTTCATCAAAAATTACCATT
* *
19560652 TTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CCCGGTCTCATCA
130 TTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCA-CC
* * * *
19560698 AAAATTACCATTTTACCC-CAGAACTTTCCAAAATTCCATTATTAACCCCGGTCTCATCAAAAAT
1 AAAATTACCATTTTACCCTC-GAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATCAAAAAT
* * *
19560762 TACCATTTTACCCCCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCATCAAAAATTACCA-
65 TACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAA-CCCGATTTCATCAAAAATTACCAT
* * *
19560826 TTTACCCC-AAACTTTCCAAGATTCTATTTTTAACCCTGATCTCACC
129 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACC
19560872 AAAAATTACCA
1 -AAAATTACCA
19560883 GTTTGCCCCC
Statistics
Matches: 321, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
174 24 0.07
175 63 0.20
176 230 0.72
177 4 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (175 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATCAAAAATT
ACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCGATTTCATCAAAAATTACCATTT
TACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACC
Found at i:19560928 original size:28 final size:28
Alignment explanation
Indices: 19560873--19560932 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
19560863 GATCTCACCA
* *
19560873 AAAATTACCAGTTTGCCCCCGTGCATCC
1 AAAATTACCAGTTTACCCCCGGGCATCC
* * *
19560901 AAAATTACCATTTTACCCTCGGGTATCC
1 AAAATTACCAGTTTACCCCCGGGCATCC
19560929 AAAA
1 AAAA
19560933 GTCCCGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
AAAATTACCAGTTTACCCCCGGGCATCC
Found at i:19563537 original size:84 final size:84
Alignment explanation
Indices: 19563396--19563559 Score: 238
Period size: 84 Copynumber: 2.0 Consensus size: 84
19563386 TAGTCTTAAT
* ** * *
19563396 TCCTAAATATTAAATAAACTAAAAGTCGGATTTTGACATCCTAAAGAGTCCTAAAGAGATGACCG
1 TCCTAAATATTAAATAAACCAAAAGTCAAATTTTGACATCCCAAAGAATCCTAAAGAGATGACCG
*
19563461 AGTCCCGAAATCACCACCA
66 AGTCCCGAAACCACCACCA
* * * *
19563480 TCCTAAATATTATATAAACCAAGAGTCAAATTTTGACATCCCAAAGAATCTTAAAGAGATTACCG
1 TCCTAAATATTAAATAAACCAAAAGTCAAATTTTGACATCCCAAAGAATCCTAAAGAGATGACCG
19563545 AGTCCCGAAACCACC
66 AGTCCCGAAACCACC
19563560 TCCCGTCATG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (84 bp):
TCCTAAATATTAAATAAACCAAAAGTCAAATTTTGACATCCCAAAGAATCCTAAAGAGATGACCG
AGTCCCGAAACCACCACCA
Found at i:19563773 original size:39 final size:39
Alignment explanation
Indices: 19563730--19563819 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
19563720 TGGTAGCCTA
* *
19563730 GTAGTGTTTACAGTGCCACTACTAACTCAGTATGGCATT
1 GTAGTGTTTACAGTGCCACTACCAACTCAGTATCGCATT
* * * **
19563769 GTAGTGTTTACAGTGTCATTGCCAGTTCAGTATCGCATT
1 GTAGTGTTTACAGTGCCACTACCAACTCAGTATCGCATT
*
19563808 GCAGTGTTTACA
1 GTAGTGTTTACA
19563820 ATGTCACTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (39 bp):
GTAGTGTTTACAGTGCCACTACCAACTCAGTATCGCATT
Found at i:19563825 original size:39 final size:39
Alignment explanation
Indices: 19563756--19563875 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 39
19563746 CACTACTAAC
* * * *
19563756 TCAGTATGGCATTGTAGTGTTTACAGTGTCATTGCCAGT
1 TCAGTATAGCATTGCAGTGTTTACAGTGTCACTGTCAGT
* * *
19563795 TCAGTATCGCATTGCAGTGTTTACAATGTCACTGTTAGT
1 TCAGTATAGCATTGCAGTGTTTACAGTGTCACTGTCAGT
* *
19563834 TCAGCATAACATTGCAGTGTTTACAGTGTCACTGTCAGT
1 TCAGTATAGCATTGCAGTGTTTACAGTGTCACTGTCAGT
19563873 TCA
1 TCA
19563876 ATAATTATTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (39 bp):
TCAGTATAGCATTGCAGTGTTTACAGTGTCACTGTCAGT
Found at i:19567963 original size:39 final size:38
Alignment explanation
Indices: 19567922--19568065 Score: 198
Period size: 39 Copynumber: 3.7 Consensus size: 38
19567912 GTAGCCTAGT
* * *
19567922 AGTGTTTACAGTGTCACTACTAGCTCAGTATGGCATTGT
1 AGTGTTTACAGTGTCACT-CTAGTTCAGTATAGCATTGC
*
19567961 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
1 AGTGTTTACAGTGTCACT-CTAGTTCAGTATAGCATTGC
*
19568000 AGTGTTTACAGTGTCACTGTCAGTTCAGTATAGCATTGC
1 AGTGTTTACAGTGTCACTCT-AGTTCAGTATAGCATTGC
*
19568039 AGTGTTTACAGTGTCACTGTCAGTTCA
1 AGTGTTTACAGTGTCACTCT-AGTTCA
19568066 ATAATTATTA
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (38 bp):
AGTGTTTACAGTGTCACTCTAGTTCAGTATAGCATTGC
Found at i:19568028 original size:78 final size:78
Alignment explanation
Indices: 19567922--19568065 Score: 227
Period size: 78 Copynumber: 1.8 Consensus size: 78
19567912 GTAGCCTAGT
* *
19567922 AGTGTTTACAGTGTCACTACTAGCTCAGTATGGCATTGTAGTGTTTACAGTGTCACTGCCAGTTC
1 AGTGTTTACAGTGTCACTACTAGCTCAGTATAGCATTGCAGTGTTTACAGTGTCACTGCCAGTTC
19567987 AGTATAGCATTGC
66 AGTATAGCATTGC
* * *
19568000 AGTGTTTACAGTGTCACT-GTCAGTTCAGTATAGCATTGCAGTGTTTACAGTGTCACTGTCAGTT
1 AGTGTTTACAGTGTCACTACT-AGCTCAGTATAGCATTGCAGTGTTTACAGTGTCACTGCCAGTT
19568064 CA
65 CA
19568066 ATAATTATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.02
78 59 0.98
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (78 bp):
AGTGTTTACAGTGTCACTACTAGCTCAGTATAGCATTGCAGTGTTTACAGTGTCACTGCCAGTTC
AGTATAGCATTGC
Found at i:19569100 original size:23 final size:22
Alignment explanation
Indices: 19569057--19569101 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
19569047 CATTCTTTCT
**
19569057 ATTTTTTTTATTTTTGCTTTAA
1 ATTTTTTTTATTTTTAATTTAA
19569079 ATTTTGTTTTATTTTTAATTTAA
1 ATTTT-TTTTATTTTTAATTTAA
19569102 TCCTCCCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTATTTTTAATTTAA
Found at i:19573792 original size:19 final size:19
Alignment explanation
Indices: 19573770--19573808 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19573760 AAAAAAATAA
*
19573770 AAAAATAAAAA-AAAGAAGG
1 AAAAAGAAAAAGAAA-AAGG
19573789 AAAAAGAAAAAGAAAAAGG
1 AAAAAGAAAAAGAAAAAGG
19573808 A
1 A
19573809 GAGGTCGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAGG
Found at i:19574775 original size:101 final size:101
Alignment explanation
Indices: 19574631--19575022 Score: 456
Period size: 101 Copynumber: 3.9 Consensus size: 101
19574621 GAATTAAAAT
* *
19574631 AAGTA-ATCTCAATCTCCTTGAGGTTACAATGGAATGGAGTGAAG-TTACAACACCAAATCCTAT
1 AAGTAGATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTT-CAACACCAAATCCTAT
* *
19574694 ACCCCTAAAGTTACAGTGGGTTGGATTAAAGTTACAA
65 ACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTTACAA
* *
19574731 AAGTAGATCTCAATCTTCTTGAGGTTACAGTGGAATAGAGTGAAGCTTTAACACCAAATCCTATA
1 AAGTAGATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATA
* * * * * * *
19574796 TCCCTAAAGTTGTAGTGGATCGAATTAAAATAAGAA
66 CCCCTAAAGTTGCAGTGGGTCGGATTAAAGTTACAA
* * * *
19574832 ACG--GGTCTCAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAG-TT--ACAACCAAATCCTAT
1 AAGTAGATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAAC-ACCAAATCCTAT
* * * * *
19574892 ACCGCTGAAGTTGCAATGGGTCGGACTAAAGTTGCAA
65 ACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTTACAA
* * *
19574929 AAGCAAATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCTTATA
1 AAGTAGATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATA
* * * *
19574994 TCCCTAAAGTTGTAGTGGATCGAATTAAA
66 CCCCTAAAGTTGCAGTGGGTCGGATTAAA
19575023 ATTGTAACAC
Statistics
Matches: 240, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
96 2 0.01
97 39 0.16
98 2 0.01
99 72 0.30
100 7 0.03
101 114 0.47
102 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (101 bp):
AAGTAGATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATA
CCCCTAAAGTTGCAGTGGGTCGGATTAAAGTTACAA
Found at i:19574952 original size:198 final size:196
Alignment explanation
Indices: 19574587--19575024 Score: 637
Period size: 198 Copynumber: 2.2 Consensus size: 196
19574577 CTAGTGAAAA
* * ** * * *
19574587 ACCAAATCCTATATCCATGAAGTTACAGTGGATCGAATTAAAATAAGTAATCTCAATCTCCTTGA
1 ACCAAATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAATAAGAAATCTCAATCTCCCTAA
* * *
19574652 GGTTACAATGGAATGGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAGTGGGTTG
66 GGTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAATGGGTCG
* * * * *
19574717 GATTAAAGTTACAAAAGTAGATCTCAATCTTCTTGAGGTTACAGTGGAATAGAGTGAAGCTTTAA
131 GACTAAAGTTACAAAAGCAAATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAA
19574782 C
196 C
19574783 ACCAAATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAATAAGAAACGGGTCTCAATCTCC
1 ACCAAATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAATAAGAAA----TCTCAATCTCC
* * * *
19574848 CTAAGGTTACAGTGGAATAGAGTGAAGTTAC-A-ACCAAATCCTATACCGCTGAAGTTGCAATGG
62 CTAAGGTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAATGG
*
19574911 GTCGGACTAAAGTTGCAAAAGCAAATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCT
127 GTCGGACTAAAGTTACAAAAGCAAATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCT
19574976 TCAAC
192 TCAAC
*
19574981 ACCAAATCTTATATCCCTAAAGTTGTAGTGGATCGAATTAAAAT
1 ACCAAATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAAT
19575025 TGTAACACCC
Statistics
Matches: 217, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
196 45 0.21
198 133 0.61
199 1 0.00
200 38 0.18
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (196 bp):
ACCAAATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAATAAGAAATCTCAATCTCCCTAA
GGTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAATGGGTCG
GACTAAAGTTACAAAAGCAAATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAA
C
Found at i:19576766 original size:99 final size:100
Alignment explanation
Indices: 19576458--19576781 Score: 318
Period size: 99 Copynumber: 3.2 Consensus size: 100
19576448 ACAGTTATAG
* * * * *
19576458 CACCAAATCTTATACCCTTGAAGTTGTAATGGATCGGATTAAAGTTAGAAAAGCAGATCTCAATT
1 CACC-AATCCTATACCCTTGAAGTTATAGTGGATCAGATTAAAGTTAGAAAAGCAGATCTCAGTT
*
19576523 TCCCTGAGGTTACAGTGGAATGGAGTGAAGCTTCAA
65 TCCCTGAGGTTACAATGGAATGGAGTGAAGCTTCAA
* * * * * ** * *
19576559 CAGCAAGTCTTATATCCATGAAGTTATAGTGGATCAGATTAAA-ATAGGTAA-CGGACCT-AGTT
1 CACCAA-TCCTATACCCTTGAAGTTATAGTGGATCAGATTAAAGTTAGAAAAGCAGATCTCAGTT
* * *
19576621 CTCCCTGAAGTTGCAATGGAATGGAGCGAAG-TTACAA
65 -TCCCTGAGGTTACAATGGAATGGAGTGAAGCTT-CAA
** * * *
19576658 CATTAAATCCTATACCCTTGAAGTTACAGTGGGTCAGATTAAAGTTA-CAAAGCAGATCTCAGTT
1 CA-CCAATCCTATACCCTTGAAGTTATAGTGGATCAGATTAAAGTTAGAAAAGCAGATCTCAGTT
* * *
19576722 TCCCTGAGGTTACATTGGAATAGAGTGAAGCTTTAA
65 TCCCTGAGGTTACAATGGAATGGAGTGAAGCTTCAA
19576758 CACCAATCCTATATCCCTT-AAGTT
1 CACCAATCCTATA-CCCTTGAAGTT
19576782 GCAATGGATC
Statistics
Matches: 178, Mismatches: 36, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
98 5 0.03
99 83 0.47
100 50 0.28
101 40 0.22
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (100 bp):
CACCAATCCTATACCCTTGAAGTTATAGTGGATCAGATTAAAGTTAGAAAAGCAGATCTCAGTTT
CCCTGAGGTTACAATGGAATGGAGTGAAGCTTCAA
Found at i:19577714 original size:114 final size:115
Alignment explanation
Indices: 19577568--19577827 Score: 380
Period size: 114 Copynumber: 2.3 Consensus size: 115
19577558 CTGAGAAGTC
* * * * ***
19577568 CTACCCTGCAACTTCTACCAATACAAGTATTTAAACTACCAATACCTCAATGTACAGAACTATTT
1 CTACCCTG-TACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATATACAGAACTAGCG
19577633 ATACCCATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCT
65 ATACCCATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCT
* **
19577684 -TACCCT-TCATTTCTACCGATACAAGCATTTAAACTATTAATACCTCAATATACAGAACTAGCG
1 CTACCCTGT-ACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATATACAGAACTAGCG
*
19577747 ATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCT
65 ATACCCATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCT
19577798 CCTACCCTGTACTTCTACCGATACAAGCAT
1 -CTACCCTGTACTTCTACCGATACAAGCAT
19577828 GAGTTCTACC
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
114 96 0.75
115 6 0.05
116 25 0.20
117 1 0.01
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (115 bp):
CTACCCTGTACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATATACAGAACTAGCGA
TACCCATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCT
Found at i:19582393 original size:95 final size:96
Alignment explanation
Indices: 19582293--19582483 Score: 235
Period size: 95 Copynumber: 2.0 Consensus size: 96
19582283 TCTCAAACTT
* * * * *
19582293 TAAAAAAATAATTAAGCCTCTACT-TTTTTTTTGCACTCAATTGGGTATTTGAA-TTGCCAAATG
1 TAAAAAAACAATTAAGCCCCT-CTCTTTTTTTTGCACTCAATTGGGTACTTGAACTTGCAAAAGG
* *
19582356 CAT-CAAAAATACCTTCAAACTTTTTCAAAAAA
65 CATAAAAAAAT-CCCTCAAACTTTTTCAAAAAA
* * * **
19582388 TAAAAAAACAATTAAGCCCCTGTCTTTTTTTTGCACTCAATTTGGTGCTTGAACTTTTAAAAGGC
1 TAAAAAAACAATTAAGCCCCTCTCTTTTTTTTGCACTCAATTGGGTACTTGAACTTGCAAAAGGC
19582453 ATAAAAAAATCCCTCAAACTTTTTCAAAAAA
66 ATAAAAAAATCCCTCAAACTTTTTCAAAAAA
19582484 GAAATTAAGC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 45 0.56
96 29 0.36
97 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (96 bp):
TAAAAAAACAATTAAGCCCCTCTCTTTTTTTTGCACTCAATTGGGTACTTGAACTTGCAAAAGGC
ATAAAAAAATCCCTCAAACTTTTTCAAAAAA
Found at i:19584834 original size:15 final size:15
Alignment explanation
Indices: 19584814--19584864 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
19584804 TGCTCCATCA
19584814 ATATCCCTATCGAGG
1 ATATCCCTATCGAGG
*
19584829 ATATCCC-ATTCTAAGG
1 ATATCCCTA-TC-GAGG
19584845 ATATCCCTATCCGA-G
1 ATATCCCTAT-CGAGG
19584860 ATATC
1 ATATC
19584865 TCACTCTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 15 0.50
16 12 0.40
17 2 0.07
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (15 bp):
ATATCCCTATCGAGG
Found at i:19584849 original size:31 final size:31
Alignment explanation
Indices: 19584814--19584913 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
19584804 TGCTCCATCA
19584814 ATATCCCTATCGAGGATATCCCATTCTAAGG
1 ATATCCCTATCGAGGATATCCCATTCTAAGG
* *
19584845 ATATCCCTATCCGA-GATATCTCACTCT-AGG
1 ATATCCCTAT-CGAGGATATCCCATTCTAAGG
* * * * * *
19584875 TAAATCCCAACCCTAGGACATCCCATTCTAGGG
1 -ATATCCCTA-TCGAGGATATCCCATTCTAAGG
19584908 ATATCC
1 ATATCC
19584914 TAATATGAGG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
30 3 0.06
31 30 0.57
32 18 0.34
33 2 0.04
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (31 bp):
ATATCCCTATCGAGGATATCCCATTCTAAGG
Found at i:19585093 original size:28 final size:28
Alignment explanation
Indices: 19585062--19585167 Score: 77
Period size: 28 Copynumber: 3.8 Consensus size: 28
19585052 GCCTAACCCT
* * * *
19585062 TAACGCCTAACCGATAATGCCTGATTGG
1 TAACGCCTGACCGATAATGCCTCATCGA
* * *
19585090 TAACACCTGATCAATAATGCCTCATCGA
1 TAACGCCTGACCGATAATGCCTCATCGA
* ** * *
19585118 TAACGCCTGACCGGTAACACCTAACCGA
1 TAACGCCTGACCGATAATGCCTCATCGA
* * *
19585146 TAAGGCCTAACCGATAACGCCT
1 TAACGCCTGACCGATAATGCCT
19585168 GACTAGATGA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (28 bp):
TAACGCCTGACCGATAATGCCTCATCGA
Found at i:19585125 original size:14 final size:14
Alignment explanation
Indices: 19585115--19585167 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
19585105 AATGCCTCAT
*
19585115 CGATAACGCCTGAC
1 CGATAACGCCTAAC
* *
19585129 CGGTAACACCTAAC
1 CGATAACGCCTAAC
*
19585143 CGATAAGGCCTAAC
1 CGATAACGCCTAAC
19585157 CGATAACGCCT
1 CGATAACGCCT
19585168 GACTAGATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (14 bp):
CGATAACGCCTAAC
Found at i:19585134 original size:42 final size:42
Alignment explanation
Indices: 19585066--19585170 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
19585056 AACCCTTAAC
* ** * * *
19585066 GCCTAACCGATAATGCCTGATTGGTAACACCTGATCAATAAT
1 GCCTAACCGATAACGCCTGACCGGTAACACCTAACCAATAAG
* * *
19585108 GCCTCATCGATAACGCCTGACCGGTAACACCTAACCGATAAG
1 GCCTAACCGATAACGCCTGACCGGTAACACCTAACCAATAAG
19585150 GCCTAACCGATAACGCCTGAC
1 GCCTAACCGATAACGCCTGAC
19585171 TAGATGAAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (42 bp):
GCCTAACCGATAACGCCTGACCGGTAACACCTAACCAATAAG
Found at i:19585948 original size:20 final size:21
Alignment explanation
Indices: 19585919--19585974 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
19585909 ATACTTGAAT
19585919 TTTTTCTTCTTCTTTCAAATC-
1 TTTTT-TTCTTCTTTCAAATCG
* * *
19585940 TTTTTTTCTTTTTTTAATTCG
1 TTTTTTTCTTCTTTCAAATCG
*
19585961 TTTTTTTATTCTTT
1 TTTTTTTCTTCTTT
19585975 TTTTAAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTTTCTTCTTTCAAATCG
Found at i:19585964 original size:13 final size:12
Alignment explanation
Indices: 19585945--19585980 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
19585935 AAATCTTTTT
19585945 TTCTTTTTTTAA
1 TTCTTTTTTTAA
19585957 TTCGTTTTTTT-A
1 TTC-TTTTTTTAA
19585969 TTCTTTTTTTAA
1 TTCTTTTTTTAA
19585981 ACTTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.32
12 8 0.36
13 7 0.32
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (12 bp):
TTCTTTTTTTAA
Found at i:19587357 original size:50 final size:50
Alignment explanation
Indices: 19587270--19587419 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 50
19587260 TGGATTACTA
*
19587270 AATGCATGACTTGG-TTTAATGATGCAAACTTTAACTAACATGAGAGTTACAT
1 AATGCATGA-TAGGATTT-ATGATGCAAA-TTTAACTAACATGAGAGTTACAT
* *
19587322 AATGCATGATAGGATTTATGATGCATATTTAACTAACATGTA-AGTTACTT
1 AATGCATGATAGGATTTATGATGCAAATTTAACTAACATG-AGAGTTACAT
** *
19587372 AATGCATG-TCATTATTTATGATGCAAACTTAACTAATCATGAGAGTTA
1 AATGCATGAT-AGGATTTATGATGCAAATTTAACTAA-CATGAGAGTTA
19587420 ATGGATGTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
49 1 0.01
50 51 0.59
51 22 0.26
52 12 0.14
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (50 bp):
AATGCATGATAGGATTTATGATGCAAATTTAACTAACATGAGAGTTACAT
Found at i:19587505 original size:33 final size:34
Alignment explanation
Indices: 19587432--19587519 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 34
19587422 GGATGTCATT
* *
19587432 ACATAATGCATGACTTTATT-AA--ATGTAGATC
1 ACATAATGCATGACATAATTAAATTATGTAGATC
* * *
19587463 ACATAATGCATGTCATATTTAAATTATGTAGATT
1 ACATAATGCATGACATAATTAAATTATGTAGATC
19587497 A-ATAATGCATGACATAATTAAAT
1 ACATAATGCATGACATAATTAAAT
19587520 CACAATCTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 16 0.34
32 2 0.04
33 20 0.43
34 9 0.19
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (34 bp):
ACATAATGCATGACATAATTAAATTATGTAGATC
Found at i:19589793 original size:13 final size:13
Alignment explanation
Indices: 19589775--19589799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19589765 TTTTTTATTA
19589775 TTTTTAATTAATG
1 TTTTTAATTAATG
19589788 TTTTTAATTAAT
1 TTTTTAATTAAT
19589800 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:19589837 original size:18 final size:20
Alignment explanation
Indices: 19589816--19589862 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
19589806 ATTGTTTTCA
*
19589816 ATTTTTTTATT-TTAATT-T
1 ATTTTTTTATTAATAATTCT
*
19589834 ATTTTTTAATTAATAATTCT
1 ATTTTTTTATTAATAATTCT
19589854 -TTTTTTTAT
1 ATTTTTTTAT
19589863 AAAATCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 13 0.54
20 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTTTATTAATAATTCT
Found at i:19591021 original size:16 final size:16
Alignment explanation
Indices: 19591000--19591030 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19590990 CCTGTTATTT
19591000 CAACATTTTTAATAAA
1 CAACATTTTTAATAAA
19591016 CAACATTTTTAATAA
1 CAACATTTTTAATAA
19591031 TGCTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (16 bp):
CAACATTTTTAATAAA
Found at i:19597253 original size:10 final size:10
Alignment explanation
Indices: 19597234--19597283 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
19597224 ATAGTAAAAG
19597234 AAATTA-AAA
1 AAATTATAAA
*
19597243 AAATTGTAAA
1 AAATTATAAA
**
19597253 ATTTTAT-AA
1 AAATTATAAA
19597262 AAATTATAAA
1 AAATTATAAA
19597272 AAATTTATAAA
1 AAA-TTATAAA
19597283 A
1 A
19597284 TGAATCAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 12 0.38
10 12 0.38
11 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:19597499 original size:19 final size:19
Alignment explanation
Indices: 19597453--19597499 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19597443 TAGTACTATA
*
19597453 ATTTTTATATTTTTTTACG
1 ATTTTTATATTTCTTTACG
*
19597472 AATTTTATATTTCTTTAC-
1 ATTTTTATATTTCTTTACG
19597490 ATTTTCTATA
1 ATTTT-TATA
19597500 ATTTTTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATATTTCTTTACG
Found at i:19598281 original size:14 final size:14
Alignment explanation
Indices: 19598264--19598315 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
19598254 ATGCCTAGCC
* *
19598264 GGTAATGCCTGACT
1 GGTAACGCCTAACT
* *
19598278 GGTAACACCTAATT
1 GGTAACGCCTAACT
* *
19598292 GGTAATGCCTAACC
1 GGTAACGCCTAACT
19598306 GGTAACGCCT
1 GGTAACGCCT
19598316 GACAAGTAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (14 bp):
GGTAACGCCTAACT
Found at i:19601144 original size:14 final size:14
Alignment explanation
Indices: 19601122--19601244 Score: 102
Period size: 14 Copynumber: 8.8 Consensus size: 14
19601112 TGCCTAACTC
19601122 GTAACGCCTGACCG
1 GTAACGCCTGACCG
* *
19601136 ATAATGCCTGACCG
1 GTAACGCCTGACCG
*
19601150 GTAACACCTGACCG
1 GTAACGCCTGACCG
* *
19601164 GTAACGCCTCATCG
1 GTAACGCCTGACCG
* **
19601178 ATAACGTTTGACCG
1 GTAACGCCTGACCG
*
19601192 GTAACGCCTGACCA
1 GTAACGCCTGACCG
** * *
19601206 GTAATACCTAACCA
1 GTAACGCCTGACCG
* * *
19601220 GTAACACTTGGCCG
1 GTAACGCCTGACCG
19601234 GTAACGCCTGA
1 GTAACGCCTGA
19601245 TCGGATGAAA
Statistics
Matches: 81, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 81 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (14 bp):
GTAACGCCTGACCG
Found at i:19601181 original size:42 final size:42
Alignment explanation
Indices: 19601122--19601209 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
19601112 TGCCTAACTC
* * *
19601122 GTAACGCCTGACCGATAATGCCTGACCGGTAACACCTGACCG
1 GTAACGCCTCACCGATAACGCCTGACCGGTAACACCTGACCA
* ** *
19601164 GTAACGCCTCATCGATAACGTTTGACCGGTAACGCCTGACCA
1 GTAACGCCTCACCGATAACGCCTGACCGGTAACACCTGACCA
19601206 GTAA
1 GTAA
19601210 TACCTAACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (42 bp):
GTAACGCCTCACCGATAACGCCTGACCGGTAACACCTGACCA
Found at i:19601706 original size:20 final size:21
Alignment explanation
Indices: 19601669--19601711 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
19601659 GTGTCAAGTT
*
19601669 TTTGACAAGACTATT-AAAGA
1 TTTGACAAGACCATTAAAAGA
19601689 TTTGACAAGAACCA-TAAAAGA
1 TTTGACAAG-ACCATTAAAAGA
19601710 TT
1 TT
19601712 AATTAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (21 bp):
TTTGACAAGACCATTAAAAGA
Found at i:19601710 original size:21 final size:20
Alignment explanation
Indices: 19601669--19601711 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
19601659 GTGTCAAGTT
* *
19601669 TTTGACAAGACTATTAAAGA
1 TTTGACAAGACCATAAAAGA
19601689 TTTGACAAGAACCATAAAAGA
1 TTTGACAAG-ACCATAAAAGA
19601710 TT
1 TT
19601712 AATTAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
TTTGACAAGACCATAAAAGA
Found at i:19601945 original size:16 final size:15
Alignment explanation
Indices: 19601924--19601953 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19601914 TGGTGGTGCT
19601924 AAGAAAAGCAAAAGAG
1 AAGAAAAG-AAAAGAG
19601940 AAGAAAAGAAAAGA
1 AAGAAAAGAAAAGA
19601954 AATTGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAAAAGAG
Found at i:19603349 original size:13 final size:13
Alignment explanation
Indices: 19603331--19603358 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19603321 ACTTTGCTTT
19603331 TATTTTTAATTAA
1 TATTTTTAATTAA
19603344 TATTTTTAATTAA
1 TATTTTTAATTAA
19603357 TA
1 TA
19603359 ACTCTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTTTAATTAA
Found at i:19604371 original size:30 final size:30
Alignment explanation
Indices: 19604316--19604499 Score: 257
Period size: 29 Copynumber: 6.2 Consensus size: 30
19604306 TAAATTTTTT
19604316 AAAAATTTGAATTTGACCC-CAAACTTTCC
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
19604345 AAAAATTTGAATTTGACCCTCAAACTTT-C
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
* *
19604374 AAAAATTTGAATTTAACCCTTAAACTTT-C
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
* * *
19604403 AAAAATTTTAATTTAACCCTTAAACTTTCC
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
* ** *
19604433 AAAAACTCAAATTTGACCCCCAAACTTTCC
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
*
19604463 AAAAATTTAAATTTGACCCTCAAACTTTCC
1 AAAAATTTGAATTTGACCCTCAAACTTTCC
19604493 AAAAATT
1 AAAAATT
19604500 CAAATTTTGA
Statistics
Matches: 141, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
29 74 0.52
30 67 0.48
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAAATTTGAATTTGACCCTCAAACTTTCC
Found at i:19604436 original size:88 final size:88
Alignment explanation
Indices: 19604297--19604499 Score: 264
Period size: 88 Copynumber: 2.3 Consensus size: 88
19604287 AAAATTACAT
* * * * **
19604297 TTTAACCCTTAAATTTTTTAAAAATTTGAATTTGACCCCAAACTTTCCAAAAATTTGAATTTGAC
1 TTTAACCCTTAAA-CTTTCAAAAATTTGAATTTAACCCCAAACTTTCCAAAAACTCAAATTTGAC
* *
19604362 CCTCAAACTTT-CAAAAATTTGAA
65 CCCCAAACTTTCCAAAAATTTAAA
* *
19604385 TTTAACCCTTAAACTTTCAAAAATTTTAATTTAACCCTTAAACTTTCCAAAAACTCAAATTTGAC
1 TTTAACCCTTAAACTTTCAAAAATTTGAATTTAACCC-CAAACTTTCCAAAAACTCAAATTTGAC
19604450 CCCCAAACTTTCCAAAAATTTAAA
65 CCCCAAACTTTCCAAAAATTTAAA
* *
19604474 TTTGACCCTCAAACTTTCCAAAAATT
1 TTTAACCCTTAAACTTT-CAAAAATT
19604500 CAAATTTTGA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
87 20 0.20
88 46 0.46
89 26 0.26
90 8 0.08
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.35
Consensus pattern (88 bp):
TTTAACCCTTAAACTTTCAAAAATTTGAATTTAACCCCAAACTTTCCAAAAACTCAAATTTGACC
CCCAAACTTTCCAAAAATTTAAA
Found at i:19604732 original size:18 final size:18
Alignment explanation
Indices: 19604680--19604733 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
19604670 TATCTACTTA
19604680 ATTTATTATTT-TATTGT
1 ATTTATTATTTATATTGT
* * *
19604697 ATTTTTTGTATATATTGT
1 ATTTATTATTTATATTGT
19604715 -TTTATTATTTATACTTGT
1 ATTTATTATTTATA-TTGT
19604733 A
1 A
19604734 AATCATGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTATTATTTATATTGT
Found at i:19606372 original size:20 final size:20
Alignment explanation
Indices: 19606349--19606411 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
19606339 TTTTTTTAAT
*
19606349 AAAAATCGTAAAAAATTATA
1 AAAAATAGTAAAAAATTATA
* * **
19606369 AAAACTTGTAAAATTTTATA
1 AAAAATAGTAAAAAATTATA
* **
19606389 AAAATTAAAAAAAAATTATA
1 AAAAATAGTAAAAAATTATA
19606409 AAA
1 AAA
19606412 TGCATCAAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATAGTAAAAAATTATA
Found at i:19606545 original size:16 final size:16
Alignment explanation
Indices: 19606524--19606566 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19606514 AACATGTGGC
19606524 AAAAAATGATAAAAAT
1 AAAAAATGATAAAAAT
* *
19606540 AAAAAATAAATAAAATT
1 AAAAAAT-GATAAAAAT
*
19606557 ATAAAATGAT
1 AAAAAATGAT
19606567 TCTTTTAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAAATGATAAAAAT
Found at i:19607338 original size:74 final size:74
Alignment explanation
Indices: 19607254--19607402 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
19607244 CTTATTCCGA
19607254 GGATAACCCTGTCCTATTATATCTTGGTTCAGGAAAAACAGTACCAGGTTCAGTTGTTTTGGTAT
1 GGATAACCCTGTCCTATTATATCTTGGTTCAGGAAAAACAGTACCAGGTTCAGTTGTTTTGGTAT
19607319 TCAGTTCAT
66 TCAGTTCAT
19607328 GGATAACCCTGTCCTATTATATCTTGGTTCAGGAAAAACAGTACCAGGTTCAGTTGTTTTGGTAT
1 GGATAACCCTGTCCTATTATATCTTGGTTCAGGAAAAACAGTACCAGGTTCAGTTGTTTTGGTAT
19607393 TCAGTTCAT
66 TCAGTTCAT
19607402 G
1 G
19607403 TTTTTTACCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (74 bp):
GGATAACCCTGTCCTATTATATCTTGGTTCAGGAAAAACAGTACCAGGTTCAGTTGTTTTGGTAT
TCAGTTCAT
Found at i:19607596 original size:7 final size:7
Alignment explanation
Indices: 19607581--19607666 Score: 52
Period size: 7 Copynumber: 12.4 Consensus size: 7
19607571 TTTGAGAATA
19607581 TTAGGGT
1 TTAGGGT
*
19607588 TTAGTGT
1 TTAGGGT
*
19607595 TTTGGGT
1 TTAGGGT
*
19607602 TT-GGAT
1 TTAGGGT
* *
19607608 TTTGGTT
1 TTAGGGT
19607615 TTAGGGT
1 TTAGGGT
* **
19607622 TTAAGAA
1 TTAGGGT
19607629 TTAGGGT
1 TTAGGGT
19607636 TTA-GGT
1 TTAGGGT
*
19607642 TTAAGGAT
1 TT-AGGGT
19607650 TT-GGAGT
1 TTAGG-GT
19607657 TTAGGGT
1 TTAGGGT
19607664 TTA
1 TTA
19607667 TGGTGTTATA
Statistics
Matches: 59, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
6 12 0.20
7 41 0.69
8 6 0.10
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:19607640 original size:21 final size:22
Alignment explanation
Indices: 19607614--19607666 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
19607604 GGATTTTGGT
19607614 TTTAGGGTTTAAGAATTAGG-G
1 TTTAGGGTTTAAGAATTAGGAG
* *
19607635 TTTA-GGTTTAAGGATTTGGAG
1 TTTAGGGTTTAAGAATTAGGAG
19607656 TTTAGGGTTTA
1 TTTAGGGTTTA
19607667 TGGTGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 13 0.46
21 9 0.32
22 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (22 bp):
TTTAGGGTTTAAGAATTAGGAG
Found at i:19607710 original size:14 final size:14
Alignment explanation
Indices: 19607691--19607776 Score: 64
Period size: 14 Copynumber: 6.1 Consensus size: 14
19607681 AGGCATTAGG
19607691 GCCTGACCGGTAAC
1 GCCTGACCGGTAAC
* *
19607705 GCCTGACCGATAAT
1 GCCTGACCGGTAAC
* *
19607719 GCCTGACTGGTAAT
1 GCCTGACCGGTAAC
* **
19607733 ACCTGATTGGTAAC
1 GCCTGACCGGTAAC
* *
19607747 GCCTAACCAGTAAC
1 GCCTGACCGGTAAC
* * *
19607761 ACCTAATCGGTAAC
1 GCCTGACCGGTAAC
19607775 GC
1 GC
19607777 TTTACTAGTA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 56 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (14 bp):
GCCTGACCGGTAAC
Found at i:19607750 original size:28 final size:28
Alignment explanation
Indices: 19607691--19607837 Score: 87
Period size: 28 Copynumber: 5.2 Consensus size: 28
19607681 AGGCATTAGG
** * * * *
19607691 GCCTGACCGGTAACGCCTGACCGATAAT
1 GCCTGACTAGTAACACCTGATCGGTAAC
* * *
19607719 GCCTGACTGGTAATACCTGATTGGTAAC
1 GCCTGACTAGTAACACCTGATCGGTAAC
* * *
19607747 GCCTAACCAGTAACACCTAATCGGTAAC
1 GCCTGACTAGTAACACCTGATCGGTAAC
* * ** **
19607775 GCTTTACTAGTAATGCCTGATCAATAAC
1 GCCTGACTAGTAACACCTGATCGGTAAC
* * * *
19607803 GCCTCATTGGTAACACCTGATTGGTAAC
1 GCCTGACTAGTAACACCTGATCGGTAAC
*
19607831 GCTTGAC
1 GCCTGAC
19607838 CGATAACACT
Statistics
Matches: 86, Mismatches: 33, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (28 bp):
GCCTGACTAGTAACACCTGATCGGTAAC
Found at i:19607816 original size:14 final size:14
Alignment explanation
Indices: 19607799--19607832 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19607789 GCCTGATCAA
19607799 TAACGCCTCATTGG
1 TAACGCCTCATTGG
* *
19607813 TAACACCTGATTGG
1 TAACGCCTCATTGG
19607827 TAACGC
1 TAACGC
19607833 TTGACCGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (14 bp):
TAACGCCTCATTGG
Found at i:19612213 original size:18 final size:18
Alignment explanation
Indices: 19612190--19612224 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19612180 AGATTTTGTT
19612190 TATAAAAATCATAAAAAC
1 TATAAAAATCATAAAAAC
*
19612208 TATAAAAATTATAAAAA
1 TATAAAAATCATAAAAA
19612225 AAAAATTATA
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:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
TATAAAAATCATAAAAAC
Found at i:19612230 original size:14 final size:14
Alignment explanation
Indices: 19612211--19612237 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19612201 TAAAAACTAT
19612211 AAAAATTATAAAAA
1 AAAAATTATAAAAA
19612225 AAAAATTATAAAA
1 AAAAATTATAAAA
19612238 TGCATAAAAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTATAAAAA
Found at i:19612237 original size:9 final size:9
Alignment explanation
Indices: 19612189--19612224 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
19612179 TAGATTTTGT
19612189 TTATAAAAA
1 TTATAAAAA
*
19612198 TCATAAAAA
1 TTATAAAAA
*
19612207 CTATAAAAA
1 TTATAAAAA
19612216 TTATAAAAA
1 TTATAAAAA
19612225 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (9 bp):
TTATAAAAA
Found at i:19613880 original size:19 final size:19
Alignment explanation
Indices: 19613839--19613880 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19613829 CAGTGGGTTT
*
19613839 TTTTCTACTTGAATTTTTT
1 TTTTCTACTTGAATTTTTG
*
19613858 TTTTCTACTT-AGTTTATTG
1 TTTTCTACTTGAATTT-TTG
19613877 TTTT
1 TTTT
19613881 TTGGTTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTCTACTTGAATTTTTG
Found at i:19617014 original size:80 final size:80
Alignment explanation
Indices: 19616881--19617030 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 80
19616871 ACTAATTTCA
* * *
19616881 TTTTAACTCTTGTAGGGAAGCCAATGAGTCATGTCTCTTCATTAGTATCTGATGTAGTTGAAAAG
1 TTTTAACTCTTGTAGGAAAGCCAATGAGCCATGTCTCTTCATTAGAATCTGATGTAGTTGAAAAG
19616946 ACATGACAATTTCGT
66 ACATGACAATTTCGT
*
19616961 TTTTAACTCTTGTATGAAAGCCAATGAGCCATGTCTCTTCATTAGAATCTGATGTAGTTGAAAAG
1 TTTTAACTCTTGTAGGAAAGCCAATGAGCCATGTCTCTTCATTAGAATCTGATGTAGTTGAAAAG
19617026 ACATG
66 ACATG
19617031 GCATTTCTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (80 bp):
TTTTAACTCTTGTAGGAAAGCCAATGAGCCATGTCTCTTCATTAGAATCTGATGTAGTTGAAAAG
ACATGACAATTTCGT
Found at i:19617076 original size:80 final size:78
Alignment explanation
Indices: 19616992--19617150 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 78
19616982 CAATGAGCCA
*
19616992 TGTCTCTTCATTAGAATCTGATGTAGTTGAAAAGACATGGCATTTCTCCTTAAATGAAGACTTAT
1 TGTCTCTTCATTAGAATCTGATGTAGTTGAAAAGACATGACATTTCTCCTT-AATGAAGACTTA-
* *
19617057 TGTATCCTTAATGTG
64 TGTAACCTAAATGTG
* *
19617072 TGTCTCTTCATTAGGATCTGATGTAGTTGAAAAGACATGATATTTCTCCTTAATGAAGACTTATG
1 TGTCTCTTCATTAGAATCTGATGTAGTTGAAAAGACATGACATTTCTCCTTAATGAAGACTTATG
19617137 TAACCTAAATGTG
66 TAACCTAAATGTG
19617150 T
1 T
19617151 TTATTGGTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
78 14 0.19
79 12 0.16
80 48 0.65
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (78 bp):
TGTCTCTTCATTAGAATCTGATGTAGTTGAAAAGACATGACATTTCTCCTTAATGAAGACTTATG
TAACCTAAATGTG
Found at i:19617666 original size:48 final size:48
Alignment explanation
Indices: 19617572--19617699 Score: 213
Period size: 48 Copynumber: 2.6 Consensus size: 48
19617562 CATTTAATAG
*
19617572 AGATGCATTTAACAAACAAAA-ACATTGAATAATGCAGATTACTAAACAA
1 AGATGCATTTAACAAACAAAACAC-TT-AATGATGCAGATTACTAAACAA
*
19617621 AGATGCATTTAACAAACAAAACACTTAATGATGCAGATTATTAAACAA
1 AGATGCATTTAACAAACAAAACACTTAATGATGCAGATTACTAAACAA
19617669 AGATGCATTTAACAAACAAAACACTTAATGA
1 AGATGCATTTAACAAACAAAACACTTAATGA
19617700 AGCATAATTA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
48 51 0.67
49 23 0.30
50 2 0.03
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (48 bp):
AGATGCATTTAACAAACAAAACACTTAATGATGCAGATTACTAAACAA
Found at i:19621123 original size:80 final size:78
Alignment explanation
Indices: 19621027--19621182 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 78
19621017 ATGAGTCATG
* * * *
19621027 TCTCTTCATTCGGATCTGATGTAGTTGAAAAGGCATGGA-ATTTCTCCTTAAATGAAGACTTATT
1 TCTCTTCATTAGGATCTAATGTAGCTGAAAAGACAT-GATATTTCTCCTT-AATGAAGACTTA-T
19621091 GT-ATCCTTAATGTGTC
63 GTAAT-CTTAATGTGTC
19621107 TCTCTTCATTAGGATCTAATGTAGCTGAAAAGACATGATATTTCTCCTTAATGAAGACTTATGTA
1 TCTCTTCATTAGGATCTAATGTAGCTGAAAAGACATGATATTTCTCCTTAATGAAGACTTATGTA
19621172 ATCTTAATGTG
66 ATCTTAATGTG
19621183 GTTATTGGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
78 12 0.17
79 16 0.23
80 42 0.60
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (78 bp):
TCTCTTCATTAGGATCTAATGTAGCTGAAAAGACATGATATTTCTCCTTAATGAAGACTTATGTA
ATCTTAATGTGTC
Found at i:19621659 original size:49 final size:49
Alignment explanation
Indices: 19621606--19621722 Score: 166
Period size: 48 Copynumber: 2.4 Consensus size: 49
19621596 CATTTAATAG
* *
19621606 AGATGAATTTAACAAAACAAAACA-TTGAATAATGCATATTACTAAACAA
1 AGATGCATTTAACAAAACAAAACACTT-AATAATGCAGATTACTAAACAA
* *
19621655 AGATGCATTTAAC-AAACAAAACACTTAATGATGCAGATTATTAAACAA
1 AGATGCATTTAACAAAACAAAACACTTAATAATGCAGATTACTAAACAA
*
19621703 AGATTCATTTAACAAAACAA
1 AGATGCATTTAACAAAACAA
19621723 TAAATGAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
48 41 0.67
49 20 0.33
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.25
Consensus pattern (49 bp):
AGATGCATTTAACAAAACAAAACACTTAATAATGCAGATTACTAAACAA
Found at i:19622407 original size:28 final size:28
Alignment explanation
Indices: 19622324--19622408 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
19622314 TGCCTTACCA
* * * *
19622324 GTAATGCTTGATCGGTAACCCCTAACCA
1 GTAATGCCTGACCGGTAACACCTAACCG
* * * *
19622352 GTAACGCCTCG-CCGATAACACTTGACCG
1 GTAATGCCT-GACCGGTAACACCTAACCG
*
19622380 GTAATGCCTGACCGGTAACTCCTAACCG
1 GTAATGCCTGACCGGTAACACCTAACCG
19622408 G
1 G
19622409 ATGAAACAAG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
27 1 0.02
28 40 0.95
29 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (28 bp):
GTAATGCCTGACCGGTAACACCTAACCG
Found at i:19623299 original size:27 final size:27
Alignment explanation
Indices: 19623256--19623315 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19623246 AGGATATTAC
* *
19623256 GATTTAGTGTTTTGGGTTTGAATTTGG
1 GATTTAGTATTTAGGGTTTGAATTTGG
* *
19623283 GTTTTAGTATTTAGGGTTTGGATTTGG
1 GATTTAGTATTTAGGGTTTGAATTTGG
19623310 GATTTA
1 GATTTA
19623316 AGGTATTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.52
Consensus pattern (27 bp):
GATTTAGTATTTAGGGTTTGAATTTGG
Found at i:19639929 original size:18 final size:18
Alignment explanation
Indices: 19639903--19639945 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19639893 GATATTTTCA
* *
19639903 TGCATTTTTTTATTGTCCC
1 TGCATTTTATT-TTGTCAC
19639922 TGCATTTTATTTTGTCAC
1 TGCATTTTATTTTGTCAC
19639940 TGCATT
1 TGCATT
19639946 CCTTTTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.56
Consensus pattern (18 bp):
TGCATTTTATTTTGTCAC
Found at i:19642077 original size:7 final size:7
Alignment explanation
Indices: 19642067--19642096 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19642057 AGCACTTAGT
19642067 ACTCAAC
1 ACTCAAC
19642074 ACTCAAC
1 ACTCAAC
19642081 ACTCAAC
1 ACTCAAC
19642088 ACTCAAC
1 ACTCAAC
19642095 AC
1 AC
19642097 ATTTGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.13
Consensus pattern (7 bp):
ACTCAAC
Found at i:19642148 original size:13 final size:14
Alignment explanation
Indices: 19642119--19642148 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19642109 TTCATTACAT
19642119 TGACATTTAACCTC
1 TGACATTTAACCTC
19642133 TGACATTTAA-CTC
1 TGACATTTAACCTC
19642146 TGA
1 TGA
19642149 TTGTGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:19648226 original size:42 final size:42
Alignment explanation
Indices: 19648161--19648308 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
19648151 ATTTTATATA
19648161 CAATACTGGTGGCTTGTCCACATATTTCAAGCAGCTTGACTG
1 CAATACTGGTGGCTTGTCCACATATTTCAAGCAGCTTGACTG
* * *** *
19648203 TAATATTGGTGGCTTGTCCACATATTTTTGGCAGCTTGATTG
1 CAATACTGGTGGCTTGTCCACATATTTCAAGCAGCTTGACTG
* * *** * *
19648245 CAATACTAGTGGCTTGTCCACATAATTGTGGCAGCTTGATTA
1 CAATACTGGTGGCTTGTCCACATATTTCAAGCAGCTTGACTG
* *
19648287 CAATAATGGTGGTTTGTCCACA
1 CAATACTGGTGGCTTGTCCACA
19648309 AATTAATGTG
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
CAATACTGGTGGCTTGTCCACATATTTCAAGCAGCTTGACTG
Found at i:19648525 original size:18 final size:18
Alignment explanation
Indices: 19648500--19648536 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19648490 ATTGATAAGT
19648500 TGAGTTATGA-CTCACTC
1 TGAGTTATGAGCTCACTC
19648517 TGAGCTTATGAGCTCACTC
1 TGAG-TTATGAGCTCACTC
19648536 T
1 T
19648537 TTAGTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (18 bp):
TGAGTTATGAGCTCACTC
Found at i:19656041 original size:15 final size:17
Alignment explanation
Indices: 19656007--19656038 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19655997 AGGGATTCAG
19656007 TGACAAAAAAAATGCAA
1 TGACAAAAAAAATGCAA
19656024 TGAC-AAAAAAATGCA
1 TGACAAAAAAAATGCA
19656039 TGAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (17 bp):
TGACAAAAAAAATGCAA
Found at i:19658495 original size:46 final size:46
Alignment explanation
Indices: 19658428--19658526 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
19658418 AAATAAGAGA
*
19658428 AAATAAGAATGAATGAGAATGTACCTCCAAAAGGCAAATGATCAAC
1 AAATAAGAATGAATGAGAATGTACCTCCAAAAGGAAAATGATCAAC
19658474 AAATAAGAATGAATGAGAATGTACCTCCAAAAGGAAAATGATCAAC
1 AAATAAGAATGAATGAGAATGTACCTCCAAAAGGAAAATGATCAAC
19658520 AAATAAG
1 AAATAAG
19658527 CACTCTCACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (46 bp):
AAATAAGAATGAATGAGAATGTACCTCCAAAAGGAAAATGATCAAC
Found at i:19661328 original size:17 final size:18
Alignment explanation
Indices: 19661306--19661347 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19661296 TAAAACCTTA
19661306 TATAAAAAAATAT-TATG
1 TATAAAAAAATATATATG
*
19661323 TATAAAAACATATATATG
1 TATAAAAAAATATATATG
19661341 TA-AAAAA
1 TATAAAAA
19661348 TACAATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (18 bp):
TATAAAAAAATATATATG
Found at i:19661344 original size:16 final size:15
Alignment explanation
Indices: 19661310--19661375 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
19661300 ACCTTATATA
19661310 AAAAAATAT-TATGTAT
1 AAAAAATATATATG--T
19661326 AAAAACATATATATGT
1 AAAAA-ATATATATGT
*
19661342 AAAAAATACA-ATGT
1 AAAAAATATATATGT
*
19661356 AAAAAGATATGTATGT
1 AAAAA-ATATATATGT
19661372 AAAA
1 AAAA
19661376 GTACCAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 9 0.21
15 7 0.16
16 19 0.44
17 4 0.09
18 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (15 bp):
AAAAAATATATATGT
Found at i:19668235 original size:20 final size:21
Alignment explanation
Indices: 19668210--19668248 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19668200 GCAAGGAATT
19668210 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
19668230 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
19668249 TAAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:19680235 original size:19 final size:21
Alignment explanation
Indices: 19680211--19680251 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
19680201 GCAAAAATAG
19680211 AAATAAATT-TATGAT-TTTT
1 AAATAAATTCTATGATCTTTT
*
19680230 AAATAATTTCTATGATCTTTT
1 AAATAAATTCTATGATCTTTT
19680251 A
1 A
19680252 TTTGGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATAAATTCTATGATCTTTT
Found at i:19681926 original size:20 final size:21
Alignment explanation
Indices: 19681903--19681942 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
19681893 ACATATTCAC
19681903 TTATATTTTATTTC-TTTTCT
1 TTATATTTTATTTCATTTTCT
19681923 TTATATTTTATTTCATTTTC
1 TTATATTTTATTTCATTTTC
19681943 GAAGCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATATTTTATTTCATTTTCT
Found at i:19682819 original size:30 final size:30
Alignment explanation
Indices: 19682721--19682912 Score: 128
Period size: 30 Copynumber: 6.5 Consensus size: 30
19682711 CCTTATTTTA
* * *
19682721 TCTAAAAATTCGAATTTGATCCCTAAA-TT
1 TCTAAAAATTTGATTTTGACCCCTAAACTT
* * * * *
19682750 TTTCGAAAATTAG-TTTTGA-CCCTCGAACCT
1 TCT-AAAAATTTGATTTTGACCCCT-AAACTT
* * *
19682780 TCCAAAAATTTGATTTTAACCCCCAAACTT
1 TCTAAAAATTTGATTTTGACCCCTAAACTT
* *
19682810 TCTAAAAA-TTCATTTTTGACCCCTATACTT
1 TCTAAAAATTTGA-TTTTGACCCCTAAACTT
* * *
19682840 TC--CAAATTTGATTTTGACCCTTGAACTT
1 TCTAAAAATTTGATTTTGACCCCTAAACTT
*
19682868 T-TCAAAAATTTGATTTTGACCCCTGAACTT
1 TCT-AAAAATTTGATTTTGACCCCTAAACTT
* *
19682898 TCCAAAACTTTGATT
1 TCTAAAAATTTGATT
19682913 CTAACCCATT
Statistics
Matches: 124, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
28 22 0.18
29 22 0.18
30 77 0.62
31 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (30 bp):
TCTAAAAATTTGATTTTGACCCCTAAACTT
Found at i:19682867 original size:58 final size:59
Alignment explanation
Indices: 19682763--19682919 Score: 162
Period size: 58 Copynumber: 2.6 Consensus size: 59
19682753 CGAAAATTAG
*
19682763 TTTTGA-CCCTCGAACCTTCCAAAAATTTGATTTTAACCCCCAAAC-TTTCTAAAAA-TTCA
1 TTTTGACCCCT-GAACTTTCC-AAAATTTGATTTTAACCCCCAAACTTTTC-AAAAATTTCA
* *** *
19682822 TTTTTGACCCCT-ATACTTTCC-AAATTTGATTTTGACCCTTGAACTTTTCAAAAATTTGA
1 -TTTTGACCCCTGA-ACTTTCCAAAATTTGATTTTAACCCCCAAACTTTTCAAAAATTTCA
*
19682881 TTTTGACCCCTGAACTTTCCAAAACTTTGATTCTAACCC
1 TTTTGACCCCTGAACTTTCCAAAA-TTTGATTTTAACCC
19682920 ATTTTTCCTT
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
58 42 0.51
59 12 0.15
60 24 0.29
61 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (59 bp):
TTTTGACCCCTGAACTTTCCAAAATTTGATTTTAACCCCCAAACTTTTCAAAAATTTCA
Found at i:19686620 original size:24 final size:23
Alignment explanation
Indices: 19686579--19686629 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
19686569 CTTAAAGAGT
*
19686579 TAAATTGTCAACGTAAATATAAAA
1 TAAATTGTCAACGCAAAT-TAAAA
*
19686603 TAAATTGTCAGA-GCAAATTAAGA
1 TAAATTGTCA-ACGCAAATTAAAA
19686626 TAAA
1 TAAA
19686630 AATGAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 15 0.62
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (23 bp):
TAAATTGTCAACGCAAATTAAAA
Found at i:19688333 original size:30 final size:30
Alignment explanation
Indices: 19688298--19688454 Score: 183
Period size: 30 Copynumber: 5.2 Consensus size: 30
19688288 CCCTATTTTA
* *
19688298 TCCAAAAATTCAACTTTGACCCCTAAACTT
1 TCCAAAAATTTAATTTTGACCCCTAAACTT
* * *
19688328 CCCAAAAATTTAGTATTGA-CCCTCAAACTT
1 TCCAAAAATTTAATTTTGACCCCT-AAACTT
* *
19688358 TCCAAAAATTTGATTTTGACCCCCAAACTT
1 TCCAAAAATTTAATTTTGACCCCTAAACTT
* * *
19688388 TCCAAACATTTGATTTTGATCCCTAAACTT
1 TCCAAAAATTTAATTTTGACCCCTAAACTT
*
19688418 AT-CAAAAATTTAAATTTGACCCCTAAACTT
1 -TCCAAAAATTTAATTTTGACCCCTAAACTT
19688448 TCCAAAA
1 TCCAAAA
19688455 CTTTGATTCT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
29 5 0.05
30 97 0.92
31 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (30 bp):
TCCAAAAATTTAATTTTGACCCCTAAACTT
Found at i:19688393 original size:60 final size:61
Alignment explanation
Indices: 19688295--19688461 Score: 207
Period size: 60 Copynumber: 2.8 Consensus size: 61
19688285 AGCCCCTATT
* * *
19688295 TTATCCAAAAATTCAACTTTGACCCCTAAACTTCCCAAAAATTT-AGTATTGA-CCCTCAAAC
1 TTATCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAAATTTGA-TATTGATCCCT-AAAC
* * * * *
19688356 TT-TCCAAAAATTTGATTTTGACCCCCAAACTTTCCAAACATTTGATTTTGATCCCTAAAC
1 TTATCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAAATTTGATATTGATCCCTAAAC
*
19688416 TTAT-CAAAAATTTAAATTTGACCCCTAAACTTTCCAAAACTTTGAT
1 TTATCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAAATTTGAT
19688462 TCTACCTCAT
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
60 83 0.91
61 8 0.09
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (61 bp):
TTATCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAAATTTGATATTGATCCCTAAAC
Found at i:19693000 original size:138 final size:139
Alignment explanation
Indices: 19692776--19693026 Score: 468
Period size: 138 Copynumber: 1.8 Consensus size: 139
19692766 GTTCTTTTAG
*
19692776 CTTAGTTTGGTGACCCAAGGGTTAATTTTTGTTGTTGTTAAAAGTATATTGATTTACCTTGAATG
1 CTTAGTTTGGTGACCCAAGGGTTAATTTGTGTTGTTGTTAAAAGTATATTGATTTACCTTGAATG
* *
19692841 AGGTATGTATTTTTGGTGGTTATGTAGTTAAACCCTTAAGTTATAAGTATTTTTGGTGGTTATGT
66 AGGTAAGTATGTTTGGTGGTTATGTAGTTAAACCCTTAAGTTATAAGTATTTTTGGTGGTTATGT
19692906 AGTTAAACC
131 AGTTAAACC
19692915 CTTAGTTTGGTGACCCAAGGGTTAATTTGTGTTGTTGTT-AAAGTATATTGATTTACCTTGAATG
1 CTTAGTTTGGTGACCCAAGGGTTAATTTGTGTTGTTGTTAAAAGTATATTGATTTACCTTGAATG
19692979 AGGTAAGTATGTTTGGTGGTTATGTAGTTAAACCCTTAAGTTATAAGT
66 AGGTAAGTATGTTTGGTGGTTATGTAGTTAAACCCTTAAGTTATAAGT
19693027 TTTATACATA
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
138 71 0.65
139 38 0.35
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.43
Consensus pattern (139 bp):
CTTAGTTTGGTGACCCAAGGGTTAATTTGTGTTGTTGTTAAAAGTATATTGATTTACCTTGAATG
AGGTAAGTATGTTTGGTGGTTATGTAGTTAAACCCTTAAGTTATAAGTATTTTTGGTGGTTATGT
AGTTAAACC
Found at i:19693041 original size:2 final size:2
Alignment explanation
Indices: 19693029--19693079 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
19693019 TTATAAGTTT
*
19693029 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19693071 TA TA TA TA T
1 TA TA TA TA T
19693080 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19694567 original size:158 final size:157
Alignment explanation
Indices: 19694255--19694558 Score: 439
Period size: 158 Copynumber: 1.9 Consensus size: 157
19694245 TTACAGTTCC
* * *
19694255 GGGTGCTGGTCTTGGATGTCCTACCGATGGCGGAGGTCCTGTATTTGTAATGGATTCTCCACAGC
1 GGGTGCTGGTCTTAGATGTCCTACCAATGGCGGAGGTCCTGCATTTGT-ATGGATTCTCCACAGC
* *
19694320 TTGTGTGAGCAGCATCGTGTAGCCTAACATCCCGACCCACAGCTCGTGTGAGCAGACCCATTTCA
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATCCCAACCCACAGCTCGTGTGAGCAGACCCATTTCA
19694385 CAGATCATGTGAGCATTACAGGTTATAT
130 CAGATCATGTGAGCATTACAGGTTATAT
* * * *
19694413 GGGTGCTGGTCTTAGATGTCCTACCAATGGCTGTGGTCCTGCATTTGT-TGCAGATTCTTCATAG
1 GGGTGCTGGTCTTAGATGTCCTACCAATGGCGGAGGTCCTGCATTTGTATG--GATTCTCCACAG
* * *
19694477 CTCGTGTGAGCAGCATCGTGTATCCTAACATCTCAACCCACAGGTCGTGTGAGCAGACCCATTTC
64 CTCGTGTGAGCAGCATCGTGTAGCCTAACATCCCAACCCACAGCTCGTGTGAGCAGACCCATTTC
** *
19694542 ACATCTCGTGTGAGCAT
129 ACAGATCATGTGAGCAT
19694559 ATATGGTTAC
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
156 2 0.02
158 127 0.98
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.29
Consensus pattern (157 bp):
GGGTGCTGGTCTTAGATGTCCTACCAATGGCGGAGGTCCTGCATTTGTATGGATTCTCCACAGCT
CGTGTGAGCAGCATCGTGTAGCCTAACATCCCAACCCACAGCTCGTGTGAGCAGACCCATTTCAC
AGATCATGTGAGCATTACAGGTTATAT
Found at i:19711407 original size:18 final size:19
Alignment explanation
Indices: 19711362--19711409 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
19711352 TCTTACATAT
19711362 CATTA-ATATAAAAATGTA
1 CATTATATATAAAAATGTA
*
19711380 CATTAT-TATAATAATGTA
1 CATTATATATAAAAATGTA
*
19711398 -ATTGTATATAAA
1 CATTATATATAAA
19711410 GTTAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (19 bp):
CATTATATATAAAAATGTA
Found at i:19717051 original size:13 final size:14
Alignment explanation
Indices: 19717033--19717064 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
19717023 TTTAATTTGT
19717033 ATTTATCTTTTAG-
1 ATTTATCTTTTAGA
19717046 ATTTATCTTTTAGA
1 ATTTATCTTTTAGA
19717060 ATTTA
1 ATTTA
19717065 AAGTGAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (14 bp):
ATTTATCTTTTAGA
Found at i:19726058 original size:13 final size:14
Alignment explanation
Indices: 19726040--19726072 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
19726030 CTCCGCTAAC
19726040 AGAAAAAAA-AGAA
1 AGAAAAAAAGAGAA
19726053 AGAAAAAAAGAGAA
1 AGAAAAAAAGAGAA
19726067 A-AAAAA
1 AGAAAAA
19726073 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAGAGAA
Found at i:19726060 original size:12 final size:11
Alignment explanation
Indices: 19726042--19726082 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
19726032 CCGCTAACAG
19726042 AAAAAAAAGAA
1 AAAAAAAAGAA
*
19726053 AGAAAAAAAGAG
1 A-AAAAAAAGAA
*
19726065 AAAAAAAATAA
1 AAAAAAAAGAA
19726076 AAAAAAA
1 AAAAAAA
19726083 TTCAGAGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:19726066 original size:23 final size:22
Alignment explanation
Indices: 19726040--19726082 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
19726030 CTCCGCTAAC
19726040 AGAAAAAAAAGAAAGAAAAAAAG
1 AGAAAAAAAAGAAA-AAAAAAAG
*
19726063 AGAAAAAAAATAAAAAAAAA
1 AGAAAAAAAAGAAAAAAAAA
19726083 TTCAGAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (22 bp):
AGAAAAAAAAGAAAAAAAAAAG
Found at i:19726725 original size:18 final size:18
Alignment explanation
Indices: 19726697--19726732 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19726687 TATTTTTTAG
19726697 GGACTAAATTGGAGACAAA
1 GGACTAAATTGGAG-CAAA
19726716 GGAC-AAATTGGAGCAAA
1 GGACTAAATTGGAGCAAA
19726733 AAGCATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.14
Consensus pattern (18 bp):
GGACTAAATTGGAGCAAA
Found at i:19726913 original size:13 final size:14
Alignment explanation
Indices: 19726887--19726920 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
19726877 TTTAATTTGT
19726887 ATTTATCTTTTTAG
1 ATTTATCTTTTTAG
19726901 ATTTATC-TTTTAG
1 ATTTATCTTTTTAG
19726914 AGTTTAT
1 A-TTTAT
19726921 AGTGGATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (14 bp):
ATTTATCTTTTTAG
Found at i:19726968 original size:26 final size:26
Alignment explanation
Indices: 19726939--19726992 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
19726929 CAATTAGAGA
*
19726939 ATTAATGCTTAGATTTAATTTTAACT
1 ATTAATGCTTAGATTTAATTCTAACT
19726965 ATTAATGCTTAGATTTAATTCTAACT
1 ATTAATGCTTAGATTTAATTCTAACT
19726991 AT
1 AT
19726993 CTTTTAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (26 bp):
ATTAATGCTTAGATTTAATTCTAACT
Found at i:19730636 original size:26 final size:26
Alignment explanation
Indices: 19730606--19730673 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
19730596 AATTACTAAT
19730606 ACTGGCTCGTAAGAGCAATATATTAC
1 ACTGGCTCGTAAGAGCAATATATTAC
*
19730632 ACTGGCTCGTAAGAGCAATATATTGC
1 ACTGGCTCGTAAGAGCAATATATTAC
*
19730658 ACTGACTCGTAAGAGC
1 ACTGGCTCGTAAGAGC
19730674 GACATACTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (26 bp):
ACTGGCTCGTAAGAGCAATATATTAC
Found at i:19744496 original size:32 final size:33
Alignment explanation
Indices: 19744436--19744497 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
19744426 AAATATCTCA
*
19744436 ATTTGATTTTGTTTCCTATTAAATTGATTTTCG
1 ATTTGATTTTGATTCCTATTAAATTGATTTTCG
19744469 ATTTGA-TTTGATT-CTATTCAAATTGATTT
1 ATTTGATTTTGATTCCTATT-AAATTGATTT
19744498 AAAGGCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.19
32 16 0.59
33 6 0.22
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.56
Consensus pattern (33 bp):
ATTTGATTTTGATTCCTATTAAATTGATTTTCG
Found at i:19747987 original size:15 final size:15
Alignment explanation
Indices: 19747967--19747999 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19747957 AGAATTAATT
*
19747967 ATATTTAATTTTAAA
1 ATATTTAATATTAAA
19747982 ATATTTAATATTAAA
1 ATATTTAATATTAAA
19747997 ATA
1 ATA
19748000 ATACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTAATATTAAA
Found at i:19748116 original size:15 final size:16
Alignment explanation
Indices: 19748079--19748117 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19748069 TTTTTCTAAG
* *
19748079 TTATTTATTTTATATA
1 TTATTAATTTAATATA
19748095 TTATTAATTTAATATA
1 TTATTAATTTAATATA
19748111 TT-TTAAT
1 TTATTAAT
19748118 GTTGAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTAATATA
Found at i:19748449 original size:3 final size:3
Alignment explanation
Indices: 19748441--19748490 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
19748431 GTTAAAATTA
19748441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19748489 AA
1 AA
19748491 AACTTACTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19749225 original size:15 final size:16
Alignment explanation
Indices: 19749205--19749238 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19749195 TAGTTTATTC
19749205 TTTTAT-TTTAATTAT
1 TTTTATGTTTAATTAT
*
19749220 TTTTATGTTTTATTAT
1 TTTTATGTTTAATTAT
19749236 TTT
1 TTT
19749239 CTCATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATGTTTAATTAT
Found at i:19754414 original size:5 final size:5
Alignment explanation
Indices: 19754404--19754455 Score: 59
Period size: 5 Copynumber: 10.4 Consensus size: 5
19754394 AATGTATTGA
* * ** *
19754404 ATCAT ATCAT ATCAT ATCAC ATCAT AGCAT ATCGG ATTAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT
19754454 AT
1 AT
19754456 AATGTCCCAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (5 bp):
ATCAT
Found at i:19758775 original size:41 final size:42
Alignment explanation
Indices: 19758711--19758828 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 42
19758701 GCCTGATAAA
* * * *
19758711 TACACTGGCACAAAGCTTGCTAGGCACAG-GGC-CTGATACAG
1 TACACAGGCATAAAGCCTACTAGGCACAGAGGCTC-GATACAG
* *
19758752 TACACAGGTATAAAGCCTACTAGGCTC-GAGGCTCGATACAG
1 TACACAGGCATAAAGCCTACTAGGCACAGAGGCTCGATACAG
* *
19758793 TACACCGGCATAAAGCCTATTAGGCACA-AGGCTCGA
1 TACACAGGCATAAAGCCTACTAGGCACAGAGGCTCGA
19758829 GTCATTACGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (42 bp):
TACACAGGCATAAAGCCTACTAGGCACAGAGGCTCGATACAG
Found at i:19766187 original size:49 final size:49
Alignment explanation
Indices: 19765943--19766521 Score: 281
Period size: 49 Copynumber: 11.8 Consensus size: 49
19765933 TAATGTTTTT
* * * *
19765943 GTGGTACTAGATTCACCATTGCAGCCTAAATCCTTCCCTTCATGCT-T-TT-
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTT--TG-TATCTTC
** * * * * * **
19765992 GACGTACAAGGTTCACCGTTGCGACTTAAACCCTTCCCTTTGCGTCTTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* *
19766041 GTGGTACTAGATTTACCGTTGCAGCTTAAATC-TTCCCTTT-TATGCTTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTAT-CTTC
* * * * **
19766089 -TGAGATA-TAAGGTTCATCGTTGCGACTTAAA-CCTTCTCCTCCGTATCTTC
1 GTG-G-TACT-AGATTCACCGTTGCGGCTTAAATCTTTC-CCTTTGTATCTTC
* *
19766139 GCGGTACTAGATTCACCGTTACGGCTTAAATCTTTCCCTTTGTATCTTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* * *
19766188 GTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCC-TT-CATGCTTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTAT-CTTC
* ** * * ***
19766236 TGTGGTAC-AAAGTTCGTCGTTGCGACTTAAACCTTTCCCTTCAAATCTTC
1 -GTGGTACTAGA-TTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* * * * * **** *
19766286 ATGGTACTGGATTCGCTGTTACGGCTTAAATCTTTCCCTTCACGTCCTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* * * ** * ** * *
19766335 TGAGGCA-TAAGGTTTGCCATTGCAACTT--ACCTTTCCCTTTGTATTTTC
1 -GTGGTACT-AGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* **** *
19766383 GTGGTACTAGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCCTC
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
* * ** * * *
19766432 TGAGGTA-TAAGGTTTGCCATTGCGACTTAAA-CATTTCCCTTTGTATCTGC
1 -GTGGTACT-AGATTCACCGTTGCGGCTTAAATC-TTTCCCTTTGTATCTTC
* *
19766482 GTGGTACTGGATTCATCGTTGCGGCTTAAATCTTTCCCTT
1 GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTT
19766522 CATGGTAATA
Statistics
Matches: 388, Mismatches: 113, Indels: 58
0.69 0.20 0.10
Matches are distributed among these distances:
47 24 0.06
48 38 0.10
49 253 0.65
50 67 0.17
51 6 0.02
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
GTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTTGTATCTTC
Found at i:19766270 original size:147 final size:147
Alignment explanation
Indices: 19766003--19766325 Score: 398
Period size: 147 Copynumber: 2.2 Consensus size: 147
19765993 ACGTACAAGG
* * * * * * *
19766003 TTCACCGTTGCGACTTAAACCCTTCCCTTTGCGTCTTCGTGGTACTAGATTTACCGTTGCAGCTT
1 TTCACCGTTACGGCTTAAATCTTTCCCTTTGCATCTTCGTGGTACTAGATTCACCGTTACAGCTT
* * * *
19766068 AAATCTTCCCTTTTATGCTTCTGAGATATAAGGTTCATCGTTGCGACTTAAACC-TTCTCCTCCG
66 AAATCTTCCCTTTCATGCTTCTGAGATACAAAGTTCATCGTTGCGACTTAAACCTTTC-CCTCCA
* *
19766132 TATCTTCGCGGTACTAGA
130 AATCTTCACGGTACTAGA
* * *
19766150 TTCACCGTTACGGCTTAAATCTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTT
1 TTCACCGTTACGGCTTAAATCTTTCCCTTTGCATCTTCGTGGTACTAGATTCACCGTTACAGCTT
* * * *
19766215 AAATCTTTCCC-TTCATGCTTCTGTGGTACAAAGTTCGTCGTTGCGACTTAAACCTTTCCCTTCA
66 AAATC-TTCCCTTTCATGCTTCTGAGATACAAAGTTCATCGTTGCGACTTAAACCTTTCCCTCCA
* *
19766279 AATCTTCATGGTACTGGA
130 AATCTTCACGGTACTAGA
* *
19766297 TTCGCTGTTACGGCTTAAATCTTTCCCTT
1 TTCACCGTTACGGCTTAAATCTTTCCCTT
19766326 CACGTCCTCT
Statistics
Matches: 150, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
147 142 0.95
148 8 0.05
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.38
Consensus pattern (147 bp):
TTCACCGTTACGGCTTAAATCTTTCCCTTTGCATCTTCGTGGTACTAGATTCACCGTTACAGCTT
AAATCTTCCCTTTCATGCTTCTGAGATACAAAGTTCATCGTTGCGACTTAAACCTTTCCCTCCAA
ATCTTCACGGTACTAGA
Found at i:19766404 original size:97 final size:98
Alignment explanation
Indices: 19766170--19766523 Score: 478
Period size: 97 Copynumber: 3.6 Consensus size: 98
19766160 CGGCTTAAAT
* *
19766170 CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCATG-CT
1 CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCC
* * * * * *
19766234 TCTGTGGTACAAAGTTCGTCGTTGCGACTTAAAC
66 TCTGAGGTATAAGGTTTGCCATTGCGACTT-AAC
*** * * *
19766268 CTTTCCCTTCAAATCTTCATGGTACTGGATTCGCTGTTACGGCTTAAATCTTTCCCTTCACGTCC
1 CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCC
* *
19766333 TCTGAGGCATAAGGTTTGCCATTGCAACTT-AC
66 TCTGAGGTATAAGGTTTGCCATTGCGACTTAAC
* *
19766365 CTTTCCCTTTGTATTTTCGTGGTACTAGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCC
1 CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCC
19766430 TCTGAGGTATAAGGTTTGCCATTGCGACTTAAAC
66 TCTGAGGTATAAGGTTTGCCATTGCGACTT-AAC
* * * *
19766464 ATTTCCCTTTGTATCTGCGTGGTACTGGATTCATCGTTGCGGCTTAAATCTTTCCCTTCA
1 CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCA
19766524 TGGTAATAAA
Statistics
Matches: 221, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
97 87 0.39
98 55 0.25
99 79 0.36
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (98 bp):
CTTTCCCTTTGTATCTTCGTGGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCACGTCC
TCTGAGGTATAAGGTTTGCCATTGCGACTTAAC
Found at i:19781891 original size:42 final size:42
Alignment explanation
Indices: 19781822--19782041 Score: 225
Period size: 42 Copynumber: 5.3 Consensus size: 42
19781812 TCAAGTCATA
* * * *
19781822 AGTCTTCCTTTAACCATATTCTCATTCTCATCCCGAGACACG
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
* * *
19781864 AGTATTCCTTTAATCATAACCTTATTCTCATCTCGAGACATG
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
*
19781906 AGTCTTCCTTTAATCATAATCTCATTTTCATCTCGAGACATG
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
* * * * **
19781948 AGTCTTCCTTT-ATCAT-TTTTCATGCTCAT-TCCGAGTCACA
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCT-CGAGACATG
* *
19781988 AGTCTTCCATTT-ATACA-AATTCTCATTCTCAACCCGAGACATG
1 AGTCTTCC-TTTAAT-CATAA-TCTCATTCTCATCTCGAGACATG
19782031 AGTCTTCCTTT
1 AGTCTTCCTTT
19782042 TTACACATCA
Statistics
Matches: 146, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 23 0.16
41 10 0.07
42 89 0.61
43 23 0.16
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (42 bp):
AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
Found at i:19783815 original size:15 final size:15
Alignment explanation
Indices: 19783795--19783825 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19783785 CAACTATAAC
19783795 CCAGATGGAGTCTTT
1 CCAGATGGAGTCTTT
19783810 CCAGATGGAGTCTTT
1 CCAGATGGAGTCTTT
19783825 C
1 C
19783826 TTCCTTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (15 bp):
CCAGATGGAGTCTTT
Found at i:19788569 original size:42 final size:42
Alignment explanation
Indices: 19788512--19788664 Score: 209
Period size: 42 Copynumber: 3.6 Consensus size: 42
19788502 TTATGCTCCA
* * * *
19788512 TCGAGTCATAAGTCTTCCTTTAATCATATTATCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* *
19788554 -CTGAGACATGAGTCTTCTTTTAATCATAACCTCATTCTCATC
1 TC-GAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* * *
19788596 TCGAGAAAAGAGTCTTCCTTTAATCATAATCTAATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
19788638 TCGAGACATGAGTCTTCCTTTAATCAT
1 TCGAGACATGAGTCTTCCTTTAATCAT
19788665 TTTTCATGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 94 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.39
Consensus pattern (42 bp):
TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
Found at i:19789570 original size:21 final size:20
Alignment explanation
Indices: 19789546--19789589 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19789536 ACTTTTATCA
* *
19789546 TTAAGCTTTAATTAACCCTTT
1 TTAAGC-TTAATTAAACCTAT
*
19789567 TTAATCTTAATTAAACCTAT
1 TTAAGCTTAATTAAACCTAT
19789587 TTA
1 TTA
19789590 TACTTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGCTTAATTAAACCTAT
Found at i:19791229 original size:16 final size:16
Alignment explanation
Indices: 19791194--19791235 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
19791184 TTGAATTATT
* *
19791194 ATTACAGCTATGTTCC
1 ATTACAGCTATATTCA
*
19791210 ATTACAGCTCTATTCA
1 ATTACAGCTATATTCA
19791226 ATTACA-CTAT
1 ATTACAGCTAT
19791236 TCCATTCTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTATATTCA
Found at i:19791375 original size:14 final size:15
Alignment explanation
Indices: 19791347--19791375 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19791337 CAAGTCCTTG
19791347 TACTTTACTAAAAAT
1 TACTTTACTAAAAAT
19791362 TACTTTAC-AAAAAT
1 TACTTTACTAAAAAT
19791376 AGTCTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (15 bp):
TACTTTACTAAAAAT
Found at i:19793304 original size:23 final size:23
Alignment explanation
Indices: 19793278--19793548 Score: 353
Period size: 23 Copynumber: 11.8 Consensus size: 23
19793268 ATTAAATGTG
*
19793278 TTAAATATTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* **
19793301 TTAAATATTCATGTGATTCGTGC
1 TTAAATATTAATGTGATTTATGC
*
19793324 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
19793347 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* * * *
19793370 TTAAATGTTAATATGATTTGTAC
1 TTAAATATTAATGTGATTTATGC
*
19793393 TTAAATATTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
19793416 TTAAATATTGATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* **
19793439 TTAAATATCAATGTGATTGGTGC
1 TTAAATATTAATGTGATTTATGC
*
19793462 TTAAATATTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
19793485 TTAAATATTAATGTGATTTGTGT
1 TTAAATATTAATGTGATTTATGC
**
19793508 TTAAATATTAATGTGATAAATGC
1 TTAAATATTAATGTGATTTATGC
* *
19793531 TGAAATATTCATGTGATT
1 TTAAATATTAATGTGATT
19793549 AAATGTGACT
Statistics
Matches: 214, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 214 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Done.