Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 75 of 297
Found at i:26812857 original size:19 final size:18
Alignment explanation
Indices: 26812829--26812868 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
26812819 AATATGTACA
*
26812829 TAACAGTAATAATAATAAG
1 TAACAATAATAATAAT-AG
26812848 TAACAATAATAATAATAG
1 TAACAATAATAATAATAG
26812866 TAA
1 TAA
26812869 TATAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (18 bp):
TAACAATAATAATAATAG
Found at i:26812918 original size:16 final size:16
Alignment explanation
Indices: 26812894--26812927 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26812884 AAGTAAACAT
*
26812894 AATATAATAATATTAA
1 AATAAAATAATATTAA
*
26812910 AATAAAATAATTTTAA
1 AATAAAATAATATTAA
26812926 AA
1 AA
26812928 AAATACTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:26813020 original size:17 final size:17
Alignment explanation
Indices: 26812984--26813022 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26812974 ACACTAATAT
*
26812984 AATAATAATGATAATCA
1 AATAATAATGAAAATCA
* *
26813001 AATAATAATTAAAATGA
1 AATAATAATGAAAATCA
26813018 AATAA
1 AATAA
26813023 AATAACGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATAATGAAAATCA
Found at i:26813681 original size:88 final size:86
Alignment explanation
Indices: 26813531--26813704 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 86
26813521 GGCCGGTCAC
* * * * *
26813531 CGGTCCGATCGCCGGACCGTCGCCGACGTCGACGTCGGCCATCGCACACGGTGGCTGGAAAAGGT
1 CGGTCCGATCGCCGGACCGTCGCCGACGTCGACGCCAGCCACCGCACACGGTGGCCGAAAAAGGT
26813596 AAATTTTTTTAATATTTTTTATT
66 -AA-TTTTTTAATATTTTTTATT
* * * *
26813619 CGGTCCGATGGCCTGACCGTCGCCGGCGTCGGCGCCAGCCACCG-AGCACGGTGGCCGAAAAAGG
1 CGGTCCGATCGCCGGACCGTCGCCGACGTCGACGCCAGCCACCGCA-CACGGTGGCCGAAAAAGG
26813683 TAATTTTTTAATATTTTTTATT
65 TAATTTTTTAATATTTTTTATT
26813705 ATTATATGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
86 19 0.25
87 3 0.04
88 54 0.71
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (86 bp):
CGGTCCGATCGCCGGACCGTCGCCGACGTCGACGCCAGCCACCGCACACGGTGGCCGAAAAAGGT
AATTTTTTAATATTTTTTATT
Found at i:26814917 original size:15 final size:15
Alignment explanation
Indices: 26814893--26814925 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26814883 TTGATCTTTG
*
26814893 AAAAATATAAATTGA
1 AAAAACATAAATTGA
26814908 AAAAACATAAATTGA
1 AAAAACATAAATTGA
26814923 AAA
1 AAA
26814926 TACCTCAGCA
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:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:26815073 original size:92 final size:93
Alignment explanation
Indices: 26814901--26815231 Score: 229
Period size: 92 Copynumber: 3.7 Consensus size: 93
26814891 TGAAAAATAT
* ** *
26814901 AAATTGAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCA
1 AAATTGAAAAAACAGAAATTGAAAATACCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGCA
* * *
26814966 ATATGAGTTGTTTTTTTTTGAAAAGCGA
66 ATATCAATTGGTTTTTTTTGAAAAGCGA
* * * * * * *
26814994 AAATTG-AAAAACAGAAATTGAAAGTAGCTCATCACATTAGCCAAGGCTCAATTCACTTCTTGCA
1 AAATTGAAAAAACAGAAATTGAAAATACCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGCA
26815058 ATATCAATTGG---TTTTTGAAAA---A
66 ATATCAATTGGTTTTTTTTGAAAAGCGA
* ** * *
26815080 TAATTTG-AAAAACAGATTTTGAAAATACCTC-G-ACATGTGACTCGAGGCTCAACTCACCTCTC
1 -AAATTGAAAAAACAGAAATTGAAAATACCTCAGCACATGAG-C-CAAGGCTCAACTCACCTCTC
* * *
26815142 ACAATATGAGTTGG-TTTTTTTGACAAA-C-A
63 GCAATATCAATTGGTTTTTTTTGA-AAAGCGA
* * * *
26815171 GAAATT---------GAAATTGAAAATACCTCAGCACGTGAGCCGAGGGTCAACTCACCTCCCGC
1 -AAATTGAAAAAACAGAAATTGAAAATACCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGC
26815227 AATAT
65 AATAT
26815232 GAGTTGATTT
Statistics
Matches: 191, Mismatches: 38, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
83 39 0.20
84 2 0.01
85 10 0.05
86 2 0.01
87 52 0.27
89 17 0.09
90 3 0.02
91 5 0.03
92 55 0.29
93 6 0.03
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (93 bp):
AAATTGAAAAAACAGAAATTGAAAATACCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGCA
ATATCAATTGGTTTTTTTTGAAAAGCGA
Found at i:26815215 original size:83 final size:81
Alignment explanation
Indices: 26815098--26816122 Score: 490
Period size: 73 Copynumber: 13.0 Consensus size: 81
26815088 AAAACAGATT
* * *
26815098 TTGAAAATACCTCGACATGTGA-CTCGAGGCTCAACTCACCTCTCACAATATGAGTTGGTTTTTT
1 TTGAAAATACCTCG-CACGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
26815162 TGACAAACAGAAATTGAAA
64 TGACAAA-AGAAATAGAAA
* * ****
26815181 TTGAAAATACCTCAGCACGTGAGCCGAGGGTCAACTCACCTCCCGCAATATGAGTTGATTTAAAA
1 TTGAAAATACCTC-GCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
26815246 AACAGACATAAAAATAGAAA
65 GACA-A-A-AGAAATAGAAA
* *
26815266 TT-AAAAGTGA-CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTGAAAA-T-ACCTC-GCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
26815329 TTG---AAAG---TAGAAT
63 TTGACAAAAGAAATAGAAA
* **
26815342 TTGAAAATACCTCG-GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 TTGAAAATACCTCGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
26815406 ---AAAG---TAGAAT
66 ACAAAAGAAATAGAAA
* ** * *
26815416 TTGAAAATACCTCG-GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA--TTTTTG
1 TTGAAAATACCTCGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
26815478 AC--AA-ACA-A-CAA
66 ACAAAAGAAATAGAAA
* * * * *
26815489 TTGAAAATACAT--CAGCGTG-CCTCAAGGCTCAACTCACCTCCCGCAATATGGGTTGATTTAAA
1 TTGAAAATACCTCGCA-CGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT---
***** * *
26815551 AAAAAACAGACATAAAAACAGAAA
61 TTTTGACA-A-A-AGAAATAGAAA
* * *
26815575 TTGAAAGTGA-CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAAT-ACCTC-GCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
26815639 CTG---AACG---TAGAAT
64 -TGACAAAAGAAATAGAAA
* ** * *
26815652 TTGAAAATACCTCG-GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA--TTTTTG
1 TTGAAAATACCTCGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
26815714 AC-----AAACAGCAA
66 ACAAAAGAAATAGAAA
** * ***
26815725 TTGAAAATACCT--CAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAGA
1 TTGAAAATACCTCGCA-CGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTT
** *
26815788 AAACAGACATAAAAATAGAAA
64 TGACA-A-A-AGAAATAGAAA
* * * * *
26815809 TTGAAAGTGA-CTCAACATGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAAT-ACCTC-GCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
26815873 CTG---AAAG--A-AGAAT
64 -TGACAAAAGAAATAGAAA
* * * **
26815886 TTGAAAATACCTCG-GCGTG-CCCAGAGGCTCAACTCACCTCCCGCAACGTGAGTTGA--TTTTT
1 TTGAAAATACCTCGCACGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
26815947 GACAAACAG---CAG---
65 GACAAA-AGAAATAGAAA
** * ****
26815959 TTGAAAATACCT--CAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAACA
1 TTGAAAATACCTCGCA-CGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
26816022 AACAAACATAAAAACAGAAA
65 GAC-AA-A-AGAAATAGAAA
* * *
26816042 TTGAAAGTGA-CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAAT-ACCTC-GCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
26816106 TGA-AAACAGAAAT-GAAA
64 TGACAAA-AGAAATAGAAA
26816123 CATCCACATA
Statistics
Matches: 733, Mismatches: 126, Indels: 168
0.71 0.12 0.16
Matches are distributed among these distances:
72 12 0.02
73 159 0.22
74 116 0.16
75 75 0.10
76 21 0.03
77 34 0.05
78 3 0.00
79 1 0.00
80 5 0.01
81 7 0.01
82 8 0.01
83 67 0.09
84 26 0.04
85 103 0.14
86 51 0.07
87 3 0.00
88 39 0.05
89 3 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (81 bp):
TTGAAAATACCTCGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
ACAAAAGAAATAGAAA
Found at i:26815588 original size:309 final size:306
Alignment explanation
Indices: 26815211--26815783 Score: 981
Period size: 309 Copynumber: 1.9 Consensus size: 306
26815201 GAGCCGAGGG
*
26815211 TCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAACAGACATAAAAATAGAAATTAAAAGTGA
1 TCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAACAGACATAAAAACAGAAATTAAAAGTGA
26815276 CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAGTAGA
66 CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGA
* *
26815340 ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
131 ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA--TTTTT
** *
26815405 GA-AAGTAG-AATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAG
194 GACAAACAGCAA-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAG
26815468 TTGATTTTTGACAAACAACAATTGAAAATACATCAGCGTGCCTCAAGGC
258 TTGATTTTTGACAAACAACAATTGAAAATACATCAGCGTGCCTCAAGGC
* *
26815517 TCAACTCACCTCCCGCAATATGGGTTGATTTAAAAAAAAACAGACATAAAAACAGAAATTGAAAG
1 TCAACTCACCTCCCGCAATATGAGTTGATTT---AAAAAACAGACATAAAAACAGAAATTAAAAG
*
26815582 TGACTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAACGT
63 TGACTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGT
26815647 AGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTT
128 AGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTT
*
26815712 TGACAAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAG
193 TGACAAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAG
26815777 TTGATTT
258 TTGATTT
26815784 AAGAAAACAG
Statistics
Matches: 251, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
306 30 0.12
308 7 0.03
309 147 0.59
310 67 0.27
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (306 bp):
TCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAACAGACATAAAAACAGAAATTAAAAGTGA
CTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGA
ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGA
CAAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTG
ATTTTTGACAAACAACAATTGAAAATACATCAGCGTGCCTCAAGGC
Found at i:26815682 original size:236 final size:233
Alignment explanation
Indices: 26815366--26816110 Score: 1303
Period size: 234 Copynumber: 3.2 Consensus size: 233
26815356 GCGTGCCCCG
26815366 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
*
26815431 CGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAACAATTGAAAA
66 CGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAAA
* * * *
26815496 TACATCAGCGTGCCTCAAGGCTCAACTCACCTCCCGCAATATGGGTTGATTTAAAAAAAAACAGA
131 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTT--AAAAAAACAGA
26815561 CATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
194 CATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
*
26815601 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAACGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAGTAGAATTTGAAAATACCTCG
26815666 GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAA
*
26815731 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAGAAAACAGAC
130 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAACAGAC
* * *
26815796 ATAAAAATAGAAATTGAAAGTGACTCAACATGCGAGCCA
195 ATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
*
26815835 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGAAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAGTAGAATTTGAAAATACCTCG
* * *
26815900 GCGTGCCCAGAGGCTCAACTCACCTCCCGCAACGTGAGTTGATTTTTGACAAACAGCAGTTGAAA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAA
* *
26815965 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTT-AACAAACAAAC
130 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAACAGAC
26816029 ATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
195 ATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
26816068 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
26816111 ACAGAAATGA
Statistics
Matches: 488, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
232 5 0.01
233 82 0.17
234 225 0.46
235 38 0.08
236 138 0.28
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (233 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
CGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAAA
TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAACAGACA
TAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
Found at i:26828275 original size:11 final size:11
Alignment explanation
Indices: 26828259--26828353 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 11
26828249 AAAAATAAAT
26828259 ATATATACATA
1 ATATATACATA
*
26828270 ATATATACGTA
1 ATATATACATA
26828281 ATATAGTAC-TA
1 ATATA-TACATA
* *
26828292 AGA-ATATATA
1 ATATATACATA
*
26828302 TATACATACAATA
1 -ATATATAC-ATA
* *
26828315 TAGTATTTA-AAA
1 -A-TATATACATA
26828327 ATATATACATA
1 ATATATACATA
*
26828338 ATATTTACAT-
1 ATATATACATA
26828348 ATATAT
1 ATATAT
26828354 GAAATAAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
9 2 0.03
10 13 0.20
11 33 0.51
12 8 0.12
13 5 0.08
14 4 0.06
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (11 bp):
ATATATACATA
Found at i:26828343 original size:21 final size:23
Alignment explanation
Indices: 26828318--26828377 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
26828308 TACAATATAG
*
26828318 TATTTAAAAATATAT-ACAT-AA
1 TATTTAAAAATATATGAAATAAA
* *
26828339 TATTTACATATATATGAAATAAA
1 TATTTAAAAATATATGAAATAAA
* *
26828362 TATTGAAAAATGTATG
1 TATTTAAAAATATATG
26828378 CACATAAGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (23 bp):
TATTTAAAAATATATGAAATAAA
Found at i:26829533 original size:14 final size:15
Alignment explanation
Indices: 26829509--26829541 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
26829499 ACTACACATT
*
26829509 ATAATATAAATATTC
1 ATAATATAAATATCC
26829524 ATAA-ATAAATATCC
1 ATAATATAAATATCC
26829538 ATAA
1 ATAA
26829542 GGGTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATAAATATCC
Found at i:26840312 original size:14 final size:15
Alignment explanation
Indices: 26840293--26840329 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26840283 ATAATTTAAA
26840293 ATATAATAATAAT-G
1 ATATAATAATAATAG
26840307 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
26840321 TTATAATAA
1 ATATAATAA
26840330 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:26840409 original size:16 final size:17
Alignment explanation
Indices: 26840381--26840424 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
26840371 ACGAATAAGC
26840381 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
26840401 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
26840418 AGGGAAA
1 AGGGAAA
26840425 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:26851610 original size:16 final size:17
Alignment explanation
Indices: 26851578--26851610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26851568 TTTATAAGTA
*
26851578 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
26851595 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
26851611 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:26851956 original size:46 final size:47
Alignment explanation
Indices: 26851869--26852108 Score: 303
Period size: 46 Copynumber: 5.2 Consensus size: 47
26851859 TGTCTCCCAT
* * * * * *
26851869 CCATGGTCTTATTTATCTT--TGACATGATGCCATAGTGTCTTTCAA
1 CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
26851914 CTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
26851960 CCATGGTCTTATTC-TTTTCATGTCACGTTGCCACGGTATCTTTCAA
1 CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
**
26852006 CCATGGTCTTATTCA-TTTCCCGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
* * *
26852052 CCATGGTCTTATTC-GTTTCATATCACGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
26852098 CCATGGTCTTA
1 CCATGGTCTTA
26852109 CACATTTCAT
Statistics
Matches: 171, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
45 20 0.12
46 151 0.88
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (47 bp):
CCATGGTCTTATTCATTTTCATGTCATGTTGCCATGGTATCTTTCAA
Found at i:26852031 original size:92 final size:92
Alignment explanation
Indices: 26851906--26852116 Score: 350
Period size: 92 Copynumber: 2.3 Consensus size: 92
26851896 TGCCATAGTG
* * *
26851906 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
26851971 TTCTTTTCATGTCACGTTGCCACGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
26851998 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
26852063 TTCGTTTCATATCACGTTGCCATGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
26852090 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
26852117 ATATCAGAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 110 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCGTTTCATATCACGTTGCCACGGTA
Found at i:26852122 original size:46 final size:46
Alignment explanation
Indices: 26851896--26852118 Score: 304
Period size: 46 Copynumber: 4.8 Consensus size: 46
26851886 TTTGACATGA
* * * * *
26851896 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
*
26851942 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** *
26851988 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
26852034 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
26852080 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
26852119 ATCAGAGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 152 0.97
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:26854569 original size:33 final size:33
Alignment explanation
Indices: 26854527--26854592 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
26854517 AGCACGTCTT
* *
26854527 TCATTTACTTATTGAACCATTCGAAATACTATA
1 TCATTTACTTATTGAACCAATCAAAATACTATA
26854560 TCATTTACTTATTGAACCAATCAAAATACTATA
1 TCATTTACTTATTGAACCAATCAAAATACTATA
26854593 GGATACATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (33 bp):
TCATTTACTTATTGAACCAATCAAAATACTATA
Found at i:26855418 original size:21 final size:20
Alignment explanation
Indices: 26855390--26855428 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
26855380 CAAAACTTGT
26855390 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
26855410 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
26855429 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:26862463 original size:42 final size:42
Alignment explanation
Indices: 26862416--26862549 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
26862406 TGGCCCTTAG
*
26862416 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
26862458 GCCCATTTCAATATCATATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
26862500 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
26862542 GCCCATTT
1 GCCCATTT
26862550 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:26862748 original size:25 final size:24
Alignment explanation
Indices: 26862706--26862753 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
26862696 TAACTGGGGC
26862706 AAAGCCCTTTCTGATAAACCAGGGA
1 AAAGCCCTTTCTGATAAA-CAGGGA
*
26862731 AAAGCCCTTT-TCGGTAAACAGGG
1 AAAGCCCTTTCT-GATAAACAGGG
26862754 GCAGAGCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (24 bp):
AAAGCCCTTTCTGATAAACAGGGA
Found at i:26863606 original size:27 final size:26
Alignment explanation
Indices: 26863576--26863652 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
26863566 AGGCATATTC
*
26863576 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* * *
26863603 GTCACTTTACCCTACAGGGGT-TTATG
1 GTCATTTTA-CCTATAGGGGTATTACG
*
26863629 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
26863653 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 4 0.10
26 17 0.43
27 17 0.43
28 2 0.05
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:26863723 original size:27 final size:27
Alignment explanation
Indices: 26863670--26863879 Score: 127
Period size: 27 Copynumber: 7.7 Consensus size: 27
26863660 TTTCATCCTA
* * * * *
26863670 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
26863697 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
26863724 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* ** * *
26863753 TAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * *
26863780 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
** *
26863807 TGAGGGTATTTCGGTAATTTCATAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
26863834 C-AGTGGTATTTCGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* *
26863860 CTAGAGGTATTTTGGTAATT
1 CAAG-GGTATTTCGGTAATT
26863880 CTATCCTACA
Statistics
Matches: 143, Mismatches: 36, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
26 3 0.02
27 113 0.79
28 14 0.10
29 13 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:26863842 original size:54 final size:53
Alignment explanation
Indices: 26863699--26863879 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 53
26863689 CTACAAACCA
* * * *
26863699 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTT-TGGTAA-TTTTACAAA-TT
** * *
26863754 AAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 -AGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTACAAATT
** * *
26863808 GAGGGTATTTCGGTAATTTCATAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTACAAATT
*
26863862 AGAGGTATTTTGGTAATT
1 AG-GGTATTTCGGTAATT
26863880 CTATCCTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 61 0.58
55 9 0.08
56 34 0.32
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTACAAATT
Found at i:26863896 original size:54 final size:54
Alignment explanation
Indices: 26863699--26863921 Score: 159
Period size: 54 Copynumber: 4.1 Consensus size: 54
26863689 CTACAAACCA
* ** ** ** *
26863699 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTTA-
1 AGGGTATTTCGGTAATTTCATAAACCAGGGGTATTTCGGTAA-TTTTACAAA--TAG
** ** * * *
26863755 AGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCATAAACCAGGGGTATTTCGGTAATTTTACAAATAG
*
26863809 AGGGTATTTCGGTAATTTCATAAACCAGTGGTATTTCGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCATAAACCAGGGGTATTTCGGTAATTTTACAAA-TAG
* ** * * *
26863864 A-GGTATTTTGGTAA-TTC-TATCCTACAGGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTCATAAAC--CAGGGGTATTTCGGTAATTTTACAAATAG
26863916 AGGGTA
1 AGGGTA
26863922 AAATGGTAAT
Statistics
Matches: 137, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
52 6 0.04
53 10 0.07
54 76 0.55
55 11 0.08
56 34 0.25
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCATAAACCAGGGGTATTTCGGTAATTTTACAAATAG
Found at i:26863919 original size:27 final size:26
Alignment explanation
Indices: 26863777--26863919 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
26863767 TAATTTTGTA
* *
26863777 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* *
26863803 AAAT-TGAGGGTATTTCGGTAATTTCATA
1 -AATCAG-GGGTATTTCGGTAATTTCA-C
* * *
26863831 AACCAGTGGTATTTCGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* * *
26863857 AAACTAGAGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTCGGTAATTTC-A-C
* *
26863885 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTCGGTAATTTCAC
26863911 AATCGAGGG
1 AATC-AGGG
26863920 TAAAATGGTA
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
26 8 0.09
27 73 0.84
28 6 0.07
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:26863945 original size:27 final size:27
Alignment explanation
Indices: 26863911--26864108 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
26863901 GTAATTTCAC
*
26863911 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
26863938 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
**
26863965 AATCGAGGGTAAAGCGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
26863992 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
26864019 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
26864046 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
26864073 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
26864100 AATCGAGGG
1 AATCGAGGG
26864109 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:26864027 original size:81 final size:81
Alignment explanation
Indices: 26863911--26864108 Score: 310
Period size: 81 Copynumber: 2.4 Consensus size: 81
26863901 GTAATTTCAC
* * *
26863911 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGT
*
26863975 -AAAGCGGTAATTCTGTA
65 GAAA-CGGTAATTCTATA
*
26863992 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
26864057 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
26864073 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
26864109 CATTTCAGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 104 0.96
82 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
AAACGGTAATTCTATA
Found at i:26873367 original size:40 final size:40
Alignment explanation
Indices: 26873330--26873514 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
26873320 GCTACTCGTT
*
26873330 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
26873370 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
26873410 AAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
26873449 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
26873490 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26873515 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:26873498 original size:79 final size:80
Alignment explanation
Indices: 26873331--26873511 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
26873321 CTACTCGTTC
* **
26873331 AAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 AAATGCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
26873395 ATTTAGTAACTCGGAA
65 ATATAGTAACTAGCAA
* **
26873411 AAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
26873474 ATATGGTCACTTAGCAC
65 ATATAGTAAC-TAGCAA
26873491 AAA-GCCTTCGGGACTTAGCCC
1 AAATGCCTTCGGGACTTAGCCC
26873512 GGACATCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 53 0.62
80 29 0.34
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAA
Found at i:26879123 original size:91 final size:91
Alignment explanation
Indices: 26878941--26879109 Score: 252
Period size: 91 Copynumber: 1.9 Consensus size: 91
26878931 GATACATGTC
*
26878941 TAAAGCAACGCTTGAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGGCGACATT
1 TAAAGCAACGCTTGAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGACGACATT
* *
26879006 TTCCTAAGGGTTGGTACATGTATGCT
66 TTCCTAAAGGTTGGTACATCTATGCT
* * *
26879032 TAAAGCAACGCTTGAATAAGAGTTG-GTTTTTGTCAGTCCTAAGACGACACTTTTGTGACTACA-
1 TAAAGCAACGCTTGAATAAGAGTTGCCTTTGTGT-AGTCCTAAGACGACACTTTTGTGACGACAT
*
26879095 TTTCCTAAATGTTGG
65 TTTCCTAAAGGTTGG
26879110 GATAGACTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
90 19 0.27
91 52 0.73
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (91 bp):
TAAAGCAACGCTTGAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGACGACATT
TTCCTAAAGGTTGGTACATCTATGCT
Found at i:26879265 original size:132 final size:132
Alignment explanation
Indices: 26879010--26879509 Score: 745
Period size: 132 Copynumber: 3.8 Consensus size: 132
26879000 GACATTTTCC
* * * * * *
26879010 TAAGGGTTGGTACATGTATGCTTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTC-AGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * *
26879074 GACGACACTTTTGTGACTACA-TTTCCTAAATGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
26879138 TA
131 TA
* * *
26879140 TAGGGGTTAGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * *
26879205 GAAGACACTTTTGTGGTGACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
26879270 TA
131 TA
*
26879272 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * *
26879337 GACGACACTTTTGTGGCGACACTTTTCTAAGTGTTGGAATAGACTACGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
26879402 TA
131 TA
* * *
26879404 TAAGGGTTGGGATATGTATGCCTAAGACAATGCTTGAATAAGAGTTGGC-TCTTGTCTAGTCTTA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTC-TGTCTAGTCCTA
* * *
26879468 AGACGACAGTTTTGGGGCGACACTTTTCTAAGTGTTGGGATA
65 AGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATA
26879510 CACTTGTCAG
Statistics
Matches: 335, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
130 47 0.14
131 26 0.08
132 262 0.78
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:26879836 original size:15 final size:15
Alignment explanation
Indices: 26879818--26879847 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26879808 AAAGTTTTAA
*
26879818 GGTTTTGTGTTTATG
1 GGTTTGGTGTTTATG
26879833 GGTTTGGTGTTTATG
1 GGTTTGGTGTTTATG
26879848 ATTTTAGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.37, T:0.57
Consensus pattern (15 bp):
GGTTTGGTGTTTATG
Found at i:26879845 original size:37 final size:37
Alignment explanation
Indices: 26879804--26879881 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
26879794 AGTTTATATA
* * * *
26879804 GTTTAA-AGTTTTAAGGTTTTGTGTTTATGGGTTTGGT
1 GTTTAAGA-TTTTAAGGTTTTATGATTATGGATTTGGG
* *
26879841 GTTTATGATTTTAGGGTTTTATGATTATGGATTTGGG
1 GTTTAAGATTTTAAGGTTTTATGATTATGGATTTGGG
26879878 GTTT
1 GTTT
26879882 TGTGATTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (37 bp):
GTTTAAGATTTTAAGGTTTTATGATTATGGATTTGGG
Found at i:26879892 original size:22 final size:22
Alignment explanation
Indices: 26879832--26879897 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
26879822 TTGTGTTTAT
* * *
26879832 GGGTTTGGTGTTTAT-GATTTTA
1 GGGTTTTGTGATTATGGA-TTTG
*
26879854 GGGTTTTATGATTATGGATTTG
1 GGGTTTTGTGATTATGGATTTG
*
26879876 GGGTTTTGTGATTATGGGTTTG
1 GGGTTTTGTGATTATGGATTTG
26879898 TGATTAATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.52
Consensus pattern (22 bp):
GGGTTTTGTGATTATGGATTTG
Found at i:26879895 original size:37 final size:37
Alignment explanation
Indices: 26879818--26879896 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
26879808 AAAGTTTTAA
* * * * *
26879818 GGTTTTGTGTTTATGGGTTTGGTGTTTATGATTTTAG
1 GGTTTTATGATTATGGATTTGGGGTTTATGATTATAG
*
26879855 GGTTTTATGATTATGGATTTGGGGTTTTGTGATTAT-G
1 GGTTTTATGATTATGGATTTGGGG-TTTATGATTATAG
26879892 GGTTT
1 GGTTT
26879897 GTGATTAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 26 0.74
38 9 0.26
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (37 bp):
GGTTTTATGATTATGGATTTGGGGTTTATGATTATAG
Found at i:26880023 original size:22 final size:22
Alignment explanation
Indices: 26879988--26880029 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26879978 TTATGACTAC
*
26879988 GGTTTAGGGTTTTATGGTTTGT
1 GGTTTAGGGTTTTAAGGTTTGT
26880010 GGTTTAGGAG-TTTAAGGTTT
1 GGTTTAGG-GTTTTAAGGTTT
26880030 ATTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GGTTTAGGGTTTTAAGGTTTGT
Found at i:26880028 original size:15 final size:15
Alignment explanation
Indices: 26880010--26880053 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
26880000 TATGGTTTGT
*
26880010 GGTTTAGGAGTTTAA
1 GGTTTAGGATTTTAA
**
26880025 GGTTTATTATTTTAA
1 GGTTTAGGATTTTAA
26880040 GGTTTAGGATTTTA
1 GGTTTAGGATTTTA
26880054 TGGTCTTGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
GGTTTAGGATTTTAA
Found at i:26880583 original size:47 final size:47
Alignment explanation
Indices: 26880514--26880686 Score: 292
Period size: 47 Copynumber: 3.7 Consensus size: 47
26880504 TTAAGAATGT
*
26880514 ATGCATACTTTACCCGGATAAAGTATGTATCAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
26880561 ATGCATACTTTACCTGGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
* *
26880608 ATGCATACTTTACCCGGATAAAGTATGTATTAGTAGATTCACTAGTA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
* *
26880655 ATGCATACTTTACCCGGGTAAAGTATGCATTA
1 ATGCATACTTTACCCGGATAAAGTATGTATTA
26880687 TTTATTTGAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
Found at i:26883393 original size:7 final size:6
Alignment explanation
Indices: 26883351--26883389 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
26883341 TTCAATCTTT
*
26883351 ATTTTA ATTTTA ATTTTA ATTTTGT ATTTTAA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTTA A
26883390 ATTTCTTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:26883555 original size:39 final size:37
Alignment explanation
Indices: 26883501--26883931 Score: 141
Period size: 38 Copynumber: 11.7 Consensus size: 37
26883491 ATTATACGTG
* * *
26883501 TCTATCCCAATCTTTTTTTATAGGTTGTTTTAAATAATA
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTAAA-AAGA
* *
26883540 TCTATCCCAACC--TTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * * *
26883575 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTA-AAAAGA
* * * *
26883613 TCTATCCCAACC--TTTTTAAGGTTACCTT-AGACGA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * * *
26883647 GTCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGG
1 -TCTATCCCAACCTTTTTTTAAGGTTGCTTTA-AAAAGA
* * * * * *
26883686 TCTATCCTAACC--TGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* *
26883721 TCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATG-
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTA-A-AAAGA
* * * ** *
26883760 TCGATCCCAACC--TTTTTAAGGTTGCATTAGACGGC
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * *
26883795 TCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAGA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAA-AAGA
* ** * * * *
26883833 ACTATATCGACC--TTTTTAAGGTTG-TCTTAGACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCT-TTAAAAAGA
* * ** * ** *
26883868 TTTATCACAACCTTTTTCAAAGGTTGGTCTTAACTAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCT-TTAAAAAGA
* *
26883906 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAACCTTTTTTTAAGGTTG
26883932 GCATTGACTA
Statistics
Matches: 292, Mismatches: 79, Indels: 43
0.71 0.19 0.10
Matches are distributed among these distances:
34 5 0.02
35 55 0.19
36 64 0.22
37 69 0.24
38 72 0.25
39 25 0.09
40 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
Found at i:26883623 original size:73 final size:73
Alignment explanation
Indices: 26883540--26883931 Score: 416
Period size: 73 Copynumber: 5.3 Consensus size: 73
26883530 TTAAATAATA
* * * *
26883540 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
26883605 AGACATGG
66 AGACATGG
* * *
26883613 TCTATCCCAACCTTTTTAAGGTTACCTTAGAC-GAGTCTATTCCGACCTTTTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTTTTTAAAGGTTGCCT
26883677 TAGACATGG
65 TAGACATGG
* * * **
26883686 TCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTTATAGGTTGTTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTTAAAGGTTGCCT
26883751 TAGACAAT-G
65 TAGAC-ATGG
* * * * *
26883760 TCGATCCCAACCTTTTTAAGGTTGCATTAGAC-GGCTCTATTCCAACCGTTTTTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG-TCTATCCCAACCTTTTTTAAAGGTTGCCT
* * *
26883824 TAAACAAGA
65 TAGACATGG
* ** * * * * * *
26883833 ACTATATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGTCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTT-GCCT
26883898 TA-AC-TAGG
65 TAGACAT-GG
26883906 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAA-CCTTTTT-AAGGTTG
26883932 GCATTGACTA
Statistics
Matches: 260, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
72 2 0.01
73 175 0.67
74 74 0.28
75 9 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
AGACATGG
Found at i:26883790 original size:36 final size:35
Alignment explanation
Indices: 26883540--26883931 Score: 304
Period size: 37 Copynumber: 10.7 Consensus size: 35
26883530 TTAAATAATA
* * *
26883540 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* *
26883575 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
*
26883613 TCTATCCCAACCTTTTTAAGGTTACCTTAGACGA-G
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-ATG
* *
26883648 TCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
* * *
26883686 TCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
**
26883721 TCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATG
1 TCTATCCCAACC--TTTTTA-AGGTTGCCTTAGAC-ATG
* * *
26883760 TCGATCCCAACCTTTTTAAGGTTGCATTAGAC-GG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
26883794 CTCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAG
1 -TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACATG
* ** * * *
26883832 AACTATATCGACCTTTTTAAGGTTGTCTTAGACAGG
1 -TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
26883868 TTTATCACAACCTTTTTCAAAGGTTGGTCTTA-ACTAGG
1 TCTATCCCAACCTTTTT--AAGGTT-GCCTTAGAC-ATG
26883906 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAA-CCTTTTT-AAGGTTG
26883932 GCATTGACTA
Statistics
Matches: 291, Mismatches: 45, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
34 1 0.00
35 57 0.20
36 72 0.25
37 73 0.25
38 68 0.23
39 20 0.07
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
Found at i:26883812 original size:147 final size:145
Alignment explanation
Indices: 26883530--26883936 Score: 451
Period size: 147 Copynumber: 2.8 Consensus size: 145
26883520 ATAGGTTGTT
* * * * *
26883530 TTAAATAATATCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAA
1 TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAA
* ** * * *
26883595 AAGTTACCTTAGACATGGTCTATCCCAACCTTTTTAAGGTTACCTTAGACGAGTCTATTCCGACC
66 AGGTTGTCTTAGACAT-GTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAGTCTATTCCAACC
* *
26883660 TTTTTTAAAGGTTGCC
130 GTTTTTAAAAGTTGCC
* * * *
26883676 TTAGACATGGTCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTTA
1 TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTTA
* * *
26883741 TAGGTTGTTTTAGACAATGTCGATCCCAACCTTTTTAAGGTTGCATTAGACG-GCTCTATTCCAA
65 AAGGTTGTCTTAGAC-ATGTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAG-TCTATTCCAA
26883805 CCGTTTTTAAAAGTTGCC
128 CCGTTTTTAAAAGTTGCC
* * * * * * *
26883823 TTAAACAAGAACTAT-ATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCA
1 TTAAACAAGATCTATCCT-AACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTA
*
26883887 AAGGTTGGTCTTA-ACTAGGTCTATCCCAACCCTTTTTAAAGGTTGGCATT
65 AAGGTT-GTCTTAGAC-ATGTCTATCCCAA-CCTTTTT-AAGGTT-GCATT
26883937 GACTAAGCCT
Statistics
Matches: 217, Mismatches: 36, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
146 74 0.34
147 130 0.60
148 8 0.04
149 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (145 bp):
TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAA
AGGTTGTCTTAGACATGTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAGTCTATTCCAACCG
TTTTTAAAAGTTGCC
Found at i:26883910 original size:220 final size:222
Alignment explanation
Indices: 26883500--26883931 Score: 545
Period size: 220 Copynumber: 2.0 Consensus size: 222
26883490 TATTATACGT
* * *
26883500 GTCTATCCCAATCTTTTTTTATAGGTTGTTTTAAATAATATCTATCCCAACCTTTTTAAGGTTGC
1 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
* * * * ** *
26883565 TTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGGTCTATCCCAACCTTTTT
66 ATTAAACAGGTCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTTT
* * *
26883630 AAGGTTACCTTAGACGAGTCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGGTCTATCCTA
131 AAGGTTACCTTAGACGAGTCTATTCCAACCTTTTTCAAAGGTTGCCTTAGACATGGTCTATCCCA
26883695 A-CCTGTTT-AAGGTTGCCTTAGACAG
196 ACCCTGTTTAAAGGTTGCCTTAGACAG
* *
26883720 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATGTCGATCCCAACCTTTTTAAGGTTGC
1 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
* * * * *
26883785 ATTAGAC-GGCTCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAGAACTATATCGACCTTTT
66 ATTAAACAGG-TCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTT
** * *
26883849 TAAGGTTGTCTTAGAC-AGGTTTA-TCACAACCTTTTTCAAAGGTTGGTCTTA-AC-TAGGTCTA
130 TAAGGTTACCTTAGACGA-GTCTATTC-CAACCTTTTTCAAAGGTT-GCCTTAGACAT-GGTCTA
*
26883910 TCCCAACCCTTTTTAAAGGTTG
191 TCCCAACCCTGTTTAAAGGTTG
26883932 GCATTGACTA
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
219 6 0.03
220 156 0.87
221 11 0.06
222 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (222 bp):
GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
ATTAAACAGGTCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTTT
AAGGTTACCTTAGACGAGTCTATTCCAACCTTTTTCAAAGGTTGCCTTAGACATGGTCTATCCCA
ACCCTGTTTAAAGGTTGCCTTAGACAG
Found at i:26884241 original size:16 final size:17
Alignment explanation
Indices: 26884210--26884242 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26884200 AGAAGTGTAG
26884210 TTTTATATTGATTTTAC
1 TTTTATATTGATTTTAC
*
26884227 TTTTAT-TTTATTTTAC
1 TTTTATATTGATTTTAC
26884243 CACTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTATATTGATTTTAC
Found at i:26889275 original size:17 final size:17
Alignment explanation
Indices: 26889255--26889292 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26889245 AGTTTTATGG
*
26889255 TTTTTTT-ATTTTAGAA
1 TTTTTTTAATGTTAGAA
*
26889271 TTTTTTTAATGTTATAA
1 TTTTTTTAATGTTAGAA
26889288 TTTTT
1 TTTTT
26889293 GAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTTTAATGTTAGAA
Found at i:26894571 original size:56 final size:56
Alignment explanation
Indices: 26894485--26894604 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
26894475 ACAAGGGATG
26894485 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
26894541 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
26894597 ATGGGCAA
1 ATGGGCAA
26894605 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:26896112 original size:47 final size:47
Alignment explanation
Indices: 26896058--26896276 Score: 339
Period size: 49 Copynumber: 4.6 Consensus size: 47
26896048 TATTTGAATA
*
26896058 AATGTGAAAGTGTATATATGTGATAAGGGCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
26896105 AATGTGAAAGTGTTTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
26896154 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
26896203 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
26896250 GATGTGGAAGTGTATAAATGTGGTAAG
1 AATGTGAAAGTGTATATATGTGATAAG
26896277 TCCCGAAGGG
Statistics
Matches: 161, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 68 0.42
49 93 0.58
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:26896167 original size:96 final size:94
Alignment explanation
Indices: 26896058--26896276 Score: 339
Period size: 96 Copynumber: 2.3 Consensus size: 94
26896048 TATTTGAATA
*
26896058 AATGTGAAAGTGTATATATGTGATAAGGGCTAATGGCCAATGTGATGAATGTGAAAGTGTTTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
26896123 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
26896154 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
26896219 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
26896250 GATGTGGAAGTGTATAAATGTGGTAAG
1 AATGTGAAAGTGTATATATGTGATAAG
26896277 TCCCGAAGGG
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
94 13 0.11
96 56 0.49
98 45 0.39
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:26916516 original size:40 final size:40
Alignment explanation
Indices: 26916461--26916627 Score: 275
Period size: 40 Copynumber: 4.2 Consensus size: 40
26916451 NNNNNNNNNN
26916461 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
26916501 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
*
26916541 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
* * *
26916581 CCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGCTAAAT
1 CCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGT
26916620 CCCGAAGG
1 CCCGAAGG
26916628 TACCGGGTTG
Statistics
Matches: 121, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.14
40 104 0.86
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
Found at i:26918640 original size:54 final size:55
Alignment explanation
Indices: 26918565--26918676 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 55
26918555 GTAGGCCCAT
* * ** *
26918565 GCCCGTGTTAATTTAATAGGTTC-GCCCAC-GGTTGCTTGGCACGGGCGTGTCGCAC
1 GCCCGTGTTAACTTAACAGGTTCAG-CCACGGGTT-CAAGGCACGAGCGTGTCGCAC
*
26918620 GCCCGTGTTAACTT-ACAGGTTCAGCCACGGGTTCAAGGCACGAGTGTGTCGCAC
1 GCCCGTGTTAACTTAACAGGTTCAGCCACGGGTTCAAGGCACGAGCGTGTCGCAC
26918674 GCC
1 GCC
26918677 TGTGCTGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.24
Consensus pattern (55 bp):
GCCCGTGTTAACTTAACAGGTTCAGCCACGGGTTCAAGGCACGAGCGTGTCGCAC
Found at i:26919012 original size:50 final size:50
Alignment explanation
Indices: 26918937--26919037 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
26918927 GCTTGACTTA
* * * *
26918937 CCTCTCCATTGAATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTC
1 CCTCTCCACTGAATGGTCATGGTGGTTCAAGGAGCTTAAACTCCTCATTC
26918987 CCTCTCCACTGAATGGTCATGGTGGTTCAAGGAGCTTAAACTCCTCATTC
1 CCTCTCCACTGAATGGTCATGGTGGTTCAAGGAGCTTAAACTCCTCATTC
26919037 C
1 C
26919038 TGCTATCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.33
Consensus pattern (50 bp):
CCTCTCCACTGAATGGTCATGGTGGTTCAAGGAGCTTAAACTCCTCATTC
Found at i:26923002 original size:21 final size:20
Alignment explanation
Indices: 26922978--26923016 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26922968 CCGTGTTGAT
26922978 TTCGTACATTGGCCCATTTTC
1 TTCGT-CATTGGCCCATTTTC
**
26922999 TTCGTTTTTGGCCCATTT
1 TTCGTCATTGGCCCATTT
26923017 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.26, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCGTCATTGGCCCATTTTC
Found at i:26926085 original size:79 final size:81
Alignment explanation
Indices: 26925949--26926131 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
26925939 TCGAATGATG
* *
26925949 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
26926013 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
26926028 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
26926090 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
26926108 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
26926132 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:26926147 original size:40 final size:40
Alignment explanation
Indices: 26925950--26926133 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
26925940 CGAATGATGT
* * * *
26925950 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
26925990 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
26926030 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26926068 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26926109 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
26926134 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:26926155 original size:79 final size:79
Alignment explanation
Indices: 26926002--26926156 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
26925992 GGACTAAGAT
* **
26926002 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
26926067 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
26926081 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
26926144 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
26926157 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:26948500 original size:54 final size:55
Alignment explanation
Indices: 26948425--26948536 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 55
26948415 GTAGGCCCAT
* * ** *
26948425 GCCCGTGTTAATTTAATAGGTTC-GCCCAC-GGTTGCTTGGCACGGGCGTGTCGCAC
1 GCCCGTGTTAACTTAACAGGTTCAG-CCACGGGTT-CAAGGCACGAGCGTGTCGCAC
*
26948480 GCCCGTGTTAACTT-ACAGGTTCAGCCACGGGTTCAAGGCACGAGTGTGTCGCAC
1 GCCCGTGTTAACTTAACAGGTTCAGCCACGGGTTCAAGGCACGAGCGTGTCGCAC
26948534 GCC
1 GCC
26948537 TGTGCTGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.24
Consensus pattern (55 bp):
GCCCGTGTTAACTTAACAGGTTCAGCCACGGGTTCAAGGCACGAGCGTGTCGCAC
Found at i:26952821 original size:21 final size:20
Alignment explanation
Indices: 26952797--26952835 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26952787 CCGTGTTGAT
26952797 TTCGTACATTGGCCCATTTTC
1 TTCGT-CATTGGCCCATTTTC
**
26952818 TTCGTTTTTGGCCCATTT
1 TTCGTCATTGGCCCATTT
26952836 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.26, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCGTCATTGGCCCATTTTC
Found at i:26958634 original size:61 final size:62
Alignment explanation
Indices: 26958569--26958686 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
26958559 CACGGGCAAT
* *
26958569 GGACACGGGCATGTGTCCAAG-TGTGTAACTCATTGTTTATGGTATAAAACCACACAGCCAA
1 GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACAGCCAA
*** *
26958630 GGACACGGGCATGTGTTTTAGCTGTGTAACTCACTATTTGTGGTATAAAACCACACA
1 GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACA
26958687 ATGAGGGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 18 0.36
62 32 0.64
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (62 bp):
GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACAGCCAA
Found at i:26961598 original size:20 final size:19
Alignment explanation
Indices: 26961573--26961633 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
26961563 CCGTGTGCCT
26961573 CACACGACATTAGACAAGCC
1 CACACG-CATTAGACAAGCC
* *
26961593 CACACGGTATTAGACACGCC
1 CACAC-GCATTAGACAAGCC
* *
26961613 GACACTGCATTAGACATGCC
1 CACAC-GCATTAGACAAGCC
26961633 C
1 C
26961634 GTGTGTCTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.34, G:0.18, T:0.15
Consensus pattern (19 bp):
CACACGCATTAGACAAGCC
Found at i:26987132 original size:45 final size:45
Alignment explanation
Indices: 26987076--26987167 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
26987066 TTTATTTGCC
* * *
26987076 TACACTCGAAAATTCATTTGAAATTTGAGAAGATTTAAATAAAAA
1 TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
* *
26987121 TACACTTGAAAATTCATTTAAAATTTTAAAAAATTTAAATAAAAA
1 TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
26987166 TA
1 TA
26987168 TTATGCTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.34
Consensus pattern (45 bp):
TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
Found at i:26994628 original size:47 final size:47
Alignment explanation
Indices: 26994575--26994985 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
26994565 TTAGGATTCT
26994575 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994622 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994669 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994716 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994763 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994810 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26994857 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
26994904 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
26994951 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
26994986 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:26995160 original size:37 final size:37
Alignment explanation
Indices: 26995104--26995182 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26995094 CCGAGCTCTA
* * *
26995104 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
26995141 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26995178 AAGAC
1 AAGAC
26995183 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26999201 original size:48 final size:48
Alignment explanation
Indices: 26999139--26999362 Score: 188
Period size: 48 Copynumber: 4.7 Consensus size: 48
26999129 GACATTTGGG
* * * *
26999139 TGATATGTGTGCCAGTGTAAGACCATATCTGGGATATGGCACCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGGCCA
* * ** **
26999187 TGATATGAGAGCCAGTGTAAGACCATG-CTTGGAACATAGCTTCGGTAA
1 TGATATGAGAGCCAGTGTAAGACCATGTC-TGGGACATGGCACCGGCCA
* * * *
26999235 TG-TAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCACAGACTACA
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGGC--CA
* *
26999285 T--TATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGGCCA
* * * *
26999330 TTGAGACGAGAACTAGTGTAAGACCATGTCTGG
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGG
26999363 TCGACATGTG
Statistics
Matches: 137, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 2 0.01
48 128 0.93
49 2 0.01
50 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGGCCA
Found at i:27006669 original size:25 final size:27
Alignment explanation
Indices: 27006617--27006680 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
27006607 TTATCGCTAT
* *
27006617 TATGTGTTGAATGATTGATTTTGCATAA
1 TATGTGTTGAATGA-TGATTATGAATAA
27006645 TATGT-TTGAATG-TGATTATGAATAA
1 TATGTGTTGAATGATGATTATGAATAA
* *
27006670 TGTGTGATGAA
1 TATGTGTTGAA
27006681 ATTAATGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 15 0.48
26 4 0.13
27 7 0.23
28 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (27 bp):
TATGTGTTGAATGATGATTATGAATAA
Found at i:27006818 original size:48 final size:48
Alignment explanation
Indices: 27006759--27006955 Score: 213
Period size: 48 Copynumber: 4.1 Consensus size: 48
27006749 TATGTGTGCT
*
27006759 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * *
27006807 AGTGTAAGACCATGTTTGGAACATGGCATCAGCAATG-TAATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGAT-ATGAGAGCC
* * * *
27006855 AGTGTAAGACCATGTTTGGGACATGGCATCAG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAG-AGCC
* * *
27006903 AGTGTAACACCATGTCTGGGACATGGCATCGGCCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCC
27006951 AGTGT
1 AGTGT
27006956 CCCAGACAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
47 4 0.03
48 118 0.94
49 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
Found at i:27006927 original size:96 final size:96
Alignment explanation
Indices: 27006756--27006932 Score: 250
Period size: 96 Copynumber: 1.8 Consensus size: 96
27006746 TGATATGTGT
* *
27006756 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAACACCATG
*
27006821 TTTGGAACATGGCATCAGCAATGTAATGAGA
66 TCTGGAACATGGCATCAGCAATGTAATGAGA
* * * *
27006852 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATTGATATGTGCA-CTAGTGTAACACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAG-AGCCAGTGTAACACCA
*
27006915 TGTCTGGGACATGGCATC
64 TGTCTGGAACATGGCATC
27006933 GGCCACATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 2 0.03
96 68 0.96
97 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAACACCATG
TCTGGAACATGGCATCAGCAATGTAATGAGA
Found at i:27007496 original size:48 final size:48
Alignment explanation
Indices: 27007444--27007535 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
27007434 CAAACATGGT
* * *
27007444 CTTACACTAGCTCACATGTTGAA-GCCGATGCCATGTCCCAGACAATGC
1 CTTACACTAACTCACATCTT-AATGCCGATACCATGTCCCAGACAATGC
**
27007492 CTTACACTAACTCTTATCTTAATGCCGATACCATGTCCCAGACA
1 CTTACACTAACTCACATCTTAATGCCGATACCATGTCCCAGACA
27007536 TACTAAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (48 bp):
CTTACACTAACTCACATCTTAATGCCGATACCATGTCCCAGACAATGC
Found at i:27007677 original size:196 final size:195
Alignment explanation
Indices: 27007343--27007710 Score: 574
Period size: 196 Copynumber: 1.9 Consensus size: 195
27007333 ATCATTATCA
*
27007343 TAAGCTTTAAAATAACCCGTGTAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
1 TAAGCTTTAAAATAACCCGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
* * * *
27007408 AAGAGTGAATTGTCGATGCCATGTTTCAAACATGGTCTTACACTAGCTCACATGTTGAAGCCGAT
66 AAGAGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCAT
* *
27007473 GCCATGTCCCAGACAATGCCTTACACTAACTCTTATCTTAATGCCGATACCATGTCCCAGACATA
131 GCCATGTCCCAGAC-ATGCCTTACACTAACTCTCATCTCAATGCCGATACCATGTCCCAGACATA
27007538 C
195 C
* * * *
27007539 TAAGCTTTAAAATAACTCGTGAAACCATTTGGAATATTAAAGGATATCTGACAAGGTTTACACAA
1 TAAGCTTTAAAATAACCCGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
* * * *
27007604 AAGGGTGAATTGCCGATGCCATGTTCCAAGCATGGTCTTACACTGGCTCACATGTCGAGGCCCAT
66 AAGAGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCAT
* *
27007669 GCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATG
131 GCCATGTCCCAGACATGCCTTACACTAACTCTCATCTCAATG
27007711 TCTGGAACAT
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
195 24 0.15
196 131 0.85
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (195 bp):
TAAGCTTTAAAATAACCCGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
AAGAGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCAT
GCCATGTCCCAGACATGCCTTACACTAACTCTCATCTCAATGCCGATACCATGTCCCAGACATAC
Found at i:27022699 original size:33 final size:33
Alignment explanation
Indices: 27022657--27022724 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
27022647 GGAACAGATG
27022657 TTAGATCAATTACAGGTAATGAATTCTATTATT
1 TTAGATCAATTACAGGTAATGAATTCTATTATT
*
27022690 TTAGATCAATTGCAGGTAATGAATTCTATTATT
1 TTAGATCAATTACAGGTAATGAATTCTATTATT
27022723 TT
1 TT
27022725 TTAGATGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (33 bp):
TTAGATCAATTACAGGTAATGAATTCTATTATT
Found at i:27032197 original size:142 final size:142
Alignment explanation
Indices: 27031941--27032224 Score: 568
Period size: 142 Copynumber: 2.0 Consensus size: 142
27031931 GGATGGTGAA
27031941 TATGAGCGAGTTGAATCCTCGTTCAAATTAACAGACCCTTGATTTTTCATGAACTTGTTTTGTTA
1 TATGAGCGAGTTGAATCCTCGTTCAAATTAACAGACCCTTGATTTTTCATGAACTTGTTTTGTTA
27032006 ATAAATAATTAATTAGAACTTGTTTTCTTAACTTAGTACATTTAATTAATTCTATCTAAGGAGAT
66 ATAAATAATTAATTAGAACTTGTTTTCTTAACTTAGTACATTTAATTAATTCTATCTAAGGAGAT
27032071 TGGAACTTAAGC
131 TGGAACTTAAGC
27032083 TATGAGCGAGTTGAATCCTCGTTCAAATTAACAGACCCTTGATTTTTCATGAACTTGTTTTGTTA
1 TATGAGCGAGTTGAATCCTCGTTCAAATTAACAGACCCTTGATTTTTCATGAACTTGTTTTGTTA
27032148 ATAAATAATTAATTAGAACTTGTTTTCTTAACTTAGTACATTTAATTAATTCTATCTAAGGAGAT
66 ATAAATAATTAATTAGAACTTGTTTTCTTAACTTAGTACATTTAATTAATTCTATCTAAGGAGAT
27032213 TGGAACTTAAGC
131 TGGAACTTAAGC
27032225 GGGACCGATA
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (142 bp):
TATGAGCGAGTTGAATCCTCGTTCAAATTAACAGACCCTTGATTTTTCATGAACTTGTTTTGTTA
ATAAATAATTAATTAGAACTTGTTTTCTTAACTTAGTACATTTAATTAATTCTATCTAAGGAGAT
TGGAACTTAAGC
Found at i:27036987 original size:12 final size:14
Alignment explanation
Indices: 27036958--27036989 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
27036948 CTTAAAATAG
27036958 AATAAAAGTAACAA
1 AATAAAAGTAACAA
27036972 AATAAAA-TAA-AA
1 AATAAAAGTAACAA
27036984 AATAAA
1 AATAAA
27036990 TGTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (14 bp):
AATAAAAGTAACAA
Found at i:27041507 original size:13 final size:13
Alignment explanation
Indices: 27041489--27041515 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27041479 TATTTTAATC
27041489 AGTTAATTAGTTT
1 AGTTAATTAGTTT
27041502 AGTTAATTAGTTT
1 AGTTAATTAGTTT
27041515 A
1 A
27041516 ATAAACAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:27041821 original size:9 final size:9
Alignment explanation
Indices: 27041807--27041838 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
27041797 ACAATTTAAT
27041807 TTAATTTTA
1 TTAATTTTA
27041816 TTAATTTTA
1 TTAATTTTA
27041825 TT-A-TTTA
1 TTAATTTTA
27041832 TTAATTT
1 TTAATTT
27041839 ACTTTTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTA
Found at i:27046541 original size:6 final size:6
Alignment explanation
Indices: 27046530--27046562 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
27046520 TCCTCTTATC
*
27046530 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
27046563 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:27046568 original size:18 final size:18
Alignment explanation
Indices: 27046530--27046569 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27046520 TCCTCTTATC
* **
27046530 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
27046548 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
27046566 TTTT
1 TTTT
27046570 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:27052394 original size:50 final size:50
Alignment explanation
Indices: 27052335--27052566 Score: 253
Period size: 50 Copynumber: 4.7 Consensus size: 50
27052325 GGGATAAATA
27052335 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATG
* *
27052385 AGAGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGG-CT--TGATAT-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATG
* * * * *
27052431 -GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGATAGATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATG
* * * * * * *
27052480 AGAGCCAATGTAAGACCATGTCAGGGATATGGCTTCGGCCTCGACATACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATG
* *
27052530 AG-GGTCAGTGTAAGACCATGCCTGGGACATGGCATCG
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
27052567 ACTTTGATGT
Statistics
Matches: 149, Mismatches: 25, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
45 33 0.22
47 6 0.04
48 3 0.02
49 4 0.03
50 103 0.69
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATG
Found at i:27052512 original size:95 final size:98
Alignment explanation
Indices: 27052341--27052568 Score: 275
Period size: 95 Copynumber: 2.3 Consensus size: 98
27052331 AATAAGAGCT
* * * * *
27052341 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTGTAAGGCCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAGATGAGAGCCAATGTAAGACCATGT
* * * *
27052406 CTGGGACATGGCATCGG-CTTG-ATA-TGTGCC
66 CAGGGACATGGCATCGGCCTCGAATACAGGGCC
*
27052436 AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAATGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGAGAGATGAGAGCCAATGTAAGACCATG
* * *
27052500 TCAGGGATATGGCTTCGGCCTCGACATACGAGGGTC
65 TCAGGGACATGGCATCGGCCTCGA-ATAC-AGGGCC
*
27052536 AGTGTAAGACCATGCCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
27052569 TTTGATGTGT
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
95 71 0.63
96 4 0.04
98 3 0.03
100 35 0.31
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.21
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAGATGAGAGCCAATGTAAGACCATGT
CAGGGACATGGCATCGGCCTCGAATACAGGGCC
Found at i:27053942 original size:7 final size:7
Alignment explanation
Indices: 27053930--27053960 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27053920 ATTAAATTAA
27053930 ATTGAAT
1 ATTGAAT
27053937 ATTGAAT
1 ATTGAAT
*
27053944 ATTTAAT
1 ATTGAAT
27053951 ATTGAAT
1 ATTGAAT
27053958 ATT
1 ATT
27053961 AAAATAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (7 bp):
ATTGAAT
Found at i:27057418 original size:10 final size:10
Alignment explanation
Indices: 27057403--27057444 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
27057393 TATTTTAAAA
*
27057403 ATTAAAAATC
1 ATTAAAAATT
27057413 ATT-AAAATT
1 ATTAAAAATT
27057422 ATTTAAAAATT
1 A-TTAAAAATT
27057433 ATT-AAAATT
1 ATTAAAAATT
27057442 ATT
1 ATT
27057445 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 15 0.52
10 7 0.24
11 7 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:27057427 original size:20 final size:20
Alignment explanation
Indices: 27057404--27057445 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
27057394 ATTTTAAAAA
27057404 TTAAAAATCATTAAAATTAT
1 TTAAAAATCATTAAAATTAT
*
27057424 TTAAAAATTATTAAAATTAT
1 TTAAAAATCATTAAAATTAT
27057444 TT
1 TT
27057446 TTTTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAATCATTAAAATTAT
Found at i:27064032 original size:26 final size:26
Alignment explanation
Indices: 27064003--27064054 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
27063993 CAGATTAACT
*
27064003 ATTCCAAAAATA-ATATTATCTTAATA
1 ATTCCAAAAATACAT-TTAACTTAATA
* *
27064029 ATTCTAAAATTACATTTAACTTAATA
1 ATTCCAAAAATACATTTAACTTAATA
27064055 CATATCTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTCCAAAAATACATTTAACTTAATA
Found at i:27066721 original size:20 final size:20
Alignment explanation
Indices: 27066696--27066735 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27066686 AATGACATAG
27066696 GAAAAATCCTATATATTTTT
1 GAAAAATCCTATATATTTTT
27066716 GAAAAATCCTATATATTTTT
1 GAAAAATCCTATATATTTTT
27066736 TCGTTTACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
GAAAAATCCTATATATTTTT
Found at i:27067851 original size:31 final size:31
Alignment explanation
Indices: 27067807--27067927 Score: 179
Period size: 31 Copynumber: 3.9 Consensus size: 31
27067797 CGGTCGCGGG
*
27067807 CGTGTAGGCCCACACGGGTGAACCACACTAC
1 CGTGTGGGCCCACACGGGTGAACCACACTAC
* * *
27067838 CATGTGGGCCCACATGGGTGAACCATACTAC
1 CGTGTGGGCCCACACGGGTGAACCACACTAC
*
27067869 CGTGTGGGCCCACACGGGTGAACCACACTGC
1 CGTGTGGGCCCACACGGGTGAACCACACTAC
* *
27067900 CGTGTGGGCCCACACAGGTTAACCACAC
1 CGTGTGGGCCCACACGGGTGAACCACAC
27067928 GGGCGTGTGG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.15
Consensus pattern (31 bp):
CGTGTGGGCCCACACGGGTGAACCACACTAC
Found at i:27067935 original size:31 final size:31
Alignment explanation
Indices: 27067770--27067938 Score: 176
Period size: 31 Copynumber: 5.3 Consensus size: 31
27067760 TGGGTTAGGT
* *
27067770 CGTGTGGGCCCACATGAGTGAACCACACGGTCGC
1 CGTGTGGGCCCACACGGGTGAACCACAC--T-GC
* *
27067804 GGGCGTGTAGGCCCACACGGGTGAACCACACTAC
1 ---CGTGTGGGCCCACACGGGTGAACCACACTGC
* * * *
27067838 CATGTGGGCCCACATGGGTGAACCATACTAC
1 CGTGTGGGCCCACACGGGTGAACCACACTGC
27067869 CGTGTGGGCCCACACGGGTGAACCACACTGC
1 CGTGTGGGCCCACACGGGTGAACCACACTGC
* * * *
27067900 CGTGTGGGCCCACACAGGTTAACCACACGGG
1 CGTGTGGGCCCACACGGGTGAACCACACTGC
27067931 CGTGTGGG
1 CGTGTGGG
27067939 ATTCTGGGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
31 89 0.77
34 1 0.01
35 1 0.01
37 25 0.22
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (31 bp):
CGTGTGGGCCCACACGGGTGAACCACACTGC
Found at i:27071862 original size:13 final size:13
Alignment explanation
Indices: 27071846--27071881 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
27071836 ATGATTTCGT
27071846 GAAAATTTCGTTC
1 GAAAATTTCGTTC
*
27071859 GAAAATTTTGTTC
1 GAAAATTTCGTTC
27071872 GAAAATTTCG
1 GAAAATTTCG
27071882 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (13 bp):
GAAAATTTCGTTC
Found at i:27073216 original size:48 final size:47
Alignment explanation
Indices: 27073141--27073384 Score: 191
Period size: 38 Copynumber: 5.6 Consensus size: 47
27073131 AGAAAGAAAA
27073141 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * * * * *
27073188 GTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 -AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* *
27073236 AAACGTGGTGCTAAGTGGATATACCACGATTA-A-ACA-T--T---T
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * *
27073275 -AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG-----T
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * * *
27073313 -AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * *
27073359 TAACATGGAGCTAAGTGGATATACCA
1 AAACGTGGTGCTAAGTGGATATACCA
27073385 CGGTTAAACA
Statistics
Matches: 167, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
38 65 0.39
39 2 0.01
40 2 0.01
41 2 0.01
42 1 0.01
44 1 0.01
45 2 0.01
46 2 0.01
47 49 0.29
48 41 0.25
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (47 bp):
AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
Found at i:27073288 original size:38 final size:38
Alignment explanation
Indices: 27073237--27073418 Score: 220
Period size: 38 Copynumber: 4.6 Consensus size: 38
27073227 TTGATTCATA
* *
27073237 AACGTGGTGCTAAGTGGATATACCACGATTAAACATTT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
27073275 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
* * *
27073313 AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------T
* *
27073360 AACATGGAGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
27073398 AACGTGGTGCTAAGTGGATAT
1 AACGTGGTGCTAAGTGGATAT
27073419 GCCATGTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 85 0.69
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.23
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
Found at i:27073434 original size:123 final size:123
Alignment explanation
Indices: 27073182--27073435 Score: 418
Period size: 123 Copynumber: 2.1 Consensus size: 123
27073172 ACACATATTG
* *
27073182 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACGTGGTGC
1 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
*
27073247 TAAGTGGATATACCACGATTAAACATTTAACGTGGTGCTAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
* * *
27073305 AAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACATGGAGC
1 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
* * * *
27073370 TAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGTTT
66 TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
27073428 ATACATGT
1 ATACATGT
27073436 TAATTTGAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (123 bp):
ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
Found at i:27092739 original size:3 final size:3
Alignment explanation
Indices: 27092733--27092779 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
27092723 TGTGACGATG
*
27092733 ATA ATA ATA ATA ATG ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27092780 GGAATGACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:27092762 original size:23 final size:23
Alignment explanation
Indices: 27092736--27092779 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
27092726 GACGATGATA
*
27092736 ATAATAATAATGATAATAATAAT
1 ATAATAATAATAATAATAATAAT
27092759 ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATA
27092780 GGAATGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:27098841 original size:51 final size:50
Alignment explanation
Indices: 27098661--27098842 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 50
27098651 TGCTATCTTC
* *
27098661 AATCTGCTCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTC
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAAC-TTTAGCTTT
* * * * *
27098713 AATCTGCTCC-ACTGTAACTTTAGGGAGATAAGA-TCT-GC--TATCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
** * * *
27098758 AGGCTACTCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTGTAGCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAACTT-TAGCTTT
27098810 AATCTGCTCC-ACTGCAACTTCAGAGGA-ATGAGA
1 AATCTGCTCCTACTGCAACTTCAG-GGAGATGAGA
27098843 TTCACTATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 12 0.12
46 20 0.19
47 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 37 0.36
52 26 0.25
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
Found at i:27098851 original size:97 final size:96
Alignment explanation
Indices: 27098606--27098897 Score: 318
Period size: 97 Copynumber: 3.0 Consensus size: 96
27098596 AATTTGTATT
*** * * * *
27098606 TTGTAGCTTTAATCAATTCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGCTCC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGG-AATGAGATTCGCTATCTTCAGTCTACTCC
* *
27098671 TACTGCAACTTCAGGGAGATTAGACTCATAAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * * * * *
27098703 TTTTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGA-TCTGCTATCTTTAGGCTACTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGA-ATGAGATTC-GCTATCTTCAGTCTACTC
* * *
27098767 CTACTGTAACTTCAAGGAGATGAGACTCGTAAC
64 CTACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * *
27098800 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAG-GGAATGAGATTCGCTATCTTCAGTCTACTCC
* * *
27098865 -ACTACATCTTCAGGGAGATAAGACTCGTGAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
27098896 TT
1 TT
27098898 CAATCTGTTC
Statistics
Matches: 159, Mismatches: 32, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
96 29 0.18
97 125 0.79
98 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAATGAGATTCGCTATCTTCAGTCTACTCCT
ACTGCAACTTCAGGGAGATAAGACTCGTAAC
Found at i:27099008 original size:45 final size:45
Alignment explanation
Indices: 27098623--27099053 Score: 194
Period size: 44 Copynumber: 9.3 Consensus size: 45
27098613 TTTAATCAAT
* * *
27098623 TCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * ** *
27098668 TCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTCAATCTGC
1 TCC-ACTGCAACTTCAGGGAAATAAGA-T--T---TGCTATCTTCAATCTGC
* * * * * ** *
27098720 TCCACTGTAACTTTAGGGAGATAAGATCTGCTATCTTTAGGCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * *
27098765 TCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTG-TAGCTTTAATCTGC
1 TCC-ACTGCAACTTCAGGGAAAT-A-A---G--ATTTGCTATCTTCAATCTGC
* ** * *
27098817 TCCACTGCAACTTCAGAGG-AATGAGATTCACTATCTTCAGTCTAC
1 TCCACTGCAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
27098862 TTCACTACATCTTCAGGGAGATAAGACTCG-TGA-CTTCAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCT-ATCTTCAATCTGC
* * * * *
27098906 TCCACTAG-AACTTCAAGAAAATAAGA-TTGAC-AGCTTTAATCTGT
1 TCCACT-GCAACTTCAGGGAAATAAGATTTG-CTATCTTCAATCTGC
* *
27098950 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCCGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
27098995 TCCACTGTAACTTCAGGGAGATAGGACTCG-TAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
*
27099039 CCCACTGCAACTTCA
1 TCCACTGCAACTTCA
27099054 AGGGGATAAG
Statistics
Matches: 287, Mismatches: 73, Indels: 53
0.69 0.18 0.13
Matches are distributed among these distances:
43 3 0.01
44 89 0.31
45 83 0.29
46 37 0.13
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 34 0.12
52 32 0.11
53 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
Found at i:27099063 original size:133 final size:133
Alignment explanation
Indices: 27098804--27099055 Score: 319
Period size: 133 Copynumber: 1.9 Consensus size: 133
27098794 CGTAACTTGT
* * * * *
27098804 AGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTCACTA
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
* * * **
27098869 CATCTTCAGGGAGATAAGACTCGTGACTTCAATCTGTTCCACTAGAACTTCAAGAAAATAAGATT
66 CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
27098934 GAC
131 GAC
* ** *
27098937 AGCTTTAATCTGTTCCACTACAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCCGCTCCACT
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGG-AATAAGATTCACTATCTTCAATCCACTCCACT
** *
27099001 GTAACTTCAGGGAGATAGGACTCGTAACTTCAACCTGCCCCACT-GCAACTTCAAG
65 ACAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAG-AACTTCAAG
27099056 GGGATAAGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 3 0.03
133 97 0.97
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (133 bp):
AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
GAC
Found at i:27099367 original size:111 final size:111
Alignment explanation
Indices: 27099173--27099399 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
27099163 ATCTAAATGA
27099173 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
27099238 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
*
27099284 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATGCAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
*
27099349 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTGCTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
27099395 ATCAA
1 ATCAA
27099400 GTTTCTATTG
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (111 bp):
ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
Found at i:27110119 original size:19 final size:19
Alignment explanation
Indices: 27110095--27110136 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
27110085 AATAAAATAC
27110095 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
27110114 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
27110133 CACA
1 CACA
27110137 ACCCTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (19 bp):
CACATCCAGTACGTTAGGA
Found at i:27110773 original size:3 final size:3
Alignment explanation
Indices: 27110715--27110755 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
27110705 TGTGGCGATG
**
27110715 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACC AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27110756 GGAATGACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27112053 original size:14 final size:13
Alignment explanation
Indices: 27112031--27112062 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
27112021 TAATAGATTC
27112031 AAAAAGAAAAATA
1 AAAAAGAAAAATA
27112044 AAAAAGGAAAAATA
1 AAAAA-GAAAAATA
27112058 AAAAA
1 AAAAA
27112063 ATTCACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAATA
Found at i:27126918 original size:30 final size:29
Alignment explanation
Indices: 27126872--27126928 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
27126862 TTTACGAGCC
27126872 TAGGGGAAAAAGTGTAATTTTGACAAAATT
1 TAGGGGAAAAAGTGTAATTTTG-CAAAATT
27126902 TAGGGGCAAAAA-TGTAATTTTGCAAAA
1 TAGGGG-AAAAAGTGTAATTTTGCAAAA
27126929 ACACGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.19
30 16 0.62
31 5 0.19
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTTTGCAAAATT
Found at i:27132399 original size:16 final size:15
Alignment explanation
Indices: 27132375--27132404 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27132365 AACTATTTTA
27132375 TTACAAATTTCACTC
1 TTACAAATTTCACTC
27132390 TTACATAATTTCACT
1 TTACA-AATTTCACT
27132405 TACTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:27132725 original size:50 final size:50
Alignment explanation
Indices: 27132616--27132896 Score: 276
Period size: 50 Copynumber: 5.6 Consensus size: 50
27132606 CTGGTATGCA
* * *
27132616 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * *
27132665 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * * *** * * *
27132715 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTGTCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGGTACACG
** *
27132766 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * *** *
27132816 TACTAGCCTGCACTTAGTACTACACATGTAAACTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGGTACACG
* *
27132868 TGGTAGCCTGCACATAGTACTACACATGT
1 TAGTAGCCTGCACTTAGTACTACACATGT
27132897 TTTCTCACAA
Statistics
Matches: 189, Mismatches: 39, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 30 0.16
50 85 0.45
51 37 0.20
52 37 0.20
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
Found at i:27148278 original size:21 final size:20
Alignment explanation
Indices: 27148246--27148284 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27148236 ACTCCTACGA
*
27148246 AAAGATCGCTTGGATTTAAG
1 AAAGATCACTTGGATTTAAG
27148266 AAAGAGTCACTTGGATTTA
1 AAAGA-TCACTTGGATTTA
27148285 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAGATCACTTGGATTTAAG
Found at i:27148481 original size:14 final size:14
Alignment explanation
Indices: 27148462--27148490 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27148452 CATATTTACC
27148462 TTCGATCAATATTA
1 TTCGATCAATATTA
27148476 TTCGATCAATATTA
1 TTCGATCAATATTA
27148490 T
1 T
27148491 CTTTATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTCGATCAATATTA
Found at i:27148785 original size:16 final size:15
Alignment explanation
Indices: 27148754--27148820 Score: 54
Period size: 16 Copynumber: 4.6 Consensus size: 15
27148744 TATCATTTCA
27148754 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
27148769 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
27148785 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
27148798 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
27148813 A-ATATAAT
1 ATATATAAT
27148821 AATACAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.05
13 5 0.12
14 11 0.26
15 10 0.24
16 13 0.31
17 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:27148797 original size:11 final size:11
Alignment explanation
Indices: 27148781--27148824 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
27148771 ATATAAATTT
27148781 TAATATATTAA
1 TAATATATTAA
*
27148792 TAATATATAAA
1 TAATATATTAA
27148803 T-A-ATATTAA
1 TAATATATTAA
*
27148812 TAATATAATAA
1 TAATATATTAA
27148823 TA
1 TA
27148825 CAGAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATATATTAA
Found at i:27148824 original size:20 final size:19
Alignment explanation
Indices: 27148781--27148824 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
27148771 ATATAAATTT
27148781 TAAT-ATATTAATAATATA
1 TAATAATATTAATAATATA
27148799 TAAATAATATTAATAATATAA
1 T-AATAATATTAATAATAT-A
27148820 TAATA
1 TAATA
27148825 CAGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.13
20 17 0.74
21 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAATATTAATAATATA
Found at i:27152665 original size:8 final size:8
Alignment explanation
Indices: 27152652--27152795 Score: 69
Period size: 8 Copynumber: 18.2 Consensus size: 8
27152642 TTAATAATAT
27152652 TTATATTA
1 TTATATTA
27152660 TTATATTA
1 TTATATTA
27152668 --ATATTA
1 TTATATTA
*
27152674 ATATATTTCGA
1 TTATA-TT--A
*
27152685 TT-TATAAA
1 TTATAT-TA
27152693 TCTATATT-
1 T-TATATTA
27152701 TCTATATTA
1 T-TATATTA
27152710 TT-TATT-
1 TTATATTA
*
27152716 TTATTATTC
1 TTA-TATTA
*
27152725 TATCTATTA
1 T-TATATTA
27152734 TTATATTA
1 TTATATTA
*
27152742 -TCTATTA
1 TTATATTA
27152749 TTATATTA
1 TTATATTA
27152757 TCTAT-TTA
1 T-TATATTA
27152765 -TATATTA
1 TTATATTA
27152772 TT-T-TTA
1 TTATATTA
27152778 -TATATTA
1 TTATATTA
27152785 TTATATATA
1 TTATAT-TA
27152794 TT
1 TT
27152796 TTTATTTCTA
Statistics
Matches: 107, Mismatches: 8, Indels: 41
0.69 0.05 0.26
Matches are distributed among these distances:
5 1 0.01
6 15 0.14
7 17 0.16
8 48 0.45
9 18 0.17
10 6 0.06
11 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:27152720 original size:20 final size:20
Alignment explanation
Indices: 27152697--27152815 Score: 56
Period size: 20 Copynumber: 6.0 Consensus size: 20
27152687 TATAAATCTA
27152697 TATTTCTATATTATTTATTT
1 TATTTCTATATTATTTATTT
* *
27152717 TATTATTCTAT-CTA-TTATTA
1 TA-T-TTCTATATTATTTATTT
*
27152737 TATTATCTATTATTATATTA-TC
1 TATT-TCTA-TATTAT-TTATTT
*
27152759 TATTTATATATTATTT-TTAT
1 TATTTCTATATTATTTATT-T
*
27152779 ATATTAT-TATA-TATAT-TTT
1 -TATT-TCTATATTATTTATTT
*
27152798 TATTTCTAT-TTAGTTATT
1 TATTTCTATATTATTTATT
27152816 ATTTAGTTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
17 1 0.01
18 11 0.14
19 11 0.14
20 22 0.29
21 16 0.21
22 12 0.16
23 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (20 bp):
TATTTCTATATTATTTATTT
Found at i:27152722 original size:12 final size:12
Alignment explanation
Indices: 27152705--27152837 Score: 52
Period size: 12 Copynumber: 11.2 Consensus size: 12
27152695 TATATTTCTA
27152705 TATTATTTATTT
1 TATTATTTATTT
27152717 TATTATTCTATCTAT
1 TATTATT-TAT-T-T
*
27152732 TATTATATTA-TC
1 TATTAT-TTATTT
*
27152744 TATTA-TTATAT
1 TATTATTTATTT
27152755 TATCTATTTATATAT
1 TAT-TATTTAT-T-T
*
27152770 TATT-TTTA-TA
1 TATTATTTATTT
*
27152780 TATTA-TTATATA
1 TATTATTTAT-TT
27152792 TATT-TTTA-TT
1 TATTATTTATTT
* *
27152802 T-CTATTTA-GT
1 TATTATTTATTT
*
27152812 TATTATTTA-GT
1 TATTATTTATTT
27152823 TATTATTTATATT
1 TATTATTTAT-TT
27152836 TA
1 TA
27152838 GTATATTTAG
Statistics
Matches: 94, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
9 1 0.01
10 18 0.19
11 21 0.22
12 23 0.24
13 15 0.16
14 2 0.02
15 13 0.14
16 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:27152723 original size:15 final size:15
Alignment explanation
Indices: 27152705--27152868 Score: 64
Period size: 15 Copynumber: 10.9 Consensus size: 15
27152695 TATATTTCTA
27152705 TATTATTTATTTTAT
1 TATTATTTATTTTAT
*
27152720 TATTCTATCTATTATTA-
1 TA-T-TATTTATT-TTAT
*
27152737 TATTATCTATTATTA-
1 TATTATTTATT-TTAT
*
27152752 TATTATCTA-TTTAT
1 TATTATTTATTTTAT
*
27152766 ATATTATTT-TTATA-
1 -TATTATTTATTTTAT
*
27152780 TATTA-TTA-TATA-
1 TATTATTTATTTTAT
27152792 TATT-TTTATTTCTATT
1 TATTATTTATTT-TA-T
27152808 TAGTTA-TTA-TTTAGT
1 TA-TTATTTATTTTA-T
*
27152823 TATTATTTATATTTAG
1 TATTATTTAT-TTTAT
*
27152839 TA-TATTTAGAATTTAT
1 TATTATTT--ATTTTAT
*
27152855 TATTATTTAATTTA
1 TATTATTTATTTTA
27152869 AGTTAAATAG
Statistics
Matches: 121, Mismatches: 8, Indels: 40
0.72 0.05 0.24
Matches are distributed among these distances:
12 13 0.11
13 9 0.07
14 6 0.05
15 52 0.43
16 14 0.12
17 24 0.20
18 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:27152820 original size:11 final size:11
Alignment explanation
Indices: 27152804--27152831 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27152794 TTTTTATTTC
27152804 TATTTAGTTAT
1 TATTTAGTTAT
27152815 TATTTAGTTAT
1 TATTTAGTTAT
27152826 TATTTA
1 TATTTA
27152832 TATTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:27152836 original size:28 final size:26
Alignment explanation
Indices: 27152695--27152846 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 26
27152685 TTTATAAATC
*
27152695 TATATTTCTATATTATTTATT-TTATTAT
1 TATATTTAT-TATTATTTATTATTA-T-T
* *
27152723 TCTATCTATTATTATATTATCTATTA-T
1 TATATTTATTATTAT-TTAT-TATTATT
*
27152750 TATA-TTATCTATTTATATATTATT-TT
1 TATATTTAT-TA-TTATTTATTATTATT
* *
27152776 TATATATTATTA-TATATATTTTTATT
1 TATAT-TTATTATTATTTATTATTATT
*
27152802 TCTATTTAGTTATTATTTAGTTATTATT
1 TATATTTA-TTATTATTTA-TTATTATT
*
27152830 TATATTTAGTA-TATTTA
1 TATATTTATTATTATTTA
27152847 GAATTTATTA
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
25 13 0.13
26 27 0.27
27 24 0.24
28 32 0.32
29 1 0.01
30 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TATATTTATTATTATTTATTATTATT
Found at i:27152845 original size:43 final size:39
Alignment explanation
Indices: 27152705--27152863 Score: 139
Period size: 39 Copynumber: 4.0 Consensus size: 39
27152695 TATATTTCTA
*
27152705 TATTATTTAT-TTTATTA-TTCTATCTATTATTATATTAT
1 TATTATTTATATTTATTATTTCTATTTATTATTAT-TTAT
* * *
27152743 CTATTA-TTATA-TTATCTATTTATATATTATTTTTATATAT
1 -TATTATTTATATTTAT-TATTTCTAT-TTATTATTATTTAT
*
27152783 TATTATATATATTT-TTATTTCTATTTAGTTATTATTTAGT
1 TATTATTTATATTTATTATTTCTATTTA-TTATTATTTA-T
**
27152823 TATTATTTATATTTAGTATATTTAGAATTTATTATTATTTA
1 TATTATTTATATTTA-T-TATTT-CTATTTATTATTATTTA
27152864 ATTTAAGTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
38 11 0.11
39 28 0.29
40 27 0.28
41 10 0.10
42 1 0.01
43 15 0.15
44 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (39 bp):
TATTATTTATATTTATTATTTCTATTTATTATTATTTAT
Found at i:27152854 original size:26 final size:27
Alignment explanation
Indices: 27152796--27152863 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
27152786 TATATATATT
* *
27152796 TTTATTTCTATTTAGTTATTATTTAGT
1 TTTATTTATATTTAGTTATTATTTAGA
27152823 TATTATTTATATTTAG-TA-TATTTAGAA
1 T-TTATTTATATTTAGTTATTATTTAG-A
27152850 TTTA-TTATTATTTA
1 TTTATTTA-TATTTA
27152864 ATTTAAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.08
26 16 0.44
27 4 0.11
28 13 0.36
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTATTTATATTTAGTTATTATTTAGA
Found at i:27152880 original size:31 final size:32
Alignment explanation
Indices: 27152822--27152929 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
27152812 TATTATTTAG
* **
27152822 TTATTATTTATATTT-AGTATATTTAGAATTTA
1 TTATTATTTA-ATTTAAGTATAATTAGAATAAA
*
27152854 TTATTATTTAATTTAAGT-TAAATAGAA-AAA
1 TTATTATTTAATTTAAGTATAATTAGAATAAA
* *
27152884 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TT-ATTATTTAATTTAAGTATAATTAGAATAAA
27152917 TTATTAATTTAAT
1 TTATT-ATTTAAT
27152930 AATTTAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.05
31 26 0.41
32 22 0.35
33 12 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (32 bp):
TTATTATTTAATTTAAGTATAATTAGAATAAA
Found at i:27153875 original size:17 final size:17
Alignment explanation
Indices: 27153846--27153883 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27153836 TATTACTGAA
*
27153846 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
27153863 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
27153880 TTTA
1 TTTA
27153884 CATCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:27154079 original size:17 final size:17
Alignment explanation
Indices: 27154050--27154087 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27154040 TATTACTGAA
*
27154050 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
27154067 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
27154084 TTTA
1 TTTA
27154088 CATCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Done.