Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 24
Found at i:1092529 original size:31 final size:32
Alignment explanation
Indices: 1092494--1092554 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1092484 ATTTACATTA
1092494 TATTTTTATTG-AATTTTATTTATTTTTTATT
1 TATTTTTATTGCAATTTTATTTATTTTTTATT
*
1092525 TATTTTTATTGCATTTTTATTTATTTTTTA
1 TATTTTTATTGCAATTTTATTTATTTTTTA
1092555 AAAAAGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (32 bp):
TATTTTTATTGCAATTTTATTTATTTTTTATT
Found at i:1092541 original size:21 final size:20
Alignment explanation
Indices: 1092495--1092552 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
1092485 TTTACATTAT
* * *
1092495 ATTTTTATTGAATTTTATTT
1 ATTTTTATTTATTTTTATTC
1092515 ATTTTTTATTTATTTTTATTGC
1 A-TTTTTATTTATTTTTATT-C
1092537 ATTTTTATTTATTTTT
1 ATTTTTATTTATTTTT
1092553 TAAAAAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTATTTTTATTC
Found at i:1092554 original size:11 final size:10
Alignment explanation
Indices: 1092494--1092552 Score: 73
Period size: 10 Copynumber: 5.7 Consensus size: 10
1092484 ATTTACATTA
1092494 TATTTTTATT
1 TATTTTTATT
* *
1092504 GAATTTTATT
1 TATTTTTATT
1092514 TATTTTTTATT
1 TA-TTTTTATT
1092525 TATTTTTATT
1 TATTTTTATT
*
1092535 GCATTTTTATT
1 -TATTTTTATT
1092546 TATTTTT
1 TATTTTT
1092553 TAAAAAAGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 23 0.56
11 18 0.44
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (10 bp):
TATTTTTATT
Found at i:1094247 original size:3 final size:3
Alignment explanation
Indices: 1094239--1094279 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1094229 AAAAAGGAGA
1094239 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1094280 GAGAAGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1094287 original size:3 final size:3
Alignment explanation
Indices: 1094281--1094323 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1094271 TAATAATAAG
1094281 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1094324 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1094374 original size:25 final size:25
Alignment explanation
Indices: 1094346--1094404 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
1094336 ATATACATAT
** **
1094346 AAAAATAAAATATTAAAAAA-GGAA
1 AAAAATAAAATAGCAAAAAATACAA
1094370 AAAAATAAAATAGCAAAAAATACAAA
1 AAAAATAAAATAGCAAAAAATAC-AA
1094396 AAAAATAAA
1 AAAAATAAA
1094405 TAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.62
26 11 0.38
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (25 bp):
AAAAATAAAATAGCAAAAAATACAA
Found at i:1094400 original size:11 final size:10
Alignment explanation
Indices: 1094370--1094439 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
1094360 AAAAAAGGAA
1094370 AAAAATAAAAT
1 AAAAA-AAAAT
**
1094381 AGCAAAAAAT
1 AAAAAAAAAT
1094391 ACAAAAAAAAT
1 A-AAAAAAAAT
1094402 AAATAAAAATAT
1 AAA-AAAAA-AT
*
1094414 AAGAAAAAAT
1 AAAAAAAAAT
* *
1094424 AAATAAAAAC
1 AAAAAAAAAT
1094434 AAAAAA
1 AAAAAA
1094440 TATATATATA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
10 22 0.47
11 21 0.45
12 4 0.09
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:1094402 original size:21 final size:19
Alignment explanation
Indices: 1094384--1094439 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
1094374 ATAAAATAGC
1094384 AAAAAATACAAAAAAAATAA
1 AAAAAATACAAAAAAAAT-A
*
1094404 ATAAAAATATAAGAAAAAATA
1 A-AAAAATACAA-AAAAAATA
1094425 AATAAAA-ACAAAAAA
1 AA-AAAATACAAAAAA
1094440 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 15 0.48
22 7 0.23
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAAATACAAAAAAAATA
Found at i:1094409 original size:22 final size:22
Alignment explanation
Indices: 1094368--1094432 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
1094358 TTAAAAAAGG
*
1094368 AAAAAAATAAAATAGCAAAAAATACA
1 AAAAAAAT-AAATA--AAAATATA-A
1094394 AAAAAAATAAATAAAAATATAA
1 AAAAAAATAAATAAAAATATAA
*
1094416 GAAAAAATAAATAAAAA
1 AAAAAAATAAATAAAAA
1094433 CAAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.46
23 7 0.19
25 5 0.14
26 8 0.22
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (22 bp):
AAAAAAATAAATAAAAATATAA
Found at i:1094447 original size:33 final size:33
Alignment explanation
Indices: 1094384--1094445 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
1094374 ATAAAATAGC
*
1094384 AAAAAATACAAAAAAAATAAATAAAAATATAAG
1 AAAAAATACAAAAAAAACAAATAAAAATATAAG
* *
1094417 AAAAAATA-AATAAAAACAAA-AAATATATA
1 AAAAAATACAAAAAAAACAAATAAAAATATA
1094446 TATACATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 8 0.31
32 10 0.38
33 8 0.31
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (33 bp):
AAAAAATACAAAAAAAACAAATAAAAATATAAG
Found at i:1096417 original size:85 final size:85
Alignment explanation
Indices: 1096141--1096418 Score: 323
Period size: 85 Copynumber: 3.3 Consensus size: 85
1096131 ACTTTGCGGC
* * *
1096141 GAGCTGAATG-ACATCGAACTCGACATGG--TTTGTTGACAGATAACTCTTCTCACATTGAAT-T
1 GAGCTGAATGTA-ATCGAACTCGA-A-GGTCTTTGTTGACAGATAGCCCTTCTCACCTTG-ATCT
* *
1096202 ATACTGA-AAATTTGATGTACGTTT
62 ATACT-ATAAATTTGATATACCTTT
* * ** * * * *
1096226 AAGCTGAATGTAATCGAATTTAAAGGTCTTTATTGATAGTTAGCCCTTCTCACCTTGAGCTATAC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGATCTATAC
*
1096291 TGTAAATTTGATATACCTTT
66 TATAAATTTGATATACCTTT
* * *
1096311 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTAACAGATAGCCCTTCTCGCCTTGATCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGATCTATAC
1096376 TATAAATTTGATATACCTTT
66 TATAAATTTGATATACCTTT
1096396 GAGCTGAATGTAATCGAACTCGA
1 GAGCTGAATGTAATCGAACTCGA
1096419 TTATCTTTTA
Statistics
Matches: 162, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
83 2 0.01
84 2 0.01
85 157 0.97
86 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGATCTATAC
TATAAATTTGATATACCTTT
Found at i:1096870 original size:156 final size:156
Alignment explanation
Indices: 1096586--1097158 Score: 903
Period size: 156 Copynumber: 3.7 Consensus size: 156
1096576 TCCTTCGCTA
* * * * * *
1096586 TGAAGTTGAGCTTTGAATTGGATATCCTTTGTTGTGATGTTGAAATCCAATCTTGTATAAGTTGT
1 TGAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
* * * *
1096651 GTTGCTTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAGCTGAAAAGTT
66 GTTGTTTCGAGTCCAATATCATTCGCTGTGAAGTCGAAATTGACTCTGAATGAAACTGGAAAGTT
* *
1096716 ATTTGCTGACAGACGCTCCTTCGTTG
131 ATTTGCTGACAGACGCTCATTCGGTG
* * * *
1096742 TGAAGTTGAGATTTGAATTGGATATCCTTCATTGTGAAGTTGAAATTCAATCTTGTGTAAGTGGG
1 TGAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
* * *
1096807 GTTGTTTCGAGTCCAATATCATTTGCTGTGAAGTTGAAATTGACTCTGAACGAAACTGGAAAGTT
66 GTTGTTTCGAGTCCAATATCATTCGCTGTGAAGTCGAAATTGACTCTGAATGAAACTGGAAAGTT
*
1096872 GTTTGCTGACAGACGCTCATTCGGTG
131 ATTTGCTGACAGACGCTCATTCGGTG
*
1096898 TTAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
1 TGAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
* *
1096963 GTTGTTTTGAGTCCAATATCATTCGTTGTGAAGTCGAAATTGACTCTGAATGAAACTGGAAAGTT
66 GTTGTTTCGAGTCCAATATCATTCGCTGTGAAGTCGAAATTGACTCTGAATGAAACTGGAAAGTT
*
1097028 TTTTGCTGACAGACGCTCATTCGGTG
131 ATTTGCTGACAGACGCTCATTCGGTG
*
1097054 TTAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
1 TGAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
* *
1097119 GTTGTTTTGAGTCCAATATCATTCGTTGTGAAGTCGAAAT
66 GTTGTTTCGAGTCCAATATCATTCGCTGTGAAGTCGAAAT
1097159 CCAATCTTGT
Statistics
Matches: 390, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
156 390 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (156 bp):
TGAAGTTGAGCTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGG
GTTGTTTCGAGTCCAATATCATTCGCTGTGAAGTCGAAATTGACTCTGAATGAAACTGGAAAGTT
ATTTGCTGACAGACGCTCATTCGGTG
Found at i:1097148 original size:59 final size:59
Alignment explanation
Indices: 1097075--1097214 Score: 217
Period size: 59 Copynumber: 2.4 Consensus size: 59
1097065 TTTAAATTGG
** *
1097075 ATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGGGTTGTTTTGAGTCCA
1 ATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGCATTGTTTCGAGTCCA
* *
1097134 ATATCATTCGTTGTGAAGTCGAAATCCAATCTTGTGTAAGTGGCATTGTTTCGAGTCCA
1 ATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGCATTGTTTCGAGTCCA
* *
1097193 ATATCCTTCGCTGTGAAATTGA
1 ATATCCTTCGTTGTGAAGTTGA
1097215 TATTGACTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 72 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (59 bp):
ATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTGGCATTGTTTCGAGTCCA
Found at i:1098744 original size:99 final size:99
Alignment explanation
Indices: 1098572--1098773 Score: 269
Period size: 99 Copynumber: 2.0 Consensus size: 99
1098562 GGACATCTCA
* * * ** * *
1098572 ATATTATGATCACCTTTATCAGGTTAGTTGAATCTTATCCATAGAGCCGGGGCGTTTAACCAATT
1 ATATTATAATCACATTTATCAGGCTAACTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATT
1098637 GCTCTAGAGGGACAGGTCAAGCTTTATTGTATAG
66 GCTCTAGAGGGACAGGTCAAGCTTTATTGTATAG
* *
1098671 ATATTATAATCGCATTTATCAGGCTAACTGAATCTTATCCATAAAGTCGGGGCATTTAACCAATT
1 ATATTATAATCACATTTATCAGGCTAACTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATT
* * * * * *
1098736 TCTTTAGAGGTACAGTTCAAGGTTTATTGTATAT
66 GCTCTAGAGGGACAGGTCAAGCTTTATTGTATAG
1098770 ATAT
1 ATAT
1098774 AATATTATAA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (99 bp):
ATATTATAATCACATTTATCAGGCTAACTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATT
GCTCTAGAGGGACAGGTCAAGCTTTATTGTATAG
Found at i:1101803 original size:14 final size:14
Alignment explanation
Indices: 1101784--1101817 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1101774 AACCCCAACG
*
1101784 AAATAAGTAAATAA
1 AAATAAATAAATAA
1101798 AAATAAATAAATAA
1 AAATAAATAAATAA
1101812 AAATAA
1 AAATAA
1101818 CTGAATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:1101912 original size:6 final size:6
Alignment explanation
Indices: 1101901--1102010 Score: 55
Period size: 6 Copynumber: 18.3 Consensus size: 6
1101891 AATAATGAGA
* ** *
1101901 AAAAAT AAAAAT AAAACT AAAAAT -AAAAT GCAGAT -AAAAT CAAAAGA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAA-AT
* * * * * * *
1101948 AAAGAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
1101997 AATAAT AATAAT AA
1 AAAAAT AAAAAT AA
1102011 TACATGTATA
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
5 8 0.09
6 76 0.84
7 6 0.07
8 1 0.01
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:1101916 original size:12 final size:12
Alignment explanation
Indices: 1101904--1102073 Score: 91
Period size: 12 Copynumber: 14.4 Consensus size: 12
1101894 AATGAGAAAA
1101904 AATAAAAATAA-
1 AATAAAAATAAT
1101915 AACTAAAAATAA-
1 AA-TAAAAATAAT
** *
1101927 AATGCAGATAA-
1 AATAAAAATAAT
* *
1101938 AATCAAAAGAA-
1 AATAAAAATAAT
* *
1101949 AAGAATAATAAT
1 AATAAAAATAAT
*
1101961 AATAATAATAAT
1 AATAAAAATAAT
*
1101973 AATAATAATAAT
1 AATAAAAATAAT
*
1101985 AATAATAATAAT
1 AATAAAAATAAT
*
1101997 AATAATAATAAT
1 AATAAAAATAAT
* **
1102009 AATACATGT-AT
1 AATAAAAATAAT
*
1102020 AATAAAATTTAAT
1 AATAAAA-ATAAT
*
1102033 -ATAAAAATAAA
1 AATAAAAATAAT
* * *
1102044 AAGGAGAAATGAT
1 AA-TAAAAATAAT
*
1102057 AATAATAATAAT
1 AATAAAAATAAT
1102069 AATAA
1 AATAA
1102074 GATATATATA
Statistics
Matches: 124, Mismatches: 29, Indels: 11
0.76 0.18 0.07
Matches are distributed among these distances:
11 32 0.26
12 82 0.66
13 10 0.08
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:1101916 original size:38 final size:38
Alignment explanation
Indices: 1101844--1101929 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 38
1101834 AAAAAAGGTA
**
1101844 ATAAAAT-AAATAAATAAGAAACAAATAACCTAAAATCC
1 ATAAAATAAAATAAATAAGAAACAAATAAAATAAAA-CC
* *
1101882 ATAAAATAAAAT-AATGAGAAA-AAATAAAAATAAAACT
1 ATAAAATAAAATAAATAAGAAACAAAT-AAAATAAAACC
1101919 A-AAAATAAAAT
1 ATAAAATAAAAT
1101930 GCAGATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
36 10 0.24
37 6 0.14
38 22 0.52
39 4 0.10
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (38 bp):
ATAAAATAAAATAAATAAGAAACAAATAAAATAAAACC
Found at i:1101960 original size:3 final size:3
Alignment explanation
Indices: 1101952--1102073 Score: 126
Period size: 3 Copynumber: 40.7 Consensus size: 3
1101942 AAAAGAAAAG
1101952 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
1102000 AAT AAT AAT AAT ACAT GTAT AAT AA- AAT -TT AAT -AT AAA AAT AAA
1 AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1102044 AAGG AGA- AAT GAT AAT AAT AAT AAT AAT AA
1 AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AA
1102074 GATATATATA
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
2 6 0.06
3 89 0.88
4 5 0.05
5 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1103360 original size:33 final size:33
Alignment explanation
Indices: 1103318--1103401 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
1103308 AATGTAAATA
* *
1103318 TATATTATATAATATAATTTGTAATATCATAAT
1 TATATTATATAACATAATTTGTAATAACATAAT
*
1103351 TATATTATATAACATAATTTGTAATAACGTAAT
1 TATATTATATAACATAATTTGTAATAACATAAT
1103384 TATATTATATAACATAAT
1 TATATTATATAACATAAT
1103402 AATATTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (33 bp):
TATATTATATAACATAATTTGTAATAACATAAT
Found at i:1103535 original size:3 final size:3
Alignment explanation
Indices: 1103527--1103596 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
1103517 GCCCAGGTTT
* * * *
1103527 TTA TTA TTA CTA TTA CTA TTA CTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1103575 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
1103597 ATTTTCAGGT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1106027 original size:23 final size:23
Alignment explanation
Indices: 1106001--1106092 Score: 123
Period size: 23 Copynumber: 4.0 Consensus size: 23
1105991 ATCACTATAT
* *
1106001 CGTATAAATGCACCGAAGTGTCA
1 CGTAGAAATGCACCGAAGTGCCA
*
1106024 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
1106047 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
1106070 CGTA-AAATTGCACCGTAGTGCCA
1 CGTAGAAA-TGCACCGAAGTGCCA
1106093 TATAAGATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 2 0.03
23 61 0.97
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1106102 original size:23 final size:23
Alignment explanation
Indices: 1106009--1106102 Score: 111
Period size: 23 Copynumber: 4.1 Consensus size: 23
1105999 ATCGTATAAA
*
1106009 TGCACCGAAGTGTCACGT-AGAAT
1 TGCACCGAAGTGCCACGTAAG-AT
1106032 TGCACCGAAGTGCCACGT-AGAAT
1 TGCACCGAAGTGCCACGTAAG-AT
*
1106055 TGCACCGAAGTGCCACGTAAAAT
1 TGCACCGAAGTGCCACGTAAGAT
* **
1106078 TGCACCGTAGTGCCATATAAGAT
1 TGCACCGAAGTGCCACGTAAGAT
1106101 TG
1 TG
1106103 TCCCTAAGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 63 0.98
24 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAAGAT
Found at i:1107549 original size:21 final size:21
Alignment explanation
Indices: 1107525--1107580 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1107515 TTGCAGCCTT
*
1107525 GATGCATGGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
*
1107546 GATGCATCGATTCATGGCAAG
1 GATGCATCGATGCATGGCAAG
1107567 GATGCATCGATGCA
1 GATGCATCGATGCA
1107581 CTAATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:1107815 original size:30 final size:30
Alignment explanation
Indices: 1107758--1107817 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1107748 AACTTTGAAT
1107758 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
1107788 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
1107818 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:1107951 original size:21 final size:21
Alignment explanation
Indices: 1107927--1107966 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1107917 ATGTTTAATG
1107927 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
1107948 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
1107967 CCAATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:1109154 original size:19 final size:20
Alignment explanation
Indices: 1109111--1109158 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1109101 TCTAAATCCT
*
1109111 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1109131 ATTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1109150 TTTTCAAAA
1 TTTTCAAAA
1109159 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1110257 original size:18 final size:17
Alignment explanation
Indices: 1110203--1110251 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1110193 TTGGACTCCT
* *
1110203 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
1110221 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1110239 AGTGCATTCGATG
1 AGTGCA-TCGATG
1110252 TTTGAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1110339 original size:64 final size:64
Alignment explanation
Indices: 1110266--1110422 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 64
1110256 AAAACAGCCT
* *
1110266 GATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GAGTGCATC
1 GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGA-TGCATC
* ** ** * *
1110330 GATGTATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTGATGCATC
1 GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCA-TGATGCATC
1110395 GATGCATGGTATTGATGCATCGGTGCAT
1 GATGCATGG-ATTG-TGCATCGGTGCAT
1110423 TCCTTTGAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 46 0.60
65 14 0.18
66 4 0.05
67 13 0.17
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (64 bp):
GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGATGCATC
Found at i:1110344 original size:19 final size:19
Alignment explanation
Indices: 1110320--1110371 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1110310 TAATTAAATC
1110320 AGAGTGCATCGATGTATGG
1 AGAGTGCATCGATGTATGG
* *
1110339 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGTATGG
1110358 A-A-TGCATTCGATGT
1 AGAGTGCA-TCGATGT
1110372 TTCAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 18 0.64
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.27
Consensus pattern (19 bp):
AGAGTGCATCGATGTATGG
Found at i:1113042 original size:24 final size:23
Alignment explanation
Indices: 1112971--1113050 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
1112961 CATGGTCTTG
*
1112971 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* * *
1112994 TGCATCGGTG--TA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
1113015 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
1113039 TGCATCGATGCA
1 TGCATCGATGCA
1113051 TTGTTAAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
23 10 0.22
24 17 0.38
25 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:1113063 original size:44 final size:42
Alignment explanation
Indices: 1112948--1113070 Score: 104
Period size: 44 Copynumber: 2.8 Consensus size: 42
1112938 AAAACCCGAC
* * *
1112948 GGATGCATCAATGCATGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAGTGCATCGATGCACATTCAAG
* * * **
1112991 GCATGCATCGGTGTATCATG-CGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAG
*
1113036 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGATGCATTGTT-AGTGCATCGATGCA
1113071 TTAAGCACAA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
43 15 0.25
44 28 0.46
45 18 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAG
Found at i:1118189 original size:21 final size:21
Alignment explanation
Indices: 1118163--1118230 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
1118153 ATGCAATTAG
*
1118163 TGCATCGATGCATCCTTTCCA
1 TGCATCGATGCATCCTTGCCA
*
1118184 TGCATCGATACATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
1118205 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
1118225 TGCATC
1 TGCATC
1118231 AAGGCTGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 11 0.25
21 33 0.75
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:1118635 original size:34 final size:33
Alignment explanation
Indices: 1118596--1118665 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
1118586 TTTGTAAAGT
* * *
1118596 GGAAAGGTTCTAGATTAGCCCGTGTAAAAGCTAG
1 GGAAAGGTTATAGATTAACCCGTG-AAAAACTAG
*
1118630 GGAAAGGTTATAGTTTAACCCGTGAAAAACTAG
1 GGAAAGGTTATAGATTAACCCGTGAAAAACTAG
1118663 GGA
1 GGA
1118666 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.23
Consensus pattern (33 bp):
GGAAAGGTTATAGATTAACCCGTGAAAAACTAG
Found at i:1125069 original size:23 final size:23
Alignment explanation
Indices: 1125043--1125095 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1125033 CTCGTATAAA
* *
1125043 TACACTGAAATGCCACGTAGAAT
1 TACACCGAAATACCACGTAGAAT
* *
1125066 TACACCGAAGTACCGCGTAGAAT
1 TACACCGAAATACCACGTAGAAT
1125089 TACACCG
1 TACACCG
1125096 TAGTGCCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (23 bp):
TACACCGAAATACCACGTAGAAT
Found at i:1125833 original size:19 final size:19
Alignment explanation
Indices: 1125808--1125860 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
1125798 TTTTAAGGGG
1125808 GTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
*
1125827 TTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
*
1125846 GTGCATCGATACACT
1 GTGCATCGATGCACT
1125861 GATGGCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCACTACTT
Found at i:1127770 original size:81 final size:83
Alignment explanation
Indices: 1127641--1127805 Score: 289
Period size: 81 Copynumber: 2.0 Consensus size: 83
1127631 GTAAATTTGT
*
1127641 TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTGTCTAATC
1 TGTTTTAATT-AAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATC
1127706 AAACCTTAATTAAATATTA
65 AAACCTTAATTAAATATTA
1127725 TGTTTTAATT-AAATAATA-TTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATCA
1 TGTTTTAATTAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATCA
*
1127788 CACCTTAATTAAATATTA
66 AACCTTAATTAAATATTA
1127806 GTGGCGACTC
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
81 61 0.77
82 8 0.10
84 10 0.13
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (83 bp):
TGTTTTAATTAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATCA
AACCTTAATTAAATATTA
Found at i:1131472 original size:36 final size:36
Alignment explanation
Indices: 1131398--1131473 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
1131388 AACAAGTTGA
* *
1131398 AAAATTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAATTATATATTTTCTTTAAAAAATTAAAAATCAT
*
1131434 AAAATGTATATAATTTT-TTTACAAAATTAAAAAT-AT
1 AAAAT-TATAT-ATTTTCTTTAAAAAATTAAAAATCAT
1131470 AAAA
1 AAAA
1131474 AGCTTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 11 0.31
37 19 0.54
38 5 0.14
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (36 bp):
AAAATTATATATTTTCTTTAAAAAATTAAAAATCAT
Found at i:1139380 original size:70 final size:67
Alignment explanation
Indices: 1139267--1139405 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 67
1139257 CCAAAACGAC
*
1139267 GTCGTTTTGACGTCTGTTATCGATTTAATGGCTCACTGGTATAATTGAAACGAAAATCAAAGTTC
1 GTCGTTTTGACGTCTGTTATCGATTTAATGGCTCACTGATATAATTGAAACG-AAATCAAAGTTC
1139332 AGT
65 AGT
1139335 GTCGTTTTGACTCGTCTGTTATCGATTTAATGGGC-CACTGATATAATTGAAACGAAATCAAAGT
1 GTCGTTTTGA--CGTCTGTTATCGATTTAAT-GGCTCACTGATATAATTGAAACGAAATCAAAGT
1139399 TCAGT
63 TCAGT
1139404 GT
1 GT
1139406 TATAATTGAT
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
68 10 0.15
69 17 0.25
70 37 0.55
71 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (67 bp):
GTCGTTTTGACGTCTGTTATCGATTTAATGGCTCACTGATATAATTGAAACGAAATCAAAGTTCA
GT
Found at i:1140256 original size:12 final size:12
Alignment explanation
Indices: 1140236--1140286 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
1140226 AAAATCATTT
*
1140236 AAATCTATTTTA
1 AAATTTATTTTA
1140248 AAATTTATTTTA
1 AAATTTATTTTA
* ***
1140260 AAATATA-AAAA
1 AAATTTATTTTA
1140271 AAATTTATTTTA
1 AAATTTATTTTA
1140283 AAAT
1 AAAT
1140287 ATGAATTGAT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
11 7 0.24
12 22 0.76
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:1140272 original size:22 final size:22
Alignment explanation
Indices: 1140250--1140731 Score: 455
Period size: 22 Copynumber: 22.6 Consensus size: 22
1140240 CTATTTTAAA
** **
1140250 ATTTATTTTAAAATATAAAAAAA
1 ATTTATTTTAAAATAT-GGAATG
1140273 ATTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATGGAA-TG
*
1140295 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAATG
*
1140317 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAATG
* **
1140339 ATTTATTTTAAAATAT-AAAAA
1 ATTTATTTTAAAATATGGAATG
*
1140360 AATTATTTT-AAATAT-GAATG
1 ATTTATTTTAAAATATGGAATG
*
1140380 A-TTATTTT-AAATATGGAA-A
1 ATTTATTTTAAAATATGGAATG
1140399 ATTTTATTTTAAAATAT-GAATTG
1 A-TTTATTTTAAAATATGGAA-TG
**
1140422 ATTTA-TTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGAATG
**
1140443 ATTTA-TTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGAATG
* *
1140464 ATTT-TTTTAAAAAAT-GATTG
1 ATTTATTTTAAAATATGGAATG
* *
1140484 ATTTATTTT-AAATATGGATTT
1 ATTTATTTTAAAATATGGAATG
*
1140505 ATTTATTTTAAAATAT-GAA-A
1 ATTTATTTTAAAATATGGAATG
* *
1140525 AATTATTTTAAAATAT-GAATT
1 ATTTATTTTAAAATATGGAATG
*
1140546 ATTTATTTT-AAA-ATGGATTG
1 ATTTATTTTAAAATATGGAATG
**
1140566 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATGGAATG
* *
1140587 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAATG
* **
1140609 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGAATG
*
1140631 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAATG
**
1140653 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGAATG
* * *
1140675 AGTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGAATG
1140697 ATTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATGGAA-TG
1140719 ATTTATTTTAAAA
1 ATTTATTTTAAAA
1140732 AATTTATTAT
Statistics
Matches: 385, Mismatches: 55, Indels: 39
0.80 0.11 0.08
Matches are distributed among these distances:
19 16 0.04
20 56 0.15
21 114 0.30
22 180 0.47
23 19 0.05
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGAATG
Found at i:1143547 original size:37 final size:37
Alignment explanation
Indices: 1143467--1143566 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
1143457 ATTCTAGTAA
* * *
1143467 AATAAAAATTTAT-AATAATATATTTATATTTCAAATG
1 AATATAAATTCATAAATAATATATTTATATTT-AAATC
*
1143504 AATATAAATTCATAAATAATATATTTATGTTT-AATC
1 AATATAAATTCATAAATAATATATTTATATTTAAATC
1143540 AATTATAAATTTC-TAAATAATATATTT
1 AA-TATAAA-TTCATAAATAATATATTT
1143567 GTAACGGCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.09
37 31 0.55
38 20 0.36
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (37 bp):
AATATAAATTCATAAATAATATATTTATATTTAAATC
Found at i:1145449 original size:22 final size:21
Alignment explanation
Indices: 1145414--1145455 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1145404 CATAATTATT
1145414 TAAAAAATTAAATAAAAATAC
1 TAAAAAATTAAATAAAAATAC
*
1145435 TAAAAATATTTAATAAAAATA
1 TAAAAA-ATTAAATAAAAATA
1145456 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAATTAAATAAAAATAC
Found at i:1147358 original size:2 final size:2
Alignment explanation
Indices: 1147351--1147401 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1147341 GCTAAATTCC
1147351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1147393 AT AT -T AT AT
1 AT AT AT AT AT
1147402 CGATGGAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1154446 original size:29 final size:29
Alignment explanation
Indices: 1154404--1154483 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
1154394 ATTCTACAGT
1154404 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
1154433 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
1154462 GACC-AAGAAGGTCGCCATGCAC
1 GACCAAAG-AGGTCGCCATGCAC
1154484 TCGGGGCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 3 0.06
29 47 0.94
ACGTcount: A:0.31, C:0.36, G:0.25, T:0.07
Consensus pattern (29 bp):
GACCAAAGAGGTCGCCATGCACGCCCAAC
Found at i:1154576 original size:31 final size:30
Alignment explanation
Indices: 1154520--1154577 Score: 107
Period size: 31 Copynumber: 1.9 Consensus size: 30
1154510 CATGGTGTGC
1154520 ATGGGGGGGGGGAGATCGGTGCATGCACGA
1 ATGGGGGGGGGGAGATCGGTGCATGCACGA
1154550 ATGGGGGGGGGGTAGATCGGTGCATGCA
1 ATGGGGGGGGGG-AGATCGGTGCATGCA
1154578 TGGGGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.19, C:0.12, G:0.53, T:0.16
Consensus pattern (30 bp):
ATGGGGGGGGGGAGATCGGTGCATGCACGA
Found at i:1154593 original size:19 final size:20
Alignment explanation
Indices: 1154558--1154614 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
1154548 GAATGGGGGG
*
1154558 GGGGTAGATCGGTGCATGCAT
1 GGGG-AGATCAGTGCATGCAT
1154579 GGGGAGATC-GTGCATGCAT
1 GGGGAGATCAGTGCATGCAT
1154598 GGGGAGATCAGTGCATG
1 GGGGAGATCAGTGCATG
1154615 GGGAGATCGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.54
20 12 0.34
21 4 0.11
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGGAGATCAGTGCATGCAT
Found at i:1154614 original size:16 final size:18
Alignment explanation
Indices: 1154573--1154623 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
1154563 AGATCGGTGC
*
1154573 ATGCATGGGGAGATCGTG
1 ATGCATGGGGAGATCGAG
1154591 CATGCATGGGGAGATC-AG
1 -ATGCATGGGGAGATCGAG
1154609 -TGCATGGGGAGATCG
1 ATGCATGGGGAGATCG
1154624 GTGACCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.24, C:0.14, G:0.43, T:0.20
Consensus pattern (18 bp):
ATGCATGGGGAGATCGAG
Found at i:1154808 original size:65 final size:65
Alignment explanation
Indices: 1154717--1154839 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
1154707 TGCACCATGC
* * *
1154717 CCAAACTTTAACCCTATCCCTCATGCATGCGTTGCATCCATAGTTGAGAGATTCCTGCGTCGCGA
1 CCAAACTTTAACCCTATCACTCATGCATGCGTTGCATCCATAGCTGAGAGACTCCTGCGTCGCGA
* *
1154782 CCAAGCTTTAACCCTATCACTCATGCATGCGTTGCATCCATAGCTGGGAGACTCCTGC
1 CCAAACTTTAACCCTATCACTCATGCATGCGTTGCATCCATAGCTGAGAGACTCCTGC
1154840 ATCCGTAGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (65 bp):
CCAAACTTTAACCCTATCACTCATGCATGCGTTGCATCCATAGCTGAGAGACTCCTGCGTCGCGA
Found at i:1155263 original size:21 final size:21
Alignment explanation
Indices: 1155238--1155281 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1155228 AATCTAGTTA
1155238 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1155259 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1155280 AT
1 AT
1155282 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1155802 original size:17 final size:17
Alignment explanation
Indices: 1155780--1155841 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
1155770 AGATAATTTT
1155780 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
1155797 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
*
1155816 TTGTTTAAAAAAAATATTT
1 -TGTTT-AAAAAAATATTG
1155835 TGTTTAA
1 TGTTTAA
1155842 TTTATATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 12 0.33
18 6 0.17
19 7 0.19
20 6 0.17
21 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:1159128 original size:41 final size:46
Alignment explanation
Indices: 1159067--1159172 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 46
1159057 GCAGTATAAT
*
1159067 TAGTAATGATTAGTAGTAATAA-TTA-A-T-T-TTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATATTATATTTAATGATTTGA
1159108 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTA-TATT-ATATTTAATGATTTGA
1159156 TAGTAATGATTAGTAAT
1 TAGTAATGATTAGTAAT
1159173 GATTAGTAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
41 21 0.37
42 3 0.05
44 1 0.02
45 1 0.02
47 1 0.02
48 30 0.53
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (46 bp):
TAGTAATGATTAGTAATAATAATTTATATTATATTTAATGATTTGA
Found at i:1159147 original size:48 final size:48
Alignment explanation
Indices: 1159088--1159344 Score: 257
Period size: 48 Copynumber: 4.9 Consensus size: 48
1159078 AGTAGTAATA
*
1159088 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATT
1 ATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATT
1159136 ATTAATATTTAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTAATT
1 ATTAATATTTAATGATTTGATAGTAATGATTAG---T-A--A-TAATAAT--TT-ATT
*
1159194 ATTAATATTTAATGATTTGATACTAATGATTTAAAAATGATTAGTAATAATGAAATTATT
1 ATTAATATTTAATGATTTG--A-T-A-G---T---AATGATTAGTAATAAT-AATTTATT
*
1159254 ATTAATATTTAATGATTTGATAGCAATGATTAGTAATAATAATTTATT
1 ATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATT
* *
1159302 ATTAATATTTAATGATTTGATATTAATGATT--TAATAATGATTT
1 ATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTT
1159345 GATAGTAATG
Statistics
Matches: 180, Mismatches: 7, Indels: 46
0.77 0.03 0.20
Matches are distributed among these distances:
46 11 0.06
48 68 0.38
49 16 0.09
51 1 0.01
52 1 0.01
54 1 0.01
55 8 0.04
56 1 0.01
57 3 0.02
58 23 0.13
60 23 0.13
61 3 0.02
62 5 0.03
63 4 0.02
65 1 0.01
66 2 0.01
69 9 0.05
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.47
Consensus pattern (48 bp):
ATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATT
Found at i:1159171 original size:10 final size:10
Alignment explanation
Indices: 1159156--1159182 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1159146 AATGATTTGA
1159156 TAGTAATGAT
1 TAGTAATGAT
1159166 TAGTAATGAT
1 TAGTAATGAT
1159176 TAGTAAT
1 TAGTAAT
1159183 AATAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:1159273 original size:60 final size:60
Alignment explanation
Indices: 1159108--1159795 Score: 418
Period size: 60 Copynumber: 11.2 Consensus size: 60
1159098 AATGATTTGA
*
1159108 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAGTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
1159166 TAGTAATGATTAGTAATAAT--AATTAATTATTAATATTTAATGATTTGATACTAATGATT
1 TAGTAATGATTAGTAATAATGAAATT-ATTATTAATATTTAATGATTTGATAGTAATGATT
** *
1159225 TAAAAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGCAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
1159284 TAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* * * * ** * ** * *
1159333 TAATAATGATTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATG-TTTGGTTCAATTAAC
1 TAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTT-GAT--AGT-A-
1159396 CAT-ATTT
55 -ATGA-TT
* * * * * * * * * *
1159403 TCGTTACATAACTAGTAATGAAATTATAATAATGATTAGTAATT-ATGAAATT-ATTATTAAT-A
1 TAG-TA-ATGATTAGTAAT--AATGA-AATTATTATTAATATTTAATG-ATTTGA-TAGTAATGA
1159465 TT
59 TT
* * * * * * ** * * *
1159467 TAATGATTTGA-TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
1 TAGT-A-ATGATTAGTAAT-A-ATGA-AATTATTATTAAT-ATTTAATGA-T-TTGATA-GTAAT
1159531 GATTT
57 GA-TT
* *
1159536 GATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTA
1 --TAGTAATGATTAG---T-A--A-TAATGA-AA-TTATTATTAATATTTAATGATTTGATAGTA
1159601 ATGATT
55 ATGATT
* *
1159607 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
1159667 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
1159726 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
1159785 TAGTAATGATT
1 TAGTAATGATT
1159796 TGATAGTAAT
Statistics
Matches: 502, Mismatches: 69, Indels: 117
0.73 0.10 0.17
Matches are distributed among these distances:
48 32 0.06
49 3 0.01
52 8 0.02
53 2 0.00
55 1 0.00
56 1 0.00
57 9 0.02
58 85 0.17
59 55 0.11
60 125 0.25
61 8 0.02
62 8 0.02
63 23 0.05
64 11 0.02
65 12 0.02
66 5 0.01
67 10 0.02
68 5 0.01
69 21 0.04
70 10 0.02
71 12 0.02
72 13 0.03
73 10 0.02
74 4 0.01
75 17 0.03
76 11 0.02
77 1 0.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:1159327 original size:14 final size:14
Alignment explanation
Indices: 1159310--1159358 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1159300 TTATTAATAT
1159310 TTAATGATTTGATA
1 TTAATGATTTGATA
1159324 TTAATGATTT-A-A
1 TTAATGATTTGATA
1159336 -TAATGATTTGATA
1 TTAATGATTTGATA
*
1159349 GTAATGATTT
1 TTAATGATTT
1159359 ACGACTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.28
12 2 0.06
13 2 0.06
14 19 0.59
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:1159484 original size:21 final size:22
Alignment explanation
Indices: 1159455--1159558 Score: 71
Period size: 21 Copynumber: 4.9 Consensus size: 22
1159445 TTATGAAATT
*
1159455 ATTATTAATATTTAATGATTTG
1 ATTAGTAATATTTAATGATTTG
*
1159477 A-TAGTAATGATTTAAT-A-ATG
1 ATTAGTAAT-ATTTAATGATTTG
* *
1159497 ATTAGTAATAATGAA--A-TT-
1 ATTAGTAATATTTAATGATTTG
*
1159515 ATTATTAATATTTAATGATTTG
1 ATTAGTAATATTTAATGATTTG
1159537 A-TAGTAATGATTAGTAATGATT
1 ATTAGTAAT-ATT--TAATGATT
1159559 AGTAATAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
18 12 0.19
19 2 0.03
20 8 0.12
21 22 0.34
22 12 0.19
24 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
ATTAGTAATATTTAATGATTTG
Found at i:1159553 original size:10 final size:10
Alignment explanation
Indices: 1159538--1159564 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1159528 AATGATTTGA
1159538 TAGTAATGAT
1 TAGTAATGAT
1159548 TAGTAATGAT
1 TAGTAATGAT
1159558 TAGTAAT
1 TAGTAAT
1159565 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:1159584 original size:118 final size:119
Alignment explanation
Indices: 1159432--1159795 Score: 590
Period size: 118 Copynumber: 3.1 Consensus size: 119
1159422 GAAATTATAA
* * *
1159432 TAATGATTAGTAATTATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAATAATG
1 TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATG
*
1159497 ATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAG
65 ATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
*
1159551 TAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1 TAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGA
*
1159616 TTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
66 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
* * * *
1159670 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGA-TTAGTAATG
1 TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATG
*
1159734 ATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAG
65 ATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
1159788 TAATGATT
1 TAATGATT
1159796 TGATAGTAAT
Statistics
Matches: 232, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
118 141 0.61
119 57 0.25
120 34 0.15
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (119 bp):
TAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGA
TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
Found at i:1159601 original size:14 final size:14
Alignment explanation
Indices: 1159584--1159667 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 14
1159574 TTATTAATAT
1159584 TTAATGATTTGATA
1 TTAATGATTTGATA
1159598 TTAATGATTTAGTAATGA
1 TTAATGATTT-G--AT-A
* * *
1159616 TTAATAATAATGAAA
1 TTAATGAT-TTGATA
* *
1159631 TT-ATTA-TTAATA
1 TTAATGATTTGATA
1159643 TTTAATGATTTGATA
1 -TTAATGATTTGATA
1159658 TTAATGATTT
1 TTAATGATTT
1159668 AGTAATGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 26 0.49
15 9 0.17
16 1 0.02
17 2 0.04
18 9 0.17
19 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:1159631 original size:178 final size:180
Alignment explanation
Indices: 1159096--1159795 Score: 646
Period size: 178 Copynumber: 3.8 Consensus size: 180
1159086 TAATTAATTT
*
1159096 TTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTA
1 TTAATGATTTGATAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAGTA
* *
1159161 ATGATTAGTAATGATTAGTAATAATAATTAATTATTAATATTTAATGATTTGATACTAATGATTT
66 ATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTT
** *
1159226 AAAAATGATTAGTAATAATG-AA--ATTA-T--TA-TT-A--A--T-AT-
131 AGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATA
* * *
1159262 TTAATGATTTGATAGCAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTA
1 TTAATGATTTGATAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAGTA
* * * * ** * ** *
1159327 ATGATTTAATAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATG-TTTGGTTCAA
66 ATGA-TTAGTAATGATTAG-TAATAATAATTTATTA-TT-AA-TAT--TTAATGATTT-GAT--A
* * * * * * ** *
1159391 TTAACCAT-ATTTTCGTTACATAACTAGTAATGAAATTATAATAATGATTAGTAATTATGAAATT
121 TT-A--ATGA-TTTAG-TA-ATGA-T--TAAT--AATAATGA-AATTATTATTAA-TATTTAATG
*
1159455 ATTATTAATA
173 A-T-TTGATA
1159465 TTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAA
1 -TTAATGATTTG--A-T-A-G------TAATGATTAGTAATAAT-AAATTATTATTAATATTTAA
1159530 TGATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG
53 TGATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG
1159595 ATATTAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATA
118 ATATTAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATA
*
1159658 TTAATGA-TT--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGT
1 TTAATGATTTGATAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAGT
1159720 AATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATT
65 AATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATT
1159785 TAGTAATGATT
130 TAGTAATGATT
1159796 TGATAGTAAT
Statistics
Matches: 433, Mismatches: 47, Indels: 96
0.75 0.08 0.17
Matches are distributed among these distances:
166 67 0.15
167 12 0.03
168 11 0.03
169 2 0.00
170 2 0.00
171 2 0.00
172 3 0.01
173 6 0.01
175 2 0.00
176 1 0.00
177 1 0.00
178 130 0.30
179 1 0.00
180 3 0.01
181 1 0.00
183 3 0.01
184 1 0.00
185 6 0.01
186 1 0.00
187 2 0.00
189 4 0.01
190 1 0.00
191 2 0.00
192 7 0.02
193 7 0.02
194 1 0.00
195 8 0.02
196 10 0.02
197 7 0.02
199 4 0.01
201 2 0.00
202 5 0.01
203 2 0.00
204 17 0.04
205 1 0.00
206 2 0.00
207 4 0.01
208 1 0.00
209 7 0.02
210 3 0.01
211 2 0.00
212 2 0.00
213 2 0.00
214 12 0.03
215 28 0.06
216 35 0.08
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (180 bp):
TTAATGATTTGATAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAGTA
ATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTT
AGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATA
Found at i:1159681 original size:10 final size:10
Alignment explanation
Indices: 1159659--1159742 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
1159649 GATTTGATAT
1159659 TAATGATTTAG
1 TAATGA-TTAG
1159670 TAATGATTAG
1 TAATGATTAG
*
1159680 TAAT-AAT-G
1 TAATGATTAG
* * *
1159688 AAATTATTAT
1 TAATGATTAG
1159698 TAAT-ATT--
1 TAATGATTAG
1159705 TAATGATTTTATAG
1 TAATGA--TTA--G
1159719 TAATGATTAG
1 TAATGATTAG
1159729 TAATGATTAG
1 TAATGATTAG
1159739 TAAT
1 TAAT
1159743 AATAATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
7 4 0.07
8 5 0.08
9 7 0.12
10 28 0.47
11 6 0.10
12 3 0.05
14 6 0.10
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (10 bp):
TAATGATTAG
Found at i:1159779 original size:14 final size:14
Alignment explanation
Indices: 1159763--1159810 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1159753 TATTAATATT
*
1159763 TAATGATTTGATAT
1 TAATGATTTGATAG
1159777 TAATGA-TT--TAG
1 TAATGATTTGATAG
1159788 TAATGATTTGATAG
1 TAATGATTTGATAG
1159802 TAATGATTT
1 TAATGATTT
1159811 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:1160009 original size:452 final size:449
Alignment explanation
Indices: 1159097--1160178 Score: 1760
Period size: 452 Copynumber: 2.4 Consensus size: 449
1159087 AATTAATTTT
*
1159097 TAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAA
1 TAATGATTT-A-A-TAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
1159162 TGA-TTAGTAATGATTAGTAATAAT--AATTAATTATTAATATTTAATGATTTGATACTAATGAT
63 TGATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAATATTTAATGATTTGATA-TAATGAT
* *
1159224 TTAAAAATGATTAGTAATAATGAAATTATTATTAATATTTAATG----AT-T--TGA-TAGCAAT
126 TT-ATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTATATAATGATTAGTAAT
1159281 GATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTTG
190 GATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTTG
1159346 ATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACA
255 ATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACA
* * *
1159411 TAACTAGTAATGAAATTATAATAATGATTAGTAATTATGAAATTATTATTAATATTTAATGATTT
320 TAACTAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTT
1159476 GATAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
385 GATAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
*
1159541 TAATGA-TTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGA
1 TAATGATTTAATAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGA
*
1159605 TTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
66 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATA-TAATGATTTA-
1159670 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGATTAGTAATGA
129 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TTTATA-TAATGATTAGTAATGA
*
1159735 TTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGAT
192 TTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTTGAT
1159800 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
257 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
1159865 ACTAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAAT-ATTTGA
322 ACTAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTTGA
* *
1159929 TATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
387 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
*
1159992 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
1 TAATGATTTAATAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATG
1160057 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTG-----AT-A---AT
65 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATAATGATTTAT
*
1160113 AATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
130 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT-ATA-TAATGA-TTAGTAATGA
1160177 TT
192 TT
1160179 TGATAGTAAT
Statistics
Matches: 603, Mismatches: 17, Indels: 38
0.92 0.03 0.06
Matches are distributed among these distances:
440 56 0.09
441 52 0.09
442 103 0.17
443 7 0.01
444 6 0.01
446 1 0.00
447 4 0.01
449 1 0.00
451 76 0.13
452 212 0.35
453 85 0.14
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (449 bp):
TAATGATTTAATAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGA
TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATAATGATTTATA
ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTATATAATGATTAGTAATGATTAG
TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTTGATAGTA
ATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTA
GTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTTGATAGT
AATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
Found at i:1160012 original size:60 final size:60
Alignment explanation
Indices: 1159867--1160128 Score: 409
Period size: 60 Copynumber: 4.3 Consensus size: 60
1159857 GTTACATAAC
* *
1159867 TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAAT-ATTTGA
1 TAGTAATG--ATT-TAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1159929 TATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1159989 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1160049 TATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
1160109 TAATAATGATTAGTAATAAT
1 TAGTAATGATT--TAATAAT
1160129 AATTTATTAT
Statistics
Matches: 187, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
59 39 0.21
60 135 0.72
62 13 0.07
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (60 bp):
TAGTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:1160082 original size:120 final size:120
Alignment explanation
Indices: 1159867--1160128 Score: 454
Period size: 120 Copynumber: 2.2 Consensus size: 120
1159857 GTTACATAAC
1159867 TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATATTTGATAT
1 TAGTAATG--ATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATATTTGATAT
1159932 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
64 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1159989 TAGTAATGATT-TAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATT
1 TAGTAATGATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAAT-ATTTGATATT
1160053 AATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
65 AATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
1160109 TAATAATGATTAGTAATAAT
1 TAGTAATGATTA-TAATAAT
1160129 AATTTATTAT
Statistics
Matches: 134, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
119 40 0.30
120 79 0.59
122 15 0.11
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (120 bp):
TAGTAATGATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATATTTGATATTA
ATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:1160117 original size:14 final size:14
Alignment explanation
Indices: 1160098--1160193 Score: 54
Period size: 14 Copynumber: 6.6 Consensus size: 14
1160088 TATTAATATT
1160098 TAATGATTTGATAA
1 TAATGATTTGATAA
*
1160112 TAATGATTAGTAATAA
1 TAATGATT--TGATAA
* * *
1160128 TAATTTATTATTAATATT
1 TAA-TGA-T-TTGATA-A
*
1160146 TAATGATTTGATAT
1 TAATGATTTGATAA
*
1160160 TAATGA-TT--TAG
1 TAATGATTTGATAA
*
1160171 TAATGATTTGATAG
1 TAATGATTTGATAA
1160185 TAATGATTT
1 TAATGATTT
1160194 ACGACTTGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
11 8 0.12
12 2 0.03
13 2 0.03
14 27 0.40
15 5 0.07
16 9 0.13
17 9 0.13
18 4 0.06
19 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAA
Found at i:1160148 original size:48 final size:49
Alignment explanation
Indices: 1160063--1160174 Score: 190
Period size: 48 Copynumber: 2.3 Consensus size: 49
1160053 AATGATTTAG
1160063 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
* *
1160112 TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
1160160 TAATGATTTAGTAAT
1 TAATGA-TTAGTAAT
1160175 GATTTGATAG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 35 0.58
49 25 0.42
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (49 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
Found at i:1160249 original size:383 final size:389
Alignment explanation
Indices: 1159478--1160272 Score: 1405
Period size: 383 Copynumber: 2.1 Consensus size: 389
1159468 AATGATTTGA
* *
1159478 TAGTAATG--ATT-TAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATA
1 TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTTGATA
* *
1159540 GTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGA
66 GTAATGATTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
1159605 TTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
131 TTTAATAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
1159670 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGATTAGTAATGA
196 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TTTATAG-AATGA-TAGTAATGA
1159735 TTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGAT
258 TTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGAT
1159800 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
323 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
1159865 AC
388 AC
1159867 TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAAT-ATTTGATA
1 TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTTGATA
*
1159931 TTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
66 GTAATGA-TTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAGTAAT
*
1159996 GATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTT
129 GATTTAATAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTT
1160061 AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TT-T-G-AT-A-A-TAATGAT
194 AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTATAGAATGATAGTAATGAT
1160119 TAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATA
259 TAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATA
1160184 GTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAA
324 GTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAA
1160249 C
389 C
1160250 TAGTAATGAAATTATAATAATGA
1 TAGTAATGAAATTATAATAATGA
1160273 AAATAATTAT
Statistics
Matches: 394, Mismatches: 7, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
383 161 0.41
384 1 0.00
386 1 0.00
387 2 0.01
389 9 0.02
390 1 0.00
391 19 0.05
392 61 0.15
393 139 0.35
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.44
Consensus pattern (389 bp):
TAGTAATGAAATTATAATAATGATTAATAATAATGAAATTATTACTAATATTTAATGATTTGATA
GTAATGATTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAGTAATGA
TTTAATAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTATAGAATGATAGTAATGATTA
GTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGT
AATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAAC
Found at i:1162515 original size:22 final size:22
Alignment explanation
Indices: 1162490--1162539 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1162480 AAACAACTAA
*
1162490 TAACTATTCTTTAATATAACTT
1 TAACTATTCTTTAATATAACGT
1162512 TAACTATTCTTTAATATAACGT
1 TAACTATTCTTTAATATAACGT
1162534 TAACTA
1 TAACTA
1162540 ATAAACTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (22 bp):
TAACTATTCTTTAATATAACGT
Found at i:1162567 original size:22 final size:22
Alignment explanation
Indices: 1162491--1162569 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
1162481 AACAACTAAT
* *
1162491 AACTATTCTTTAATATAACTTT
1 AACTATTTTTTAATATAACTTA
*
1162513 AACTATTCTTTAATATAACGTTAACTAATA
1 AACTATT-TTTTA-AT-A---TAACT--TA
1162543 AACTATTTTTTAATATAACTTA
1 AACTATTTTTTAATATAACTTA
1162565 AACTA
1 AACTA
1162570 ATAAATGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
22 14 0.31
23 3 0.07
24 7 0.16
25 1 0.02
27 1 0.02
28 7 0.16
29 4 0.09
30 8 0.18
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (22 bp):
AACTATTTTTTAATATAACTTA
Found at i:1162582 original size:29 final size:30
Alignment explanation
Indices: 1162513--1162590 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
1162503 ATATAACTTT
*
1162513 AACTATTCTTTAATATAACGTTAACTAATA
1 AACTATTTTTTAATATAACGTTAACTAATA
1162543 AACTATTTTTTAATATAAC-TTAAACTAATA
1 AACTATTTTTTAATATAACGTT-AACTAATA
*
1162573 AA-TGATTTTTAAATATAA
1 AACT-ATTTTTTAATATAA
1162591 TTTATTACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 3 0.07
30 41 0.93
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (30 bp):
AACTATTTTTTAATATAACGTTAACTAATA
Found at i:1162935 original size:35 final size:31
Alignment explanation
Indices: 1162895--1162958 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 31
1162885 TTTATAACAA
1162895 TAAACTAATTTAAATAATTATTCTTTTATATAACT
1 TAAACTAA-TTAAATAA-T-TT-TTTTATATAACT
*
1162930 TAAACTAATTAACTAATTTTTTTATATAA
1 TAAACTAATTAAATAATTTTTTTATATAA
1162959 TATAAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.36
32 2 0.07
33 1 0.04
34 7 0.25
35 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAACTAATTAAATAATTTTTTTATATAACT
Found at i:1163311 original size:11 final size:11
Alignment explanation
Indices: 1163295--1163330 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1163285 CTGAAGGACT
1163295 GCAATAATGCA
1 GCAATAATGCA
*
1163306 GCAATAAGTGCT
1 GCAATAA-TGCA
1163318 GCAATAATGCA
1 GCAATAATGCA
1163329 GC
1 GC
1163331 TGAATTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (11 bp):
GCAATAATGCA
Found at i:1163425 original size:18 final size:18
Alignment explanation
Indices: 1163402--1163445 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
1163392 GGCGACCTAT
*
1163402 CCCATGCCCGGTGCATGG
1 CCCATGCACGGTGCATGG
1163420 CCCATGCACGGTGCATGG
1 CCCATGCACGGTGCATGG
1163438 CCCATGCA
1 CCCATGCA
1163446 TAGCACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.39, G:0.30, T:0.16
Consensus pattern (18 bp):
CCCATGCACGGTGCATGG
Found at i:1163525 original size:29 final size:29
Alignment explanation
Indices: 1163493--1163577 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
1163483 TGAAAACGTT
1163493 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
* * *
1163522 GGACACCAGGCGTGCATGGCGAGCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
* * *
1163551 GGACGTCGGGCATGCATGGCGTCCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
1163578 GATGGTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:1165371 original size:2 final size:2
Alignment explanation
Indices: 1165364--1165405 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1165354 AATTGAAAGA
1165364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1165406 TTAATAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1165700 original size:4 final size:4
Alignment explanation
Indices: 1165693--1165717 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1165683 AAACCAAACA
1165693 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1165718 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1165774 original size:16 final size:16
Alignment explanation
Indices: 1165750--1165782 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1165740 TTCATATGGC
*
1165750 TAAATAATAAAAAAAA
1 TAAAAAATAAAAAAAA
1165766 TAAAAAATAAAAAAAA
1 TAAAAAATAAAAAAAA
1165782 T
1 T
1165783 TAAACAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
TAAAAAATAAAAAAAA
Found at i:1167081 original size:3 final size:3
Alignment explanation
Indices: 1167073--1167129 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
1167063 TATATTTATT
* * * *
1167073 TAA TAA TAA GTAA TAA TAA TAT TAA TATA TTA TAT TAA TAA TAA TTA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
1167120 TAA TTA TAA T
1 TAA TAA TAA T
1167130 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:1167123 original size:25 final size:27
Alignment explanation
Indices: 1167083--1167132 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
1167073 TAATAATAAG
1167083 TAATAATAATATTAA-TAT-ATTATAT
1 TAATAATAATATTAATTATAATTATAT
1167108 TAATAATAAT-TATAATTATAATTAT
1 TAATAATAATAT-TAATTATAATTAT
1167133 GAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 3 0.14
27 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAATAATATTAATTATAATTATAT
Found at i:1167131 original size:22 final size:22
Alignment explanation
Indices: 1167086--1167127 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1167076 TAATAAGTAA
1167086 TAATAATATTAATATATTATAT
1 TAATAATATTAATATATTATAT
1167108 TAATAATAATT-ATA-ATTATA
1 TAATAAT-ATTAATATATTATA
1167128 ATTATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATATTAATATATTATAT
Found at i:1167383 original size:76 final size:76
Alignment explanation
Indices: 1167252--1168198 Score: 1732
Period size: 76 Copynumber: 12.5 Consensus size: 76
1167242 GATGGAAATG
* * * *
1167252 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1167317 CCCAAAGGCTT
66 CCCGAAGGCTT
1167328 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167393 CCCGAAGGCTT
66 CCCGAAGGCTT
1167404 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167469 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1167480 TTTGGAAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAACT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167545 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1167556 TTTGGAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167621 CCCGAAGGCTT
66 CCCGAAGGCTT
1167632 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1167697 CCTGAAGGCTT
66 CCCGAAGGCTT
1167708 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1167773 CCCGAAGACTT
66 CCCGAAGGCTT
*
1167784 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167849 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1167860 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTAAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1167925 CCCGAAGGCTT
66 CCCGAAGGCTT
1167936 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1168001 CCAGAAGGCTT
66 CCCGAAGGCTT
*
1168012 TTTGGAAACATCATGCACTGTAGGACTTACAGATGTCCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1168077 CCCGAAGGCTT
66 CCCGAAGGCTT
1168088 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1168153 CCAGAAGGCTT
66 CCCGAAGGCTT
**
1168164 TTTGGAAACATCATGCACTACAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
1168199 TGGGAAATAG
Statistics
Matches: 843, Mismatches: 28, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 843 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1168474 original size:164 final size:166
Alignment explanation
Indices: 1168201--1168523 Score: 569
Period size: 164 Copynumber: 2.0 Consensus size: 166
1168191 TACAGATGTG
*
1168201 GGAAATAGTTTACTAAGTAAAATAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTC
1 GGAAATAGTTTACTAAGTAAAATAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTC
**
1168266 TAGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
66 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
*
1168331 TTGGGTAACATGCCCCAATCTTAAGATAAGGCTGTT
131 TTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
1168367 GGAAATAGTTTACTAAGTAAAA-AACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTT-
1 GGAAATAGTTTACTAAGTAAAATAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTC
* **
1168430 TAGAAAAGATAAAATGAGAAACTATGGAAATTGTTTTCTCATTATTTTTTGAAATAACATGTTGA
66 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
1168495 TTGGGTAACATGCCCCAATCTCAAGATAA
131 TTGGGTAACATGCCCCAATCTCAAGATAA
1168524 TGCTCATTTT
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
164 88 0.59
165 40 0.27
166 22 0.15
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (166 bp):
GGAAATAGTTTACTAAGTAAAATAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTC
TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
TTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
Found at i:1169066 original size:22 final size:22
Alignment explanation
Indices: 1169041--1169117 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
1169031 AATAAAGCTT
1169041 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
1169063 TCATATTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1169085 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1169107 TCATCTATGAA
1 TCATCTTTGAA
1169118 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1170554 original size:2 final size:2
Alignment explanation
Indices: 1170547--1170587 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1170537 TGAAAGAAAA
1170547 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1170587 A
1 A
1170588 ACATATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1170892 original size:2 final size:2
Alignment explanation
Indices: 1170885--1170946 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
1170875 ATAGTATTAT
1170885 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1170927 TA TA TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1170947 CTGGCTAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1172357 original size:19 final size:21
Alignment explanation
Indices: 1172333--1172371 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1172323 TAATAAATAA
1172333 TAATAAT-ATTAT-ATTATAT
1 TAATAATAATTATAATTATAT
1172352 TAATAATAATTATAATTATA
1 TAATAATAATTATAATTATA
1172372 ATTATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATAATAATTATAATTATAT
Found at i:1172375 original size:22 final size:20
Alignment explanation
Indices: 1172329--1172375 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
1172319 TTAATAATAA
1172329 ATAA-TAATAATATTATATT
1 ATAATTAATAATATTATATT
1172348 AT-ATTAATAATAATTATAATT
1 ATAATTAATAAT-ATTAT-ATT
1172369 ATAATTA
1 ATAATTA
1172376 TGAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.38
20 5 0.21
21 5 0.21
22 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATTAATAATATTATATT
Found at i:1178482 original size:114 final size:115
Alignment explanation
Indices: 1178282--1178546 Score: 426
Period size: 114 Copynumber: 2.3 Consensus size: 115
1178272 AACTTTTAAC
* * *
1178282 AAAGTATTGATACATTTTTATAAAAAGGATCGATAGTTTCAACATATCAGGTAGCTCCTTACCGG
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAGCTCCTTACCGG
1178347 TTTTGTCATAATGAAACTGG-TTTTGTCATATTTTTACCTGTTATATTAT
66 TTTTGTCATAATGAAACTGGTTTTTGTCATATTTTTACCTGTTATATTAT
* *
1178396 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAGCTCCTTACCGG
* *
1178461 TTTTGTCATAATGAAACTGGTTTTTTTTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTGG-TTTTTGTCATATTTTTACCTGTTATATTAT
* *
1178512 AAATTATCGATACA-TTTTATATAAAGGATCGATAC
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATAC
1178547 ATTTTTATAA
Statistics
Matches: 139, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
114 80 0.58
115 19 0.14
116 40 0.29
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (115 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAGCTCCTTACCGG
TTTTGTCATAATGAAACTGGTTTTTGTCATATTTTTACCTGTTATATTAT
Found at i:1178542 original size:22 final size:23
Alignment explanation
Indices: 1178517--1178569 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
1178507 ATTGTAAATT
* *
1178517 ATCGATACA-TTTTATATAAAGG
1 ATCGATACATTTTTATAAAAAAG
1178539 ATCGATACATTTTTATAAAAAAG
1 ATCGATACATTTTTATAAAAAAG
1178562 ATCGATAC
1 ATCGATAC
1178570 TTTCAACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (23 bp):
ATCGATACATTTTTATAAAAAAG
Found at i:1178733 original size:114 final size:114
Alignment explanation
Indices: 1178533--1179026 Score: 814
Period size: 114 Copynumber: 4.4 Consensus size: 114
1178523 ACATTTTATA
* * * *
1178533 TAAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAGTTTTTTACCG
1 TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCG
1178598 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
66 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
* *
1178647 TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTATCTCTTTACTG
1 TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCG
1178712 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
66 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
*
1178761 TAAAGTATCGATACATTTTTATAAAAA-GAATCGATACTTTCAACATATTAGGTAGCTCTTTACC
1 TAAAGTATCGATACATTTTTATAAAAATG-ATCGATACTTTCAACATATCAGGTAGCTCTTTACC
* **
1178825 GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATAACG
65 GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
* * *
1178875 TAAAGTATCGATACATTTTTATAAAAATGATTGATACTTTTAACATATCAGGTAGCTTTTTACCG
1 TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCG
1178940 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
66 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
* * *
1178989 TAAAATATCGATATATTTTTAT-AAAGT-ATCGATACTTT
1 TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTT
1179027 ATAGGCGCTA
Statistics
Matches: 355, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
112 10 0.03
113 5 0.01
114 339 0.95
115 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (114 bp):
TAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCG
GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
Found at i:1179247 original size:73 final size:73
Alignment explanation
Indices: 1179107--1179351 Score: 359
Period size: 73 Copynumber: 3.3 Consensus size: 73
1179097 AACATATCCA
*
1179107 GTAAGTAGTTTAATGTAATAGGTAGCGCCTAATTTTTTTACCGTTTACATTATTAACAACCTTAA
1 GTAAGTATTTTAATGTAATAGGTAGCGCCTAATTTTTTTACCGTTTACATTATTAACAACCTT-A
1179172 AAAAAAT-G
65 AAAAAATCG
* * * *
1179180 GTACGTATTTTAATGTAATAGGTAGC-ACTAGTTTTTTTACCGTTTACATTATTAGCAACCTTCA
1 GTAAGTATTTTAATGTAATAGGTAGCGCCTAATTTTTTTACCGTTTACATTATTAACAACCTT-A
1179244 AAAAAATCG
65 AAAAAATCG
* ** * *
1179253 GTAGGCCTTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAACAACATTA
1 GTAAGTATTTTAATGTAATAGGTAGCGCCTA-ATTTTTTTACCGTTTACATTATTAACAACCTTA
1179318 AAAAAATCG
65 AAAAAATCG
1179327 GTAAGTATTTTAATGTAATAGGTAG
1 GTAAGTATTTTAATGTAATAGGTAG
1179352 TTTAAATTTT
Statistics
Matches: 153, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 41 0.27
73 48 0.31
74 35 0.23
75 29 0.19
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (73 bp):
GTAAGTATTTTAATGTAATAGGTAGCGCCTAATTTTTTTACCGTTTACATTATTAACAACCTTAA
AAAAATCG
Found at i:1179582 original size:23 final size:23
Alignment explanation
Indices: 1179556--1179615 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1179546 TAAGTAATTA
*
1179556 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTGTTATATAAGCGCT
**
1179579 ACCTATTACGTTATATAAGCGCT
1 ACCTATTTTGTTATATAAGCGCT
*
1179602 ACCTAATTTGTTAT
1 ACCTATTTTGTTAT
1179616 TATGTTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (23 bp):
ACCTATTTTGTTATATAAGCGCT
Found at i:1179712 original size:158 final size:158
Alignment explanation
Indices: 1179420--1179949 Score: 787
Period size: 158 Copynumber: 3.4 Consensus size: 158
1179410 AGTAAGTAAT
** * * * *
1179420 TACCTATTTTATTACATAAGCACTACCTAATATGTTATTATGCTTAATAATGTTTCTAGTAATTA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGTTTAATAATGTTTCCAGTAATTA
* * * *
1179485 ACCGGTTATGTTATCATTGATAACATTTTAAGCGTTTATCTAATATGTTGTAATAACAAATTAAG
66 ATCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
1179550 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * *
1179578 TACCTATTACGTTATATAAGCGCTACCTAATTTGTTATTATGTTTGATAATGTTTCCAGTAATTA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGTTTAATAATGTTTCCAGTAATTA
* * * *
1179643 ATCGGTTATGTTATCCTTGATAATATTTTAGGTGTTTACCTAATATGTTGTGATAACAAATTAAA
66 ATCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
*
1179708 TAATTAACCTATTTTATTATATAAGCAC
131 TAATTAACCTATTTTATTATATAAGCGC
** *
1179736 TATTTATTACATTATATAAGCGCTACCTAATATGTAATT-T-TCTTAATAATGTTTCCAGTAATT
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGT-TTAATAATGTTTCCAGTAATT
1179799 AATCGGTTATGTTATCCTT-AGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTA
65 AATCGGTTATGTTATCCTTGA-TAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTA
*
1179863 AGTAATTAACCTATTTTATTATATAAACGC
129 AGTAATTAACCTATTTTATTATATAAGCGC
* * * *
1179893 TTCCTATTACATTATATAAGCGCTACCTAATATGTTATTGTATTTAATAATATTTCC
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGTTTAATAATGTTTCC
1179950 GGTTAAATGA
Statistics
Matches: 333, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
156 2 0.01
157 142 0.43
158 188 0.56
159 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (158 bp):
TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGTTTAATAATGTTTCCAGTAATTA
ATCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
TAATTAACCTATTTTATTATATAAGCGC
Found at i:1179898 original size:23 final size:23
Alignment explanation
Indices: 1179871--1179921 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1179861 TAAGTAATTA
**
1179871 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
* *
1179894 TCCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAACGCT
1179917 ACCTA
1 ACCTA
1179922 ATATGTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:1181994 original size:32 final size:33
Alignment explanation
Indices: 1181922--1181996 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
1181912 TATCCGACAT
*
1181922 TAAAAACTAAACGCGATTGAATTTAAAATGAAA
1 TAAAAACTAAAAGCGATTGAATTTAAAATGAAA
*
1181955 TAAAAACTAAAAGCGTTTGAATTTAAAATG-AA
1 TAAAAACTAAAAGCGATTGAATTTAAAATGAAA
1181987 TAAAAACTAA
1 TAAAAACTAA
1181997 CTTTATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 12 0.30
33 28 0.70
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (33 bp):
TAAAAACTAAAAGCGATTGAATTTAAAATGAAA
Found at i:1185765 original size:206 final size:205
Alignment explanation
Indices: 1185354--1185766 Score: 799
Period size: 206 Copynumber: 2.0 Consensus size: 205
1185344 TTTAGTCTCT
1185354 AACTTTTACAACTTTATACTTTGATCTCCAAACTTCCAAAATTTACATTTCAATCACTAGTCTAG
1 AACTTTTACAACTTTATACTTTGATCTCCAAACTTCCAAAATTTACATTTCAATCACTAGTCTAG
1185419 AATTTGGGAGGCATAAAGTAAGTATTCTCTTTTATTTTTATTCAGGCATTTTCCTTTCGAAGTTC
66 AATTTGGGAGGCATAAAGTAAGTATTCTCTTTTATTTTTATTCAGGCATTTTCCTTTCGAAGTTC
1185484 TATTTGCTTCTGCTTTTTTGTCTATGTGTTTTTACTTAGATTGTTCAAGTTATTAGTCGTTTCAC
131 TATTTGCTTCTGCTTTTTTGTCTATGTGTTTTTACTTAGATTGTTCAAGTTATTAGTCGTTTCAC
1185549 TCAAAAAAAAA
196 TC-AAAAAAAA
1185560 AACTTTTACAACTTTATACTTTGATCTCCAAACTTCCAAAATTTACATTTCAATCACTAGTCTAG
1 AACTTTTACAACTTTATACTTTGATCTCCAAACTTCCAAAATTTACATTTCAATCACTAGTCTAG
1185625 AATTTGGGAGGCATAAAGTTAAGTATTCTCTTTTATTTTTATTCAGGCATTTTCCTTTCGAAGTT
66 AATTTGGGAGGCATAAAG-TAAGTATTCTCTTTTATTTTTATTCAGGCATTTTCCTTTCGAAGTT
1185690 CTATTTGCTTCTGCTTTTTTGTCTATGTGTTTTTTACTTAGATTGTTCAAGTTATTAGTCGTTTC
130 CTATTTGCTTCTGCTTTTTTGTCTATGTG-TTTTTACTTAGATTGTTCAAGTTATTAGTCGTTTC
1185755 ACTCAAAAAAAA
194 ACTCAAAAAAAA
1185767 CGTCTAAGGC
Statistics
Matches: 205, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
206 83 0.40
207 83 0.40
208 39 0.19
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (205 bp):
AACTTTTACAACTTTATACTTTGATCTCCAAACTTCCAAAATTTACATTTCAATCACTAGTCTAG
AATTTGGGAGGCATAAAGTAAGTATTCTCTTTTATTTTTATTCAGGCATTTTCCTTTCGAAGTTC
TATTTGCTTCTGCTTTTTTGTCTATGTGTTTTTACTTAGATTGTTCAAGTTATTAGTCGTTTCAC
TCAAAAAAAA
Found at i:1186669 original size:31 final size:30
Alignment explanation
Indices: 1186601--1186675 Score: 73
Period size: 32 Copynumber: 2.4 Consensus size: 30
1186591 GTCGTGGTCG
*
1186601 TTAAATTTATCT-AACAGTACTAAATGGTCA
1 TTAAATTTAT-TGAACAGTACTAAATAGTCA
*
1186631 TTAAAATTTATTGAACAGTTA-TAAAATAGTTA
1 TT-AAATTTATTGAACAG-TACT-AAATAGTCA
1186663 TTAAATTTTATTG
1 TTAAA-TTTATTG
1186676 TTATTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
30 3 0.08
31 17 0.45
32 18 0.47
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (30 bp):
TTAAATTTATTGAACAGTACTAAATAGTCA
Found at i:1189836 original size:14 final size:13
Alignment explanation
Indices: 1189819--1189871 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
1189809 AAAATGTTAG
1189819 ATAAAAAATATGAA
1 ATAAAAAATAT-AA
*
1189833 ATAAAAAACATAAA
1 ATAAAAAATAT-AA
*
1189847 ATAATAAAT-TAA
1 ATAAAAAATATAA
*
1189859 ATGAAAAATATAA
1 ATAAAAAATATAA
1189872 TAATAAATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 9 0.28
13 4 0.12
14 19 0.59
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (13 bp):
ATAAAAAATATAA
Found at i:1191661 original size:27 final size:28
Alignment explanation
Indices: 1191631--1191695 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
1191621 CGTTAGACAT
*
1191631 CAAACTAGAACGAAAATAA-TTAAGCAC
1 CAAACTAGAACGAAAAAAAGTTAAGCAC
1191658 CAAACTAGAACGAAAAAAAGTTAAGCAC
1 CAAACTAGAACGAAAAAAAGTTAAGCAC
*
1191686 CAAGCTAGAA
1 CAAACTAGAA
1191696 AAAAACGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.55, C:0.18, G:0.14, T:0.12
Consensus pattern (28 bp):
CAAACTAGAACGAAAAAAAGTTAAGCAC
Found at i:1193127 original size:13 final size:15
Alignment explanation
Indices: 1193109--1193141 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
1193099 AGAAAAAAAG
1193109 AAAACATG-TTA-TA
1 AAAACATGTTTATTA
1193122 AAAACATGTTTATTA
1 AAAACATGTTTATTA
1193137 AAAAC
1 AAAAC
1193142 TAAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 3 0.17
15 7 0.39
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAACATGTTTATTA
Found at i:1193484 original size:2 final size:2
Alignment explanation
Indices: 1193479--1193510 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1193469 TATAAAAATA
1193479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1193511 GTATTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1203166 original size:22 final size:21
Alignment explanation
Indices: 1203131--1203184 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
1203121 ATATAAATTT
* * *
1203131 AAAAAAT-ATTATTTTATTTA
1 AAAAAATAATAATTTAATTGA
1203151 ATAAAAATAATAATTTAATTGA
1 A-AAAAATAATAATTTAATTGA
1203173 AAGAAAATAATA
1 AA-AAAATAATA
1203185 TATGTAGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 7 0.25
22 20 0.71
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAAAATAATAATTTAATTGA
Found at i:1217189 original size:2 final size:2
Alignment explanation
Indices: 1217182--1217223 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1217172 CGTAAACTAA
* *
1217182 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1217224 CTGACTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1218754 original size:15 final size:15
Alignment explanation
Indices: 1218734--1218767 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1218724 ATATTTAGTT
*
1218734 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
1218749 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
1218764 GGGC
1 GGGC
1218768 AGGTAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.18, G:0.68, T:0.09
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:1219618 original size:17 final size:17
Alignment explanation
Indices: 1219596--1219633 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1219586 TTTAATTTTT
1219596 TTTAAACTTTTGAATTA
1 TTTAAACTTTTGAATTA
1219613 TTTAAACTTTTGAATTA
1 TTTAAACTTTTGAATTA
1219630 TTTA
1 TTTA
1219634 TTTTTCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAACTTTTGAATTA
Found at i:1219831 original size:16 final size:16
Alignment explanation
Indices: 1219810--1219843 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1219800 TGAATATCTG
1219810 ATCC-AAAATTTTGGAT
1 ATCCAAAAATTTT-GAT
1219826 ATCCAAAAATTTTGAT
1 ATCCAAAAATTTTGAT
1219842 AT
1 AT
1219844 ATGGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (16 bp):
ATCCAAAAATTTTGAT
Found at i:1220707 original size:31 final size:31
Alignment explanation
Indices: 1220670--1220729 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
1220660 ATTTTTTCTT
1220670 ATAAATAATATTCACTATTGAAGACATGGTA
1 ATAAATAATATTCACTATTGAAGACATGGTA
1220701 ATAAATAATATTCACTATTGAAGACATGG
1 ATAAATAATATTCACTATTGAAGACATGG
1220730 ACATTGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (31 bp):
ATAAATAATATTCACTATTGAAGACATGGTA
Found at i:1222155 original size:25 final size:25
Alignment explanation
Indices: 1222126--1222176 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1222116 TTGGAAATGA
*
1222126 TTTCTCTAATTTATGATATGAATAT
1 TTTCTCTAATTTATAATATGAATAT
* *
1222151 TTTCTCTTATTTATAATATGATTAT
1 TTTCTCTAATTTATAATATGAATAT
1222176 T
1 T
1222177 ACTAGATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTCTCTAATTTATAATATGAATAT
Found at i:1225080 original size:3 final size:3
Alignment explanation
Indices: 1225036--1225068 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1225026 CTGGATCTTT
1225036 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1225069 AATAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1227844 original size:10 final size:10
Alignment explanation
Indices: 1227829--1227854 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1227819 GGCGACTTCC
1227829 ATTCAATTTA
1 ATTCAATTTA
1227839 ATTCAATTTA
1 ATTCAATTTA
1227849 ATTCAA
1 ATTCAA
1227855 AATCTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTCAATTTA
Found at i:1228725 original size:17 final size:17
Alignment explanation
Indices: 1228700--1228734 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1228690 AAAAGTATGC
*
1228700 TCGGGTAGATATCATGA
1 TCGGATAGATATCATGA
1228717 TCGGATAGATATCATGA
1 TCGGATAGATATCATGA
1228734 T
1 T
1228735 TGGGTAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (17 bp):
TCGGATAGATATCATGA
Found at i:1231131 original size:17 final size:17
Alignment explanation
Indices: 1231109--1231148 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1231099 TGACAAGATT
*
1231109 GAACCCCTACAAAATAA
1 GAACCCCTACAAAACAA
1231126 GAACCCCTACAAAACAA
1 GAACCCCTACAAAACAA
1231143 GAACCC
1 GAACCC
1231149 GTAATCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.35, G:0.07, T:0.07
Consensus pattern (17 bp):
GAACCCCTACAAAACAA
Found at i:1233298 original size:30 final size:30
Alignment explanation
Indices: 1233262--1233377 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 30
1233252 TCTCTTGATA
*
1233262 CAGTTTCTCTTGAAACAAAAGTCTTTGAGT
1 CAGTTTCCCTTGAAACAAAAGTCTTTGAGT
* * *
1233292 CTGTTTCCCTTGAAACAAAGTTTTGTCTCTTTTGAGA
1 CAGTTTCCCTTGAAACAAA----AG--TC-TTTGAGT
*
1233329 CAGTTTCTCTTGAAACAAAAGTCTTTGAGT
1 CAGTTTCCCTTGAAACAAAAGTCTTTGAGT
*
1233359 CCA-TTTCCCTTAAAACAAA
1 -CAGTTTCCCTTGAAACAAA
1233378 GTTTTGTCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
30 37 0.54
31 4 0.06
33 1 0.01
34 1 0.01
36 2 0.03
37 23 0.34
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (30 bp):
CAGTTTCCCTTGAAACAAAAGTCTTTGAGT
Found at i:1233335 original size:37 final size:37
Alignment explanation
Indices: 1233285--1233414 Score: 114
Period size: 37 Copynumber: 3.7 Consensus size: 37
1233275 AACAAAAGTC
* *
1233285 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCT
1 TTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCT
* *
1233322 TTTGAGACAGTTTCTCTTGAAACAAA----AG--TC-
1 TTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCT
* *
1233352 TTTGAGTCCA-TTTCCCTTAAAACAAAGTTTTGTCTCT
1 TTTGAG-ACAGTTTCCCTTGAAACAAAGTTTTGTCTCT
* **
1233389 CTTGAGACAGTTTATCTTGAAACAAA
1 TTTGAGACAGTTTCCCTTGAAACAAA
1233415 AAAATATTTG
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
30 20 0.28
31 4 0.06
33 1 0.01
34 1 0.01
36 4 0.06
37 41 0.58
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCT
Found at i:1233355 original size:67 final size:68
Alignment explanation
Indices: 1233156--1233479 Score: 433
Period size: 67 Copynumber: 4.8 Consensus size: 68
1233146 CATTTAAGAT
* * *
1233156 TGTTTCTCTTGAAAC-AAGTTGTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAAATCTTTG
1 TGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAAAAATCTTTG
1233220 AGTC
65 AGTC
* * *
1233224 TGTTTCCCTTGAAACAAAGTTTTTTTTCTCTCTTGATACAGTTTCTCTTGAAAC-AAAAGTCTTT
1 TGTTTCCCTTGAAACAAAG--TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTT
1233288 GAGTC
64 GAGTC
* *
1233293 TGTTTCCCTTGAAACAAAGTTTTGTCTCTTTTGAGACAGTTTCTCTTGAAAC-AAAAGTCTTTGA
1 TGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTTGA
1233357 GTC
66 GTC
** * * *
1233360 CATTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGACAGTTTATCTTGAAACAAAAAAATATTTG
1 TGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAAAAATCTTTG
1233425 AGTC
65 AGTC
* *
1233429 TGTTTCCCTTGAAAC-AAGTTTTGTCTCGCTTGATAC-GATTTCTCTTGAAAC
1 TGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAAC
1233480 CATTATCCCT
Statistics
Matches: 228, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
67 93 0.41
68 45 0.20
69 61 0.27
71 29 0.13
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (68 bp):
TGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTTGA
GTC
Found at i:1233425 original size:136 final size:135
Alignment explanation
Indices: 1233156--1233479 Score: 438
Period size: 136 Copynumber: 2.4 Consensus size: 135
1233146 CATTTAAGAT
* * *
1233156 TGTTTCTCTTGAAACAAGTTGTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAAATCTTTGA
1 TGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAAAAATCTTTGA
** * * * * * *
1233221 GTCTGTTTCCCTTGAAACAAAGTTTTTTTTCTCTCTTGATACAGTTTCTCTTGAAACAAAAGTCT
65 GTCCATTTCCCTTAAAACAAAG-TTTTTGTCTCTCTTGAGACAGTTTATCTTGAAACAAAAATAT
1233286 TTGAGTC
129 TTGAGTC
* *
1233293 TGTTTCCCTTGAAACAAAGTTTTGTCTCTTTTGAGACAGTTTCTCTTGAAAC-AAAAGTCTTTGA
1 TGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTTGA
1233357 GTCCATTTCCCTTAAAACAAAG-TTTTGTCTCTCTTGAGACAGTTTATCTTGAAACAAAAAAATA
65 GTCCATTTCCCTTAAAACAAAGTTTTTGTCTCTCTTGAGACAGTTTATCTTGAAAC--AAAAATA
1233421 TTTGAGTC
128 TTTGAGTC
* *
1233429 TGTTTCCCTTGAAACAAGTTTTGTCTCGCTTGATAC-GATTTCTCTTGAAAC
1 TGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAAC
1233480 CATTATCCCT
Statistics
Matches: 167, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
134 31 0.19
135 31 0.19
136 58 0.35
137 14 0.08
138 33 0.20
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (135 bp):
TGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTTGAG
TCCATTTCCCTTAAAACAAAGTTTTTGTCTCTCTTGAGACAGTTTATCTTGAAACAAAAATATTT
GAGTC
Found at i:1233811 original size:138 final size:134
Alignment explanation
Indices: 1233484--1233850 Score: 410
Period size: 134 Copynumber: 2.7 Consensus size: 134
1233474 TGAAACCATT
* * * * *
1233484 ATCCCTAAAGATGGCCAGCCATCCTCATTACTTAGGAACCGTGTCATCCACCGACCAGATCTCCT
1 ATCCCTAAAGATGGCCAGACATCATCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCCT
* ** * **
1233549 CATCACGTAAGAGCAACGTCAACCTTAGATAACCAACCGTCTTCATCACGTAAGAACCGTGTTAT
66 CATCACGTAGGAGCCGCGTCAACCTTAGATAACCAACCATCCACATCACGTAAGAACCGTGTTAT
*
1233614 TATC
131 CATC
* * * *
1233618 ATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAACCATGGCATCCACCGACCATATCTCCT
1 ATCCCTAAAGATGGCCAGACATCATCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCCT
* * ** * *
1233683 CAATCACGTTGGAGCCGCGTCAACCTTAGATAACCAGCCATCCACATCGTGTAGGAACCTTGTTA
66 C-ATCACGTAGGAGCCGCGTCAACCTTAGATAACCAACCATCCACATCACGTAAGAACCGTGTTA
*
1233748 TCACCATT
130 T---CATC
** ** * * *
1233756 ATCCCTAAAGATGGTTAGATGTTATCATCGCGTAGGAACCGTGTCATCCATCGACCATATCTCCT
1 ATCCCTAAAGATGGCCAGACATCATCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCCT
* *
1233821 CATCAAGTAGGAGCCGCGTCACCCTTAGAT
66 CATCACGTAGGAGCCGCGTCAACCTTAGAT
1233851 GGTCAGACTT
Statistics
Matches: 196, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
134 61 0.31
135 52 0.27
137 26 0.13
138 57 0.29
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (134 bp):
ATCCCTAAAGATGGCCAGACATCATCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCCT
CATCACGTAGGAGCCGCGTCAACCTTAGATAACCAACCATCCACATCACGTAAGAACCGTGTTAT
CATC
Found at i:1235651 original size:2 final size:2
Alignment explanation
Indices: 1235644--1235683 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1235634 TCTATATCCA
1235644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1235684 GTATGTATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.