Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 40 of 204
Found at i:11571500 original size:20 final size:20
Alignment explanation
Indices: 11571467--11571506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11571457 CCAACCCTCA
*
11571467 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
11571487 AAAC-TTTTATTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
11571507 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:11581687 original size:88 final size:88
Alignment explanation
Indices: 11581574--11581748 Score: 266
Period size: 88 Copynumber: 2.0 Consensus size: 88
11581564 GTCTTTCCTT
* *
11581574 TTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAA-AGCCCTC-AAACTT
1 TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGA-CCCTCAAAAATT
11581637 CTTCAAAAAAAGCAATTAAACCCCTA
65 -TTC-AAAAAAGCAATTAAACCCCTA
*
11581663 TTTTTTCTT-CACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
1 TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
*
11581727 TCAAAAAAGCAATTAATCCCCT
66 TCAAAAAAGCAATTAAACCCCT
11581749 GCTCTTATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
87 19 0.24
88 47 0.59
89 14 0.17
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (88 bp):
TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
TCAAAAAAGCAATTAAACCCCTA
Found at i:11581779 original size:13 final size:13
Alignment explanation
Indices: 11581761--11581788 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11581751 TCTTATTAAA
11581761 AATTAGAAAAAAT
1 AATTAGAAAAAAT
11581774 AATTAGAAAAAAT
1 AATTAGAAAAAAT
11581787 AA
1 AA
11581789 AAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAGAAAAAAT
Found at i:11581809 original size:18 final size:19
Alignment explanation
Indices: 11581788--11581835 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
11581778 AGAAAAAATA
11581788 AAAAATAATAAATTTT-AG
1 AAAAATAATAAATTTTAAG
* * *
11581806 AAAATTATTAAATTTTAAT
1 AAAAATAATAAATTTTAAG
11581825 AAAAAT-ATAAA
1 AAAAATAATAAA
11581836 AAATTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAG
Found at i:11581846 original size:45 final size:44
Alignment explanation
Indices: 11581780--11581889 Score: 109
Period size: 46 Copynumber: 2.4 Consensus size: 44
11581770 AAATAATTAG
*
11581780 AAAAA-ATAAAAAA-TAATAAATT-TTAGAAAATTATTAAATTTTAAT
1 AAAAATATAAAAAATTAA-AATTTATTAG-AAATTA-T-AATTTTAAT
* * *
11581825 AAAAATATAAAAAATTAAAATTTATTAGAATTTATATTTTTTAT
1 AAAAATATAAAAAATTAAAATTTATTAGAAATTATAATTTTAAT
11581869 AAAAATCATAAAATAATTAAA
1 AAAAAT-ATAAAA-AATTAAA
11581890 GACCCCTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
44 13 0.23
45 12 0.21
46 24 0.43
47 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (44 bp):
AAAAATATAAAAAATTAAAATTTATTAGAAATTATAATTTTAAT
Found at i:11582088 original size:48 final size:48
Alignment explanation
Indices: 11582033--11582152 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 48
11582023 TTTTTTTACG
*
11582033 AAATTTATATTTCTTTAAATTTTTTATAATTTTCTTACGA-CTTTATAA
1 AAATTTATATTTCTTTATATTTTTTAT-ATTTTCTTACGATCTTTATAA
* * * *
11582081 AATTTTATATTTC--TATATATTTTATATTTTTTTACGATTTTTATAA
1 AAATTTATATTTCTTTATATTTTTTATATTTTCTTACGATCTTTATAA
* *
11582127 AAATTTACATTTTTTTATATTTTTTA
1 AAATTTATATTTCTTTATATTTTTTA
11582153 CGATTTTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
45 11 0.18
46 27 0.45
48 22 0.37
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (48 bp):
AAATTTATATTTCTTTATATTTTTTATATTTTCTTACGATCTTTATAA
Found at i:11582124 original size:19 final size:19
Alignment explanation
Indices: 11582100--11582169 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
11582090 TTTCTATATA
11582100 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACGAT
****
11582119 TTTTATAAAAATTTAC-AT
1 TTTTATATTTTTTTACGAT
*
11582137 TTTTTTATATTTTTTACGAT
1 TTTTATAT-TTTTTTACGAT
11582157 TTTTATATTTTTT
1 TTTTATATTTTTT
11582170 CTAATTATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
18 8 0.21
19 22 0.56
20 9 0.23
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAT
Found at i:11582442 original size:89 final size:88
Alignment explanation
Indices: 11582271--11582443 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 88
11582261 TAATAAAAGC
* * *
11582271 AGGGGCTTAATTGCTTTTTTTAAATAAATTGAGGGTCTTTTTTTATGCATTTTGAAAGTTCAAGT
1 AGGGGCTTAATTGCTTTTTTGAAATAAATTGAGGGTCTTTTTTGATGCATTTTAAAAGTTCAAGT
*
11582336 ACCCAATTGAGTACAAAAAAAAT
66 ACCCAAATGAGTACAAAAAAAAT
**
11582359 AGGGGCTTAATTGCTTTTATTGAAA-AGGTTTGAGGG-CTTTTTTCGATGCATTTTAAAAGTTCA
1 AGGGGCTTAATTGCTTTT-TTGAAATA-AATTGAGGGTCTTTTTT-GATGCATTTTAAAAGTTCA
* * *
11582422 AGTACTCAAATGATTGCAAAAA
63 AGTACCCAAATGAGTACAAAAA
11582444 GAAAAGAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 26 0.36
89 47 0.64
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (88 bp):
AGGGGCTTAATTGCTTTTTTGAAATAAATTGAGGGTCTTTTTTGATGCATTTTAAAAGTTCAAGT
ACCCAAATGAGTACAAAAAAAAT
Found at i:11582960 original size:8 final size:8
Alignment explanation
Indices: 11582949--11582984 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
11582939 AAAATTAGAA
11582949 AAAAATAT
1 AAAAATAT
11582957 AAAAATAGT
1 AAAAATA-T
11582966 AAAAAATAT
1 -AAAAATAT
11582975 AAAAATAT
1 AAAAATAT
11582983 AA
1 AA
11582985 TATTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:11582960 original size:18 final size:18
Alignment explanation
Indices: 11582937--11582981 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
11582927 AAAAATTTAT
11582937 TAAAAATTAGAAAAAAATA
1 TAAAAA-TAGAAAAAAATA
*
11582956 TAAAAATAGTAAAAAATA
1 TAAAAATAGAAAAAAATA
11582974 TAAAAATA
1 TAAAAATA
11582982 TAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAATAGAAAAAAATA
Found at i:11583243 original size:10 final size:10
Alignment explanation
Indices: 11583230--11583312 Score: 51
Period size: 10 Copynumber: 8.1 Consensus size: 10
11583220 TTTTCATAAA
11583230 TTTTAATTTT
1 TTTTAATTTT
*
11583240 TTTTGTATTTT
1 TTTT-AATTTT
* *
11583251 TATTAAATTT
1 TTTTAATTTT
**
11583261 TGATAATTTT
1 TTTTAATTTT
* **
11583271 TTCTAAAATT
1 TTTTAATTTT
*
11583281 TATT-ATTTT
1 TTTTAATTTT
11583290 TTTATAATTTT
1 TTT-TAATTTT
11583301 TTTCTAATTTT
1 TTT-TAATTTT
11583312 T
1 T
11583313 AATAAGAGTA
Statistics
Matches: 53, Mismatches: 17, Indels: 5
0.71 0.23 0.07
Matches are distributed among these distances:
9 5 0.09
10 24 0.45
11 24 0.45
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:11583269 original size:20 final size:18
Alignment explanation
Indices: 11583246--11583300 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
11583236 TTTTTTTTGT
11583246 ATTTTTATTAAATTTTGATA
1 ATTTTT-TTAAATTTT-ATA
* *
11583266 ATTTTTTCTAAAATTTATT
1 ATTTTTT-TAAATTTTATA
11583285 ATTTTTTTATAATTTT
1 ATTTTTTTA-AATTTT
11583301 TTTCTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 15 0.50
20 13 0.43
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTTAAATTTTATA
Found at i:11583270 original size:28 final size:28
Alignment explanation
Indices: 11583217--11583271 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11583207 GACATTATTA
**
11583217 TATTTTTCATAAATTTTAATTTTTTTTG
1 TATTTTTCATAAATTTTAATAATTTTTG
*
11583245 TATTTTT-ATTAAATTTTGATAATTTTT
1 TATTTTTCA-TAAATTTTAATAATTTTT
11583272 TCTAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTTTCATAAATTTTAATAATTTTTG
Found at i:11583283 original size:30 final size:31
Alignment explanation
Indices: 11583249--11583307 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
11583239 TTTTTGTATT
11583249 TTTATTAAATTTTGATAA-TTTTTTCTAAAA
1 TTTATTAAATTTTGATAATTTTTTTCTAAAA
** *
11583279 TTTATTATTTTTTTATAATTTTTTTCTAA
1 TTTATTAAATTTTGATAATTTTTTTCTAA
11583308 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTATTAAATTTTGATAATTTTTTTCTAAAA
Found at i:11583299 original size:11 final size:11
Alignment explanation
Indices: 11583279--11583312 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11583269 TTTTCTAAAA
*
11583279 TTTATTATTTT
1 TTTATAATTTT
11583290 TTTATAATTTT
1 TTTATAATTTT
*
11583301 TTTCTAATTTT
1 TTTATAATTTT
11583312 T
1 T
11583313 AATAAGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:11583466 original size:89 final size:89
Alignment explanation
Indices: 11583316--11583532 Score: 303
Period size: 89 Copynumber: 2.4 Consensus size: 89
11583306 AATTTTTAAT
* * * * *
11583316 AAGAGTAGGGGATTAATTGCTTTTTTGAAAAATTTTAAGGGTCTTTTTGATCCATTTTGAAAGTT
1 AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTT
11583381 CAAGTACCCAATTGAGTG-AAAAA
66 CAAGTACCCAATTGAGTGCAAAAA
* *
11583404 AAGAGAAGGGGCTTAATTGCTTTTCTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGT
1 AAGAGAAGGGGCTTAATTGCTTTT-TTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGT
* *
11583469 TCAAGTGCTCAATTGAGTGCAAAAA
65 TCAAGTACCCAATTGAGTGCAAAAA
*
11583494 AAGA-AGAGGGACTTAATTGCTTTTTTTGAAAAAGTTTAA
1 AAGAGA-AGGGGCTTAATTGC-TTTTTTGAAAAAGTTTAA
11583533 AGACTTTTTA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
88 22 0.19
89 53 0.47
90 34 0.30
91 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (89 bp):
AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTT
CAAGTACCCAATTGAGTGCAAAAA
Found at i:11589646 original size:44 final size:45
Alignment explanation
Indices: 11589548--11589660 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 45
11589538 AAGTGCTGCA
**
11589548 ATAGTATCTTTCAACTAAGGTCTTGATTCATTCACATTTAATGCC
1 ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
* * * **
11589593 ATAGCATCTTTCAACTAGGGTCTT-ACCCGTTCAGGTTTAATGCC
1 ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
*
11589637 ATAGTATCTTTCAACTATGGTCTT
1 ATAGTATCTTTCAACTAAGGTCTT
11589661 TCTCATTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.63
45 22 0.37
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (45 bp):
ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
Found at i:11589690 original size:45 final size:45
Alignment explanation
Indices: 11589548--11589708 Score: 152
Period size: 45 Copynumber: 3.6 Consensus size: 45
11589538 AAGTGCTGCA
* ** *
11589548 ATAGTATCTTTCAACTAAGGTCTTGAT-TCA-TTCACATTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTT--TCTCAGTTCAGGTATAATGCC
* * * * *
11589593 ATAGCATCTTTCAACTAGGGTCTTAC-CCGTTCAGGTTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
*
11589637 ATAGTATCTTTCAACTATGGTCTTTCTCATTTCAGGTATAATG-C
1 ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
*
11589681 ACT-GATATCTTTCAACCATGGTCTTTCT
1 A-TAG-TATCTTTCAACTATGGTCTTTCT
11589709 TGTTTCTCAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 39 0.40
45 58 0.59
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (45 bp):
ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
Found at i:11591121 original size:16 final size:16
Alignment explanation
Indices: 11591097--11591130 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11591087 AATTCTACCA
*
11591097 AACCCTAGAGTTTTCC
1 AACCCTAGAGTTTGCC
*
11591113 AACCTTAGAGTTTGCC
1 AACCCTAGAGTTTGCC
11591129 AA
1 AA
11591131 ACGGCGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (16 bp):
AACCCTAGAGTTTGCC
Found at i:11592103 original size:142 final size:141
Alignment explanation
Indices: 11591940--11592215 Score: 308
Period size: 141 Copynumber: 2.0 Consensus size: 141
11591930 TCCAGGTAAT
* * *** * *
11591940 TCCCTGTAAAACCCCAAGTTTTTGCTTTTACTAGGGAAAAGTTTAAAATTAATTCCAGAAAATGA
1 TCCCTGTAAAACCCCAAG-TTTTCCTTTTACTAGGAAAAAAAGTAAAACTAATTCCA-AAAAAGA
* * * * * *
11592005 -AGAAAATTAAAGGAAATTAAAAAGACAAAATGATTTTTCC-TATAAAGACCTAA-GCTTTTCC-
64 GAAAAAAATAAAGAAAATTAAAAAGA-AAAATGACTTTTCCACATAAAAACCTAAGGC-TTTCCA
11592066 TATAAAACAAGTTAA
127 TATAAAACAAGTTAA
* ** * *
11592081 TCCCTTGTAAAACCTCGGGTTTTCCTTTTATTAGGAAAAAAAGTAAAACTAATTCTAAAAAAGAG
1 TCCC-TGTAAAACCCCAAGTTTTCCTTTTACTAGGAAAAAAAGTAAAACTAATTCCAAAAAAGAG
*
11592146 AAAAAAATAAAGAAAATTAAAAAGATAAATGACTTTTCCACATAAAAACCTAAGGCTTTCCATAT
65 AAAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCCACATAAAAACCTAAGGCTTTCCATAT
11592211 AAAAC
130 AAAAC
11592216 TCAAGTTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
140 18 0.16
141 72 0.65
142 21 0.19
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.28
Consensus pattern (141 bp):
TCCCTGTAAAACCCCAAGTTTTCCTTTTACTAGGAAAAAAAGTAAAACTAATTCCAAAAAAGAGA
AAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCCACATAAAAACCTAAGGCTTTCCATATA
AAACAAGTTAA
Found at i:11596286 original size:46 final size:46
Alignment explanation
Indices: 11596219--11596388 Score: 216
Period size: 46 Copynumber: 3.7 Consensus size: 46
11596209 TAATATTCCT
* * * *
11596219 GTATTCTCGAGTCTGCAACATATGCAGGAACTCGGACCCTAATCAC
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* * *
11596265 GTATTCTCGAGTCTGCAACATATGCAAGAGCTTGGAACCTAATCAT
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* * *
11596311 GTATTCTCGAGTCCGTAACATATGTAGGAGCTTGGAACCTATTC-C
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* *
11596356 TGTAATCTCGAGTCCACAACATATGCAGGAGCT
1 -GTATTCTCGAGTCCGCAACATATGCAGGAGCT
11596389 CAAAACTTGG
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 108 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (46 bp):
GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
Found at i:11598321 original size:25 final size:25
Alignment explanation
Indices: 11598290--11598341 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11598280 AGACAAGGAA
*
11598290 AATGATGGGAGTGAGGAGATGGATG
1 AATGATGGGAGTGAGGAGATGAATG
11598315 AATGATGGGAGTGAGGAGATGAATG
1 AATGATGGGAGTGAGGAGATGAATG
11598340 AA
1 AA
11598342 GAGGACGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (25 bp):
AATGATGGGAGTGAGGAGATGAATG
Found at i:11599261 original size:18 final size:17
Alignment explanation
Indices: 11599222--11599263 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11599212 TACAAAATTT
11599222 TAACCCAATTAACCCAC
1 TAACCCAATTAACCCAC
11599239 T-ACCCAATTACAACCCA-
1 TAACCCAATT--AACCCAC
11599256 TAACCCAA
1 TAACCCAA
11599264 AACAGACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (17 bp):
TAACCCAATTAACCCAC
Found at i:11608405 original size:9 final size:9
Alignment explanation
Indices: 11608389--11608455 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
11608379 GTTAAATGAA
11608389 TCGAGTTAT
1 TCGAGTTAT
*
11608398 TTGAGTTAAT
1 TCGAGTT-AT
*
11608408 T-GGGTTAT
1 TCGAGTTAT
*
11608416 TCGAGTTAA
1 TCGAGTTAT
11608425 TCGAGTTAT
1 TCGAGTTAT
* *
11608434 TCAAGTTAA
1 TCGAGTTAT
11608443 TCGAGTTAT
1 TCGAGTTAT
11608452 TCGA
1 TCGA
11608456 ATCAACTCGA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 3 0.06
9 41 0.87
10 3 0.06
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11608432 original size:18 final size:18
Alignment explanation
Indices: 11608387--11608455 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
11608377 GAGTTAAATG
*
11608387 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
* *
11608405 AATTGGGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
*
11608423 AATCGAGTTATTCAAGTT
1 AATCGAGTTATTCGAGTT
11608441 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
11608456 ATCAACTCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:11608524 original size:9 final size:9
Alignment explanation
Indices: 11608509--11608545 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11608499 TAATTTTTTG
11608509 AATTCGAAT
1 AATTCGAAT
*
11608518 AACTCGAAT
1 AATTCGAAT
11608527 AATTCGAAT
1 AATTCGAAT
*
11608536 TATTCGAAT
1 AATTCGAAT
11608545 A
1 A
11608546 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11608759 original size:30 final size:31
Alignment explanation
Indices: 11608724--11608783 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11608714 AAACATTTTA
*
11608724 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
11608754 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
11608784 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:11618714 original size:17 final size:17
Alignment explanation
Indices: 11618694--11618728 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11618684 ATGCATAATC
*
11618694 ACAGTTCATTCAATATA
1 ACAGTTCATACAATATA
11618711 ACAGTTCATACAATATA
1 ACAGTTCATACAATATA
11618728 A
1 A
11618729 TAATTCATCC
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:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
ACAGTTCATACAATATA
Found at i:11618735 original size:17 final size:17
Alignment explanation
Indices: 11618698--11618736 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11618688 ATAATCACAG
* *
11618698 TTCATTCAATATAACAG
1 TTCATACAATATAACAA
*
11618715 TTCATACAATATAATAA
1 TTCATACAATATAACAA
11618732 TTCAT
1 TTCAT
11618737 CCATACCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
TTCATACAATATAACAA
Found at i:11619735 original size:28 final size:29
Alignment explanation
Indices: 11619679--11619749 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
11619669 CGTATATGCA
* *
11619679 TATATATTATATATAATCAAGACCTACACC
1 TATATATTATATATAATCAAAACCCACA-C
*
11619709 TATATATTATAT-TTA-CAAAACCCACAC
1 TATATATTATATATAATCAAAACCCACAC
11619736 -ATATATTATATATA
1 TATATATTATATATA
11619750 TACATACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.31
27 2 0.06
28 9 0.25
29 2 0.06
30 12 0.33
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (29 bp):
TATATATTATATATAATCAAAACCCACAC
Found at i:11619753 original size:28 final size:30
Alignment explanation
Indices: 11619679--11619753 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
11619669 CGTATATGCA
* *
11619679 TATATATTATATATA-ATCAAGACCTACACC
1 TATATATTATATATATA-CAAAACCCACACC
11619709 TATATATTATAT-T-TACAAAACCCACA-C
1 TATATATTATATATATACAAAACCCACACC
11619736 -ATATATTATATATATACA
1 TATATATTATATATATACA
11619754 TACCTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 11 0.28
27 2 0.05
28 13 0.32
29 2 0.05
30 12 0.30
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (30 bp):
TATATATTATATATATACAAAACCCACACC
Found at i:11623525 original size:9 final size:9
Alignment explanation
Indices: 11623503--11623547 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11623493 ACCGAAGAAA
*
11623503 CATCATCCT
1 CATCGTCCT
*
11623512 TATCGTCCT
1 CATCGTCCT
*
11623521 CATCGTCTT
1 CATCGTCCT
11623530 CATCGTCCT
1 CATCGTCCT
*
11623539 CATCATCCT
1 CATCGTCCT
11623548 TTTTGCAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.16, C:0.40, G:0.07, T:0.38
Consensus pattern (9 bp):
CATCGTCCT
Found at i:11625717 original size:12 final size:10
Alignment explanation
Indices: 11625699--11625767 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
11625689 TGTATTAAAA
11625699 TTATATA-AT
1 TTATATATAT
11625708 CTTATATATAT
1 -TTATATATAT
*
11625719 TTATATACAT
1 TTATATATAT
* *
11625729 ATATATTTAT
1 TTATATATAT
* * *
11625739 ATACAATAAAT
1 TTA-TATATAT
11625750 CTTATATATAT
1 -TTATATATAT
11625761 TTATATA
1 TTATATA
11625768 CATGTATCTA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 33 0.72
11 11 0.24
12 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATATATAT
Found at i:11625732 original size:16 final size:16
Alignment explanation
Indices: 11625711--11625757 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
11625701 ATATAATCTT
11625711 ATATATATTTATATAC
1 ATATATATTTATATAC
11625727 ATATATATTTATATAC
1 ATATATATTTATATAC
*
11625743 A-ATAAATCTTATATA
1 ATATATAT-TTATATA
11625758 TATTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATATTTATATAC
Found at i:11633821 original size:24 final size:23
Alignment explanation
Indices: 11633772--11633821 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
11633762 TACTAAGTAA
*
11633772 TATTTATTATGTAAAATATGTAT
1 TATTTATTATGTAAAATATATAT
* * *
11633795 TATTTATTTATTTAAAATTTATTT
1 TATTTA-TTATGTAAAATATATAT
11633819 TAT
1 TAT
11633822 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTATTATGTAAAATATATAT
Found at i:11634981 original size:34 final size:34
Alignment explanation
Indices: 11634938--11635006 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11634928 TTTATTTCTG
11634938 GTTTGATTACAATGATTAAAACCCAAAGCCATGT
1 GTTTGATTACAATGATTAAAACCCAAAGCCATGT
11634972 GTTTGATTACAATGATTAAAACCCAAAGCCATGT
1 GTTTGATTACAATGATTAAAACCCAAAGCCATGT
11635006 G
1 G
11635007 GTAGACTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (34 bp):
GTTTGATTACAATGATTAAAACCCAAAGCCATGT
Found at i:11635174 original size:15 final size:16
Alignment explanation
Indices: 11635148--11635177 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11635138 ATTAGTTAGT
11635148 TTTAAGTTTTGTTTTG
1 TTTAAGTTTTGTTTTG
11635164 TTTAA-TTTTGTTTT
1 TTTAAGTTTTGTTTT
11635178 ACTTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (16 bp):
TTTAAGTTTTGTTTTG
Found at i:11636618 original size:18 final size:18
Alignment explanation
Indices: 11636578--11636618 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11636568 TCGACTCAAA
11636578 TTAAA-AATATCCGGAAT
1 TTAAATAATATCCGGAAT
*
11636595 TGAAATAATATCC-GATAT
1 TTAAATAATATCCGGA-AT
11636613 TTAAAT
1 TTAAAT
11636619 TAAACTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (18 bp):
TTAAATAATATCCGGAAT
Found at i:11638141 original size:3 final size:3
Alignment explanation
Indices: 11638133--11638162 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11638123 AATCTACCCA
11638133 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11638163 GTCTCAACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:11638794 original size:15 final size:16
Alignment explanation
Indices: 11638776--11638805 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11638766 TTTAATATTA
11638776 TTAAATTTAT-TTTTG
1 TTAAATTTATATTTTG
11638791 TTAAATTTATATTTT
1 TTAAATTTATATTTT
11638806 AACAAGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTAAATTTATATTTTG
Found at i:11639405 original size:25 final size:25
Alignment explanation
Indices: 11639355--11639405 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11639345 TATTGATAAC
*
11639355 TTAATATATAGATAATATATACATT
1 TTAATATATAGATAATATATAAATT
* *
11639380 TTAATAT-TATATATTATTATAAATT
1 TTAATATATAGATAATA-TATAAATT
11639405 T
1 T
11639406 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTAATATATAGATAATATATAAATT
Found at i:11657825 original size:52 final size:51
Alignment explanation
Indices: 11657745--11657843 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 51
11657735 TCTCATCTCA
* * *
11657745 ATTTTACCCTCGTAAAATTTTGACGATTTTACCCCCGATAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTTGATG
* *
11657796 ATTTTACCCTTAGTAAAATTTTAATGATTTTACCCTAGATAAAATTTT
1 ATTTTACCC-TAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTT
11657844 AAGAAAATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 9 0.21
52 33 0.79
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.42
Consensus pattern (51 bp):
ATTTTACCCTAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTTGATG
Found at i:11657844 original size:26 final size:25
Alignment explanation
Indices: 11657745--11657845 Score: 121
Period size: 26 Copynumber: 3.9 Consensus size: 25
11657735 TCTCATCTCA
* * *
11657745 ATTTTACCCTCGTAAAATTTTGACG
1 ATTTTACCCTAGTAAAATTTTAATG
** *
11657770 ATTTTACCCCCGATAAAATTTTGATG
1 ATTTTACCCTAG-TAAAATTTTAATG
11657796 ATTTTACCCTTAGTAAAATTTTAATG
1 ATTTTACCC-TAGTAAAATTTTAATG
11657822 ATTTTACCCTAGATAAAATTTTAA
1 ATTTTACCCTAG-TAAAATTTTAA
11657846 GAAAATTCGT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
25 14 0.21
26 53 0.78
27 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTAATG
Found at i:11659709 original size:28 final size:28
Alignment explanation
Indices: 11659669--11659724 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11659659 TGAATCAAAG
*
11659669 CTGTGAAGCATATCTAGTATATATAATT
1 CTGTGAAGCATATCTACTATATATAATT
11659697 CTGTGAAGCATATCTACTATATATAATT
1 CTGTGAAGCATATCTACTATATATAATT
11659725 AACTCGAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (28 bp):
CTGTGAAGCATATCTACTATATATAATT
Found at i:11664998 original size:24 final size:24
Alignment explanation
Indices: 11664971--11665021 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
11664961 TAGAAAAGAA
*
11664971 GACTTATTCTTCCTTAACACAAGG
1 GACTCATTCTTCCTTAACACAAGG
11664995 GACTCATTCTTCCTTAACACAAGG
1 GACTCATTCTTCCTTAACACAAGG
11665019 GAC
1 GAC
11665022 GACAACCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (24 bp):
GACTCATTCTTCCTTAACACAAGG
Found at i:11667115 original size:9 final size:9
Alignment explanation
Indices: 11667101--11667144 Score: 88
Period size: 9 Copynumber: 4.9 Consensus size: 9
11667091 ATAGGTTTAA
11667101 GTTAAATTG
1 GTTAAATTG
11667110 GTTAAATTG
1 GTTAAATTG
11667119 GTTAAATTG
1 GTTAAATTG
11667128 GTTAAATTG
1 GTTAAATTG
11667137 GTTAAATT
1 GTTAAATT
11667145 TCAAGTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
GTTAAATTG
Found at i:11671018 original size:44 final size:43
Alignment explanation
Indices: 11670956--11671042 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
11670946 GCAGCCTGCT
*
11670956 TCAGTTAAAAGCATAATTGTTTTGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
*
11670999 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
1 TCAGTT-AAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
11671043 CAACAGGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 6 0.15
44 35 0.85
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (43 bp):
TCAGTTAAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
Found at i:11678336 original size:21 final size:21
Alignment explanation
Indices: 11678310--11678350 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11678300 AGACGAGCAA
* *
11678310 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11678331 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11678351 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11689879 original size:15 final size:15
Alignment explanation
Indices: 11689859--11689888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11689849 CATATTCAAA
*
11689859 CCATCATTTTACCTT
1 CCATCATTCTACCTT
11689874 CCATCATTCTACCTT
1 CCATCATTCTACCTT
11689889 ATCAAGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (15 bp):
CCATCATTCTACCTT
Found at i:11690629 original size:25 final size:25
Alignment explanation
Indices: 11690570--11690681 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 25
11690560 GTACATGTAT
* *
11690570 GCTCATATGAGCTATG-AATCGGTAT
1 GCTCATACGAGCTA-GAAATCGGTAA
* **
11690595 GTTCCCACGAGCTAGAAATCGGTAA
1 GCTCATACGAGCTAGAAATCGGTAA
11690620 GCTCATACGAGCT-GAGAATCGGTAA
1 GCTCATACGAGCTAGA-AATCGGTAA
* *
11690645 GCTC-TCATGAACTA-AAATCGGTAA
1 GCTCAT-ACGAGCTAGAAATCGGTAA
*
11690669 GCTCATACCAGCT
1 GCTCATACGAGCT
11690682 GTGGTGTATC
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
24 21 0.30
25 48 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTAGAAATCGGTAA
Found at i:11690676 original size:49 final size:51
Alignment explanation
Indices: 11690570--11690682 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 51
11690560 GTACATGTAT
* * * *
11690570 GCTCATATGAGCT-ATGAATCGGTATGTTCCCACGAGCTAGAAATCGGTAA
1 GCTCATACGAGCTGATGAATCGGTAAGCTCCCACGAACTAGAAATCGGTAA
* *
11690620 GCTCATACGAGCTGA-GAATCGGTAAGCTCTCATGAACTA-AAATCGGTAA
1 GCTCATACGAGCTGATGAATCGGTAAGCTCCCACGAACTAGAAATCGGTAA
*
11690669 GCTCATACCAGCTG
1 GCTCATACGAGCTG
11690683 TGGTGTATCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
49 23 0.42
50 31 0.56
51 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGGTAAGCTCCCACGAACTAGAAATCGGTAA
Found at i:11699476 original size:2 final size:2
Alignment explanation
Indices: 11699469--11699496 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11699459 ACATATCTAC
11699469 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11699497 TGGAAGGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11701126 original size:42 final size:42
Alignment explanation
Indices: 11701057--11701328 Score: 282
Period size: 43 Copynumber: 6.4 Consensus size: 42
11701047 ACAACGTTAA
* *
11701057 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
11701101 CTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
11701143 CTTTAGCGGCGCCTAGAAAAAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
* *
11701186 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTT
* ** * *
11701229 CTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
11701272 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
*
11701314 CTTTAGTGGCGCTTA
1 CTTTAGCGGCGCTTA
11701329 TTTCACAAAC
Statistics
Matches: 199, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
41 2 0.01
42 74 0.37
43 110 0.55
44 13 0.07
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:11701773 original size:12 final size:12
Alignment explanation
Indices: 11701758--11701805 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
11701748 GCTTCTATTA
11701758 CTGCTTCTCTCG
1 CTGCTTCTCTCG
11701770 CTGCTTCTCTCG
1 CTGCTTCTCTCG
**
11701782 CTGCGGC-CT--
1 CTGCTTCTCTCG
11701791 CTGCTTCTCTCG
1 CTGCTTCTCTCG
11701803 CTG
1 CTG
11701806 TAGCCTCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 5 0.17
10 2 0.07
11 2 0.07
12 20 0.69
ACGTcount: A:0.00, C:0.42, G:0.21, T:0.38
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:11701796 original size:21 final size:21
Alignment explanation
Indices: 11701770--11701838 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
11701760 GCTTCTCTCG
*
11701770 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
11701791 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * * *
11701812 CTGCTTCCCTTGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
11701833 CTGCTT
1 CTGCTT
11701839 TAAGTTACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:11703912 original size:40 final size:39
Alignment explanation
Indices: 11703867--11703945 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
11703857 TTGGGATTTA
* *
11703867 GGGAAATTAAATCGGGGAAACTGGGGGAATAAGAATTGGG
1 GGGAAATGAAATCGGGG-AACTGGGGGAATAAGAAATGGG
* *
11703907 GGGAAATGAAATCGGGGAATTGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAACTGGGGGAATAAGAAATGGG
11703946 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.37, C:0.05, G:0.42, T:0.16
Consensus pattern (39 bp):
GGGAAATGAAATCGGGGAACTGGGGGAATAAGAAATGGG
Found at i:11703950 original size:23 final size:24
Alignment explanation
Indices: 11703900--11703950 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
11703890 GGGGAATAAG
* *
11703900 AATTGGGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
11703924 AATT-GGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
11703947 AATT
1 AATT
11703951 AGGGAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.20
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:11704518 original size:22 final size:22
Alignment explanation
Indices: 11704484--11704536 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
11704474 ATAGGCCCCT
11704484 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
11704505 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
11704527 AACTTTAAAC
1 AACTTTAAAC
11704537 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:11704542 original size:15 final size:14
Alignment explanation
Indices: 11704497--11704573 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
11704487 TTTAACCCGT
11704497 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
11704512 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
11704527 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
11704542 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
11704556 AACCTTACACTCTA
1 AACCTTAAACTTTA
11704570 AACC
1 AACC
11704574 CATAACCTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:11704558 original size:29 final size:30
Alignment explanation
Indices: 11704500--11704574 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
11704490 AACCCGTAAC
* **
11704500 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
11704529 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* *
11704558 CCTTACACTC-TAAACCC
1 CTTTAAACTCTTAAACCC
11704575 ATAACCTTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 7 0.17
29 25 0.62
30 8 0.20
ACGTcount: A:0.39, C:0.31, G:0.01, T:0.29
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:11705821 original size:113 final size:113
Alignment explanation
Indices: 11705681--11705971 Score: 307
Period size: 113 Copynumber: 2.6 Consensus size: 113
11705671 GCATATCACA
* * *
11705681 AAGCGCCACTAAATCTAGGATAAATCAACACAAAAAACGATGCATTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAACAC-AAAAACGATGCATTTTGGTTAGGATATTTTGCG
* *
11705746 CCGC-ATATCGCAAAACGCCGCTAAGACGCTTTTGCGGCGT-TTTTTGAG
65 CCGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTT-AG
* * ** *
11705794 AAGCGCCACTAATTCTAGGATACATCAACACTAAAAACGATGCGTTTTGGTTAGGAGAAATTACG
1 AAGCGCCACTAATTCTAGGATACATCAACAC-AAAAACGATGCATTTTGGTTAGGATATTTTGCG
* * * * * * * *
11705859 GCGCGTTGTTGTAAAATGCTGCTAAGACACTTTAGCGGCGTGTTTTTTG
65 CCGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTAG
* * * * * * * *
11705908 AAGCGCCACTAATTCTTGCATACATAAAGACGAAAATGTTGCATTTTGGATAGGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAACACAAAAACGATGCATTTTGGTTAGGATATTTTGCG
11705972 GCGTGTGGTT
Statistics
Matches: 144, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
113 83 0.58
114 56 0.39
115 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (113 bp):
AAGCGCCACTAATTCTAGGATACATCAACACAAAAACGATGCATTTTGGTTAGGATATTTTGCGC
CGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTAG
Found at i:11706292 original size:6 final size:6
Alignment explanation
Indices: 11706273--11706311 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
11706263 TCTAAATTAA
* *
11706273 TTCATT TCTCATT TTCATT TTCATT TCCATT TCCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
11706312 GAAAAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTCATT
Found at i:11706309 original size:18 final size:19
Alignment explanation
Indices: 11706273--11706311 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11706263 TCTAAATTAA
*
11706273 TTCATTTCTCATTTTCATT
1 TTCATTTCTCATTTCCATT
11706292 TTCATTTC-CATTTCCATT
1 TTCATTTCTCATTTCCATT
11706310 TT
1 TT
11706312 GAAAAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCATTTCTCATTTCCATT
Found at i:11718215 original size:33 final size:34
Alignment explanation
Indices: 11718161--11718243 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
11718151 GACATAAAGC
* *
11718161 TTAAC-TTATAATTCAATAATTTAGATTTAATAG
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
11718194 TTAACTTTATAATTTAA-AATTTAGATTTAATAA
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
* *
11718227 TGAACTTCATAATTTAA
1 TTAACTTTATAATTTAA
11718244 GTATTAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 35 0.78
34 10 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
TTAACTTTATAATTTAATAATTTAGATTTAATAA
Found at i:11727388 original size:13 final size:12
Alignment explanation
Indices: 11727359--11727397 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11727349 TAATACACAC
*
11727359 AAAAAAAAAATG
1 AAAAAAAAAAAG
*
11727371 AAAAAGAAAAAG
1 AAAAAAAAAAAG
11727383 AAAAAAAAGAAAG
1 AAAAAAAA-AAAG
11727396 AA
1 AA
11727398 GAGGAGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:11728581 original size:34 final size:34
Alignment explanation
Indices: 11728526--11728619 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 34
11728516 CAAAAACTAC
*
11728526 GAGCTCACCAA-ATGTGCGAGCTCGCCAA-ATGTGG
1 GAGCTCACCAAGATGT-CGAGCTCACCAACAT-TGG
*
11728560 GAGCTCACCAAGATCGT-GAGCTCACCAACATTGT
1 GAGCTCACCAAGAT-GTCGAGCTCACCAACATTGG
* *
11728594 GAGCTTACCAAGCATG-AGAGCTCACC
1 GAGCTCACCAAG-ATGTCGAGCTCACC
11728620 TGTGAGCTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
34 44 0.85
35 6 0.12
36 2 0.04
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (34 bp):
GAGCTCACCAAGATGTCGAGCTCACCAACATTGG
Found at i:11728595 original size:17 final size:16
Alignment explanation
Indices: 11728526--11728604 Score: 77
Period size: 17 Copynumber: 4.7 Consensus size: 16
11728516 CAAAAACTAC
*
11728526 GAGCTCACCAAATGTGC
1 GAGCTCACCAAAT-TGT
* *
11728543 GAGCTCGCCAAATGTGG
1 GAGCTCACCAAAT-TGT
*
11728560 GAGCTCACCAAGATCGT
1 GAGCTCACCAA-ATTGT
11728577 GAGCTCACCAACATTGT
1 GAGCTCACCAA-ATTGT
*
11728594 GAGCTTACCAA
1 GAGCTCACCAA
11728605 GCATGAGAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
17 51 0.96
18 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (16 bp):
GAGCTCACCAAATTGT
Found at i:11731962 original size:40 final size:40
Alignment explanation
Indices: 11731914--11732499 Score: 955
Period size: 40 Copynumber: 14.7 Consensus size: 40
11731904 GCAAACACCT
* * *
11731914 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11731954 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11731994 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11732034 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11732074 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11732114 TTGCCTTCGGGTCTTAG-CCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11732153 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11732193 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11732233 TTGCCTTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCC-TTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11732274 -TGCC-TCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
11732312 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCAT-A
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11732351 TTGCCTTCGGGTCTTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTC-TTAGCCCGGATATATCAACTCGCATAA
*
11732392 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11732432 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11732472 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
11732500 TCCAATGCTC
Statistics
Matches: 509, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
38 33 0.06
39 55 0.11
40 375 0.74
41 46 0.09
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:11732347 original size:199 final size:200
Alignment explanation
Indices: 11731914--11732500 Score: 1011
Period size: 199 Copynumber: 2.9 Consensus size: 200
11731904 GCAAACACCT
* *
11731914 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
* * *
11731979 TATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAATTGCCTTCGG
66 TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
* * *
11732044 GTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCG
131 GTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCG
11732109 CATAA
196 CATAA
*
11732114 TTGCCTTCGGGTCTTAG-CCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
11732178 TATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTTCG
66 TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCC-TTCG
11732243 GGTCTTAGCCCGGATATATCAACTCGCATAA-TGCC-TCGGGTCTTAGCCCGGATATATTAACTC
130 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTC
11732306 GCATAA
195 GCATAA
*
11732312 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCAT-ATTGCCTTCGGGTCTTTAGCCCGGAT
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTC-TTAGCCCGGAT
* *
11732376 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCG
65 ATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCG
11732441 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATT
130 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATT
11732501 CCAATGCTCA
Statistics
Matches: 367, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
198 98 0.27
199 196 0.53
200 73 0.20
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (200 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
GTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCG
CATAA
Found at i:11739677 original size:40 final size:40
Alignment explanation
Indices: 11739629--11740216 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
11739619 GCAAACACCT
* * *
11739629 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11739669 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11739709 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11739749 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11739789 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11739829 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11739869 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
11739909 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11739949 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11739989 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
11740029 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11740069 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11740109 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11740149 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11740189 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
11740217 TCCAATGCTC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:11745824 original size:17 final size:18
Alignment explanation
Indices: 11745802--11745949 Score: 77
Period size: 17 Copynumber: 8.8 Consensus size: 18
11745792 AACTGCGAAC
* *
11745802 TGCGAGCTCCCCAAATG-
1 TGCGAGCTCACCAAAAGA
11745819 TGCGAGCTCACCAAAAGA
1 TGCGAGCTCACCAAAAGA
*
11745837 TGCGAGCTCACC--ATGA
1 TGCGAGCTCACCAAAAGA
* *
11745853 CTACGAGCTCACC-AGA-A
1 -TGCGAGCTCACCAAAAGA
* *
11745870 T---AACTCACCAAAAAA
1 TGCGAGCTCACCAAAAGA
** *
11745885 TATGAGCTCACCAAATG-
1 TGCGAGCTCACCAAAAGA
11745902 TGCGAGCTCACC--AAGA
1 TGCGAGCTCACCAAAAGA
* * *
11745918 TCGCGAGCTTACCAACA-C
1 T-GCGAGCTCACCAAAAGA
11745936 TGCGAGCTCACCAA
1 TGCGAGCTCACCAA
11745950 GCATGAGAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 4 0.04
16 5 0.05
17 59 0.58
18 23 0.23
19 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.16
Consensus pattern (18 bp):
TGCGAGCTCACCAAAAGA
Found at i:11749322 original size:34 final size:34
Alignment explanation
Indices: 11749279--11749346 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11749269 AAATGGTTGT
11749279 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
11749313 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
11749347 CAACGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (34 bp):
GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
Found at i:11758219 original size:23 final size:23
Alignment explanation
Indices: 11758183--11758226 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11758173 AAAGGGACGT
*
11758183 TATGCATGTGTTTTTGAATGAAA
1 TATGCATGTGTTTTTAAATGAAA
11758206 TATG-ATGTGTTTTTTAAATGA
1 TATGCATGTG-TTTTTAAATGA
11758227 TTGTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (23 bp):
TATGCATGTGTTTTTAAATGAAA
Found at i:11760278 original size:19 final size:19
Alignment explanation
Indices: 11760236--11760276 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11760226 AGAAAAAGTC
11760236 AAAAGTAAGAACGAGAAGA
1 AAAAGTAAGAACGAGAAGA
11760255 AAAAGTACAGAAC-A-AAGA
1 AAAAGTA-AGAACGAGAAGA
11760273 AAAA
1 AAAA
11760277 AGCATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGTAAGAACGAGAAGA
Found at i:11760321 original size:23 final size:24
Alignment explanation
Indices: 11760292--11760340 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11760282 TGTGACTGAG
*
11760292 AAAAAAGT-A-AAAAGTCAAGTGAA
1 AAAAAAGTCATAAAAGT-AAGAGAA
11760315 AAAAAAGTCATAAAAGTAAGAGAA
1 AAAAAAGTCATAAAAGTAAGAGAA
11760339 AA
1 AA
11760341 CTCAGTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 9 0.39
25 6 0.26
ACGTcount: A:0.67, C:0.04, G:0.16, T:0.12
Consensus pattern (24 bp):
AAAAAAGTCATAAAAGTAAGAGAA
Found at i:11777838 original size:44 final size:45
Alignment explanation
Indices: 11777746--11777862 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 45
11777736 TTTTAATCCG
* * * * *
11777746 CTCCAGTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTTTTTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGGTTGCTTTTATCTA
*
11777790 CTCCACTGCAACTTCAGAGAGATAAGATCT-G-TGCTTTTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGGTTGCTTTT-ATCTA
* **
11777834 CTCCACTACTGCTT-AGGGAGATAAGATCT
1 CTCCACTGCAACTTCAGGGAGATAAGATCT
11777863 ACAATCTTCG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 20 0.33
44 40 0.66
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGGTTGCTTTTATCTA
Found at i:11777856 original size:43 final size:42
Alignment explanation
Indices: 11777808--11778073 Score: 168
Period size: 43 Copynumber: 6.2 Consensus size: 42
11777798 CAACTTCAGA
*
11777808 GAGATAAGATCTGTGCTTTTGATCTACTCCACTACTGCTTAGG
1 GAGATAAGAT-TGTGCTTTCGATCTACTCCACTACTGCTTAGG
* * * * * *
11777851 GAGATAAGA-TCTACAATCTTCGACCTACTCCGCTGCTGCTCAGG
1 GAGATAAGATTGTGC--T-TTCGATCTACTCCACTACTGCTTAGG
* * *
11777895 GAGATAAG--GGTGCTTTCGATCTGCTCCATTACTG-TGTAGG
1 GAGATAAGATTGTGCTTTCGATCTACTCCACTACTGCT-TAGG
* * * * * *
11777935 GAGATAAGA-TCTACAATCTTCAACCTACTCCGCTGCTG-TTCAGG
1 GAGATAAGATTGTGC--T-TTCGATCTACTCCACTACTGCTT-AGG
* * *
11777979 GAGATAAGGTTGGTGCTTTCGATCTGCTCCACTACTGCTTAGA
1 GAGATAAGATT-GTGCTTTCGATCTACTCCACTACTGCTTAGG
* * * *
11778022 GAGATAAGATTGGTTTCTTTTG-TCTGCTTCACTACTGCTTAGG
1 GAGATAAGATT-G-TGCTTTCGATCTACTCCACTACTGCTTAGG
11778065 GAGATAAGA
1 GAGATAAGA
11778074 CTTGATGCGA
Statistics
Matches: 171, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
39 1 0.01
40 26 0.15
41 6 0.04
43 71 0.42
44 64 0.37
45 1 0.01
46 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
GAGATAAGATTGTGCTTTCGATCTACTCCACTACTGCTTAGG
Found at i:11777879 original size:44 final size:43
Alignment explanation
Indices: 11777831--11777986 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 43
11777821 TGCTTTTGAT
11777831 CTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
1 CTACTCCACTACTG-TTAGGGAGATAAGATCTACAATCTTCGAC
* * * ** * *
11777875 CTACTCCGCTGCTGCTCAGGGAGATAAG-GGTGC--T-TTCGAT
1 CTACTCCACTACTG-TTAGGGAGATAAGATCTACAATCTTCGAC
* * *
11777915 CTGCTCCATTACTGTGTAGGGAGATAAGATCTACAATCTTCAAC
1 CTACTCCACTACTGT-TAGGGAGATAAGATCTACAATCTTCGAC
* *
11777959 CTACTCCGCTGCTGTTCAGGGAGATAAG
1 CTACTCCACTACTGTT-AGGGAGATAAG
11777987 GTTGGTGCTT
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
39 1 0.01
40 26 0.31
41 3 0.04
43 4 0.05
44 51 0.60
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (43 bp):
CTACTCCACTACTGTTAGGGAGATAAGATCTACAATCTTCGAC
Found at i:11777922 original size:84 final size:86
Alignment explanation
Indices: 11777820--11778031 Score: 331
Period size: 84 Copynumber: 2.5 Consensus size: 86
11777810 GATAAGATCT
* * *
11777820 GTGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
11777885 GCTGCTCAGGGAGATAA-G-G
66 GCTGCTCAGGGAGATAAGGTG
*
11777904 GTGCTTTCGATCTGCTCCATTACTG-TGTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGC
1 GTGCTTTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGC
*
11777968 TGCTGTTCAGGGAGATAAGGTTG
65 TGCTGCTCAGGGAGATAAGG-TG
*
11777991 GTGCTTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGAT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
11778032 TGGTTTCTTT
Statistics
Matches: 116, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
83 1 0.01
84 75 0.65
85 1 0.01
87 38 0.33
88 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (86 bp):
GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
GCTGCTCAGGGAGATAAGGTG
Found at i:11797418 original size:21 final size:21
Alignment explanation
Indices: 11797394--11797456 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
11797384 AGGCCTTATT
*
11797394 AAATACCACAGAGGCTAACAA
1 AAATACCACAAAGGCTAACAA
*
11797415 AAATACCACAAAGGCCATATC-A
1 AAATACCACAAAGG-C-TAACAA
*
11797437 AAATACCACATAGGCTAACA
1 AAATACCACAAAGGCTAACA
11797457 GAATGTCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 15 0.43
23 3 0.09
ACGTcount: A:0.51, C:0.25, G:0.11, T:0.13
Consensus pattern (21 bp):
AAATACCACAAAGGCTAACAA
Found at i:11797424 original size:42 final size:43
Alignment explanation
Indices: 11797366--11797484 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
11797356 CGCCATAAAA
* * *
11797366 GCTAAC-AAAATGCCACAAAGGCCTTAT-TAAATACCACAGAG
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
*
11797407 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACATAG
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
* **
11797450 GCTAAC-AGAATGTCACAAAGGCCATATCAAAATAC
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATAC
11797485 TCTATAAAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 6 0.09
42 45 0.65
43 18 0.26
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (43 bp):
GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
Found at i:11797827 original size:67 final size:67
Alignment explanation
Indices: 11797719--11797853 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
11797709 AATTCGTGTT
11797719 TAATGTCTCGACGGACTTCATCATATACCACCGCATCGACCAAACTCACAACTCAACCTCTCAAC
1 TAATGTCTCGACGGACTTCATCATATACCACCGCATCGACCAAACTCACAACTCAACCTCTCAAC
11797784 AC
66 AC
*
11797786 TAATGTCTCGACGGACTTCATCATATACCACTGCATCGACCAAACTCACAACTCAACCTCTCAAC
1 TAATGTCTCGACGGACTTCATCATATACCACCGCATCGACCAAACTCACAACTCAACCTCTCAAC
11797851 AC
66 AC
11797853 T
1 T
11797854 CAGAGACACT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (67 bp):
TAATGTCTCGACGGACTTCATCATATACCACCGCATCGACCAAACTCACAACTCAACCTCTCAAC
AC
Found at i:11801044 original size:13 final size:13
Alignment explanation
Indices: 11801026--11801051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11801016 CGTGTAGGGT
11801026 TGGCATTTCCACA
1 TGGCATTTCCACA
11801039 TGGCATTTCCACA
1 TGGCATTTCCACA
11801052 CGCCTCGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
TGGCATTTCCACA
Found at i:11802858 original size:13 final size:13
Alignment explanation
Indices: 11802840--11802885 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11802830 TCTGATACTC
*
11802840 TGTTTTCAAGATA
1 TGTTTTAAAGATA
* * *
11802853 TGTTTTTAGGTTA
1 TGTTTTAAAGATA
11802866 TGTTTTAAAGATA
1 TGTTTTAAAGATA
11802879 TGTTTTA
1 TGTTTTA
11802886 CACGTGCTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.54
Consensus pattern (13 bp):
TGTTTTAAAGATA
Found at i:11810007 original size:656 final size:658
Alignment explanation
Indices: 11809017--11810337 Score: 2202
Period size: 656 Copynumber: 2.0 Consensus size: 658
11809007 TTTCTTGATG
* * *
11809017 ACGTCCATCTAAGTCAACCAGAAACTACTCTATATTTGAACTATGTTTCTTATTTTGATAAGGTT
1 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTGATAAGGTT
* * * *
11809082 ATGATTAAGAATTATAGGCTTGGACACCCTAATATTTACTATTTAGACTTTTGTTACCTAATTTA
66 ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
*
11809147 TTTAAGAATAAAAATCCTTCATATTACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTCATT
131 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
* *
11809212 CTTTCTACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTAATTCATAGCGATGTTTGGGGAC
196 CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTAATTCATAGCGATGTATGGGGAC
* *
11809277 ATTCAATAATCTCAAATTTTTTAGGCAAATGTTGGCTTGTCACATTTATTGATGATCATACTCAC
261 ATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCAC
* *
11809342 ATTTATTAAG-TGTTTTACTAAAAGATAAGTCTGAAGTT-AAATTGTGTTTTAATCGTTTTATGC
326 ATTTATTAAGTTGTTTTACTAAAAGATAAGTCTG-AGTTAAAAATGTGTTTCAATCGTTTTATGC
** *
11809405 CACGAAGGAAACACAATTTGGTGTGAAAATCAAAATATTTTGGAGTGATAATAGAGAGGAATTTT
390 CACGAAGGAAACACAATTTGGAATGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTT
*
11809470 TTTGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGCATAAAT
455 TTTGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGCACAAAT
*
11809535 ACACCACAACAAAATGGAATTGCAGAAAGGAAAAATCGC-CA-TATTTTGGAAACAACTAGAGCC
520 ACACCACAACAAAATGGAATTACAGAAAGGAAAAA-C-CACAGTATTTTGGAAACAACTAGAGCC
* *
11809598 TTAATGTTCACTAGTCATGTACCATATTATCTTTGGGGAGAGGC-TTTTTTAACGGCCACATATA
583 TTAATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACATATA
11809662 TTATTAATAGA
648 TTATTAATAGA
*
11809673 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTCTGTTTCTTATATTGATAAGGTT
1 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTGATAAGGTT
* * *
11809738 ATGATTAAGAATTATAGGCTTGGAAACCCTAATTTTTAGTATTTAGGCATTTGCTACCTAATCTA
66 ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
11809803 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
131 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
*
11809868 CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTAATTCATAGTGATGTATGGGGAC
196 CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTAATTCATAGCGATGTATGGGGAC
*
11809933 ATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATTATACTCAC
261 ATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCAC
* * * *
11809998 ATTTATTAAGTTTTTTTATTAAAAGATAAGTCTGAGTTAAAAATGTGTTTCAATCTTTTTATGCT
326 ATTTATTAAGTTGTTTTACTAAAAGATAAGTCTGAGTTAAAAATGTGTTTCAATCGTTTTATGCC
* * *
11810063 ATGGAGGAAACACAATTTGGAATGAAAATCAAAATATTTTGGAGTGACAATAGAGGGGAATTTTT
391 ACGAAGGAAACACAATTTGGAATGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTTT
* * *
11810128 TTGTAACCAATTAGGAATTTTCTTAATCAAACATGGAATAGTCCATCAAAGCTCTTGTACAAATA
456 TTGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGCACAAATA
**
11810193 CACCACAACAAAATGGAATTACAGAAAGGAAAAACCACAGTATTTTGGAAGTAACTAGAGCCTTA
521 CACCACAACAAAATGGAATTACAGAAAGGAAAAACCACAGTATTTTGGAAACAACTAGAGCCTTA
* * *
11810258 ATGTTCACTAGTCAGGTACCATGTTATCTTTGGGGAGAGGCTTTTTTTAACAGCTACATATCTTA
586 ATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACATATATTA
11810323 TTAATAGA
651 TTAATAGA
11810331 ACGTCCA
1 ACGTCCA
11810338 GTAAGATTAT
Statistics
Matches: 618, Mismatches: 42, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
655 1 0.00
656 324 0.52
657 258 0.42
658 35 0.06
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (658 bp):
ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTGATAAGGTT
ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTAATTCATAGCGATGTATGGGGAC
ATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCAC
ATTTATTAAGTTGTTTTACTAAAAGATAAGTCTGAGTTAAAAATGTGTTTCAATCGTTTTATGCC
ACGAAGGAAACACAATTTGGAATGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTTT
TTGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGCACAAATA
CACCACAACAAAATGGAATTACAGAAAGGAAAAACCACAGTATTTTGGAAACAACTAGAGCCTTA
ATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACATATATTA
TTAATAGA
Found at i:11813305 original size:20 final size:20
Alignment explanation
Indices: 11813280--11813319 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11813270 GCAATTATAC
11813280 CAAATCAATT-CATATTTCAT
1 CAAATC-ATTCCATATTTCAT
11813300 CAAATCATTCCATATTTCAT
1 CAAATCATTCCATATTTCAT
11813320 TTCAATCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATCATTCCATATTTCAT
Found at i:11813640 original size:42 final size:42
Alignment explanation
Indices: 11813553--11813743 Score: 118
Period size: 42 Copynumber: 4.5 Consensus size: 42
11813543 AATTATGCCA
* ** * * * *
11813553 GCACATAAGTGCATCATCGGACGTATCAAAAAAAATATA-TCG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACT-G
*
11813595 GCACATAAGTGCATGATTGGATATACCAAAGATATTATACTG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
** * ** **
11813637 GCACGCGAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTG
1 GCAC-ATAAGTGCATCATTGGATATACCAAAGAT-ATTATACTG
* *** *
11813680 GCACGTAAGTGCATCATCAAATATACCGAAA-ATATTATACTA
1 GCACATAAGTGCATCATTGGATATACC-AAAGATATTATACTG
* *
11813722 GCACACACAGTGCATCAATGGA
1 GCACATA-AGTGCATCATTGGA
11813744 CAAACTGAAG
Statistics
Matches: 110, Mismatches: 33, Indels: 11
0.71 0.21 0.07
Matches are distributed among these distances:
42 64 0.58
43 46 0.42
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (42 bp):
GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
Found at i:11813657 original size:43 final size:42
Alignment explanation
Indices: 11813601--11813743 Score: 119
Period size: 43 Copynumber: 3.4 Consensus size: 42
11813591 ATCGGCACAT
*
11813601 AAGTGCATGATTGGATATACCAAAGATATTATACTGGCACGC
1 AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
* ** ** *
11813643 GAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTGGCACGT
1 -AAGTGCATCATTGGATATACCAAAGAT-ATTATACTGGCACGC
*** * *
11813686 AAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC
1 AAGTGCATCATTGGATATACC-AAAGATATTATACTGGCACGC
*
11813728 ACAGTGCATCAATGGA
1 A-AGTGCATCATTGGA
11813744 CAAACTGAAG
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
42 28 0.38
43 46 0.62
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
Found at i:11813689 original size:85 final size:85
Alignment explanation
Indices: 11813594--11813755 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
11813584 AAAATATATC
* *** * * *
11813594 GGCACATAAGTGCATGATTGGATATACC-AAAGATATTATACTGGCACGCGA-AGTGCATCATTG
1 GGCACATAAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC-ACAGTGCATCAATG
*
11813657 GATAAACTGAAGTAATTATGTT
64 GACAAACTGAAGTAATTATGTT
*
11813679 GGCACGTAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
1 GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
11813744 CAAACTGAAGTA
66 CAAACTGAAGTA
11813756 TAGCTTATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.94
86 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (85 bp):
GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
CAAACTGAAGTAATTATGTT
Found at i:11815307 original size:85 final size:85
Alignment explanation
Indices: 11815187--11815471 Score: 401
Period size: 85 Copynumber: 3.4 Consensus size: 85
11815177 TTATTAACTC
* * * * * *
11815187 TAAAGATGGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGGGGTTGCCATCTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11815252 ATTCCCTGTATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * * *
11815272 TAAAGGTGGTTGCTAAGTGTTGGTTCCATCATATCTTTGATTGTGAAAGGGGTTTCTATGTGATG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11815337 ATTCCCCATATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * *
11815357 TAAAGGTGGTTGCTAAGTATTGATTCCGCCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11815422 ATTCCCCGTATCGCTGAAT-
66 ATTCCCCGTATCACTGAATA
* *
11815441 TTAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCG
11815472 AGTAACGGAT
Statistics
Matches: 175, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
84 27 0.15
85 148 0.85
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
ATTCCCCGTATCACTGAATA
Found at i:11815413 original size:43 final size:42
Alignment explanation
Indices: 11815194--11815463 Score: 208
Period size: 43 Copynumber: 6.4 Consensus size: 42
11815184 CTCTAAAGAT
* *
11815194 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGTTGA-TTCCCCGTATCTTTGATTGTGAAAGG
* ** * * ** * *
11815237 GGTTGCCATCTGCTGATTCCCTGTATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
* * *
11815278 TGGTTGCTAAGTGTTGGTTCCATCATATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* * * * ** * *
11815322 GGTTTCTATGTGATGATTCCCCATATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
*
11815363 TGGTTGCTAAGTATTGATTCCGCCGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* **
11815407 GGTTGCTATGTGTTGATTCCCCGTATCGCTGAATT-T--AAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTG-ATTGTGAAAGG
11815447 TGGTTGCTAAGTGTTGA
1 -GGTTGCTAAGTGTTGA
11815464 ATCCACCGAG
Statistics
Matches: 175, Mismatches: 44, Indels: 18
0.74 0.19 0.08
Matches are distributed among these distances:
40 4 0.02
41 25 0.14
42 66 0.38
43 70 0.40
44 10 0.06
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
Found at i:11818161 original size:20 final size:20
Alignment explanation
Indices: 11818136--11818175 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11818126 GCAATTATAC
11818136 CAAATCAATT-CATATTTCAT
1 CAAATC-ATTCCATATTTCAT
11818156 CAAATCATTCCATATTTCAT
1 CAAATCATTCCATATTTCAT
11818176 TTCAATCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATCATTCCATATTTCAT
Found at i:11818496 original size:42 final size:42
Alignment explanation
Indices: 11818409--11818599 Score: 118
Period size: 42 Copynumber: 4.5 Consensus size: 42
11818399 AATTATGCCA
* ** * * * *
11818409 GCACATAAGTGCATCATCGGACGTATCAAAAAAAATATA-TCG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACT-G
*
11818451 GCACATAAGTGCATGATTGGATATACCAAAGATATTATACTG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
** * ** **
11818493 GCACGCGAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTG
1 GCAC-ATAAGTGCATCATTGGATATACCAAAGAT-ATTATACTG
* *** *
11818536 GCACGTAAGTGCATCATCAAATATACCGAAA-ATATTATACTA
1 GCACATAAGTGCATCATTGGATATACC-AAAGATATTATACTG
* *
11818578 GCACACACAGTGCATCAATGGA
1 GCACATA-AGTGCATCATTGGA
11818600 CAAACTGAAG
Statistics
Matches: 110, Mismatches: 33, Indels: 11
0.71 0.21 0.07
Matches are distributed among these distances:
42 64 0.58
43 46 0.42
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (42 bp):
GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
Found at i:11818513 original size:43 final size:42
Alignment explanation
Indices: 11818457--11818599 Score: 119
Period size: 43 Copynumber: 3.4 Consensus size: 42
11818447 ATCGGCACAT
*
11818457 AAGTGCATGATTGGATATACCAAAGATATTATACTGGCACGC
1 AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
* ** ** *
11818499 GAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTGGCACGT
1 -AAGTGCATCATTGGATATACCAAAGAT-ATTATACTGGCACGC
*** * *
11818542 AAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC
1 AAGTGCATCATTGGATATACC-AAAGATATTATACTGGCACGC
*
11818584 ACAGTGCATCAATGGA
1 A-AGTGCATCATTGGA
11818600 CAAACTGAAG
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
42 28 0.38
43 46 0.62
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
Found at i:11818545 original size:85 final size:85
Alignment explanation
Indices: 11818450--11818611 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
11818440 AAAATATATC
* *** * * *
11818450 GGCACATAAGTGCATGATTGGATATACC-AAAGATATTATACTGGCACGCGA-AGTGCATCATTG
1 GGCACATAAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC-ACAGTGCATCAATG
*
11818513 GATAAACTGAAGTAATTATGTT
64 GACAAACTGAAGTAATTATGTT
*
11818535 GGCACGTAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
1 GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
11818600 CAAACTGAAGTA
66 CAAACTGAAGTA
11818612 TAGCTTATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.94
86 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (85 bp):
GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACACAGTGCATCAATGGA
CAAACTGAAGTAATTATGTT
Found at i:11820163 original size:85 final size:85
Alignment explanation
Indices: 11820043--11820327 Score: 401
Period size: 85 Copynumber: 3.4 Consensus size: 85
11820033 TTATTAACTC
* * * * * *
11820043 TAAAGATGGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGGGGTTGCCATCTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11820108 ATTCCCTGTATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * * *
11820128 TAAAGGTGGTTGCTAAGTGTTGGTTCCATCATATCTTTGATTGTGAAAGGGGTTTCTATGTGATG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11820193 ATTCCCCATATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * *
11820213 TAAAGGTGGTTGCTAAGTATTGATTCCGCCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
*
11820278 ATTCCCCGTATCGCTGAAT-
66 ATTCCCCGTATCACTGAATA
* *
11820297 TTAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCG
11820328 AGTAACGGAT
Statistics
Matches: 175, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
84 27 0.15
85 148 0.85
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGATG
ATTCCCCGTATCACTGAATA
Found at i:11820269 original size:43 final size:42
Alignment explanation
Indices: 11820050--11820319 Score: 208
Period size: 43 Copynumber: 6.4 Consensus size: 42
11820040 CTCTAAAGAT
* *
11820050 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGTTGA-TTCCCCGTATCTTTGATTGTGAAAGG
* ** * * ** * *
11820093 GGTTGCCATCTGCTGATTCCCTGTATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
* * *
11820134 TGGTTGCTAAGTGTTGGTTCCATCATATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* * * * ** * *
11820178 GGTTTCTATGTGATGATTCCCCATATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
*
11820219 TGGTTGCTAAGTATTGATTCCGCCGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* **
11820263 GGTTGCTATGTGTTGATTCCCCGTATCGCTGAATT-T--AAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTG-ATTGTGAAAGG
11820303 TGGTTGCTAAGTGTTGA
1 -GGTTGCTAAGTGTTGA
11820320 ATCCACCGAG
Statistics
Matches: 175, Mismatches: 44, Indels: 18
0.74 0.19 0.08
Matches are distributed among these distances:
40 4 0.02
41 25 0.14
42 66 0.38
43 70 0.40
44 10 0.06
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
Found at i:11831161 original size:214 final size:214
Alignment explanation
Indices: 11830766--11831190 Score: 495
Period size: 214 Copynumber: 2.0 Consensus size: 214
11830756 ATTATGATGT
** * *
11830766 TAGGAACTGCTCCTATCTCAAGTGCCCCTTAAAGAGTAGCCCCAGTAGAGTTGAAGTAGTTGAAA
1 TAGGAACAACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCAGTAGAGTTGAAGTAGTTAAAA
* * * * * * * *
11830831 ACTCAGCTACAATAACTATTGGACAAGGGTTTCATCAGACCAAGTGTTTCACTTTGGGGTGCGCC
66 ACTAAACTACAAGAACTATTGGAAAAGGGTTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
* * * *
11830896 AATACTATTCATTAAAAAGAATGATGGGACTCTTTGGTTATGTATTGATTACAAG-AAGCTAAA-
131 AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAA-ATAAAC
*
11830959 ATAGGTAACCATAAAGAATGC
195 A-AGGTAACCACAAAGAATGC
* *
11830980 TAGGAACAACTCCTATCTCAAGTGCGCCTTATAA-AATAGCCCTAGTAGAGTTGAA-TGAGTTAA
1 TAGGAACAACTCCTATCTCAAGTGCCCCTTA-AAGAATAGCCCCAGTAGAGTTGAAGT-AGTTAA
* * *
11831043 AAACTAAACTATAAGAACTGTTGGATAAAGGG-TTCATTAGACCAAATGTTTCACCTTAGGGTGC
64 AAACTAAACTACAAGAACTATTGGA-AAAGGGTTTCATCAGACCAAATGTTTCACCTTAGGGTGC
* * ** *
11831107 ACCAATGCTGTTTGTTAAGAAGAAGGATAGGAC-CTTTCGG-TAGTGTACTGATTACAAGCAAAT
128 ACCAATACTATTCATTAAAAAGAAGGATAGGACTCTTT-GGTTA-TGTACTGATTACAAGCAAAT
11831170 AAACAAGGTAACCACAAAGAA
191 AAACAAGGTAACCACAAAGAA
11831191 CAAGTATCTG
Statistics
Matches: 177, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
213 7 0.04
214 160 0.90
215 10 0.06
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (214 bp):
TAGGAACAACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCAGTAGAGTTGAAGTAGTTAAAA
ACTAAACTACAAGAACTATTGGAAAAGGGTTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAAATAAACA
AGGTAACCACAAAGAATGC
Found at i:11836955 original size:27 final size:27
Alignment explanation
Indices: 11836925--11837000 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
11836915 AAGATAGTGA
* *
11836925 ATCATTGCTTTGAGTAAGGCCCCACAG
1 ATCATTACTTTGAGCAAGGCCCCACAG
*
11836952 ATCATTACTTTGGGCAAGGCCCCACAG
1 ATCATTACTTTGAGCAAGGCCCCACAG
* *
11836979 ATCATTACTTTAAGCAATGCCC
1 ATCATTACTTTGAGCAAGGCCC
11837001 AGCAGATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (27 bp):
ATCATTACTTTGAGCAAGGCCCCACAG
Found at i:11841085 original size:14 final size:14
Alignment explanation
Indices: 11841066--11841097 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11841056 TATACGTGCA
*
11841066 TGTGGCCTAGTAAT
1 TGTGGCCAAGTAAT
11841080 TGTGGCCAAGTAAT
1 TGTGGCCAAGTAAT
11841094 TGTG
1 TGTG
11841098 ACCCTTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (14 bp):
TGTGGCCAAGTAAT
Found at i:11854284 original size:20 final size:20
Alignment explanation
Indices: 11854259--11854301 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11854249 ATTAGAATAT
11854259 ATAAAAAAGTAAAAATAAAG
1 ATAAAAAAGTAAAAATAAAG
11854279 ATAAAAAAGTAAAAATAAAG
1 ATAAAAAAGTAAAAATAAAG
11854299 ATA
1 ATA
11854302 TCTGTCCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
ATAAAAAAGTAAAAATAAAG
Found at i:11858992 original size:4 final size:4
Alignment explanation
Indices: 11858983--11859008 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11858973 AAAAAAGAAG
11858983 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
11859009 TGTTATGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:11861012 original size:20 final size:20
Alignment explanation
Indices: 11860987--11861026 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11860977 TTAATATGAA
* *
11860987 ATTCTTTTATTTAGTATTTT
1 ATTCTTCTATTTAATATTTT
11861007 ATTCTTCTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
11861027 TTTACTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:11871390 original size:16 final size:16
Alignment explanation
Indices: 11871369--11871399 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11871359 TTGGTCCTTT
11871369 CCCTCTGTCTTTTGGC
1 CCCTCTGTCTTTTGGC
11871385 CCCTCTGTCTTTTGG
1 CCCTCTGTCTTTTGG
11871400 TCAAAAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.35, G:0.19, T:0.45
Consensus pattern (16 bp):
CCCTCTGTCTTTTGGC
Found at i:11872661 original size:22 final size:19
Alignment explanation
Indices: 11872636--11872677 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
11872626 TGATAATCAT
11872636 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
11872658 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
11872677 T
1 T
11872678 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:11873420 original size:8 final size:8
Alignment explanation
Indices: 11873407--11873444 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
11873397 AATTTTAATT
11873407 TTATTTAA
1 TTATTTAA
11873415 TTATTTAA
1 TTATTTAA
11873423 TTATTTAA
1 TTATTTAA
*
11873431 TTTATTGAA
1 -TTATTTAA
11873440 TTATT
1 TTATT
11873445 AATATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (8 bp):
TTATTTAA
Found at i:11873434 original size:25 final size:24
Alignment explanation
Indices: 11873400--11873451 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
11873390 TCTCCTAAAT
*
11873400 TTTAATTTTATTTAATTATTTAATTA
1 TTTAATTTTATTGAATTA-TTAA-TA
11873426 TTTAA-TTTATTGAATTATTAATA
1 TTTAATTTTATTGAATTATTAATA
11873449 TTT
1 TTT
11873452 TATACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 11 0.44
26 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTAATTTTATTGAATTATTAATA
Found at i:11873447 original size:16 final size:17
Alignment explanation
Indices: 11873407--11873444 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11873397 AATTTTAATT
*
11873407 TTATTTAA-TTATTTAA
1 TTATTTAATTTATTGAA
11873423 TTATTTAATTTATTGAA
1 TTATTTAATTTATTGAA
11873440 TTATT
1 TTATT
11873445 AATATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATTTAATTTATTGAA
Found at i:11898700 original size:57 final size:59
Alignment explanation
Indices: 11898579--11898701 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 59
11898569 TAGAAATTGA
*
11898579 GAAAATGGATAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
* *
11898638 CAAAATGGAGAAAT-GG-AAACATTTGGAAATG-AATGTGGTTTTC-CCTAAAATGAAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCC-AAAACG-AAAT
11898695 GAAAATG
1 GAAAATG
11898702 ACTTAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 2 0.03
56 17 0.29
57 25 0.43
58 2 0.03
59 12 0.21
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (59 bp):
GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
Found at i:11899688 original size:5 final size:5
Alignment explanation
Indices: 11899680--11899710 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
11899670 AGGTTTAGTT
*
11899680 TTCTC TTCTC TTCTC TTCTT TTCTC TTCTC T
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC T
11899711 ATAGATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:11909204 original size:13 final size:13
Alignment explanation
Indices: 11909186--11909210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11909176 AGAAAGGTGA
11909186 TTAGGTTTCAATC
1 TTAGGTTTCAATC
11909199 TTAGGTTTCAAT
1 TTAGGTTTCAAT
11909211 TTAAGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTAGGTTTCAATC
Found at i:11910545 original size:23 final size:23
Alignment explanation
Indices: 11910514--11910600 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
11910504 ATTCTCTATG
* *
11910514 AAGCATATGTGGCGTATTTTGTA
1 AAGCCTATGTGGCGTATTCTGTA
* *
11910537 AAGTCTATGTGGCATATTCTGCT-
1 AAGCCTATGTGGCGTATTCTG-TA
* *
11910560 AAGCCTGTGTGGCGTATTCTATA
1 AAGCCTATGTGGCGTATTCTGTA
11910583 AAGCCTATGTGGCGTATT
1 AAGCCTATGTGGCGTATT
11910601 TCGTAAGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 1 0.02
23 51 0.96
24 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (23 bp):
AAGCCTATGTGGCGTATTCTGTA
Found at i:11916206 original size:18 final size:18
Alignment explanation
Indices: 11916185--11916219 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11916175 ATAATTTTAC
*
11916185 TGAAATCAAAATAAAATA
1 TGAAATCAAAACAAAATA
11916203 TGAAATCAAAACAAAAT
1 TGAAATCAAAACAAAAT
11916220 TAAGTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (18 bp):
TGAAATCAAAACAAAATA
Found at i:11917239 original size:12 final size:12
Alignment explanation
Indices: 11917222--11917251 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11917212 TCAAGCTGTT
11917222 ACACGGCCTAGC
1 ACACGGCCTAGC
*
11917234 ACACGGCCTGGC
1 ACACGGCCTAGC
11917246 ACACGG
1 ACACGG
11917252 GCGTGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:11920817 original size:77 final size:77
Alignment explanation
Indices: 11920732--11920894 Score: 310
Period size: 77 Copynumber: 2.1 Consensus size: 77
11920722 TCAAAACCTA
11920732 AAACCTTAAACACTAACTTTTAAACCTTAAATTCTCAAAACTTAAAATCTTTTGTCCTAAATCTT
1 AAACCTTAAACACTAACTTTTAAACCTTAAATTCTCAAAACTTAAAATCTTTTGTCCTAAATCTT
11920797 AAACCATACATT
66 AAACCATACATT
11920809 AAACCTTAAACACTAACTTTTAAACCTTAAATTCTCAAAACTTAAAATCTTTTGTCCTAAATCTT
1 AAACCTTAAACACTAACTTTTAAACCTTAAATTCTCAAAACTTAAAATCTTTTGTCCTAAATCTT
11920874 AAACCATACATT
66 AAACCATACATT
*
11920886 -CACCTTAAA
1 AAACCTTAAA
11920895 TCTTTAAGGT
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 8 0.09
77 77 0.91
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (77 bp):
AAACCTTAAACACTAACTTTTAAACCTTAAATTCTCAAAACTTAAAATCTTTTGTCCTAAATCTT
AAACCATACATT
Found at i:11927641 original size:15 final size:15
Alignment explanation
Indices: 11927603--11927642 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
11927593 AGAAGAAAAT
*
11927603 GAAAGAAAACAGAGA
1 GAAAGAAAGCAGAGA
*
11927618 CAAAGGAAAGCAGAGA
1 GAAA-GAAAGCAGAGA
11927634 GAAAGAAAG
1 GAAAGAAAG
11927643 TGGAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGCAGAGA
Found at i:11936029 original size:13 final size:13
Alignment explanation
Indices: 11936011--11936041 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11936001 TGTGTAAATG
11936011 GAAATGGATATAT
1 GAAATGGATATAT
*
11936024 GAAATGGCTATAT
1 GAAATGGATATAT
11936037 GAAAT
1 GAAAT
11936042 TAGTCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:11942067 original size:27 final size:27
Alignment explanation
Indices: 11942037--11942096 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
11942027 TGTCTCGATG
* *
11942037 AACTATCTCATTTTTAATGTCCCGTCA
1 AACTATCTCATGTTTAATATCCCGTCA
* * *
11942064 AACTATCTCGTGTTTAATATCTCGTCG
1 AACTATCTCATGTTTAATATCCCGTCA
11942091 AACTAT
1 AACTAT
11942097 GAAAGGATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
AACTATCTCATGTTTAATATCCCGTCA
Found at i:11942195 original size:45 final size:44
Alignment explanation
Indices: 11942102--11942277 Score: 181
Period size: 45 Copynumber: 3.9 Consensus size: 44
11942092 ACTATGAAAG
* * * * *
11942102 GATGTCATAGCGTCTTTTAGCTATGTGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAGCGTCTTTCAGCTA--TGGTCTTACTCAT-TTTATCAT
*
11942149 GATGCCATAGCGTCTTTCAGCCATGGTCTTACTCATTTATATCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT-TATCAT
* * * * *
11942194 GATGTCATAGCATCTTTCAACTATGGTCTTACTTATCCTTATCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCAT-TTTATCAT
* * *
11942239 GATGCCATAACGTTTTTCAGCTATGATCTTACTCATTTT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTT
11942278 TAGGCATATA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.04
45 82 0.77
46 1 0.01
47 20 0.19
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (44 bp):
GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTATCAT
Found at i:11945528 original size:22 final size:23
Alignment explanation
Indices: 11945483--11945530 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
11945473 AAATGGTAGC
* *
11945483 AAAATAGTGAAAAAAATAACAAG
1 AAAATAATGAAAAAAATAAAAAG
*
11945506 AAAATAAT-AAAAAAGTAAAAAG
1 AAAATAATGAAAAAAATAAAAAG
11945528 AAA
1 AAA
11945531 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAATAATGAAAAAAATAAAAAG
Done.