Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 97 of 211
Found at i:26908918 original size:41 final size:41
Alignment explanation
Indices: 26908769--26908925 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 41
26908759 ATTTTTTAAA
* * *
26908769 CCTTTAGCGGCGTTTTTATCTAAGCGTCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTGG
* * * *
26908810 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GAA
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTG-G
* * *
26908851 TCTTTAGCGGCGTTTTTATCTG-AGCGCCACTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTA-CCGAAGCGCCGCTAATTCTCTGG
* *
26908892 CCTTTAGCGGCGTTTTTGCCGAAGCGCTGCTAAT
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
26908926 AGTAACAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.03
41 93 0.96
42 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTGG
Found at i:26909747 original size:21 final size:21
Alignment explanation
Indices: 26909723--26909776 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
26909713 GAGGCGGCAA
* * *
26909723 CGAGGGAAGTAGAGGCTACAG
1 CGAGAGAAGCAGAGGCCACAG
*
26909744 CGAGAGAAGCAGAGGCCGCAG
1 CGAGAGAAGCAGAGGCCACAG
26909765 CGAGAGAAGCAG
1 CGAGAGAAGCAG
26909777 CGAGAAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.43, T:0.04
Consensus pattern (21 bp):
CGAGAGAAGCAGAGGCCACAG
Found at i:26910361 original size:43 final size:43
Alignment explanation
Indices: 26910223--26910493 Score: 239
Period size: 43 Copynumber: 6.3 Consensus size: 43
26910213 GTTTGTGAAA
* * * * ***
26910223 TAAGCGCCGCGAAAGAACACTACTTTTAGCGACG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* * *
26910265 TGAAGCACCGTTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* *
26910309 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCATTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* * * *
26910351 TAAACGCCGCTAAAGATCATGTTC-TTTAACGGCG-TTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTTCC
* * * *
26910393 CAAGCGCCGCTAAAGAACATGA-TCATTAGCGGTGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCC
* * * *
26910436 TAAGCGCCGCTAAAGAACATGACCTTTAGCAGCG-TTTTTTCTG
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTC-C
*
26910479 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
26910494 TTAGCGACGT
Statistics
Matches: 186, Mismatches: 34, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
42 77 0.41
43 102 0.55
44 7 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
Found at i:26910476 original size:85 final size:85
Alignment explanation
Indices: 26910267--26910476 Score: 260
Period size: 85 Copynumber: 2.5 Consensus size: 85
26910257 TTTGTAGATG
* * * * * * *
26910267 AAGCACCGTTAAAGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGACT
*
26910332 TTTAGCGGCATTTTTTTCCT
66 ATTAGCGGCATTTTTTTCCT
* * ** *
26910352 AAACGCCGCTAAAGATCATGTTCTTTAACGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGA-T
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGACT
**
26910416 CATTAGCGGTGTTTTTTTCCT
66 -ATTAGCGGCATTTTTTTCCT
*
26910437 AAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTTTC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTC
26910477 TGTAAGCGCC
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
84 1 0.01
85 102 0.99
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGACT
ATTAGCGGCATTTTTTTCCT
Found at i:26919242 original size:17 final size:17
Alignment explanation
Indices: 26919195--26919243 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
26919185 TTATTCATTC
26919195 GATGGCTATTAAAGTTG
1 GATGGCTATTAAAGTTG
** **
26919212 GATGGAAAAAAAAGTTG
1 GATGGCTATTAAAGTTG
26919229 GATGGCTATTAAAGT
1 GATGGCTATTAAAGT
26919244 GGACTTTGAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.29
Consensus pattern (17 bp):
GATGGCTATTAAAGTTG
Found at i:26924238 original size:18 final size:18
Alignment explanation
Indices: 26924215--26924273 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
26924205 AGTTTGTAAC
26924215 TGAGTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
* *
26924233 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTA-GC-C-TGT
*
26924254 TGATTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
26924272 TG
1 TG
26924274 TTGAGTTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.10, C:0.14, G:0.39, T:0.37
Consensus pattern (18 bp):
TGAGTTGGGGTAGCCTGT
Found at i:26924282 original size:21 final size:20
Alignment explanation
Indices: 26924215--26924284 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
26924205 AGTTTGTAAC
26924215 TGAGTTGGGGTAGCC--TGT
1 TGAGTTGGGGTAGCCTTTGT
*
26924233 TGAGTTGGGGTA-CTCTCTTGC
1 TGAGTTGGGGTAGC-CT-TTGT
*
26924254 TGATTTGGGGTAGCCTGTTGT
1 TGAGTTGGGGTAGCCT-TTGT
26924275 TGAGTTGGGG
1 TGAGTTGGGG
26924285 CAACCACTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
21 27 0.64
22 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.41, T:0.37
Consensus pattern (20 bp):
TGAGTTGGGGTAGCCTTTGT
Found at i:26924985 original size:28 final size:28
Alignment explanation
Indices: 26924953--26925007 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26924943 TACACGCACC
*
26924953 TAAAAAACAGTCACTACATGCATATTAT
1 TAAAAAACACTCACTACATGCATATTAT
* *
26924981 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAACACTCACTACATGCATATTA
26925008 AAAAATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAAAACACTCACTACATGCATATTAT
Found at i:26925051 original size:24 final size:24
Alignment explanation
Indices: 26925002--26925096 Score: 81
Period size: 26 Copynumber: 4.0 Consensus size: 24
26924992 CACTGCATGC
* * *
26925002 ATATTAAAAAATAGTTA-AGAATAT
1 ATATTAAAAAATAGTCATA-CACAT
*
26925026 ATATTAAAAAATATTCATACAC--
1 ATATTAAAAAATAGTCATACACAT
26925048 ATATTAAAAAATAGTCA-ACAACATGT
1 ATATTAAAAAATAGTCATAC-ACA--T
*
26925074 ATATTAAAAAACAGTCATACACA
1 ATATTAAAAAATAGTCATACACA
26925097 CCAACAATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.03
22 18 0.31
24 16 0.28
25 1 0.02
26 19 0.33
27 2 0.03
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (24 bp):
ATATTAAAAAATAGTCATACACAT
Found at i:26925071 original size:22 final size:22
Alignment explanation
Indices: 26925001--26925071 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
26924991 TCACTGCATG
* *
26925001 CATATTAAAAAATAGTTAAGAATA
1 CATATTAAAAAATAGTCAA-CA-A
* *
26925025 TATATTAAAAAATATTCATAC-A
1 CATATTAAAAAATAGTCA-ACAA
26925047 CATATTAAAAAATAGTCAACAA
1 CATATTAAAAAATAGTCAACAA
26925069 CAT
1 CAT
26925072 GTATATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.05
22 21 0.54
24 15 0.38
25 1 0.03
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (22 bp):
CATATTAAAAAATAGTCAACAA
Found at i:26925153 original size:25 final size:25
Alignment explanation
Indices: 26925104--26925181 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
26925094 ACACCAACAA
26925104 TCACTGCATGCATATTATTAAAAAATAC
1 TCACTGCATGC--A-TATTAAAAAATAC
*
26925132 TCACTGCATGCATATTAAAAAATAG
1 TCACTGCATGCATATTAAAAAATAC
** *
26925157 TCAACAACATGTATATTAAAAAATA
1 TC-ACTGCATGCATATTAAAAAATA
26925182 TTCATACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.31
26 20 0.44
28 11 0.24
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (25 bp):
TCACTGCATGCATATTAAAAAATAC
Found at i:26925235 original size:25 final size:26
Alignment explanation
Indices: 26925207--26925275 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
26925197 AATCACTGCA
26925207 TGCATATTATTAAAAAAATACTC-AC
1 TGCATATTATTAAAAAAATACTCAAC
* *
26925232 TGCATACATATT-AAAAAATAGTCAAC
1 TGCATA-TTATTAAAAAAATACTCAAC
* *
26925258 AGCATGTATATTAAAAAA
1 TGCATAT-TATTAAAAAA
26925276 CAGTCATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 16 0.46
26 14 0.40
27 5 0.14
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (26 bp):
TGCATATTATTAAAAAAATACTCAAC
Found at i:26925246 original size:96 final size:95
Alignment explanation
Indices: 26925022--26925311 Score: 487
Period size: 96 Copynumber: 3.1 Consensus size: 95
26925012 ATAGTTAAGA
* *
26925022 ATATATATTAAAAAATATTCA-T--ACACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
1 ATAT-TATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
26925084 ACAGTCATACACACCAACAATCACTGCATGC
65 ACAGTCATACACACCAACAATCACTGCATGC
*
26925115 ATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
1 ATATTATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
* *
26925180 TATTCATACACACCAACAATCACTGCATGC
66 CAGTCATACACACCAACAATCACTGCATGC
*
26925210 ATATTATTAAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAGCATGTATATTAAAAA
1 ATATTATT-AAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
26925275 ACAGTCATACACACCAACAATCACTGCATGC
65 ACAGTCATACACACCAACAATCACTGCATGC
26925306 ATATTA
1 ATATTA
26925312 AAAAACACTC
Statistics
Matches: 184, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
92 15 0.08
93 5 0.03
95 75 0.41
96 89 0.48
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.27
Consensus pattern (95 bp):
ATATTATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
CAGTCATACACACCAACAATCACTGCATGC
Found at i:26925262 original size:26 final size:26
Alignment explanation
Indices: 26925214--26925281 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
26925204 GCATGCATAT
* *
26925214 TATTAAAAAAATACTC-ACTGCATACA
1 TATT-AAAAAATAGTCAACAGCATACA
**
26925240 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATAGTCAACAGCATACA
*
26925266 TATTAAAAAACAGTCA
1 TATTAAAAAATAGTCA
26925282 TACACACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.26
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAGCATACA
Found at i:26926416 original size:6 final size:6
Alignment explanation
Indices: 26926402--26926452 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
26926392 TCGAAATTGT
*
26926402 AATCGA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
26926450 AAT
1 AAT
26926453 TGAAATTGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:26928488 original size:2 final size:2
Alignment explanation
Indices: 26928481--26928505 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26928471 AAAACCTAGC
26928481 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
26928506 TACATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26929366 original size:24 final size:24
Alignment explanation
Indices: 26929334--26929411 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
26929324 AGGCCCAAAA
26929334 CTTTTATTTTTCTTCAAAAATTTC
1 CTTTTATTTTTCTTCAAAAATTTC
*
26929358 CTTTTATTTTTCTTCAAAAATCATCC
1 CTTTTATTTTTCTTCAAAAAT--TTC
26929384 CTTTTATTTTTCTTCAAAAATTTC
1 CTTTTATTTTTCTTCAAAAATTTC
26929408 CTTT
1 CTTT
26929412 AAATTCTAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 27 0.54
26 23 0.46
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTTATTTTTCTTCAAAAATTTC
Found at i:26929781 original size:45 final size:45
Alignment explanation
Indices: 26929730--26929819 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
26929720 CGGTAAGTAC
26929730 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
26929775 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
26929820 TAACGATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (45 bp):
GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
Found at i:26930283 original size:27 final size:27
Alignment explanation
Indices: 26930235--26930375 Score: 167
Period size: 28 Copynumber: 5.1 Consensus size: 27
26930225 GTGTCCCTTG
* *
26930235 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTTAGATTTTACAG-TTTTCCCCTA
* * *
26930263 TTTTTTAGATTTTATAGTTTTTCCCTT
1 TTTTTTAGATTTTACAGTTTTCCCCTA
* *
26930290 TTTTTTAGA-TTTAGAGTTTTCCTCTA
1 TTTTTTAGATTTTACAGTTTTCCCCTA
*
26930316 TTTTTTTAGATTTTACAATTTTGCCCCTA
1 -TTTTTTAGATTTTACAGTTTT-CCCCTA
*
26930345 TTTTTTAGATTTTACAGTTTTGCCCTA
1 TTTTTTAGATTTTACAGTTTTCCCCTA
26930372 TTTT
1 TTTT
26930376 CTAAGTTTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.13
27 35 0.36
28 45 0.46
29 5 0.05
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.60
Consensus pattern (27 bp):
TTTTTTAGATTTTACAGTTTTCCCCTA
Found at i:26930393 original size:27 final size:27
Alignment explanation
Indices: 26930235--26930396 Score: 114
Period size: 27 Copynumber: 5.9 Consensus size: 27
26930225 GTGTCCCTTG
* * * *
26930235 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTAAGATTTTACA-ATTTTGCCCTA
* * * * *
26930263 TTTTTTAGATTTTATAGTTTTTCCCTT
1 TTTTTAAGATTTTACAATTTTGCCCTA
* * *
26930290 TTTTTTAGA-TTTAGAGTTTT-CCTCTA
1 TTTTTAAGATTTTACAATTTTGCC-CTA
*
26930316 TTTTTTTAGATTTTACAATTTTGCCCCTA
1 -TTTTTAAGATTTTACAATTTTG-CCCTA
* *
26930345 TTTTTTAGATTTTACAGTTTTGCCCTA
1 TTTTTAAGATTTTACAATTTTGCCCTA
*
26930372 TTTTCTAAG-TTTTACAAATTTGCCC
1 TTTT-TAAGATTTTACAATTTTGCCC
26930397 AAAATTTTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.02
26 12 0.10
27 49 0.42
28 48 0.41
29 3 0.03
30 2 0.02
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTTTAAGATTTTACAATTTTGCCCTA
Found at i:26930593 original size:30 final size:31
Alignment explanation
Indices: 26930559--26930660 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
26930549 TTAAAAATAA
*
26930559 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
26930589 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
26930619 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
26930649 AAATTTCATTTT
1 AAATTTCATTTT
26930661 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:26930963 original size:16 final size:16
Alignment explanation
Indices: 26930925--26930963 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
26930915 AAGGAAGGAA
* *
26930925 AAGAGAAGAGAGAAGG
1 AAGAGAGGAGAGAAAG
*
26930941 AAGAGAGGAGGGAAAG
1 AAGAGAGGAGAGAAAG
26930957 AAGAGAG
1 AAGAGAG
26930964 CCCGACCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (16 bp):
AAGAGAGGAGAGAAAG
Found at i:26931064 original size:15 final size:13
Alignment explanation
Indices: 26931041--26931106 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 13
26931031 CCGAAAGAGG
*
26931041 GAAGGAAGAAGAAGA
1 GAAGAAAGAA-AA-A
26931056 GAAGAAAGAAAAA
1 GAAGAAAGAAAAA
26931069 GAA-AAAGAAAAA
1 GAAGAAAGAAAAA
*
26931081 -AGGGAAAAGAAAAA
1 GA-AG-AAAGAAAAA
26931095 -AAGAAAGAAAAA
1 GAAGAAAGAAAAA
26931107 AATAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 1 0.02
12 18 0.40
13 5 0.11
14 12 0.27
15 9 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAGAAAGAAAAA
Found at i:26931107 original size:12 final size:12
Alignment explanation
Indices: 26931057--26931108 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
26931047 AGAAGAAGAG
26931057 AAGAAAGAAAAA
1 AAGAAAGAAAAA
26931069 GAA-AAAGAAAAA
1 -AAGAAAGAAAAA
*
26931081 AGGGAAAAGAAAAA
1 A-AG-AAAGAAAAA
26931095 AAGAAAGAAAAA
1 AAGAAAGAAAAA
26931107 AA
1 AA
26931109 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 20 0.59
13 3 0.09
14 10 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:26931114 original size:26 final size:26
Alignment explanation
Indices: 26931046--26931114 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
26931036 AGAGGGAAGG
* *
26931046 AAGAAGAAGAGAAGAAAGAAAAAGAAA
1 AAGAAAAAAAGAA-AAAGAAAAAGAAA
* *
26931073 AAGAAAAAAGGGAAAAGAAAAA-AAGA
1 AAGAAAAAAAGAAAAAGAAAAAGAA-A
*
26931099 AAGAAAAAAATAAAAA
1 AAGAAAAAAAGAAAAA
26931115 ATAATATATC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.06
26 23 0.68
27 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (26 bp):
AAGAAAAAAAGAAAAAGAAAAAGAAA
Found at i:26931237 original size:21 final size:21
Alignment explanation
Indices: 26931213--26931256 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
26931203 AAAGCAAAAA
*
26931213 AAAGCAGCAAAAAAGAAGAAG
1 AAAGAAGCAAAAAAGAAGAAG
*
26931234 AAAGAAGCAGAAAAGAAGAAG
1 AAAGAAGCAAAAAAGAAGAAG
26931255 AA
1 AA
26931257 GAAATAAGCA
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:0.68, C:0.07, G:0.25, T:0.00
Consensus pattern (21 bp):
AAAGAAGCAAAAAAGAAGAAG
Found at i:26931241 original size:24 final size:25
Alignment explanation
Indices: 26931214--26931268 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
26931204 AAGCAAAAAA
26931214 AAGCAGCAAAA-AAGAAGAAGAAAG
1 AAGCAGCAAAAGAAGAAGAAGAAAG
*
26931238 AAGCAG-AAAAGAAGAAGAAGAAAT
1 AAGCAGCAAAAGAAGAAGAAGAAAG
26931262 AAGCAGC
1 AAGCAGC
26931269 CCAAATGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.64, C:0.09, G:0.25, T:0.02
Consensus pattern (25 bp):
AAGCAGCAAAAGAAGAAGAAGAAAG
Found at i:26931407 original size:15 final size:15
Alignment explanation
Indices: 26931387--26931432 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
26931377 AGCCCAGCAG
26931387 AAAAAAAAGAGAAAA
1 AAAAAAAAGAGAAAA
*
26931402 AAAAAAGAGAGAAAA
1 AAAAAAAAGAGAAAA
26931417 AGAAAAAAAGA-AAAA
1 A-AAAAAAAGAGAAAA
26931432 A
1 A
26931433 CAAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGAAAA
Found at i:26931440 original size:15 final size:14
Alignment explanation
Indices: 26931385--26931440 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
26931375 CCAGCCCAGC
*
26931385 AGAAAAAAAAGAGA
1 AGAAAAAAAAGAAA
*
26931399 A-AAAAAAAAG-AG
1 AGAAAAAAAAGAAA
26931411 AGAAAAAGAAA-AAA
1 AGAAAAA-AAAGAAA
26931425 AGAAAAAACAAGAAA
1 AGAAAAAA-AAGAAA
26931440 A
1 A
26931441 AAAGGGGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
12 1 0.03
13 15 0.44
14 14 0.41
15 4 0.12
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:26931837 original size:22 final size:21
Alignment explanation
Indices: 26931804--26931846 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
26931794 TCGCGTTTCG
26931804 AAATTTTCGTGTCTTCAAAAA
1 AAATTTTCGTGTCTTCAAAAA
*
26931825 AAATTTCTCGTGTTTTCAAAAA
1 AAATTT-TCGTGTCTTCAAAAA
26931847 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
AAATTTTCGTGTCTTCAAAAA
Found at i:26931845 original size:20 final size:20
Alignment explanation
Indices: 26931804--26931846 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
26931794 TCGCGTTTCG
26931804 AAATTTTCGTGTCTTCAAAAA
1 AAATTTTCGTGTCTTC-AAAA
*
26931825 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
26931846 A
1 A
26931847 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:26931971 original size:17 final size:17
Alignment explanation
Indices: 26931949--26932008 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
26931939 ATGAAAAATC
26931949 AAAAATTCGTGTTTTCA
1 AAAAATTCGTGTTTTCA
*
26931966 AAAAATTC-TCGACTTTCA
1 AAAAATTCGT-G-TTTTCA
26931984 AAAAATTTCGTGTTTTCA
1 AAAAA-TTCGTGTTTTCA
26932002 AAAAATT
1 AAAAATT
26932009 GACATTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.30
18 20 0.54
19 4 0.11
20 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATTCGTGTTTTCA
Found at i:26932120 original size:20 final size:20
Alignment explanation
Indices: 26932076--26932147 Score: 96
Period size: 19 Copynumber: 3.6 Consensus size: 20
26932066 CAAAATTTTT
26932076 GTGTTTTCAAAATAAAATT-
1 GTGTTTTCAAAATAAAATTC
*
26932095 GTGTTTTAAAAATAAAATTC
1 GTGTTTTCAAAATAAAATTC
26932115 GTGTTTTCAAAA-AAAATTC
1 GTGTTTTCAAAATAAAATTC
26932134 -TCGTGTTTCAAAAT
1 GT-GT-TTTCAAAAT
26932148 TTTCGTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.02
19 27 0.57
20 19 0.40
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (20 bp):
GTGTTTTCAAAATAAAATTC
Found at i:26932146 original size:18 final size:18
Alignment explanation
Indices: 26932125--26932250 Score: 50
Period size: 18 Copynumber: 7.1 Consensus size: 18
26932115 GTGTTTTCAA
26932125 AAAAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
** * * *
26932143 AAAATTTTCGTTGTTTTTTTT
1 AAAAAATTC-TCG--TGTTTC
*
26932164 AAAAAAAT-TCGTGTTTC
1 AAAAAATTCTCGTGTTTC
* * * *
26932181 -TAAAATTCTTGTATTTT
1 AAAAAATTCTCGTGTTTC
*
26932198 AAAATATT-TCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
26932215 GAAAAAAAGT-T-GTGTTTC
1 --AAAAAATTCTCGTGTTTC
26932233 --AAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
26932249 AA
1 AA
26932251 TTGGATCACG
Statistics
Matches: 73, Mismatches: 24, Indels: 22
0.61 0.20 0.18
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 12 0.16
17 16 0.22
18 19 0.26
19 11 0.15
21 9 0.12
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (18 bp):
AAAAAATTCTCGTGTTTC
Found at i:26944054 original size:68 final size:70
Alignment explanation
Indices: 26943886--26944062 Score: 205
Period size: 73 Copynumber: 2.5 Consensus size: 70
26943876 CTTTCCAAGG
* * * *
26943886 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTAT
*
26943951 TTTTT
66 GTTTT
** * *
26943956 AAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG-CGAGGTATTTTTAGTT
1 ---AAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATT
26944020 TATGTTTT
63 TATGTTTT
* * *
26944028 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCT
26944063 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 32 0.35
72 20 0.22
73 40 0.43
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTAT
GTTTT
Found at i:26944305 original size:191 final size:192
Alignment explanation
Indices: 26943886--26944498 Score: 1054
Period size: 192 Copynumber: 3.2 Consensus size: 192
26943876 CTTTCCAAGG
*
26943886 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA---AT
*
26943951 TTTTTAAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG-CGAGGTATTTT
63 TTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
26944015 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
128 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
26944080 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
26944145 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTGTGTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
* *
26944210 TTTATGTTTTAAATTAACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
26944272 AAAATCAACTCATATTGCGAGAAATGA-TTGAGCCTCAAGACACGTTGAGGTATTTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
26944335 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
26944399 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
** **
26944461 AAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
26944499 GGCTCACATG
Statistics
Matches: 400, Mismatches: 16, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
189 80 0.20
190 69 0.17
191 92 0.23
192 99 0.25
194 60 0.15
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:26944429 original size:68 final size:69
Alignment explanation
Indices: 26944272--26944403 Score: 196
Period size: 68 Copynumber: 1.9 Consensus size: 69
26944262 TTTGTTTTTC
** *
26944272 AAAATCAACTCATATTGCGAGAAATGA-TTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
26944336 AAAA
66 AAAA
* * *
26944340 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
26944404 GTTTTAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 48 0.84
69 9 0.16
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
AAAA
Found at i:26944538 original size:16 final size:17
Alignment explanation
Indices: 26944517--26944550 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26944507 TGCTGAGGTA
*
26944517 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
26944533 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
26944550 T
1 T
26944551 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:26944705 original size:87 final size:88
Alignment explanation
Indices: 26944456--26944705 Score: 269
Period size: 91 Copynumber: 2.8 Consensus size: 88
26944446 TAATTTTTGT
* * * *
26944456 TTTTCAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTAGGC-CACACGCTGAGGTATTTT
* * **
26944521 CAATTTATGTTTTTTTCAATCTATGC
64 CAATTTCTGCTTTACTCAATCTA-GC
* * *
26944547 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAG-CT-TAGGCCACACGCTGAGGTATTT
26944609 TCAATTTCTGCTTTACT-AATTCTA-C
63 TCAATTTCTGCTTTACTCAA-TCTAGC
*
26944634 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTTAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAG-CTTAGGCCACACGCTGAGGTATTTTC
*
26944698 AAATTCTG
65 AATTTCTG
26944706 TTTTTAATTT
Statistics
Matches: 136, Mismatches: 17, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
84 3 0.02
85 32 0.24
87 29 0.21
88 2 0.01
89 31 0.23
91 36 0.26
92 1 0.01
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTAGGCCACACGCTGAGGTATTTTCA
ATTTCTGCTTTACTCAATCTAGC
Found at i:26944714 original size:85 final size:87
Alignment explanation
Indices: 26944456--26944714 Score: 271
Period size: 85 Copynumber: 2.9 Consensus size: 87
26944446 TAATTTTTGT
* * * *
26944456 TTTTCAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTAGGC-CACACGCTGAGGTATTTT
*
26944521 CAATTTATGTTTTTTTCAA-TCTATGC
64 CAATTTCTG-TTTTTT-AATTCTA-GC
* * *
26944547 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAG-CT-TAGGCCACACGCTGAGGTATTT
**
26944609 TCAATTTCTGCTTTACTAATTCTA-C
63 TCAATTTCTG-TTTTTTAATTCTAGC
*
26944634 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTTAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAG-CTTAGGCCACACGCTGAGGTATTTTC
*
26944698 AAATTCTG-TTTTTAATT
65 AATTTCTGTTTTTTAATT
26944715 TCTGTTTTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
84 3 0.02
85 39 0.27
87 29 0.20
88 2 0.01
89 31 0.22
91 36 0.25
92 1 0.01
93 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTAGGCCACACGCTGAGGTATTTTCA
ATTTCTGTTTTTTAATTCTAGC
Found at i:26944729 original size:15 final size:14
Alignment explanation
Indices: 26944701--26944734 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
26944691 TCTTTTCAAA
26944701 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
26944714 TTCTGTTTTTTAAAT
1 TTCTGTTTTTT-AAT
26944729 TTCTGT
1 TTCTGT
26944735 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 5 0.26
15 9 0.47
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:26944905 original size:53 final size:55
Alignment explanation
Indices: 26944810--26945025 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
26944800 TCAATTTCTA
*
26944810 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
26944865 CTTTT-AATTTCTATTTTTC-AAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
26944918 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
26944969 CTTTTGCAAATTC--TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
26945023 CTT
1 CTT
26945026 GGCTCACGTG
Statistics
Matches: 147, Mismatches: 6, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
49 12 0.08
51 36 0.24
53 36 0.24
54 50 0.34
55 10 0.07
57 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:26945327 original size:30 final size:31
Alignment explanation
Indices: 26945293--26945394 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
26945283 TTAAAAATAA
*
26945293 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
26945323 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
26945353 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
26945383 AAATTTCATTTT
1 AAATTTCATTTT
26945395 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:26945807 original size:26 final size:26
Alignment explanation
Indices: 26945778--26945838 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
26945768 AGAGGGAAGG
*
26945778 AAGAAGAAGAGAAGAAAGAAAAAAA-A
1 AAGAA-AAAAGAAGAAAGAAAAAAAGA
**
26945804 AAGAAAAAAGGGGAAAGAAAAAAAGA
1 AAGAAAAAAGAAGAAAGAAAAAAAGA
26945830 AAGAAAAAA
1 AAGAAAAAA
26945839 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (26 bp):
AAGAAAAAAGAAGAAAGAAAAAAAGA
Found at i:26945948 original size:10 final size:11
Alignment explanation
Indices: 26945933--26945997 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
26945923 AAAAAAAACC
26945933 AAAGCA-AAAA
1 AAAGCAGAAAA
*
26945943 AAAGCAGCAAA
1 AAAGCAGAAAA
*
26945954 AAAGAAGAAGAA
1 AAAGCAGAA-AA
26945966 AGAAGCAGAAAA
1 A-AAGCAGAAAA
*
26945978 AAAGGAGAAGAA
1 AAAGCAGAA-AA
26945990 ATAAGCAG
1 A-AAGCAG
26945998 CCCAAATGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 6 0.14
11 17 0.39
12 9 0.20
13 12 0.27
ACGTcount: A:0.68, C:0.08, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAGCAGAAAA
Found at i:26945971 original size:24 final size:24
Alignment explanation
Indices: 26945944--26945998 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
26945934 AAGCAAAAAA
26945944 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
* * *
26945968 AAGCAGAAAAAAAGGAGAAGAAAT
1 AAGCAGCAAAAAAGAAGAAGAAAG
26945992 AAGCAGC
1 AAGCAGC
26945999 CCAAATGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.64, C:0.09, G:0.25, T:0.02
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Found at i:26946131 original size:11 final size:11
Alignment explanation
Indices: 26946115--26946154 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
26946105 CCAGCCCAAC
26946115 AGAAAAAAAAG
1 AGAAAAAAAAG
*
26946126 AGAAAAAAAAA
1 AGAAAAAAAAG
26946137 AGAAAAAACAAG
1 AGAAAAAA-AAG
26946149 A-AAAAA
1 AGAAAAA
26946155 GGGGTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 23 0.88
12 3 0.12
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:26946549 original size:22 final size:21
Alignment explanation
Indices: 26946516--26946558 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
26946506 TCGCGTTTCG
26946516 AAATTTTCGTGTCTTCAAAAA
1 AAATTTTCGTGTCTTCAAAAA
*
26946537 AAATTTCTCGTGTTTTCAAAAA
1 AAATTT-TCGTGTCTTCAAAAA
26946559 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
AAATTTTCGTGTCTTCAAAAA
Found at i:26946557 original size:20 final size:20
Alignment explanation
Indices: 26946516--26946558 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
26946506 TCGCGTTTCG
26946516 AAATTTTCGTGTCTTCAAAAA
1 AAATTTTCGTGTCTTC-AAAA
*
26946537 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
26946558 A
1 A
26946559 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:26946683 original size:17 final size:17
Alignment explanation
Indices: 26946661--26946720 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
26946651 ATGAAAAATC
26946661 AAAAATTCGTGTTTTCA
1 AAAAATTCGTGTTTTCA
*
26946678 AAAAATTC-TCGACTTTCA
1 AAAAATTCGT-G-TTTTCA
26946696 AAAAATTTCGTGTTTTCA
1 AAAAA-TTCGTGTTTTCA
26946714 AAAAATT
1 AAAAATT
26946721 GACATTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.30
18 20 0.54
19 4 0.11
20 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATTCGTGTTTTCA
Found at i:26946832 original size:20 final size:20
Alignment explanation
Indices: 26946788--26946859 Score: 96
Period size: 19 Copynumber: 3.6 Consensus size: 20
26946778 CAAAATTTTT
26946788 GTGTTTTCAAAATAAAATT-
1 GTGTTTTCAAAATAAAATTC
*
26946807 GTGTTTTAAAAATAAAATTC
1 GTGTTTTCAAAATAAAATTC
26946827 GTGTTTTCAAAA-AAAATTC
1 GTGTTTTCAAAATAAAATTC
26946846 -TCGTGTTTCAAAAT
1 GT-GT-TTTCAAAAT
26946860 TTTCGTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.02
19 27 0.57
20 19 0.40
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (20 bp):
GTGTTTTCAAAATAAAATTC
Found at i:26946858 original size:16 final size:16
Alignment explanation
Indices: 26946839--26946869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26946829 GTTTTCAAAA
26946839 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
26946855 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
26946870 TTTTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:26946858 original size:18 final size:17
Alignment explanation
Indices: 26946837--26946961 Score: 53
Period size: 17 Copynumber: 7.1 Consensus size: 17
26946827 GTGTTTTCAA
26946837 AAAAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
* *
26946855 -AAAATTTTCGTGTTTTTTTT
1 AAAAAATTTCGTG----TTTC
*
26946875 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* * * *
26946892 -TAAAATTCTTGTATTTT
1 AAAAAATT-TCGTGTTTC
*
26946909 AAAATATTTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
26946926 GAAAAAAAGTT-GTGTTTC
1 --AAAAAATTTCGTGTTTC
26946944 --AAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
26946960 AA
1 AA
26946962 TTGGATCACG
Statistics
Matches: 76, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 17 0.22
17 21 0.28
18 12 0.16
19 7 0.09
20 3 0.04
21 10 0.13
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:26947882 original size:44 final size:44
Alignment explanation
Indices: 26947782--26947975 Score: 146
Period size: 45 Copynumber: 4.3 Consensus size: 44
26947772 ACAAATATGT
* * * *
26947782 TGTGCATCTACAGCCAAGTGGC-AGATTTTATCTGCGATATTTTT-C
1 TGTGTATCCACAGCCAA-TGGCAAG-TTTCATCTGTGA-ATTTTTGC
* * * * * *
26947827 TATGCACCCACATCCAATGGCAAGTTTCATCTATGAATTTTTGT
1 TGTGTATCCACAGCCAATGGCAAGTTTCATCTGTGAATTTTTGC
* * *
26947871 TGTGTATCCACAGCCTA-GTG-ATAGATTTTATCTGCG-ATATTTTGC
1 TGTGTATCCACAGCCAATG-GCA-AG-TTTCATCTGTGAAT-TTTTGC
* *
26947916 TGTGTACCCACAGCCTAGTGGCAAGTTTCATCTGTGAATTTTTGC
1 TGTGTATCCACAGCC-AATGGCAAGTTTCATCTGTGAATTTTTGC
26947961 TGTGTATCCACAGCC
1 TGTGTATCCACAGCC
26947976 CAGTGGCAGA
Statistics
Matches: 116, Mismatches: 23, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
43 8 0.07
44 30 0.26
45 71 0.61
46 5 0.04
47 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (44 bp):
TGTGTATCCACAGCCAATGGCAAGTTTCATCTGTGAATTTTTGC
Found at i:26947897 original size:89 final size:90
Alignment explanation
Indices: 26947779--26947993 Score: 306
Period size: 90 Copynumber: 2.4 Consensus size: 90
26947769 CCTACAAATA
* * * *
26947779 TGTTGTGCATCTACAGCCAAGTGGCAGATTTTATCTGCGATATTTTTCTATGCACCCACATCC-A
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
26947843 ATGGCAAGTTTCATCTATGAATTTT
66 ATGGCAAGTTTCATCTATGAATTTT
* ** * *
26947868 TGTTGTGTATCCACAGCCTAGTGATAGATTTTATCTGCGATATTTTGCTGTGTACCCACAGCCTA
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
* *
26947933 GTGGCAAGTTTCATCTGTGAATTTT
66 ATGGCAAGTTTCATCTATGAATTTT
* *
26947958 TGCTGTGTATCCACAGCCCAGTGGCAGATTTTATCT
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCT
26947994 ACGAAACCAG
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 54 0.49
90 56 0.51
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (90 bp):
TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
ATGGCAAGTTTCATCTATGAATTTT
Found at i:26947914 original size:45 final size:44
Alignment explanation
Indices: 26947861--26947998 Score: 154
Period size: 45 Copynumber: 3.1 Consensus size: 44
26947851 TTTCATCTAT
*
26947861 GAATTTTTGTTGTGTATCCACAGCCTAGTGATAGATTTTATCTGC
1 GAATTTTTGCTGTGTATCCACAGCCTAGTGA-AGATTTTATCTGC
* * *
26947906 G-ATATTTTGCTGTGTACCCACAGCCTAGTGGCAAG-TTTCATCTGT
1 GAAT-TTTTGCTGTGTATCCACAGCCTAGT-G-AAGATTTTATCTGC
* * *
26947951 GAATTTTTGCTGTGTATCCACAGCCCAGTGGCAGATTTTATCTAC
1 GAATTTTTGCTGTGTATCCACAGCCTAGT-GAAGATTTTATCTGC
26947996 GAA
1 GAA
26947999 ACCAGTGGTG
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
44 4 0.05
45 68 0.87
46 5 0.06
47 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (44 bp):
GAATTTTTGCTGTGTATCCACAGCCTAGTGAAGATTTTATCTGC
Found at i:26949520 original size:51 final size:53
Alignment explanation
Indices: 26949438--26949542 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 53
26949428 CATAATTTTT
* * *
26949438 TAGGCGTGTTTTCGGGGGAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCC
1 TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
* * *
26949491 TAGGCGTGTTTT-TGGAG-GGATGTTTAGCCTACAGGCTTGGCACTCAGTGCC
1 TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
26949542 T
1 T
26949543 GTTCTTTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 31 0.67
52 3 0.07
53 12 0.26
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.30
Consensus pattern (53 bp):
TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
Found at i:26954387 original size:17 final size:17
Alignment explanation
Indices: 26954365--26954405 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
26954355 AGCCTATCGA
*
26954365 AAGCTCGATCAGGTTGG
1 AAGCTCAATCAGGTTGG
*
26954382 AAGCTCAATCGGGTTGG
1 AAGCTCAATCAGGTTGG
26954399 AAGCTCA
1 AAGCTCA
26954406 TCGGAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (17 bp):
AAGCTCAATCAGGTTGG
Found at i:26955185 original size:12 final size:12
Alignment explanation
Indices: 26955157--26955186 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26955147 GTCAGGTTTT
*
26955157 ACACAGCCTAGC
1 ACACGGCCTAGC
26955169 ACACGGCCTAGC
1 ACACGGCCTAGC
26955181 ACACGG
1 ACACGG
26955187 GCGTGAGGTT
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:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:26958454 original size:21 final size:21
Alignment explanation
Indices: 26958430--26958482 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
26958420 ACACTTGCTG
26958430 AATTAAAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
26958451 AATTATAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
26958472 AATTACAAGAA
1 AATTAAAAGAA
26958483 TTTTCTGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (21 bp):
AATTAAAAGAACTTAAAACAC
Found at i:26961153 original size:51 final size:51
Alignment explanation
Indices: 26961095--26961285 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
26961085 TCGGTTCACA
*
26961095 TAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * * * *
26961146 TAGTAGCCTGCATATAGTACTACACACGTGATCGA--AGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTATCCGA-TACACG
** * *
26961197 TAGTAGCCTGCACATAGTACTACACATCCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACG
*
26961247 TAGTAGCCTGCACATAGTACTACACAGGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
26961286 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
49 4 0.04
50 40 0.35
51 67 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:26961269 original size:101 final size:102
Alignment explanation
Indices: 26961093--26961277 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
26961083 TATCGGTTCA
* **
26961093 CATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATCCGACCATCACTATCCGATACACGTAGTAGCCTGCA
*
26961158 TATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* *
26961195 CATAGTAGCCTGCACATAGTACTACACATCCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATCCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
*
26961258 ACATAGTACTACACAGGTGA
65 ACATAGTACTACACACGTGA
26961278 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATCCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:26964341 original size:40 final size:41
Alignment explanation
Indices: 26964258--26964388 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
26964248 TTTTGAATCC
* * **
26964258 ATGAAAAGGTTGAAAAGGA-AGTTATCTAAAAAGGATAACAA
1 ATGAAAAGGTGGAAAAGGATA-TTACCCGAAAAGGATAACAA
* * *
26964299 ATGAAAAGGTGGAAAATGATA-TATCCGAAAAGGATATCAA
1 ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
* * * *
26964339 ATGAAAATGTTGAAAAGGATATTACCCTAAAAGGGTAACAA
1 ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
26964380 ATGAAAAGG
1 ATGAAAAGG
26964389 ATGTGTTTGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 34 0.45
41 40 0.53
42 1 0.01
ACGTcount: A:0.51, C:0.07, G:0.22, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
Found at i:26967205 original size:19 final size:19
Alignment explanation
Indices: 26967178--26967216 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26967168 TGTAGAAGTT
26967178 AGTCATTGTGGCACTAAAG
1 AGTCATTGTGGCACTAAAG
*
26967197 AGTCGTTGTGGCACTAAAG
1 AGTCATTGTGGCACTAAAG
26967216 A
1 A
26967217 TACTGCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
AGTCATTGTGGCACTAAAG
Found at i:26968962 original size:41 final size:41
Alignment explanation
Indices: 26968917--26969045 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 41
26968907 TTTCGAACCC
*
26968917 ATGAAAAGGTTGAAAAAGAAGTTATTTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAAGAAGTTATCTGAAAAGGATAACAA
* * * * *
26968958 ATGAAAAGGTTGAAAAGGATG-TATCCGAAAAGAATATCAA
1 ATGAAAAGGTTGAAAAAGAAGTTATCTGAAAAGGATAACAA
* * * * *
26968998 ATGAAAATGTTG-AAAAGAATATTAACTGAAAAGGGTAGCAA
1 ATGAAAAGGTTGAAAAAGAA-GTTATCTGAAAAGGATAACAA
26969039 ATGAAAA
1 ATGAAAA
26969046 TGATGTGTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 5 0.07
40 26 0.37
41 40 0.56
ACGTcount: A:0.53, C:0.05, G:0.22, T:0.21
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAAGAAGTTATCTGAAAAGGATAACAA
Found at i:26969047 original size:41 final size:40
Alignment explanation
Indices: 26968917--26969045 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
26968907 TTTCGAACCC
* *
26968917 ATGAAAAGGTTGAAAAAGAAGTTATTTGAAAAGGATAACAA
1 ATGAAAAGGTTG-AAAAGAATTTATCTGAAAAGGATAACAA
* * * * *
26968958 ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGAATATCAA
1 ATGAAAAGGTTGAAAAGAATTTATCTGAAAAGGATAACAA
* * * *
26968998 ATGAAAATGTTGAAAAGAATATTAACTGAAAAGGGTAGCAA
1 ATGAAAAGGTTGAAAAGAAT-TTATCTGAAAAGGATAACAA
26969039 ATGAAAA
1 ATGAAAA
26969046 TGATGTGTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 39 0.54
41 33 0.46
ACGTcount: A:0.53, C:0.05, G:0.22, T:0.21
Consensus pattern (40 bp):
ATGAAAAGGTTGAAAAGAATTTATCTGAAAAGGATAACAA
Found at i:26970115 original size:54 final size:55
Alignment explanation
Indices: 26970039--26970161 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
26970029 CGGGTATAGA
* *
26970039 GAGTTACAC-GTCTTGGCGACATGGCCATGTGATCCTGA-ACTACACGGTCAC-AGT
1 GAGTTACACGGTC-TGGCGACATGGCCATGTGA-CCTGATACTACACGGGCACAACT
* * * *
26970093 GAGTTACACGGTCTGGTC-ACATGGTCGTGTGACCTTATATTACACGGGCACAACT
1 GAGTTACACGGTCTGG-CGACATGGCCATGTGACCTGATACTACACGGGCACAACT
26970148 -AGTTACACGGTCTG
1 GAGTTACACGGTCTG
26970162 CGTACACTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
53 4 0.07
54 49 0.83
55 6 0.10
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (55 bp):
GAGTTACACGGTCTGGCGACATGGCCATGTGACCTGATACTACACGGGCACAACT
Found at i:26971286 original size:7 final size:7
Alignment explanation
Indices: 26971274--26971307 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
26971264 TTCTTCGTCA
26971274 TCACATC
1 TCACATC
26971281 TCACATC
1 TCACATC
26971288 TCACATC
1 TCACATC
* *
26971295 TTACATA
1 TCACATC
26971302 TCACAT
1 TCACAT
26971308 ATTGGTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (7 bp):
TCACATC
Found at i:26984679 original size:23 final size:23
Alignment explanation
Indices: 26984649--26984694 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
26984639 GTCCACTTCA
*
26984649 AATGTACTAGTTAGAAGAGAGAT
1 AATGTACTAGTTAGAAGAAAGAT
26984672 AATGTACTAGTTAGAAGAAAGAT
1 AATGTACTAGTTAGAAGAAAGAT
26984695 GCTCGTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (23 bp):
AATGTACTAGTTAGAAGAAAGAT
Found at i:26984946 original size:13 final size:13
Alignment explanation
Indices: 26984928--26984953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26984918 AAGAAGCACG
26984928 CACACACAAAAAA
1 CACACACAAAAAA
26984941 CACACACAAAAAA
1 CACACACAAAAAA
26984954 AAAATCTCTG
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (13 bp):
CACACACAAAAAA
Found at i:26988115 original size:6 final size:6
Alignment explanation
Indices: 26988104--26988158 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
26988094 AAACAGAGGC
26988104 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
26988152 CATTTT C
1 CATTTT C
26988159 TTGAGAAATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (6 bp):
CATTTT
Found at i:26999874 original size:3 final size:3
Alignment explanation
Indices: 26999866--26999891 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26999856 AGTAAGTGGC
26999866 GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GG
26999892 TGGCGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:27002785 original size:48 final size:48
Alignment explanation
Indices: 27002712--27002808 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
27002702 CTTAAGGGAA
**
27002712 TTCTGTTGAATCCTTTATCGTTGCAAGTTAAGCTGACTTAGGTGTTTT
1 TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
*
27002760 TTCTGTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGTGTTTT
1 TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
27002808 T
1 T
27002809 AAGCAAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (48 bp):
TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
Found at i:27010161 original size:68 final size:69
Alignment explanation
Indices: 27010082--27010216 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 69
27010072 TTTAATATTT
* * * *
27010082 TTAATATTAAATTAAATTTAATACTTATCTTGATAA-TATTTTATTAATTTAATGTTAAAGTGAT
1 TTAATATTAAATTAAATCTAATACTTATCTTGATAAGTATTATATTAACTTAATATTAAAGTGAT
27010146 TATC
66 TATC
* *
27010150 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAACTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATCTAATACTTATCTTGATAAGTATTATATTAACTTAATATTAAAGTGAT
27010215 TA
66 TA
27010217 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 33 0.55
69 27 0.45
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (69 bp):
TTAATATTAAATTAAATCTAATACTTATCTTGATAAGTATTATATTAACTTAATATTAAAGTGAT
TATC
Found at i:27014501 original size:14 final size:13
Alignment explanation
Indices: 27014449--27014501 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
27014439 TAGAACATAG
*
27014449 AAAAAATTTTAAT
1 AAAAAATATTAAT
**
27014462 AAAAAATATTTCT
1 AAAAAATATTAAT
*
27014475 TAAAAATATTAAT
1 AAAAAATATTAAT
27014488 AAAAAATATATAAT
1 AAAAAATAT-TAAT
27014502 TTAGATCGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 28 0.88
14 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:27014576 original size:22 final size:22
Alignment explanation
Indices: 27014557--27014602 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
27014547 AGAGATTTTT
27014557 GAGAGTTGATTGAGAAATTTGA
1 GAGAGTTGATTGAGAAATTTGA
* * *
27014579 GAGATTTGATAGAGAAATGTGA
1 GAGAGTTGATTGAGAAATTTGA
27014601 GA
1 GA
27014603 AATTTGTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (22 bp):
GAGAGTTGATTGAGAAATTTGA
Found at i:27014607 original size:22 final size:22
Alignment explanation
Indices: 27014562--27014608 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27014552 TTTTTGAGAG
* * *
27014562 TTGATTGAGAAATTTGAGAGAT
1 TTGATAGAGAAATGTGAGAAAT
27014584 TTGATAGAGAAATGTGAGAAAT
1 TTGATAGAGAAATGTGAGAAAT
27014606 TTG
1 TTG
27014609 TAGGTTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (22 bp):
TTGATAGAGAAATGTGAGAAAT
Found at i:27020341 original size:12 final size:12
Alignment explanation
Indices: 27020308--27020342 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
27020298 AGAGACAAGA
27020308 TATTCTTTAAAT
1 TATTCTTTAAAT
*
27020320 TACTCTTTTAAAT
1 TATTC-TTTAAAT
27020333 TATTCTTTAA
1 TATTCTTTAA
27020343 GTAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:27020513 original size:18 final size:18
Alignment explanation
Indices: 27020490--27020538 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
27020480 TTGTATTAAA
27020490 ATTATTATTAAATTATAT
1 ATTATTATTAAATTATAT
27020508 ATTATTATTAAATTATAT
1 ATTATTATTAAATTATAT
* *
27020526 -TTAATAATAAATT
1 ATTATTATTAAATT
27020539 TATTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTATTAAATTATAT
Found at i:27020541 original size:18 final size:18
Alignment explanation
Indices: 27020498--27020538 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
27020488 AAATTATTAT
* *
27020498 TAAATTATATATTATTAT
1 TAAATTATATATTAATAA
27020516 TAAATTATAT-TTAATAA
1 TAAATTATATATTAATAA
27020533 TAAATT
1 TAAATT
27020539 TATTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTATATATTAATAA
Found at i:27020541 original size:29 final size:30
Alignment explanation
Indices: 27020483--27020546 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
27020473 ATAATTGTTG
* *
27020483 TATTAAAATTATTATTAAATTATATATTAT
1 TATTAAAATTATTATTAAATAATAAATTAT
*
27020513 TATT-AAATTA-TATTTAATAATAAA-T-T
1 TATTAAAATTATTATTAAATAATAAATTAT
27020539 TATTAAAA
1 TATTAAAA
27020547 AGGATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 4 0.13
28 11 0.37
29 6 0.20
30 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTAAAATTATTATTAAATAATAAATTAT
Found at i:27020743 original size:16 final size:16
Alignment explanation
Indices: 27020722--27020776 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
27020712 ACAAGAATCT
27020722 TATTACAGTTCTATTC
1 TATTACAGTTCTATTC
**
27020738 TATTACAACTCTATTC
1 TATTACAGTTCTATTC
*
27020754 TTTTACAGCTT-TATTC
1 TATTACAG-TTCTATTC
*
27020770 CATTACA
1 TATTACA
27020777 CTGAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (16 bp):
TATTACAGTTCTATTC
Found at i:27020843 original size:21 final size:21
Alignment explanation
Indices: 27020817--27020858 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27020807 ATACGTATAA
27020817 GTAAAACTAAAAAATGAATTT
1 GTAAAACTAAAAAATGAATTT
27020838 GTAAAACTAAAAAATGAATTT
1 GTAAAACTAAAAAATGAATTT
27020859 CAAGAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (21 bp):
GTAAAACTAAAAAATGAATTT
Found at i:27022435 original size:17 final size:19
Alignment explanation
Indices: 27022408--27022442 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27022398 TTATATTAAG
27022408 TTTTTATTTTTA-AAAATA
1 TTTTTATTTTTACAAAATA
27022426 TTTTTA-TTTTACAAAAT
1 TTTTTATTTTTACAAAAT
27022443 TTTAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATTTTTACAAAATA
Found at i:27022694 original size:53 final size:52
Alignment explanation
Indices: 27022634--27022733 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 52
27022624 TTCAATTTGT
* *
27022634 TTTTAAATATATATTTAGT-AGTGTTTGCTTATATATTATTTTAAAAAAATTAC
1 TTTTAAATATACATTTA-TAAGTATTTGCTTATATATTA-TTTAAAAAAATTAC
* * *
27022687 TTTTAAATATCCATTTATAAGTATTTGTTTATATCTTATTTAAAAAA
1 TTTTAAATATACATTTATAAGTATTTGCTTATATATTATTTAAAAAA
27022734 TTATTGTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 10 0.24
53 31 0.76
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (52 bp):
TTTTAAATATACATTTATAAGTATTTGCTTATATATTATTTAAAAAAATTAC
Found at i:27023130 original size:17 final size:16
Alignment explanation
Indices: 27023104--27023138 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
27023094 AGTAAATTTG
*
27023104 TTTATAAAAATTGTAA
1 TTTATAAAAATTATAA
27023120 TTTATTAAAAATTATAA
1 TTTA-TAAAAATTATAA
27023137 TT
1 TT
27023139 AAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTATAAAAATTATAA
Found at i:27023460 original size:27 final size:26
Alignment explanation
Indices: 27023430--27023488 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
27023420 AATTAGATTA
27023430 AAATAATTTA-AAATAAATTT-AAATTT
1 AAATAATTTAGAAAT--ATTTAAAATTT
27023456 CAAATAA-TTAGAAATATTTAAAATTT
1 -AAATAATTTAGAAATATTTAAAATTT
27023482 AAATAAT
1 AAATAAT
27023489 AATTGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 10 0.34
26 9 0.31
27 10 0.34
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAATAATTTAGAAATATTTAAAATTT
Found at i:27026032 original size:18 final size:18
Alignment explanation
Indices: 27026009--27026051 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27025999 TGCCAAGTGA
* *
27026009 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
27026027 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
27026045 GTTTCCT
1 GTATCCT
27026052 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:27026525 original size:49 final size:49
Alignment explanation
Indices: 27026472--27026592 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
27026462 GTTTACATTA
*
27026472 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27026521 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27026570 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
27026593 AATATTCTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
Found at i:27027111 original size:125 final size:125
Alignment explanation
Indices: 27026889--27027164 Score: 471
Period size: 125 Copynumber: 2.2 Consensus size: 125
27026879 TAAAAGGAGC
* * *
27026889 AAGCGTGTTCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGCTTGAAGCGTTTT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGCTTGAAGCGTGTT
*
27026954 TTATACTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
66 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
* *
27027014 AAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTGTT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGCTTGAAGCGTGTT
*
27027079 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTATCAA
66 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
**
27027139 AAATGCGTCCACGTGGGAGCGATTTC
1 AAGCGCGTCCACGTGGGAGCGATTTC
27027165 CTTAATAAAT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 142 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (125 bp):
AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGCTTGAAGCGTGTT
TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
Found at i:27028135 original size:19 final size:16
Alignment explanation
Indices: 27028100--27028142 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
27028090 TTTCAATAAG
27028100 ATTTTAAAAATAATTT
1 ATTTTAAAAATAATTT
27028116 ATTTTAAAATTATAAATTT
1 ATTTTAAAA--AT-AATTT
27028135 ATTTTAAA
1 ATTTTAAA
27028143 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAAAAATAATTT
Found at i:27030062 original size:52 final size:52
Alignment explanation
Indices: 27029961--27030063 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
27029951 TTAATCCGAC
* *
27029961 CTACTGCAACTTCAAAGGTATAGGATTCATCGTTTTAATCCTCTTCACTGCT
1 CTACTGCAACTTCAAAGGTATAGGATTCATCGCTTTAATCCTCTCCACTGCT
* *
27030013 CTACTGCAACTTCAAAGAG-ATAAGG-TTCGTGGCTTTAAT-CTGCTCCACTGC
1 CTACTGCAACTTCAAAG-GTAT-AGGATTCATCGCTTTAATCCT-CTCCACTGC
27030064 AACTTTATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
51 2 0.05
52 38 0.86
53 4 0.09
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
CTACTGCAACTTCAAAGGTATAGGATTCATCGCTTTAATCCTCTCCACTGCT
Found at i:27030280 original size:92 final size:91
Alignment explanation
Indices: 27030099--27030406 Score: 297
Period size: 92 Copynumber: 3.4 Consensus size: 91
27030089 CCAGTCTTCA
* * * * * * **
27030099 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-TG--ATTTAT--TTTTAACCTGTTGCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
* * *
27030159 AACTTCAGGGAGATAAGGTTTGATATG
66 AACTTCAGGAAAATAA-GATTGATATG
*
27030186 ATCTGCTCTACTGCAACTTCAGATAGATAATG-TCTGTAATTTAT-AGCTTCAATCTGTTCCACT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAA-GATCTGTAATTTATGA-CTTCAATCTGTTCCACT
* *
27030249 ATGACTTTAGGAAAATAAGACTTGATATG
64 ATAACTTCAGGAAAATAAGA-TTGATATG
* * *
27030278 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGATTTTAATCTGTTCCACTGT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
* *
27030343 AACTTCAGGGAAATAAGATTCGTTATATTC
66 AACTTCAGGAAAATAAGATT-G--ATA-TG
* *
27030373 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 A-TCTGCTCTACTGCAACTTCAGAGAGATAAGAT
27030407 TAGTGGCTCC
Statistics
Matches: 183, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
87 28 0.15
88 3 0.02
90 6 0.03
91 4 0.02
92 106 0.58
93 1 0.01
94 3 0.02
95 2 0.01
96 30 0.16
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (91 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
AACTTCAGGAAAATAAGATTGATATG
Found at i:27030404 original size:45 final size:44
Alignment explanation
Indices: 27030328--27030453 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
27030318 TTATGATTTT
* * * * *
27030328 AATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGTTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAGATCC
* * * *
27030373 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTCC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGATCC
*
27030417 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTCG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
27030454 CCGTGATGAC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 37 0.54
45 32 0.46
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGATCC
Found at i:27038531 original size:19 final size:20
Alignment explanation
Indices: 27038507--27038553 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
27038497 TTGTGAAACT
* *
27038507 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
27038526 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
27038546 -AATGCAAA
1 TAATGCAAA
27038554 AGAGGTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:27042312 original size:12 final size:12
Alignment explanation
Indices: 27042286--27042320 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
27042276 AAAATACATA
27042286 AATAGATAGTAAT
1 AATAGATA-TAAT
27042299 AATAGATATAAT
1 AATAGATATAAT
*
27042311 AATAAATATA
1 AATAGATATA
27042321 GTAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGATATAAT
Found at i:27044364 original size:21 final size:21
Alignment explanation
Indices: 27044338--27044383 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
27044328 TTCCACTAAC
27044338 TTTGGCTATTTGTGATTATGA
1 TTTGGCTATTTGTGATTATGA
*
27044359 TTTGGCTATTTGTGATTATGG
1 TTTGGCTATTTGTGATTATGA
27044380 TTTG
1 TTTG
27044384 ATTAGTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.04, G:0.26, T:0.54
Consensus pattern (21 bp):
TTTGGCTATTTGTGATTATGA
Found at i:27045930 original size:17 final size:18
Alignment explanation
Indices: 27045897--27045932 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27045887 TAATGAATAC
*
27045897 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
27045915 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
27045932 A
1 A
27045933 AAATTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:27047989 original size:57 final size:58
Alignment explanation
Indices: 27047928--27048045 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 58
27047918 TATTTCCTGG
* *
27047928 TCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGA-TTCT-ATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATAATTTTCAAAT-ATTTCTCATTTCTCCATTT
*
27047985 TCATTTTCATTTTGGAGAAAACCATAATAATTTTCAAATATTTCTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATAATTTTCAAATATTTCTCATTTCTCCATTT
27048043 TCA
1 TCA
27048046 CCATTCCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 1 0.02
57 40 0.71
58 15 0.27
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.46
Consensus pattern (58 bp):
TCATTTTCATTTTGGAGAAAACCACAATAATTTTCAAATATTTCTCATTTCTCCATTT
Found at i:27053057 original size:15 final size:16
Alignment explanation
Indices: 27053027--27053059 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27053017 AATTAAATAG
27053027 ATGTGAGATCAAGAAA
1 ATGTGAGATCAAGAAA
27053043 ATGTGAGAT-AAGAAA
1 ATGTGAGATCAAGAAA
27053058 AT
1 AT
27053060 CTCACAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.21
Consensus pattern (16 bp):
ATGTGAGATCAAGAAA
Found at i:27054341 original size:69 final size:69
Alignment explanation
Indices: 27054260--27054514 Score: 379
Period size: 69 Copynumber: 3.7 Consensus size: 69
27054250 CATTGCAACC
* *
27054260 TCAATTGAAACATGTATTTTATACCAAC-GAAATGACATGATAATGTCCTAAAATGGATAACATT
1 TCAATTGAAACATATATTTTATA-CAACAGAAATGACATGATAATGTCCTAAAATGGACAACATT
27054324 AAACT
65 AAACT
* * * * * *
27054329 TCTATTGAAACATACATTTTATACAATC-GAAATGACATGATGATATCTTAAAATGGACAGCATT
1 TCAATTGAAACATATATTTTATACAA-CAGAAATGACATGATAATGTCCTAAAATGGACAACATT
27054393 AAACT
65 AAACT
* *
27054398 TCAATTGAAACATATATTTTATACCACTGAAATGACATGATAATGTCCTAAAATGGACAACATTA
1 TCAATTGAAACATATATTTTATACAACAGAAATGACATGATAATGTCCTAAAATGGACAACATTA
27054463 AACT
66 AACT
*
27054467 TCAATTGAAACATATATTTTATACAACAAAAATGACATGATAATGTCC
1 TCAATTGAAACATATATTTTATACAACAGAAATGACATGATAATGTCC
27054515 AACTGTGACA
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
68 4 0.02
69 162 0.98
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (69 bp):
TCAATTGAAACATATATTTTATACAACAGAAATGACATGATAATGTCCTAAAATGGACAACATTA
AACT
Found at i:27054698 original size:90 final size:90
Alignment explanation
Indices: 27054545--27054725 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
27054535 CTTAATTAAG
* *
27054545 TCATGTATTCCAACTCAACAATATACCATGATATTGTCTAGCCTTGAATAGCAGTTAACCCCCAA
1 TCATGTATTCCAACTCAACAATATACCATGATATTGTCTAGCCTTGAATAACAATTAACCCCCAA
27054610 GTACAACATGCTTCAAGTTGTGCAT
66 GTACAACATGCTTCAAGTTGTGCAT
27054635 TCATGTATTCCAACTCAACAATATACCATGATATTGTCTAGCCTTGAATAACAATTAACCCCCAA
1 TCATGTATTCCAACTCAACAATATACCATGATATTGTCTAGCCTTGAATAACAATTAACCCCCAA
27054700 GTACAACATGCTTCAAGTTGTGCAT
66 GTACAACATGCTTCAAGTTGTGCAT
27054725 T
1 T
27054726 TTAGAACAAC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (90 bp):
TCATGTATTCCAACTCAACAATATACCATGATATTGTCTAGCCTTGAATAACAATTAACCCCCAA
GTACAACATGCTTCAAGTTGTGCAT
Found at i:27058260 original size:25 final size:26
Alignment explanation
Indices: 27058206--27058285 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 26
27058196 TGGTATTCAA
* *
27058206 AGATTTCGCCAAAAAGGC-TTTCTAG
1 AGATTTCGACAGAAAGGCTTTTCTAG
* *
27058231 GGATTTCGATAGAAAGGCTTTTCT-G
1 AGATTTCGACAGAAAGGCTTTTCTAG
* * *
27058256 AGATTTCGCCATAAAGGCTTTT-AAG
1 AGATTTCGACAGAAAGGCTTTTCTAG
27058281 AGATT
1 AGATT
27058286 CCTTGAGTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 39 0.89
26 5 0.11
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (26 bp):
AGATTTCGACAGAAAGGCTTTTCTAG
Found at i:27063037 original size:3 final size:3
Alignment explanation
Indices: 27063031--27063057 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27063021 AAAAAAAAAA
27063031 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
27063058 CAATTCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27063217 original size:47 final size:47
Alignment explanation
Indices: 27063148--27063242 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
27063138 CCAATCATCT
27063148 TATAATTATTATTTCTAGCAGCCAAATGCAGACGGATAGTAAAGGCA
1 TATAATTATTATTTCTAGCAGCCAAATGCAGACGGATAGTAAAGGCA
27063195 TATAATTATTATTTCTAGCAGCCAAATGCAGACGGATAGTAAAGGCA
1 TATAATTATTATTTCTAGCAGCCAAATGCAGACGGATAGTAAAGGCA
27063242 T
1 T
27063243 CAAAATAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (47 bp):
TATAATTATTATTTCTAGCAGCCAAATGCAGACGGATAGTAAAGGCA
Found at i:27071659 original size:23 final size:22
Alignment explanation
Indices: 27071616--27071671 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
27071606 AAAGGGTATC
* *
27071616 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
27071637 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
27071660 TACATATCATAT
1 TACAAATCATAT
27071672 TTAAGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:27071678 original size:19 final size:19
Alignment explanation
Indices: 27071629--27071726 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 19
27071619 AAATTAAATC
*
27071629 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
27071649 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
27071671 TTTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
27071692 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
27071711 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
27071727 CTCGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 32 0.48
21 17 0.25
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:27071689 original size:21 final size:21
Alignment explanation
Indices: 27071663--27071725 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
27071653 CTAAGATTAC
*
27071663 ATATCATATTTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
27071684 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
27071703 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
27071724 AT
1 AT
27071726 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 19 0.49
21 20 0.51
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:27102841 original size:11 final size:11
Alignment explanation
Indices: 27102825--27102852 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27102815 GAAATCTCAA
27102825 TGTTCTTACCT
1 TGTTCTTACCT
27102836 TGTTCTTACCT
1 TGTTCTTACCT
27102847 TGTTCT
1 TGTTCT
27102853 ATTGATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.25, G:0.11, T:0.57
Consensus pattern (11 bp):
TGTTCTTACCT
Found at i:27110249 original size:51 final size:50
Alignment explanation
Indices: 27110067--27110410 Score: 392
Period size: 51 Copynumber: 6.8 Consensus size: 50
27110057 ACTTTTATCA
* *
27110067 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
*
27110116 TTACGATTCACGTAGTAGCCTTCACATAGTACTACA-ACGTGATCAAG-TT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
*
27110165 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * *
27110217 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
*
27110267 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * * * * *
27110319 CTCGGTACACATTGTAGCCTTCGCTTAGTACTACACATGTGACC-ATCATT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
*
27110369 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
27110411 TTCATCGATA
Statistics
Matches: 251, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
49 54 0.22
50 44 0.18
51 145 0.58
52 6 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:27110306 original size:102 final size:102
Alignment explanation
Indices: 27110068--27110410 Score: 496
Period size: 102 Copynumber: 3.4 Consensus size: 102
27110058 CTTTTATCAT
* * * * * *
27110068 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGATTCACGTAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
27110131 TAGCCTTCACATAGTACTACA-ACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
27110168 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
27110232 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
27110269 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
27110334 AGCCTTCGCTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
27110371 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
27110411 TTCATCGATA
Statistics
Matches: 222, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
99 39 0.18
100 32 0.14
101 15 0.07
102 136 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:27110915 original size:31 final size:30
Alignment explanation
Indices: 27110879--27110937 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
27110869 GCTTCGACTG
*
27110879 AACTTTTGTCAAAATTACGA-TTTTGTCCCTA
1 AACTTTT-ACAAAATTAC-ATTTTTGTCCCTA
*
27110910 AACTTTTACATAATTACATTTTTGTCCC
1 AACTTTTACAAAATTACATTTTTGTCCC
27110938 CAAGCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.68
31 7 0.28
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGTCCCTA
Found at i:27115365 original size:25 final size:29
Alignment explanation
Indices: 27115331--27115391 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
27115321 TTTTCTTAAA
27115331 ATTTGTTAATTT-TAAATA-ATGTA-ATT-
1 ATTT-TTAATTTATAAATATATGTATATTC
*
27115357 ATTTTTAATTTATATATATATGTATATTC
1 ATTTTTAATTTATAAATATATGTATATTC
27115386 ATTTTT
1 ATTTTT
27115392 TTCTTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
26 9 0.30
27 5 0.17
28 3 0.10
29 6 0.20
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (29 bp):
ATTTTTAATTTATAAATATATGTATATTC
Found at i:27115390 original size:29 final size:27
Alignment explanation
Indices: 27115331--27115406 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
27115321 TTTTCTTAAA
*
27115331 ATTTGTTAATTT-TAAATA-ATGTAATT
1 ATTT-TTAATTTATATATATATGTAATT
27115357 ATTTTTAATTTATATATATATGTATATT
1 ATTTTTAATTTATATATATATGTA-ATT
*
27115385 CATTTTT-TTCTTATATATATAT
1 -ATTTTTAAT-TTATATATATAT
27115407 TTTTTGCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 7 0.16
26 9 0.21
27 5 0.12
28 4 0.09
29 18 0.42
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (27 bp):
ATTTTTAATTTATATATATATGTAATT
Found at i:27115698 original size:22 final size:24
Alignment explanation
Indices: 27115649--27115698 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27115639 TATATTTTCC
*
27115649 TTTATTTTCATAAATGTATTATAT
1 TTTATTTTCATAAATGTATTATAA
27115673 TTTATTTAT-ATAAAT-T-TTATAA
1 TTTATTT-TCATAAATGTATTATAA
27115695 TTTA
1 TTTA
27115699 AAATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
24 13 0.54
25 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATTTTCATAAATGTATTATAA
Found at i:27115900 original size:18 final size:17
Alignment explanation
Indices: 27115879--27115922 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
27115869 CTTTGCATGT
27115879 TATTGATTTATTT-TTATA
1 TATT-ATTTATTTGTT-TA
27115897 TATTTATTTATTTGTTTA
1 TA-TTATTTATTTGTTTA
27115915 TATTATTT
1 TATTATTT
27115923 CTATGTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TATTATTTATTTGTTTA
Found at i:27115952 original size:15 final size:15
Alignment explanation
Indices: 27115932--27115960 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27115922 TCTATGTCAT
27115932 TATTGTATTTGTTAC
1 TATTGTATTTGTTAC
27115947 TATTGTATTTGTTA
1 TATTGTATTTGTTA
27115961 TCACGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (15 bp):
TATTGTATTTGTTAC
Found at i:27126929 original size:25 final size:26
Alignment explanation
Indices: 27126882--27126930 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
27126872 CAGAATTTGT
27126882 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTTATTCTTCA
27126908 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATA-CTTTATTCTT
27126931 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (26 bp):
TTGTTCTTGTAATACTTTATTCTTCA
Found at i:27127986 original size:44 final size:44
Alignment explanation
Indices: 27127914--27128585 Score: 388
Period size: 44 Copynumber: 15.3 Consensus size: 44
27127904 AAGTTAATCA
* * * *
27127914 AAGAAAGCAGATCCTGTCTTCATGTATTGACGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* * * *
27127958 AAGATAGCATATCCTGTCTTCCTATATTG--GT-AGGGAG-T-G
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* * * * ** * *
27127997 --GATCGAAGACCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATT-GACGTGAAGTAGATCG
* * *
27128040 AAGAAAGCAGATCTTGTCTTCATGTATT-AGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGA-CGTGAAGTAGATCG
* *
27128084 AAGATAGCAGATCCTGTCTTCCTATATTGGTA-GTGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-ACGTGAAGTAGATCG
* * * ** *
27128129 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATA-TTGACGTGAAGTAGATCG
* * * * *
27128173 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* * *
27128217 AAGATAGCAGATCCTGTCTTCCTATATTGGTA-GCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-ACGTGAAGTAGATCG
* * * *
27128262 AAGAT-GCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* * * * * * **
27128305 AAGAAATCAAATCTTGTCTTTCTATATTGGTA-GCGAAGTGGATTA
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-ACGTGAAGTAGATCG
* * * *
27128350 AAGATAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* * * * * * *
27128394 AAGAAAACAAATCCTGTCTTCCTATATTGGTA-GCGAAGTGGATTG
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-ACGTGAAGTAGATCG
* * *
27128439 AAGATAGCAAATCTTATCTTCCCATACTAGTGAC--GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT-CC-TA-TATTGACGTGAAGTAGATCG
* ** * * * *
27128484 AAGAAAATAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC-
1 AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
* ** * * * * *
27128527 AAGGATAACAGATCTTACCTACCTGTACTGGCAGTGAAGTAGATCA
1 AA-GATAGCAGATCTTGTCTTCCTATATTGAC-GTGAAGTAGATCG
*
27128573 AAAATAGCAGATC
1 AAGATAGCAGATC
27128586 ATATCCAGTC
Statistics
Matches: 474, Mismatches: 121, Indels: 65
0.72 0.18 0.10
Matches are distributed among these distances:
37 20 0.04
38 1 0.00
39 1 0.00
40 2 0.00
41 8 0.02
42 8 0.02
43 18 0.04
44 232 0.49
45 172 0.36
46 5 0.01
47 4 0.01
48 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGACGTGAAGTAGATCG
Found at i:27128166 original size:89 final size:89
Alignment explanation
Indices: 27128073--27128459 Score: 476
Period size: 89 Copynumber: 4.4 Consensus size: 89
27128063 GTATTAGCGT
* * * * * * *
27128073 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-ATGCA
1 GAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGAATGCA
* * * * * *
27128137 GATCTTATCTTCCCATACTGGTGGC
65 AATCCTGTCTTCCTATATTGGTAGC
* *
27128162 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAG-ATAGCA
1 GAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAT-GCA
*
27128226 GATCCTGTCTTCCTATATTGGTAGC
65 AATCCTGTCTTCCTATATTGGTAGC
27128251 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAAT-CA
1 GAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAG-AATGCA
* *
27128314 AATCTTGTCTTTCTATATTGGTAGC
65 AATCCTGTCTTCCTATATTGGTAGC
** * * **
27128339 GAAGTGGATTAAAGATAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAA
1 GAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAATGCAA
27128404 ATCCTGTCTTCCTATATTGGTAGC
66 ATCCTGTCTTCCTATATTGGTAGC
* * *
27128428 GAAGTGGATTGAAGATAGCAAATCTTATCTTC
1 GAAGTGGATCGAAGATAGCAGATCTTGTCTTC
27128460 CCATACTAGT
Statistics
Matches: 267, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
88 97 0.36
89 168 0.63
90 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (89 bp):
GAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAATGCAA
ATCCTGTCTTCCTATATTGGTAGC
Done.