Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 14 of 173
Found at i:3761364 original size:26 final size:27
Alignment explanation
Indices: 3761312--3761374 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
3761302 TTTAAAATAC
* *
3761312 TTTTAAAATAAATTTTTCTATTTTTTAT
1 TTTTAAAAT-AATTTTTCTAATGTTTAT
*
3761340 TTTTAAAAT-ATTTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTCTAATGTTTAT
*
3761366 TTTAAAAAT
1 TTTTAAAAT
3761375 GGGCTGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.71
28 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTCTAATGTTTAT
Found at i:3762402 original size:9 final size:9
Alignment explanation
Indices: 3762388--3762416 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
3762378 TGAACAATTC
3762388 AATAATATA
1 AATAATATA
3762397 AATAATATA
1 AATAATATA
3762406 AATAATATA
1 AATAATATA
3762415 AA
1 AA
3762417 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:3762958 original size:9 final size:9
Alignment explanation
Indices: 3762944--3762981 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
3762934 TTATAGTTTG
3762944 TTATTCGAA
1 TTATTCGAA
3762953 TTATTCGAA
1 TTATTCGAA
*
3762962 TTATTCGAG
1 TTATTCGAA
3762971 TTATTCGAA
1 TTATTCGAA
3762980 TT
1 TT
3762982 TGAAAACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:3768192 original size:35 final size:34
Alignment explanation
Indices: 3768143--3768222 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
3768133 TGTTTAATAA
* *
3768143 TATATAATTAATGATATTTAAA-TATAATTTATAT
1 TATATAATTAATGATAATTAAATTATAA-TGATAT
*
3768177 TATATGAATTTATGATAATTAAATTATAATGATAT
1 TATAT-AATTAATGATAATTAAATTATAATGATAT
*
3768212 TATATTATTAA
1 TATATAATTAA
3768223 ATGAATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 9 0.23
35 25 0.64
36 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (34 bp):
TATATAATTAATGATAATTAAATTATAATGATAT
Found at i:3768208 original size:25 final size:23
Alignment explanation
Indices: 3768164--3768224 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
3768154 TGATATTTAA
*
3768164 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
3768188 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
3768213 ATATTATTAAAT
1 ATATAATTAAAT
3768225 GAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:3768593 original size:35 final size:35
Alignment explanation
Indices: 3768549--3768617 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
3768539 TTTGTTTAAT
* *
3768549 AATTAATGATATTTAAA-TATAATTTATATTATATG
1 AATTAATGATAATTAAATTATAA-TGATATTATATG
*
3768584 AATTTATGATAATTAAATTATAATGATATTATAT
1 AATTAATGATAATTAAATTATAATGATATTATAT
3768618 TATTAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (35 bp):
AATTAATGATAATTAAATTATAATGATATTATATG
Found at i:3768609 original size:25 final size:23
Alignment explanation
Indices: 3768565--3768625 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
3768555 TGATATTTAA
*
3768565 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
3768589 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
3768614 ATATTATTAAAT
1 ATATAATTAAAT
3768626 GAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:3769898 original size:39 final size:40
Alignment explanation
Indices: 3769855--3769942 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
3769845 TGAATTATAG
* * * *
3769855 AATACTGGATATTGTTTTGAGTACTG-AGTGAATTGTGAA
1 AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
* * *
3769894 AATACTAAATATAGTTATGTGTAATGCATTGAATTGTGAA
1 AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
*
3769934 ATTACTGAA
1 AATACTGAA
3769943 GTAATAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 20 0.51
40 19 0.49
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (40 bp):
AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
Found at i:3770217 original size:45 final size:45
Alignment explanation
Indices: 3770149--3770248 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
3770139 GCCGACTACT
* ** *
3770149 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
* *
3770194 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTCACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
*
3770239 GCTACTGTTA
1 GTTACTGTTA
3770249 TTGCTACCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
Found at i:3773106 original size:14 final size:14
Alignment explanation
Indices: 3773089--3773117 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3773079 TCAATTCTTT
3773089 CTTCATCAAATATC
1 CTTCATCAAATATC
3773103 CTTCATCAAATATC
1 CTTCATCAAATATC
3773117 C
1 C
3773118 AACAAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
CTTCATCAAATATC
Found at i:3780426 original size:16 final size:16
Alignment explanation
Indices: 3780386--3780428 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3780376 TTAGTATTTT
3780386 AGAAAAAAATATATGAA
1 AGAAAAAAA-ATATGAA
* * *
3780403 ACACAAAAAATGTGAA
1 AGAAAAAAAATATGAA
3780419 AGAAAAAAAA
1 AGAAAAAAAA
3780429 AATGGAAGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.12
Consensus pattern (16 bp):
AGAAAAAAAATATGAA
Found at i:3785081 original size:22 final size:22
Alignment explanation
Indices: 3785051--3785093 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3785041 ACACCAAAAC
*
3785051 AGGCTTTTAGCGGCACTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
*
3785073 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCACTTTTT
3785094 AGAGCCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:3785248 original size:42 final size:43
Alignment explanation
Indices: 3785199--3785290 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 43
3785189 ATATCACAAA
*
3785199 CGCCGCTGAAGAGTAAGAGCTTTACCGGCG-CTTTAGTAGAAG
1 CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
* * * * *
3785241 CGCCGCTGAAGAGTAATACCTTTAGCGGCGTTTTTGGTATAAG
1 CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
3785284 CGCCGCT
1 CGCCGCT
3785291 ATAGAATAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (43 bp):
CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
Found at i:3785307 original size:43 final size:43
Alignment explanation
Indices: 3785260--3785398 Score: 183
Period size: 43 Copynumber: 3.2 Consensus size: 43
3785250 AGAGTAATAC
*
3785260 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGAAT-AGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAG-ATCAGGGT
*
3785303 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
* * ***
3785346 CTTTAGTGGCGTTTGTGACCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGT
3785389 CTTTAGCGGC
1 CTTTAGCGGC
3785399 ACTTTTCCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.94
44 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:3785418 original size:43 final size:41
Alignment explanation
Indices: 3785284--3785424 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
3785274 TTGGTATAAG
* ***
3785284 CGCCGCTATAGAAT-AGGGTCTTTAGCGGCGTTTTTGGTAAAA
1 CGCCGCTATAG-ATCAGGGTCTTTAGCGGC-CTTTTACCAAAA
* * * *
3785326 GCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTGTGACCGAAA
1 -CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTT-T-ACCAAAA
*
3785370 CGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGC-CTTTTACCA-AAA
* *
3785413 TGCCGCAATAGA
1 CGCCGCTATAGA
3785425 CCCTGATCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
42 7 0.09
43 66 0.84
44 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (41 bp):
CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTTTACCAAAA
Found at i:3785439 original size:43 final size:43
Alignment explanation
Indices: 3785392--3785531 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 43
3785382 TCAGGGTCTT
* * *
3785392 TAGCGGCACTTTTCCCACAAATGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAA-AGACCCTGATCTA
****
3785435 TAGCGGCGCTTCGGTCACAAACGCCACTAAAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGATCTA
* * ** *
3785478 TAGCGGCGCTTTTACCAAAAACATCGCTAAAGACCCT-ATTCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGA-TCTA
3785521 TAGCGGCGCTT
1 TAGCGGCGCTT
3785532 ATATCAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 77 0.96
44 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGATCTA
Found at i:3785540 original size:43 final size:44
Alignment explanation
Indices: 3785422--3785555 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 44
3785412 ATGCCGCAAT
**** * * *
3785422 AGACCCTGATCTATAGCGGCGCTTCGGTC-ACAAACGCCACTAA
1 AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
* *
3785465 AGACCCTGATCTATAGCGGCGCTTTTACC-AAAAACATCGCTAA
1 AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
* *
3785508 AGACCCT-ATTCTATAGCGGCGCTTATATCAAAAAACGCCGCTAA
1 AGACCCTGA-TCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
3785552 AGAC
1 AGAC
3785556 TAACACCTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 60 0.78
44 16 0.21
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (44 bp):
AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
Found at i:3785999 original size:21 final size:21
Alignment explanation
Indices: 3785904--3785996 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
3785894 TTTGACGCTG
*
3785904 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
3785925 CTCTACTTCCCTCGCTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
*
3785946 CTCTACTTCCCTC-TTAGCAGC
1 CTCTACTTCCCTCGCT-GCAGC
* * *
3785967 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
*
3785988 CTCTGCTTC
1 CTCTACTTC
3785997 TCTTGTTGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.08, C:0.44, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:3786006 original size:21 final size:21
Alignment explanation
Indices: 3785972--3786015 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3785962 GCAGCCTGTA
*
3785972 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCCGCATCTG
* *
3785993 CTTCTCTTGTTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATCTG
3786014 CT
1 CT
3786016 CTAAGCTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.41, G:0.18, T:0.39
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:3786078 original size:66 final size:66
Alignment explanation
Indices: 3786007--3786133 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
3785997 TCTTGTTGCC
* *
3786007 GCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGTTTCTCTCGCT
1 GCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATC-TTCGTTGAACATCAGCTTCTCTCGCT
3786070 ACT
64 ACT
* * *
3786073 GCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGAACATCAGCTTCTCTCG
1 GCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCG
3786134 ATGTTGCCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.02
66 52 0.96
67 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (66 bp):
GCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGCTAC
T
Found at i:3786149 original size:66 final size:66
Alignment explanation
Indices: 3786026--3786156 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
3786016 CTAAGCTGCT
* * * *
3786026 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGTTTCTCTCGCTACTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
3786091 A
66 A
* ** *
3786092 GCTGGAGTTCTTCATA-TCTTCTTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATACT-TTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTG
3786156 T
65 T
3786157 GTAATTTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
A
Found at i:3791127 original size:40 final size:42
Alignment explanation
Indices: 3791078--3791159 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
3791068 TTGTCGATTC
*
3791078 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
3791118 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
3791160 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:3791904 original size:39 final size:39
Alignment explanation
Indices: 3791840--3791925 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
3791830 AATTCCTAAC
*
3791840 CCAT-AACCCCTAAATCCCCTAAACCCTTAAAGCATAAA
1 CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
* *
3791878 CCATAAACCCCTAAATCTCTCT-AACCCCTAAAGCATAAC
1 CCATAAACCCCTAAATC-CCCTAAACCCCTAAAGCATAAA
*
3791917 CCCTAAACC
1 CCATAAACC
3791926 ATTCCAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 4 0.10
39 35 0.83
40 3 0.07
ACGTcount: A:0.40, C:0.40, G:0.02, T:0.19
Consensus pattern (39 bp):
CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
Found at i:3793018 original size:7 final size:7
Alignment explanation
Indices: 3792985--3793047 Score: 81
Period size: 7 Copynumber: 8.7 Consensus size: 7
3792975 CTTACCGTTC
3792985 AAACCCT
1 AAACCCT
**
3792992 AAACCAG
1 AAACCCT
*
3792999 AAATCCAT
1 AAA-CCCT
3793007 AAACCCT
1 AAACCCT
3793014 AAACCCT
1 AAACCCT
3793021 AAACCCAT
1 AAACCC-T
3793029 AAACCCT
1 AAACCCT
3793036 AAACCCT
1 AAACCCT
3793043 AAACC
1 AAACC
3793048 TTAACTCTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
7 37 0.74
8 13 0.26
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:3793018 original size:29 final size:29
Alignment explanation
Indices: 3792985--3793047 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
3792975 CTTACCGTTC
3792985 AAACCCTAAA-CCAGAAATCCATAAACCCT
1 AAACCCTAAACCCAGAAA-CCATAAACCCT
* *
3793014 AAACCCTAAACCCATAAACCCTAAACCCT
1 AAACCCTAAACCCAGAAACCATAAACCCT
3793043 AAACC
1 AAACC
3793048 TTAACTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (29 bp):
AAACCCTAAACCCAGAAACCATAAACCCT
Found at i:3793041 original size:22 final size:22
Alignment explanation
Indices: 3792985--3793047 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
3792975 CTTACCGTTC
** *
3792985 AAACCCTAAACCAGAAATCCAT
1 AAACCCTAAACCCTAAACCCAT
3793007 AAACCCTAAACCCTAAACCCAT
1 AAACCCTAAACCCTAAACCCAT
3793029 AAACCCTAAACCCTAAACC
1 AAACCCTAAACCCTAAACC
3793048 TTAACTCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCCAT
Found at i:3793605 original size:114 final size:112
Alignment explanation
Indices: 3793335--3793669 Score: 372
Period size: 113 Copynumber: 2.9 Consensus size: 112
3793325 AATCCCTGAT
*
3793335 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTGC
1 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCT-GAAAGCACAGAAAACGACGACGTTGC
* *
3793400 GCTTAGTTTTTTTGCGGCGCTTTCCAAAAAACGCCGCTAAAGACTGAA
65 GCTTAGTTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
* * * * * *
3793448 CATTAGCGGCGCTTTAACAAAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCTGAAAGCACAGAAAACGACGACGTTGC
*
3793512 GCTTAGGTTTTTTTGCGGCGCTTTA-ACAAAAACGCCGCTAAAGACTTCAG
65 GCTTA-GTTTTTTTGCGGCGCTTTACA-AAAAACGCCGCTAAAGAC-TCAA
* * * * *
3793562 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCA-AGAGACGACGTTCGTT
1 CATTAGCGGCGCTTT-TATAAAAACGCCGCTAAATCCCTGAAAGCACAGA-AAACGACG-ACGTT
* * * * *
3793626 GCGC-TAGTTTTAAGTAGCGGCGCTTTATAGAAAGCGCCGCTAAA
63 GCGCTTAGTTTT--TTTGCGGCGCTTTACAAAAAACGCCGCTAAA
3793670 TCCCTGAAAT
Statistics
Matches: 189, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
112 22 0.12
113 69 0.37
114 43 0.23
115 21 0.11
116 33 0.17
117 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (112 bp):
CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACGACGACGTTGCG
CTTAGTTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
Found at i:3793708 original size:74 final size:74
Alignment explanation
Indices: 3793565--3793708 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 74
3793555 ACTTCAGCAT
* * * *
3793565 TAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAGACGACGTTCGTTGCGC
1 TAGCGGCGCTTTATG-AAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGC
3793630 TAGTTTTAAG
65 TAGTTTTAAG
* ** *
3793640 TAGCGGCGCTTTAT-AGAAAGCGCCGCTAAATCCCTGAAATCTCGGGAAACAAC-ATCGTTGGGC
1 TAGCGGCGCTTTATGA-AAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGC
3793703 TTAGTT
65 -TAGTT
3793709 ATTTTTGCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
73 9 0.15
74 37 0.63
75 13 0.22
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (74 bp):
TAGCGGCGCTTTATGAAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGCT
AGTTTTAAG
Found at i:3808630 original size:24 final size:25
Alignment explanation
Indices: 3808596--3808660 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
3808586 TCATAATTTA
* *
3808596 TTTTTTAAAATTATAAA-A-ACTAT
1 TTTTTTTAAATTATAAATATACGAT
3808619 TTTTTTTGAAATTATAAATATACGAT
1 TTTTTTT-AAATTATAAATATACGAT
*
3808645 TTTTTTTAAATCATAA
1 TTTTTTTAAATTATAA
3808661 TTTTTTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 6 0.17
24 10 0.28
25 9 0.25
26 11 0.31
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTTTTTAAATTATAAATATACGAT
Found at i:3808647 original size:25 final size:24
Alignment explanation
Indices: 3808596--3808654 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
3808586 TCATAATTTA
*
3808596 TTTTTTAAAATTATAAAAACTATT
1 TTTTTTAAAATTATAAAAACGATT
*
3808620 TTTTTTGAAATTATAAATATACGATT
1 TTTTTTAAAATTATAAA-A-ACGATT
3808646 TTTTTTAAA
1 TTTTTTAAA
3808655 TCATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 16 0.53
25 1 0.03
26 13 0.43
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTTTAAAATTATAAAAACGATT
Found at i:3811277 original size:31 final size:32
Alignment explanation
Indices: 3811242--3811310 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
3811232 GTGGGTGACC
** *
3811242 AAAATGAAAA-TGATTTTTAATGGCAATGCCT
1 AAAATGAAAAGTGAGCTTTAATGGCAATACCT
*
3811273 AAAAT-AAAAGTGGGCTTTAATGGCAATACCT
1 AAAATGAAAAGTGAGCTTTAATGGCAATACCT
3811304 AAAATGA
1 AAAATGA
3811311 TTTTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.12
31 27 0.84
32 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (32 bp):
AAAATGAAAAGTGAGCTTTAATGGCAATACCT
Found at i:3815746 original size:13 final size:13
Alignment explanation
Indices: 3815728--3815752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3815718 GTAAACACAC
3815728 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
3815741 AAAAGAAAAAAA
1 AAAAGAAAAAAA
3815753 ACTGCGTAGA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:3816312 original size:27 final size:27
Alignment explanation
Indices: 3816282--3816334 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3816272 TTTGGACTGA
3816282 ATTT-ATTTATTATTTTCTTTGTTTTTG
1 ATTTGATTTATT-TTTTCTTTGTTTTTG
* *
3816309 ATTTGATTTCTTTTTTCTTTTTTTTT
1 ATTTGATTTATTTTTTCTTTGTTTTT
3816335 TATTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (27 bp):
ATTTGATTTATTTTTTCTTTGTTTTTG
Found at i:3820328 original size:27 final size:24
Alignment explanation
Indices: 3820292--3820343 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
3820282 AAAAAATTTA
*
3820292 TATTGTTAATGTACCAAATATTTAGCT
1 TATTGTTAATATA--AAATATTT-GCT
*
3820319 TATTTTTAATATAAAATATTTGCT
1 TATTGTTAATATAAAATATTTGCT
3820343 T
1 T
3820344 TAAATTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 8 0.35
27 11 0.48
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
TATTGTTAATATAAAATATTTGCT
Found at i:3829289 original size:29 final size:31
Alignment explanation
Indices: 3829221--3829297 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
3829211 TTAACGGCTC
* *
3829221 AGTAACTAAAATGTTACAATACGATAACGTA
1 AGTAACTAAAATGTAACAATACGATAACATA
* * *
3829252 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTAACTAAAATGTAACAATACGATAACATA
3829281 AGTAACTAAAATGTAAC
1 AGTAACTAAAATGTAAC
3829298 CTGAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (31 bp):
AGTAACTAAAATGTAACAATACGATAACATA
Found at i:3833094 original size:10 final size:10
Alignment explanation
Indices: 3833079--3833106 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3833069 TTAGGCCTAC
3833079 TCAATTTAGT
1 TCAATTTAGT
3833089 TCAATTTAGT
1 TCAATTTAGT
3833099 TCAATTTA
1 TCAATTTA
3833107 TTATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (10 bp):
TCAATTTAGT
Found at i:3835561 original size:18 final size:18
Alignment explanation
Indices: 3835540--3835609 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 18
3835530 GAACAATTTA
3835540 TGGTCAAAATAGAAATGG
1 TGGTCAAAATAGAAATGG
*
3835558 TGGTCAAAATTGGAGTAATGG
1 TGGTCAAAA-T--AGAAATGG
**
3835579 CCAAAGTCAAAATAGAAATGG
1 ---TGGTCAAAATAGAAATGG
3835600 TGGTCAAAAT
1 TGGTCAAAAT
3835610 TGGGGTGCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 17 0.43
19 1 0.03
21 14 0.35
23 1 0.03
24 7 0.17
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
TGGTCAAAATAGAAATGG
Found at i:3840139 original size:18 final size:18
Alignment explanation
Indices: 3840118--3840166 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3840108 ATTATTAAAT
*
3840118 TATTTTTATTTATTTTAA
1 TATTTTTATTTAATTTAA
* *
3840136 TATTATTA-TAAATTTAA
1 TATTTTTATTTAATTTAA
3840153 TATATTTTATTTAA
1 TAT-TTTTATTTAA
3840167 ATATAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 10 0.42
18 11 0.46
19 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTATTTAATTTAA
Found at i:3841140 original size:15 final size:16
Alignment explanation
Indices: 3841120--3841156 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
3841110 CAAAAAATCA
3841120 ATAAAA-TTACATTAT
1 ATAAAAGTTACATTAT
3841135 ATAAAAGTTACATTAT
1 ATAAAAGTTACATTAT
3841151 ATAAAA
1 ATAAAA
3841157 ATTAAATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (16 bp):
ATAAAAGTTACATTAT
Found at i:3841353 original size:60 final size:60
Alignment explanation
Indices: 3841280--3841397 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
3841270 TAAACTAAAT
* * * * *
3841280 ACAACAATTTATAACTTAATCCTAAATTGCTAATAAATTAAATT-TTAAATAATTACAAAC
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTACAAAC
3841340 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAA
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAA
3841398 TATTCTTACA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAAAC
Found at i:3841414 original size:19 final size:19
Alignment explanation
Indices: 3841390--3841534 Score: 102
Period size: 19 Copynumber: 7.3 Consensus size: 19
3841380 ATTATAAAAT
*
3841390 AATTACAATATTCTTACAA
1 AATTACAATATTCATACAA
3841409 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
3841428 AA-TACTAATCA--AAAACTATA
1 AATTAC-AAT-ATTCATAC-A-A
*
3841448 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
*
3841469 TAATTAAAATATTCATACAA
1 -AATTACAATATTCATACAA
3841489 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
3841510 AATTACAATATTTATACAA
1 AATTACAATATTCATACAA
3841529 AATTAC
1 AATTAC
3841535 CCATTGGCGC
Statistics
Matches: 102, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.06
19 51 0.50
20 13 0.13
21 23 0.23
22 5 0.05
23 4 0.04
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:3841512 original size:21 final size:21
Alignment explanation
Indices: 3841465--3841530 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
3841455 AATTAATTAT
*
3841465 AAAATAATTAAAATATTCATAC
1 AAAA-AATTACAATATTCATAC
3841487 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
3841506 AAAAAATTACAATATTTATAC
1 AAAAAATTACAATATTCATAC
3841527 AAAA
1 AAAA
3841531 TTACCCATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.40
20 2 0.05
21 22 0.55
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:3841596 original size:27 final size:27
Alignment explanation
Indices: 3841539--3841600 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
3841529 AATTACCCAT
***
3841539 TGGCGCCTCCCTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACAACTAA
* * *
3841566 TGGCGCCTTCTTATGAGGCACAACTAG
1 TGGCGCCTCCCTATGAGGCACAACTAA
3841593 TGGCGCCT
1 TGGCGCCT
3841601 ACCTGATAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.27
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAACTAA
Found at i:3841704 original size:27 final size:27
Alignment explanation
Indices: 3841670--3841736 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
3841660 ATATTTTTAT
3841670 TTAA-ATTTTTTTAAAAAAATAAAAAAA
1 TTAATATTTTTTT-AAAAAATAAAAAAA
*
3841697 -TAATATTTTATT-AAAAATAAAAAAA
1 TTAATATTTTTTTAAAAAATAAAAAAA
*
3841722 TTTAATAATTTTTTA
1 -TTAATATTTTTTTA
3841737 TTCATTAGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 13 0.39
26 3 0.09
27 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TTAATATTTTTTTAAAAAATAAAAAAA
Found at i:3847420 original size:31 final size:31
Alignment explanation
Indices: 3847353--3847418 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
3847343 ATAGTAAAGG
*
3847353 TAAAATTGTAATTTAGTCTTTCTAAAAATGA
1 TAAAATTGTAATTTAATCTTTCTAAAAATGA
* * *
3847384 TAAAATTTTGATTTAATCTTT-TAAAAATTA
1 TAAAATTGTAATTTAATCTTTCTAAAAATGA
3847414 TAAAA
1 TAAAA
3847419 ATATAAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
TAAAATTGTAATTTAATCTTTCTAAAAATGA
Found at i:3848597 original size:13 final size:13
Alignment explanation
Indices: 3848579--3848603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3848569 AGATAAGTTG
3848579 AATAAAATATAAT
1 AATAAAATATAAT
3848592 AATAAAATATAA
1 AATAAAATATAA
3848604 GTCTTTAAGG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAAATATAAT
Found at i:3854429 original size:17 final size:16
Alignment explanation
Indices: 3854404--3854437 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3854394 TCCCATTTTC
*
3854404 GTTATTTTAAATAAAAA
1 GTTAATTTAAA-AAAAA
3854421 GTTAATTTAAAAAAAA
1 GTTAATTTAAAAAAAA
3854437 G
1 G
3854438 GGGGTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
GTTAATTTAAAAAAAA
Found at i:3854886 original size:11 final size:11
Alignment explanation
Indices: 3854870--3854894 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3854860 ATTATGAAGT
3854870 ACTTGACCAAA
1 ACTTGACCAAA
3854881 ACTTGACCAAA
1 ACTTGACCAAA
3854892 ACT
1 ACT
3854895 CTTACGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (11 bp):
ACTTGACCAAA
Found at i:3859013 original size:10 final size:10
Alignment explanation
Indices: 3858998--3859022 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3858988 CTTAACTACC
3858998 ACTAAGAACA
1 ACTAAGAACA
3859008 ACTAAGAACA
1 ACTAAGAACA
3859018 ACTAA
1 ACTAA
3859023 AATAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.08, T:0.12
Consensus pattern (10 bp):
ACTAAGAACA
Found at i:3860803 original size:32 final size:32
Alignment explanation
Indices: 3860762--3860826 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
3860752 CATGTTTATA
3860762 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
1 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
*
3860794 ATTTTGAGGTTTTATGTTGTAATTTAGCCAAT
1 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
3860826 A
1 A
3860827 GTAAATGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (32 bp):
ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
Found at i:3860962 original size:40 final size:38
Alignment explanation
Indices: 3860918--3861036 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 38
3860908 AGAAAAAATC
*
3860918 GAGCATTAGCGGCGTTTTTAAGAAAACACCGCTAAAATA
1 GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAA-A
* * * *
3860957 GGAGCATTAGCGGCATTTTAAATAACACGCCGCTAAAAA
1 -GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAAA
* * *
3860996 GAGCCATTAGCGGCGGTTTTAATAAAAACGCCGCAAAAAA
1 GAG-CATTAGCGGCGTTTTTAAT-AAAACACCGCTAAAAA
3861036 G
1 G
3861037 CCAAAGCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.04
39 17 0.25
40 47 0.70
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (38 bp):
GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAAA
Found at i:3861161 original size:41 final size:42
Alignment explanation
Indices: 3861073--3861229 Score: 169
Period size: 41 Copynumber: 3.8 Consensus size: 42
3861063 ACTTTCGGGT
* *
3861073 CTTTAGCGGCGTTTT-T-TAATAAGTGCCGCTAATTCTATGGGC
1 CTTTAGCGGCGTTTTCTGTAA-AAGCGCCGCTAATGCT-TGGGC
* * *
3861115 TTTTAGCGGCGTTTT-TGTAAAAGCACCGCTAATGCTTTGGC
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
* * * * *
3861156 CTTTAGCGGCGTTTTGTGAAAAAACGCCGCTAATG-ATGGGT
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
*
3861197 CTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAA
3861230 GGACATTTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 51 0.52
42 44 0.45
43 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
Found at i:3861220 original size:83 final size:83
Alignment explanation
Indices: 3861073--3861229 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
3861063 ACTTTCGGGT
* * ** * *
3861073 CTTTAGCGGCGTTTTTTAATAAGTGCCGCTAATTCTATGGGCTTTTAGCGGCGTTTTTGTAAAAG
1 CTTTAGCGGCGTTTTTGAAAAAACGCCGCTAATTCGATGGGCTTTTAGCGGCGTTTTTGGAAAAG
3861138 CACCGCTAATGCTTTGGC
66 CACCGCTAATGCTTTGGC
3861156 CTTTAGCGGCGTTTTGTGAAAAAACGCCGCTAA-T-GATGGG-TCTTTAGCGGCGTTTTCTGGAA
1 CTTTAGCGGCGTTTT-TGAAAAAACGCCGCTAATTCGATGGGCT-TTTAGCGGCGTTTT-TGGAA
*
3861218 AAGCGCCGCTAA
63 AAGCACCGCTAA
3861230 GGACATTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
81 1 0.02
82 19 0.30
83 31 0.48
84 13 0.20
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (83 bp):
CTTTAGCGGCGTTTTTGAAAAAACGCCGCTAATTCGATGGGCTTTTAGCGGCGTTTTTGGAAAAG
CACCGCTAATGCTTTGGC
Found at i:3861876 original size:15 final size:15
Alignment explanation
Indices: 3861853--3861887 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3861843 TAGGGATTAT
3861853 GGTTT-AAGGGTTGG
1 GGTTTAAAGGGTTGG
*
3861867 GGTTTAAAGGTTTGG
1 GGTTTAAAGGGTTGG
3861882 GGTTTA
1 GGTTTA
3861888 GGGATAGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
GGTTTAAAGGGTTGG
Found at i:3863333 original size:82 final size:81
Alignment explanation
Indices: 3863078--3863378 Score: 221
Period size: 82 Copynumber: 3.7 Consensus size: 81
3863068 AATTTAATTT
* * * * * * **
3863078 GTGGCGTTTTTTGGGAAAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTC-AG
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
* *
3863142 AAGAGGAGTGTAATCTATTA
66 CAGA--AGT-TAAT-TTTTA
* * ** * * *
3863162 GTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTT-TTCAAAACGTCACCGTTTCTC
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTT-AAAACGGCACCGTTTCT-
* * *
3863226 TTCAGGACTTGAAATTTTA
64 TTCAGAAGTT-AATTTTTA
* * *
3863245 GT-GCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTCTTAAAACGGCACTGTTTCTTT
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
3863309 CAGTAAGTTAATTTTTA
66 CAG-AAGTTAATTTTTA
**** * ** * *
3863326 GTGGCGTTTTTGATAAAAACGCCGCAACTATACATTGAAGGTTCTTAAAACGG
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGG
3863379 TGCTGTTTCA
Statistics
Matches: 167, Mismatches: 43, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
81 14 0.08
82 90 0.54
83 10 0.06
84 51 0.31
86 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (81 bp):
GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
CAGAAGTTAATTTTTA
Found at i:3863439 original size:448 final size:449
Alignment explanation
Indices: 3862523--3863857 Score: 2129
Period size: 448 Copynumber: 3.0 Consensus size: 449
3862513 TTGGATATAT
* ** **
3862523 AGGACCACATTATAAGAAATAAAAAACATTAGCAGCGTTTGGGTAGAAACGCCGCAACTATGTAC
1 AGGACCACATTATAAGGAA-AAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTAC
* * *
3862588 CCATTTTTTTCAAAACGGCGTCGTAT-CCATTTAGAAATTTAATTTAATTTGTGGCATTTTATGG
65 CCATTTTTTTCAAAACGACGTCGT-TCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
* * * * * * * ** * *
3862652 GAAAATGCCATAAATATGTATTTTAATTTATCAAAACGGCGTCGTTTCAGAAGAGTACTGTAATC
129 GAAAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATC
* * * * *
3862717 TATCAGTGGTGTTTATGCTAGAAACGCTGC-A--ATG-A-T-A----TTTCAAAATGTCACCGTT
194 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTT
* * * *
3862772 TCACTTCAGGACTTGACATTTTAGTGGCGTTTTTCCGGAAAACGCTGGAAATATGAATTAAAGTT
259 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTT
3862837 TCTTAAAACGGCACTGTTTCTTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCG
324 TCTTAAAACGGCACTGTTTC-TTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCG
* *
3862902 CAACTATACATTGAAGGTTCTTAAAACAGTGCTATTTCAGAATTTAATTTTGGCAATTACGC
388 CAACTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
*
3862964 AGGACGACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
1 AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
3863029 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
66 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
3863094 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
131 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
3863159 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
196 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
3863224 TCTTCAGGACTTGAAATTTTAGT-GCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
261 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
3863288 TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
326 TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
3863353 CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
391 CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
*
3863412 AGGACCACATTATAAGGGAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
1 AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
3863477 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
66 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
*
3863542 AAACGTCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
131 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
*
3863607 TTAGTGGCGTTTATGCTAAAAACGCCACAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
196 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
* * * *
3863672 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTT-GGGAAACGCCAGAACTATGGATTAAAGTTTC
261 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
* * *
3863736 TTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGCA
326 TTAAAACGGCACTGTTTCT-TTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCA
* * * * *
3863801 AATATATATTTAAGGTTCTTAAAACGGTGCTGTTTCGGAATTTAATTTTGGAAATTA
390 ACTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTA
3863858 TGGAAGCAAT
Statistics
Matches: 834, Mismatches: 47, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
439 1 0.00
440 180 0.22
441 18 0.02
443 3 0.00
444 1 0.00
445 1 0.00
446 1 0.00
448 428 0.51
449 161 0.19
450 40 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (449 bp):
AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
Found at i:3863774 original size:82 final size:82
Alignment explanation
Indices: 3863626--3863785 Score: 198
Period size: 82 Copynumber: 2.0 Consensus size: 82
3863616 TTTATGCTAA
* * * * * * *
3863626 AAACGCCACAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTCTCTTCAGGACTTGAAATTT
1 AAACGCCACAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTCTATTCAGAACGTGAAATTT
3863691 TAGTGGCGTTTTTTGGG
66 TAGTGGCGTTTTTTGGG
* * *
3863708 AAACGCCAGAACTATGGATTAAAGTTTCTT-AAAACGGCACCGTTTCTATTCAGTAAGGT-AATT
1 AAACGCCACAACTATGGATTAAAGTTT-TTCAAAACGGCACCGTTTCTATTCAG-AACGTGAAAT
3863771 TTTAGTGGCGTTTTT
64 TTTAGTGGCGTTTTT
3863786 GCTAAAAACG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
82 62 0.94
83 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (82 bp):
AAACGCCACAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTCTATTCAGAACGTGAAATTT
TAGTGGCGTTTTTTGGG
Found at i:3864069 original size:14 final size:14
Alignment explanation
Indices: 3864031--3864069 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3864021 ATCGAAAGGA
*
3864031 AAAGAAAAAAATAG
1 AAAGAAAAAAATAC
**
3864045 AAAGACCAAAATAC
1 AAAGAAAAAAATAC
3864059 AAAGAAAAAAA
1 AAAGAAAAAAA
3864070 ATCAGAGGAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAATAC
Found at i:3864412 original size:16 final size:16
Alignment explanation
Indices: 3864391--3864451 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
3864381 ACCTGTTTTC
3864391 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
* **
3864407 TTATTTTGGTATAATTC
1 TTATTTTGGTAT-CTAA
3864424 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
3864440 TTATTTTGGTAT
1 TTATTTTGGTAT
3864452 ACTCAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (16 bp):
TTATTTTGGTATCTAA
Found at i:3864425 original size:33 final size:33
Alignment explanation
Indices: 3864388--3864452 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
3864378 TATACCTGTT
3864388 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
3864421 TTCTTATTTTGGTATCTAATTATTTTGGTATA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATA
3864453 CTCAAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (33 bp):
TTCTTATTTTGGTATCTAATTATTTTGGTATAA
Found at i:3864790 original size:157 final size:157
Alignment explanation
Indices: 3864504--3864815 Score: 615
Period size: 157 Copynumber: 2.0 Consensus size: 157
3864494 AATGTCTTTG
*
3864504 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
1 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAAAACTGTTTCT
3864569 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACACAAAAGGGAAA
66 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACACAAAAGGGAAA
3864634 ATCTAGCTAAATTGAATCTCAAAATTA
131 ATCTAGCTAAATTGAATCTCAAAATTA
3864661 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAAAACTGTTTCT
1 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAAAACTGTTTCT
3864726 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACACAAAAGGGAAA
66 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACACAAAAGGGAAA
3864791 ATCTAGCTAAATTGAATCTCAAAAT
131 ATCTAGCTAAATTGAATCTCAAAAT
3864816 AATAATGAAG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (157 bp):
ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAAAACTGTTTCT
TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACACAAAAGGGAAA
ATCTAGCTAAATTGAATCTCAAAATTA
Found at i:3865038 original size:12 final size:12
Alignment explanation
Indices: 3865023--3865053 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3865013 ATTCTTGGGT
3865023 TTTGTTTTCTAG
1 TTTGTTTTCTAG
3865035 TTTGTTTTCTAG
1 TTTGTTTTCTAG
*
3865047 TCTGTTT
1 TTTGTTT
3865054 AGCGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.10, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTGTTTTCTAG
Found at i:3866063 original size:29 final size:30
Alignment explanation
Indices: 3866022--3866081 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
3866012 GATTAGTTTA
*
3866022 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
3866051 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
3866082 CGTTAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:3866127 original size:11 final size:11
Alignment explanation
Indices: 3866107--3866139 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
3866097 ATTGATTGAC
*
3866107 TGTCAGTGAAT
1 TGTCAATGAAT
3866118 TGTCAATGAA-
1 TGTCAATGAAT
3866128 TGTCAATGAAT
1 TGTCAATGAAT
3866139 T
1 T
3866140 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:3866220 original size:13 final size:13
Alignment explanation
Indices: 3866174--3866300 Score: 62
Period size: 13 Copynumber: 9.4 Consensus size: 13
3866164 TATAACTTAC
*
3866174 ATTACGTAAATAT
1 ATTACTTAAATAT
* *
3866187 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
3866202 -TTACTTAAATAT
1 ATTACTTAAATAT
*
3866214 ATTACTTAAATAC
1 ATTACTTAAATAT
* *
3866227 ATTACTT-ACTAA
1 ATTACTTAAATAT
* * *
3866239 AGTTAAAGTATATATTAC
1 A-TT--ACT-TA-AATAT
*
3866257 ATTACTTACAT-T
1 ATTACTTAAATAT
*
3866269 ACTTACTAAAATAT
1 A-TTACTTAAATAT
3866283 ATTACTTAAATAT
1 ATTACTTAAATAT
3866296 ATTAC
1 ATTAC
3866301 ATTACTTAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
12 9 0.11
13 51 0.60
14 10 0.12
15 8 0.09
16 1 0.01
17 2 0.02
18 4 0.05
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:3866267 original size:9 final size:9
Alignment explanation
Indices: 3866253--3866328 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
3866243 AAAGTATATA
3866253 TTACATTAC
1 TTACATTAC
3866262 TTACATTAC
1 TTACATTAC
* *
3866271 TTAC-TAAA
1 TTACATTAC
* *
3866279 ATATATTAC
1 TTACATTAC
*
3866288 TTAAATATA-
1 TTACAT-TAC
3866297 TTACATTAC
1 TTACATTAC
*
3866306 TTAAAATTA-
1 TT-ACATTAC
3866315 TTACATTAC
1 TTACATTAC
3866324 TTACA
1 TTACA
3866329 AAAATTTTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
8 11 0.22
9 33 0.65
10 7 0.14
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.43
Consensus pattern (9 bp):
TTACATTAC
Found at i:3866306 original size:18 final size:18
Alignment explanation
Indices: 3866283--3866372 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
3866273 ACTAAAATAT
3866283 ATTACTTAAATATATTAC
1 ATTACTTAAATATATTAC
3866301 ATTACTTAAA-ATTATTAC
1 ATTACTTAAATA-TATTAC
*
3866319 ATTACTTACAAAAATTTTTAACTTAC
1 ATTACTT----AAA--TAT-A-TTAC
3866345 ATTACTTAAATATATTAC
1 ATTACTTAAATATATTAC
3866363 ATTACTTAAA
1 ATTACTTAAA
3866373 ATTTATATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
17 1 0.02
18 37 0.62
19 1 0.02
20 2 0.03
22 6 0.10
24 1 0.02
25 1 0.02
26 11 0.18
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTACTTAAATATATTAC
Found at i:3866660 original size:9 final size:9
Alignment explanation
Indices: 3866642--3866858 Score: 146
Period size: 9 Copynumber: 25.8 Consensus size: 9
3866632 CTTATATATA
*
3866642 AACTTGCAT
1 AACTTACAT
3866651 AACTTACAT
1 AACTTACAT
*
3866660 AA-TAACATAAT
1 AACTTAC---AT
3866671 AACTTACAT
1 AACTTACAT
*
3866680 TA--TACAT
1 AACTTACAT
*
3866687 AACCTACAT
1 AACTTACAT
3866696 AACTTACAT
1 AACTTACAT
*
3866705 AA--TACAC
1 AACTTACAT
3866712 AACTTACAT
1 AACTTACAT
*
3866721 AACTTAAAT
1 AACTTACAT
3866730 AACTTACAT
1 AACTTACAT
*
3866739 -AC-T--GT
1 AACTTACAT
**
3866744 AACTTTGAT
1 AACTTACAT
*
3866753 AACTAACAT
1 AACTTACAT
* *
3866762 TA--TACAC
1 AACTTACAT
3866769 AACTTACAT
1 AACTTACAT
3866778 AA--TACAT
1 AACTTACAT
*
3866785 TACTTACAT
1 AACTTACAT
3866794 AACTTACAT
1 AACTTACAT
3866803 AA--TA-AT
1 AACTTACAT
3866809 AACTTACAT
1 AACTTACAT
*
3866818 AA--TACAC
1 AACTTACAT
3866825 AACTTACAT
1 AACTTACAT
*
3866834 AACTTAAAT
1 AACTTACAT
3866843 AACTTACAT
1 AACTTACAT
3866852 AACTTAC
1 AACTTAC
3866859 CCGTGCAATT
Statistics
Matches: 161, Mismatches: 26, Indels: 42
0.70 0.11 0.18
Matches are distributed among these distances:
5 1 0.01
6 6 0.04
7 32 0.20
8 7 0.04
9 108 0.67
11 4 0.02
12 3 0.02
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:3866700 original size:25 final size:25
Alignment explanation
Indices: 3866661--3866853 Score: 125
Period size: 25 Copynumber: 7.9 Consensus size: 25
3866651 AACTTACATA
*
3866661 ATAACATA-ATAACTTACATTATAC
1 ATAACATACATAACTTACATAATAC
*
3866685 ATAACCTACATAACTTACATAATAC
1 ATAACATACATAACTTACATAATAC
* * *
3866710 ACAACTTACATAACTTAAAT-A-AC
1 ATAACATACATAACTTACATAATAC
* * **
3866733 -TTACATACTGTAACTTTGATAACTAAC
1 ATAACATAC-ATAACTTACATAA-T-AC
* *
3866760 AT--TATACACAACTTACATAATAC
1 ATAACATACATAACTTACATAATAC
* *
3866783 ATTACTTACATAACTTACATAATA-
1 ATAACATACATAACTTACATAATAC
* *
3866807 ATAACTTACATAA--TACACAACTTAC
1 ATAACATACATAACTTACATAA--TAC
* *
3866832 ATAACTTAAATAACTTACATAA
1 ATAACATACATAACTTACATAA
3866854 CTTACCCGTG
Statistics
Matches: 132, Mismatches: 23, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
22 11 0.08
23 14 0.11
24 24 0.18
25 70 0.53
26 4 0.03
27 8 0.06
28 1 0.01
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
ATAACATACATAACTTACATAATAC
Found at i:3866817 original size:40 final size:41
Alignment explanation
Indices: 3866642--3866858 Score: 142
Period size: 41 Copynumber: 5.2 Consensus size: 41
3866632 CTTATATATA
* * *
3866642 AACTTGCATAACTTACATAATAACATAATAACTTACATTATACAT
1 AACTTACATAAC-TACATAATTAC---ATAACTTACATAATACAT
* * *
3866687 AACCTACATAACTTACATAA-TACACAACTTACATAACTTAAAT
1 AACTTACATAAC-TACATAATTACATAACTTACATAA--TACAT
* ** * * *
3866730 AACTTACAT-ACT--GTAACTTTGATAACTAACATTATACAC
1 AACTTACATAACTACATAA-TTACATAACTTACATAATACAT
*
3866769 AACTTACATAA-TACATTACTTACATAACTTACATAATA-AT
1 AACTTACATAACTACA-TAATTACATAACTTACATAATACAT
* *
3866809 AACTTACATAA-TACACAACTTACATAACTTAAATAACTTACAT
1 AACTTACATAACTACATAA-TTACATAACTTACATAA--TACAT
3866852 AACTTAC
1 AACTTAC
3866859 CCGTGCAATT
Statistics
Matches: 135, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
39 17 0.13
40 33 0.24
41 38 0.28
42 6 0.04
43 21 0.16
44 2 0.01
45 18 0.13
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (41 bp):
AACTTACATAACTACATAATTACATAACTTACATAATACAT
Found at i:3866832 original size:31 final size:33
Alignment explanation
Indices: 3866789--3866853 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
3866779 ATACATTACT
*
3866789 TACATAACTTACATAA-T-AATAACTTACATAA
1 TACACAACTTACATAACTAAATAACTTACATAA
3866820 TACACAACTTACATAACTTAAATAACTTACATAA
1 TACACAACTTACATAAC-TAAATAACTTACATAA
3866854 CTTACCCGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.50
33 1 0.03
34 14 0.47
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (33 bp):
TACACAACTTACATAACTAAATAACTTACATAA
Found at i:3872364 original size:66 final size:66
Alignment explanation
Indices: 3872258--3872427 Score: 243
Period size: 66 Copynumber: 2.6 Consensus size: 66
3872248 AGCAAATTAC
* * * *
3872258 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTC-AAAAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAAAAAAAG-TATGAAGAACTCCAG
*
3872322 CT
65 CA
*
3872324 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCCGAGGTTCAAAAAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAAAAAAAGTATGAAGAACTCCAGC
3872389 A
66 A
* * *
3872390 ACAGCTTAAAGCAGATGCGGCAGCGAGAGAAGCAGAGG
1 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGG
3872428 CTGCAACGAG
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
66 87 0.93
67 7 0.07
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (66 bp):
ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAAAAAAAGTATGAAGAACTCCAGC
A
Found at i:3872422 original size:21 final size:21
Alignment explanation
Indices: 3872398--3872489 Score: 69
Period size: 21 Copynumber: 4.4 Consensus size: 21
3872388 CAACAGCTTA
* *
3872398 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* *
3872419 AAGCAGAGGCTGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
** *
3872440 AAGCAGAGGC-TAAAGCGAGGG
1 AAGCAGAGGCGGCAA-CGAGAG
* * * *
3872461 AAGTAGAAGCTGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
3872482 AAGCAGAG
1 AAGCAGAG
3872490 CAGCGTAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 2 0.04
21 53 0.93
22 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.41, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:3872872 original size:43 final size:43
Alignment explanation
Indices: 3872825--3873046 Score: 261
Period size: 43 Copynumber: 5.1 Consensus size: 43
3872815 AAAAATGCCA
* *
3872825 CTAAAGAGAAGGGTCTTTAGCGGCGTTTGTGTAGAAAGCGCCG
1 CTAAAGATAAGGGTCTTTAGCGGCGTTTGTGAAGAAAGCGCCG
* * *
3872868 CTAAAGATAAAGGTCATTTA-CGGCGTTTTTGGAGAAAGCGCCG
1 CTAAAGATAAGGGTC-TTTAGCGGCGTTTGTGAAGAAAGCGCCG
* * *
3872911 CTAAAGA-AAGGGGTCTTTTTGCGGCGTTTCTGGAGAAAGCGCCG
1 CTAAAGATAA-GGGTC-TTTAGCGGCGTTTGTGAAGAAAGCGCCG
* *
3872955 CTAAAGACT-AGGTTCTTTAGCGGCGTTTGTGAAAAAAGCGCCG
1 CTAAAGA-TAAGGGTCTTTAGCGGCGTTTGTGAAGAAAGCGCCG
* * * *
3872998 CTAAAGATCAGGTTCTTTATCGGCGTTTGTGAAAAAAGCGCCG
1 CTAAAGATAAGGGTCTTTAGCGGCGTTTGTGAAGAAAGCGCCG
3873041 CTAAAG
1 CTAAAG
3873047 GTCCTCGTCT
Statistics
Matches: 159, Mismatches: 14, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
42 3 0.02
43 118 0.74
44 37 0.23
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
CTAAAGATAAGGGTCTTTAGCGGCGTTTGTGAAGAAAGCGCCG
Found at i:3872958 original size:87 final size:87
Alignment explanation
Indices: 3872798--3873046 Score: 258
Period size: 87 Copynumber: 2.9 Consensus size: 87
3872788 TCTGCCAAAA
* * * ** * * *
3872798 TTAGTGGCGTTTTTTAAAAAAATGCCACTAAAGAGAAGGGTC-TTTAGCGGCGTTTGTGTAGAAA
1 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAGAAGGGTCTTTTTGCGGCGTTTGTGAAGAAA
3872862 GCGCCGCTAAAGA-TAAAGG-TCAT
66 GCGCCGCTAAAGACT--AGGTTC-T
* * * * *
3872885 TTA-CGGCGTTTTTGGAGAAAGCGCCGCTAAAGA-AAGGGGTCTTTTTGCGGCGTTTCTGGAGAA
1 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAGAA-GGGTCTTTTTGCGGCGTTTGTGAAGAA
3872948 AGCGCCGCTAAAGACTAGGTTCT
65 AGCGCCGCTAAAGACTAGGTTCT
** * * *
3872971 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCAGGTTCTTTAT-CGGCGTTTGTGAAAAAA
1 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAGAAGGGTCTTTTTGCGGCGTTTGTGAAGAAA
3873035 GCGCCGCTAAAG
66 GCGCCGCTAAAG
3873047 GTCCTCGTCT
Statistics
Matches: 137, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
85 2 0.01
86 61 0.45
87 72 0.53
88 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (87 bp):
TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAGAAGGGTCTTTTTGCGGCGTTTGTGAAGAAA
GCGCCGCTAAAGACTAGGTTCT
Found at i:3873058 original size:43 final size:43
Alignment explanation
Indices: 3872838--3873117 Score: 210
Period size: 43 Copynumber: 6.3 Consensus size: 43
3872828 AAGAGAAGGG
* * * * *
3872838 TCTTTAGCGGCGTTTGTGTAGAAAGCGCCGCTAAAGATAAAGG
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCACGT
* * * * * *
3872881 TCATTTA-CGGCGTTTTTGGAGAAAGCGCCGCTAAAGA-AAGGGG
1 TC-TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCA-CGT
* * * * *
3872924 TCTTTTTGCGGCGTTTCTGGAGAAAGCGCCGCTAAAGA-CTAGGT
1 TC-TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATC-ACGT
*
3872968 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCACGT
* * *
3873011 TCTTTATCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTCG-
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAT-CACGT
* * *
3873054 TCTTTAGCGGCATTTTTAGTAAAAAA-CGCCGCTAAAGTTAGCGACGCCT
1 TCTTTAGCGGCGTTTGT-G-AAAAAAGCGCCGCTAAAG--ATC-ACG--T
3873103 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
3873118 TTCCTGGCGC
Statistics
Matches: 200, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.01
43 122 0.61
44 52 0.26
45 8 0.04
46 2 0.01
49 14 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCACGT
Found at i:3873084 original size:130 final size:130
Alignment explanation
Indices: 3872814--3873090 Score: 299
Period size: 130 Copynumber: 2.1 Consensus size: 130
3872804 GCGTTTTTTA
* * * * *
3872814 AAAAAATGCCACTAAAGAGAAGGGTCTTTAGCGGCGTTTGTGTAGAAAGCGCCGCTAAAGATAAA
1 AAAAAACGCCGCTAAAGACAAGGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATAAA
* * * * * * *
3872879 GGTCATTTACGGCGTTTTTGGAGAAAGCGCCGCTAAAGAAAGGGGTCTTTTTGCGGCGTTTCTGG
66 GGTCATTTACGGCGTTTGTGAAAAAAGCGCCGCTAAAGAAACGCGTCTTTTAGCGGCATTTCTGG
* * * * *
3872944 AGAAAGCGCCGCTAAAGACTAGGTTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAT-CA
1 AAAAAACGCCGCTAAAGACAAGGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATAAA
*** * *
3873008 GGTTC-TTTATCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTCGTC-TTTAGCGGCATTTTT
66 GG-TCATTTA-CGGCGTTTGTGAAAAAAGCGCCGCTAAAGAAACGCGTCTTTTAGCGGCATTTCT
*
3873071 AGT
129 -GG
3873074 AAAAAACGCCGCTAAAG
1 AAAAAACGCCGCTAAAG
3873091 TTAGCGACGC
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
129 19 0.16
130 100 0.84
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (130 bp):
AAAAAACGCCGCTAAAGACAAGGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATAAA
GGTCATTTACGGCGTTTGTGAAAAAAGCGCCGCTAAAGAAACGCGTCTTTTAGCGGCATTTCTGG
Found at i:3873085 original size:87 final size:84
Alignment explanation
Indices: 3872798--3873090 Score: 268
Period size: 86 Copynumber: 3.4 Consensus size: 84
3872788 TCTGCCAAAA
* * * * * *
3872798 TTAGTGGCGTTTTTTAAAAAAATGCCACTAAAGAGAAGGGTCTTTAGCGGCGTTTGTGTAGAAAG
1 TTAGCGGCG-TTTTTGAAAAAACGCCGCTAAAGA-AAGGGTCTTTATCGGCGTTTGTGAAGAAAG
* **
3872863 CGCCGCTAAAGATAAAGGTCAT
64 CGCCGCTAAAGGTACTGGTC-T
* * * * *
3872885 TTA-CGGCGTTTTTGGAGAAAGCGCCGCTAAAGAAAGGGGTCTTTTTGCGGCGTTTCTGGAGAAA
1 TTAGCGGCGTTTTT-GAAAAAACGCCGCTAAAGAAA-GGGTCTTTAT-CGGCGTTTGTGAAGAAA
3872949 GCGCCGCTAAA-G-ACTAGGTTCT
63 GCGCCGCTAAAGGTACT-GG-TCT
* * * *
3872971 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCAGGTTCTTTATCGGCGTTTGTGAAAAAAG
1 TTAGCGGCGTTTTTGAAAAAA-CGCCGCTAAAGA-AAGGGTCTTTATCGGCGTTTGTGAAGAAAG
* *
3873036 CGCCGCTAAAGGTCCTCGTCT
64 CGCCGCTAAAGGTACTGGTCT
*
3873057 TTAGCGGCATTTTTAGTAAAAAACGCCGCTAAAG
1 TTAGCGGCGTTTTT-G-AAAAAACGCCGCTAAAG
3873091 TTAGCGACGC
Statistics
Matches: 168, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
85 8 0.05
86 77 0.46
87 74 0.44
88 9 0.05
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (84 bp):
TTAGCGGCGTTTTTGAAAAAACGCCGCTAAAGAAAGGGTCTTTATCGGCGTTTGTGAAGAAAGCG
CCGCTAAAGGTACTGGTCT
Found at i:3874143 original size:28 final size:28
Alignment explanation
Indices: 3874103--3874228 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
3874093 TGACTTCCGA
*
3874103 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
3874131 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
3874159 CACTAAGTGTACGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
3874187 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
3874215 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
3874229 ACTTATTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:3874981 original size:23 final size:23
Alignment explanation
Indices: 3874954--3875435 Score: 312
Period size: 23 Copynumber: 20.6 Consensus size: 23
3874944 TTATGCTTAA
* *
3874954 ATGCTATCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* *
3874977 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3875000 ATGCTGTCCAATCTTGATGTAAAA
1 ATGCTGTCCAAT-TTGTTGTATAT
* *
3875024 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGTTGTATAT
* * * *
3875047 ATGCTGCCCAAATTGTTGCACAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3875070 ATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
3875094 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
3875117 ATGCTGCCCAAATTGGTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * * * *
3875140 TTGCTCTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
* *
3875164 ATGATGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3875187 ATGCTGCCCAAATTGTTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
3875210 ATGCTGTCCAATTTTTATGCT-TAA
1 ATGCTGTCCAATTTGT-TG-TATAT
* *
3875234 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
** *
3875257 ATGCTACCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3875280 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
** *
3875304 ATGCTGTTAAATTTGGTATATATAT
1 ATGCTGTCCAATTT-GT-TGTATAT
* * *
3875329 AGGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
3875352 ATGCTGTCCAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
3875376 ATGCTG-CTCAATTTGATTG-ATAT
1 ATGCTGTC-CAATTTG-TTGTATAT
* * *
3875399 ATGTTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
3875422 ATGCTGTCCAATTT
1 ATGCTGTCCAATTT
3875436 TTGGTGTGAA
Statistics
Matches: 341, Mismatches: 96, Indels: 44
0.71 0.20 0.09
Matches are distributed among these distances:
22 9 0.03
23 208 0.61
24 106 0.31
25 18 0.05
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:3875036 original size:70 final size:70
Alignment explanation
Indices: 3874939--3875437 Score: 632
Period size: 70 Copynumber: 7.1 Consensus size: 70
3874929 ATGTTCATGT
* *
3874939 AATTTTTATGCTTAAATGCT-ATCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGCT-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
3875003 CTGTCC
65 CTGTCC
* * * * * * *
3875009 AATCTTGATG-TAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGCACATATG
1 AATTTTTATGCT-AAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
*
3875073 CTGTCA
65 CTGTCC
* * *
3875079 AATTTTTATGCTAAAATGCTG-TCCAATTTGTTGTATTTATGCTGCCCAAATTGGTGCATATTTG
1 AATTTTTATGCTAAAATGCTGCT-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
* *
3875143 CTCTCA
65 CTGTCC
* *
3875149 AATTTTTATGCTAAAATGATG-TCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATG
1 AATTTTTATGCTAAAATGCTGCT-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
3875213 CTGTCC
65 CTGTCC
* * *
3875219 AATTTTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
3875284 TGTCC
66 TGTCC
* * * * * *
3875289 AATTTTGATG-TAAAAATGCTGTTAAATTTGGTATATATATAGGCTGCCCAAATTGTTGTATATA
1 AATTTTTATGCT-AAAATGCTGCTCAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATATA
3875353 TGCTGTCC
63 TGCTGTCC
* *
3875361 AATTTTTATGCTAAAATGCTGCTCAATTTGATTG-ATATATGTTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGCTCAATTTG-TTGTATTTATGCTGCCCAAATTGTTGTATATATG
3875425 CTGTCC
65 CTGTCC
3875431 AATTTTT
1 AATTTTT
3875438 GGTGTGAAAA
Statistics
Matches: 375, Mismatches: 44, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
69 3 0.01
70 305 0.81
71 6 0.02
72 60 0.16
73 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (70 bp):
AATTTTTATGCTAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
TGTCC
Found at i:3875191 original size:140 final size:140
Alignment explanation
Indices: 3874939--3875484 Score: 715
Period size: 140 Copynumber: 3.9 Consensus size: 140
3874929 ATGTTCATGT
* *
3874939 AATTTTTATGCTTAAATGCTATCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
* * *
3875004 TGTCCAATCTTGATGTAAAAATGCTG-CTCAATTTGGTATATATATGCTGCCCAAATTGTTGCAC
66 TGTCCAATTTTGATGTAAAAATGCTGTC-CAATTTGTTATATATATGCTGCCCAAATTGTTGCAT
*
3875068 ATATGCTGTCA
130 ATATGCTGTCC
* * *
3875079 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGGTGCATATTTGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
* * * * * *
3875144 TCTCAAATTTTTATGCT-AAAATGATGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCAT
66 TGTCCAATTTTGATG-TAAAAATGCTGTCCAATTTGTTATATATATGCTGCCCAAATTGTTGCAT
3875208 ATATGCTGTCC
130 ATATGCTGTCC
* * *
3875219 AATTTTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
** * *
3875284 TGTCCAATTTTGATGTAAAAATGCTGTTAAATTTGGTATATATATAGGCTGCCCAAATTGTTGTA
66 TGTCCAATTTTGATGTAAAAATGCTGTCCAATTT-GT-TATATATATGCTGCCCAAATTGTTGCA
3875349 TATATGCTGTCC
129 TATATGCTGTCC
* *
3875361 AATTTTTATGCTAAAATGCTG-CTCAATTTGATTG-ATATATGTTGCCCAAATTGTTGTATATAT
1 AATTTTTATGCTAAAATGCTGTC-CAATTTG-TTGTATTTATGCTGCCCAAATTGTTGTATATAT
* * * * * *
3875424 GCTGTCCAATTTTTGGTGTGAAAATGCTATCTAGTTTGGTATATGA-ATGCTGCCCAAATTG
64 GCTGTCCAA-TTTTGATGTAAAAATGCTGTCCAATTTGTTATAT-ATATGCTGCCCAAATTG
3875485 ATGTAAAAAG
Statistics
Matches: 354, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
139 1 0.00
140 206 0.58
141 24 0.07
142 99 0.28
143 24 0.07
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (140 bp):
AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
TGTCCAATTTTGATGTAAAAATGCTGTCCAATTTGTTATATATATGCTGCCCAAATTGTTGCATA
TATGCTGTCC
Found at i:3881926 original size:28 final size:28
Alignment explanation
Indices: 3881880--3882005 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
3881870 TGACTTTCGA
3881880 CACTAAGTGTGCGTA-TTTAATTGTAAAG
1 CACTAAGTGTGCG-AGTTTAATTGTAAAG
*
3881908 CACTAAGTGTGCTAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
3881936 CACTAAGTGTACGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
3881964 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
3881992 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
3882006 ACTTATTAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 1 0.01
28 84 0.99
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:3882744 original size:23 final size:23
Alignment explanation
Indices: 3882717--3883198 Score: 339
Period size: 23 Copynumber: 20.6 Consensus size: 23
3882707 TTATGCTTAA
*
3882717 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3882740 ATGCTGCCCAAATTGTTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3882763 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
* *
3882787 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGTTGTATAT
* * * *
3882810 ATGCTGCCCAAATTGTTGCACAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3882833 ATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
3882857 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
3882880 ATGCTGCCCAAATTGGTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3882903 ATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
* *
3882927 ATGCTGTCCAATTTGTTATATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3882950 ATGCTGCCCAAATTGTTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
3882973 ATGCTGTCCAATTTTTATGCT-TAA
1 ATGCTGTCCAATTTGT-TG-TATAT
* *
3882997 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
** **
3883020 ATGCTACCCAAACTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
3883043 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
*
3883067 ATGCTG-CTCAATTTGGTATATATAT
1 ATGCTGTC-CAATTT-GT-TGTATAT
* * *
3883092 AGGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
3883115 ATGCTGTCCAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
3883139 ATGCTGTTCAATTTGATTG-ATAT
1 ATGCTGTCCAATTTG-TTGTATAT
* *
3883162 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
3883185 ATGCTGTCCAATTT
1 ATGCTGTCCAATTT
3883199 TTGGTGTGAA
Statistics
Matches: 346, Mismatches: 91, Indels: 44
0.72 0.19 0.09
Matches are distributed among these distances:
22 9 0.03
23 211 0.61
24 106 0.31
25 19 0.05
26 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:3882791 original size:70 final size:70
Alignment explanation
Indices: 3882702--3883217 Score: 693
Period size: 70 Copynumber: 7.3 Consensus size: 70
3882692 ATGTTCATGT
*
3882702 AATTTTTATGCTTAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
3882767 TGTCC
66 TGTCC
* * * * *
3882772 AATTTTGATG-TAAAAATGCTG-CTCAATTTGGTATATATATGCTGCCCAAATTGTTGCACATAT
1 AATTTTTATGCT-AAAATGCTGTC-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATAT
*
3882835 GCTGTCA
64 GCTGTCC
*
3882842 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGGTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
*
3882907 TGTCA
66 TGTCC
*
3882912 AATTTTTATGCTAAAATGCTGTCCAATTTGTTATATTTATGCTGCCCAAATTGTTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
3882977 TGTCC
66 TGTCC
* * * * *
3882982 AATTTTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAACTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
3883047 TGTCC
66 TGTCC
* * * * *
3883052 AATTTTGATG-TAAAAATGCTG-CTCAATTTGGTATATATATAGGCTGCCCAAATTGTTGTATAT
1 AATTTTTATGCT-AAAATGCTGTC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGCATAT
3883115 ATGCTGTCC
62 ATGCTGTCC
* * *
3883124 AATTTTTATGCTAAAATGCTGTTCAATTTGATTG-ATATATGCTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGTCCAATTTG-TTGTATTTATGCTGCCCAAATTGTTGCATATATG
3883188 CTGTCC
65 CTGTCC
*
3883194 AATTTTTGGTG-TGAAAATGCTGTC
1 AATTTTT-ATGCT-AAAATGCTGTC
3883218 TAGTTTGGTA
Statistics
Matches: 398, Mismatches: 35, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
69 4 0.01
70 316 0.79
71 18 0.05
72 59 0.15
73 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (70 bp):
AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
TGTCC
Found at i:3882954 original size:140 final size:140
Alignment explanation
Indices: 3882702--3883215 Score: 773
Period size: 140 Copynumber: 3.6 Consensus size: 140
3882692 ATGTTCATGT
*
3882702 AATTTTTATGCTTAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
* *
3882767 TGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGCACA
66 TGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGTTATATATATGCTGCCCAAATTGTTGCATA
*
3882832 TATGCTGTCA
131 TATGCTGTCC
*
3882842 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGGTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
* * *
3882907 TGTCAAATTTTTATGCT-AAAATGCTG-TCCAATTTGTTATATTTATGCTGCCCAAATTGTTGCA
66 TGTCCAATTTTGATG-TAAAAATGCTGCT-CAATTTGTTATATATATGCTGCCCAAATTGTTGCA
3882970 TATATGCTGTCC
129 TATATGCTGTCC
* * * * *
3882982 AATTTTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAACTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
* *
3883047 TGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATAGGCTGCCCAAATTGTTGTA
66 TGTCCAATTTTGATGTAAAAATGCTGCTCAATTT-GT-TATATATATGCTGCCCAAATTGTTGCA
3883112 TATATGCTGTCC
129 TATATGCTGTCC
* * *
3883124 AATTTTTATGCTAAAATGCTGTTCAATTTGATTG-ATATATGCTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGTCCAATTTG-TTGTATTTATGCTGCCCAAATTGTTGCATATATG
* *
3883188 CTGTCCAATTTTTGGTGTGAAAATGCTG
65 CTGTCCAA-TTTTGATGTAAAAATGCTG
3883216 TCTAGTTTGG
Statistics
Matches: 339, Mismatches: 27, Indels: 13
0.89 0.07 0.03
Matches are distributed among these distances:
139 2 0.01
140 215 0.63
141 4 0.01
142 98 0.29
143 20 0.06
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (140 bp):
AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
TGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGTTATATATATGCTGCCCAAATTGTTGCATA
TATGCTGTCC
Found at i:3883097 original size:25 final size:25
Alignment explanation
Indices: 3883069--3883116 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
3883059 ATGTAAAAAT
* *
3883069 GCTGCTCAATTTGGTATATATATAG
1 GCTGCCCAAATTGGTATATATATAG
* *
3883094 GCTGCCCAAATTGTTGTATATAT
1 GCTGCCCAAATTGGTATATATAT
3883117 GCTGTCCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (25 bp):
GCTGCCCAAATTGGTATATATATAG
Found at i:3887219 original size:43 final size:42
Alignment explanation
Indices: 3887150--3887267 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
3887140 AGCTCGTACA
* *
3887150 ATGCCAAC-GTCCCAGAC-GTGGACTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAATA-CG
* * *
3887193 ATGCCACTGTCCCAGACAGGGTCTTACGCGAAATCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATACG
* * *
3887235 ATGCCAATGTCTCAGACATGGTCTTACACGTAA
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAA
3887268 ATCTCAAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 32 0.51
43 30 0.48
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATACG
Found at i:3887251 original size:42 final size:44
Alignment explanation
Indices: 3887150--3887307 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 44
3887140 AGCTCGTACA
* * *
3887150 ATGCCAACGTCCCAGAC-GTGGACTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAAATCAAATATCG
* * *
3887193 ATGCCACTGTCCCAGACAGGGTCTTACGCG-AAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAATATCG
* * *
3887235 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATC-AAATATCG
* *
3887279 A-ACCAATGTCCTAGAC-GTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
3887308 AGATCACATC
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 28 0.30
43 60 0.65
44 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAATATCG
Found at i:3888837 original size:43 final size:43
Alignment explanation
Indices: 3888789--3888879 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
3888779 AGTACTTTTG
*
3888789 AAAAAAAAGAGGAGAAACTAAAATTTTTAGTTTTTCTTCTCTC
1 AAAAAAAAAAGGAGAAACTAAAATTTTTAGTTTTTCTTCTCTC
3888832 AAAAAAAAAAGGAGAAACTAAAATTTTTAGTTTTTCTTCTCTC
1 AAAAAAAAAAGGAGAAACTAAAATTTTTAGTTTTTCTTCTCTC
3888875 AAAAA
1 AAAAA
3888880 TACTTTTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (43 bp):
AAAAAAAAAAGGAGAAACTAAAATTTTTAGTTTTTCTTCTCTC
Found at i:3889124 original size:43 final size:38
Alignment explanation
Indices: 3889077--3889176 Score: 87
Period size: 41 Copynumber: 2.5 Consensus size: 38
3889067 AAATATTTAA
3889077 AATTTATAT-TTCATATAATAAAATATTAATAATAAGTTATACT
1 AATTTATATATTC-T-TAATAAAATA-TAATAAT-A-TTA-ACT
* *
3889120 AATTT-TTTATTCTTACTAAAATATAATAATATTAACT
1 AATTTATATATTCTTAATAAAATATAATAATATTAACT
* *
3889157 AATTTAAACATTACTTAATA
1 AATTTATATATT-CTTAATA
3889177 CATATTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
37 8 0.17
38 6 0.12
39 7 0.15
40 7 0.15
41 9 0.19
42 3 0.06
43 8 0.17
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (38 bp):
AATTTATATATTCTTAATAAAATATAATAATATTAACT
Found at i:3889939 original size:16 final size:16
Alignment explanation
Indices: 3889911--3889958 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
3889901 CGTCTGGTTC
3889911 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
3889927 GCTTTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
3889943 GCTGTAATGAAATAGA
1 GCTGTAATGGAATAGA
3889959 AATGTAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:3893128 original size:3 final size:3
Alignment explanation
Indices: 3893120--3893208 Score: 124
Period size: 3 Copynumber: 29.3 Consensus size: 3
3893110 TGTTTAATTA
*
3893120 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
3893168 ATT ACT ATT ATA ATT ATT ACT ACT ATT ATT AATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A
3893209 GCTTTATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:3898700 original size:44 final size:44
Alignment explanation
Indices: 3898556--3899574 Score: 1046
Period size: 44 Copynumber: 23.0 Consensus size: 44
3898546 AAGACTTGTA
** * *
3898556 TCTTCGATCTACTTCACTGCTGATACAGGAAGACAATATCTGCTT
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
* * *** *
3898601 TCTTCGATCTACTTTGC-CACCAGTATGGGAAGATAAGATCTGCTAT
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCT-T
** * * *
3898647 T-TTTTATCTACTTCACGCCAATACATGAATATAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
3898690 TCTTCGATCTACTT--CGCCACTAGTATGGGAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTT
*
3898735 TCTTCGATCTACCTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
3898779 TCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
3898823 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCCGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
3898867 TCTTCGATCTACTTCATGCCAGTACATGAAGACAAGAT-TCGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-GCTT
* * * *
3898911 TCTTCGATCTACTTCATGCCAATACATGAAGACAATATTTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * *** *
3898955 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* * * * *
3899000 TATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
3899044 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* **
3899088 TCTTCGATCTACTTCACGCCAATCCATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *** *
3899132 TCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTG
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
* * * *
3899177 TATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
3899221 TCTTTGATCCACTTCACGCCAATACATGAAGACAAGATCCGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
3899265 TCTTCGATCTACTTCA--CCACTAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTT
* * *
3899310 TCTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * * * *
3899354 TCTTCGATCTACTTTGC-CACCAGTATAGGAAGACAAAATTTGCTA
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
* *
3899399 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * * *
3899443 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* * *
3899488 TCTTTGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
3899532 TCTTGGACCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
3899575 ATCCTTTCTA
Statistics
Matches: 797, Mismatches: 154, Indels: 47
0.80 0.15 0.05
Matches are distributed among these distances:
42 12 0.02
43 8 0.01
44 529 0.66
45 225 0.28
46 10 0.01
47 13 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:3898797 original size:133 final size:131
Alignment explanation
Indices: 3898556--3899574 Score: 1019
Period size: 133 Copynumber: 7.7 Consensus size: 131
3898546 AAGACTTGTA
** * * *
3898556 TCTTCGATCTACTTCACTGCTGATACAGGAAGACAATATCTGCTTTCTTCGATCTACTTTGC-CA
1 TCTTCGATCTACTT-AC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC-TT-CACG
* *** * * * *
3898620 CCAGTATGGGAAGATAAGATCTGCTATT-TTTTATCTACTTCACGCCAATACATGAATATAAGAT
62 CCAATACATGAAGACAAGATCTGCT-TTCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT
*
3898684 CTACTT
126 CTGCTT
* * * * *
3898690 TCTTCGATCTACTT-CGCCACTAGTATGGGAAAACAAGATCTGCTATCTTCGATCTACCTCACGC
1 TCTTCGATCTACTTACGCCAATA-CAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* *
3898754 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCT
63 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
3898819 GCTT
128 GCTT
* * *
3898823 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCCGCTTTCTTCGATCTACTTCATGCCA
1 TCTTCGATCTACTT-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * * * *
3898888 GTACATGAAGACAAGAT-TCGCTTTCTTCGATCTACTTCATGCCAATACATGAAGACAATATTTG
65 ATACATGAAGACAAGATCT-GCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
*
3898952 TTT
129 CTT
* *** * * *
3898955 TCTTTGATCTACTT-CGCCACCAGTATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGC
1 TCTTCGATCTACTTACGCCA--A-TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * *
3899019 CAATACATGAAGATAAGATCTACTCTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCA
63 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
3899084 GCTT
128 GCTT
* ** * *
3899088 TCTTCGATCTACTTCACGCCAATCCATGAAGACAAGATCTATTTTCTTCAATCTACTTCACCACC
1 TCTTCGATCTACTT-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCC
* *** * * * *
3899153 AGTATGGGAAGACAAGATCTGCTGTATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTA
64 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
3899218 CTT
129 CTT
* * * *
3899221 TCTTTGATCCACTTCACGCCAATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCA--CCA
1 TCTTCGATCTACTT-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * * *
3899284 CTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGATAAGATC
65 ATA-CAT--GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATC
*
3899349 TGTTT
127 TGCTT
* * * * * * *
3899354 TCTTCGATCTACTT-TGCCACCAGTATAGGAAGACAAAATTTGCTATCTTTGATCTACTTCACGC
1 TCTTCGATCTACTTACGCCA--A-TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * * * * *
3899418 CAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATC
63 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATC
*
3899483 TGCTA
127 TGCTT
* * * * *
3899488 TCTTTGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTGGACCTACTTCACGCCA
1 TCTTCGATCTACTT-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
3899553 ATACATGAAGACAAGATCTGCT
65 ATACATGAAGACAAGATCTGCT
3899575 ATCCTTTCTA
Statistics
Matches: 732, Mismatches: 127, Indels: 53
0.80 0.14 0.06
Matches are distributed among these distances:
130 10 0.01
131 10 0.01
132 138 0.19
133 444 0.61
134 107 0.15
135 14 0.02
136 9 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTACTTACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
T
Found at i:3899297 original size:89 final size:86
Alignment explanation
Indices: 3898556--3899574 Score: 932
Period size: 89 Copynumber: 11.5 Consensus size: 86
3898546 AAGACTTGTA
* * * * *
3898556 TCTTCGATCTACTTCACTGCTGATACAGGAAGACAATATCTGCTTTCTTCGATCTACTTTGC-CA
1 TCTTCGATCTACTTCAC--C-AATACATGAAGACAAGATCTGCTTTCTTTGATCTAC-TT-CACG
* *** *
3898620 CCAGTATGGGAAGATAAGATCTGCTAT
61 CCAATACATGAAGACAAGATCTGCT-T
** * * * *
3898647 T-TTTTATCTACTTCACGCCAATACATGAATATAAGATCTACTTTCTTCGATCTACTT--CGCCA
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCA
* * * *
3898709 CTAGTATGGGAAAACAAGATCTGCTA
64 ATA-CAT--GAAGACAAGATCTGCTT
* *
3898735 TCTTCGATCTACCTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCA
*
3898800 ATACATAAAGACAAGATCTGCTT
64 ATACATGAAGACAAGATCTGCTT
* * * *
3898823 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCCGCTTTCTTCGATCTACTTCATGCCA
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCA
*
3898888 GTACATGAAGACAAGAT-TCGCTT
64 ATACATGAAGACAAGATCT-GCTT
* * * * *
3898911 TCTTCGATCTACTTCATGCCAATACATGAAGACAATATTTGTTTTCTTTGATCTACTTCGCCACC
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTC-ACGCC
* *** *
3898976 AGTATGGGAAGACAAGATCTGCTA
63 AATACATGAAGACAAGATCTGCTT
* * * * *
3899000 TATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTCTCTTTGATCTACTTCACGCCA
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCA
*
3899065 ATACATGAAGACAAGATCAGCTT
64 ATACATGAAGACAAGATCTGCTT
* ** ** *
3899088 TCTTCGATCTACTTCACGCCAATCCATGAAGACAAGATCTATTTTCTTCAATCTACTTCACCACC
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCA-CGCC
* *** *
3899153 AGTATGGGAAGACAAGATCTGCTG
63 AATACATGAAGACAAGATCTGCTT
* * * * *
3899177 TATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTTTCTTTGATCCACTTCACGCCA
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCA
* *
3899242 ATACATGAAGACAAGATCCGTTT
64 ATACATGAAGACAAGATCTGCTT
* * *
3899265 TCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCAATA-CAT--GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCC
* *
3899330 AATACATGAAGATAAGATCTGTTT
63 AATACATGAAGACAAGATCTGCTT
* * * * * *
3899354 TCTTCGATCTACTTTGCCACCAGTATAGGAAGACAAAATTTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTAC-TT--CACCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCC
*
3899419 AATACATGAAGACAAGATCTGTTT
63 AATACATGAAGACAAGATCTGCTT
* * * * *
3899443 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTATCTTTGATCTATTTCACGCC
1 TCTTCGATCTACTT---CACCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCC
*
3899508 AATACATGAAGACAAGATCTGTTT
63 AATACATGAAGACAAGATCTGCTT
* *
3899532 TCTTGGACCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 TCTTCGATCTACTTCA--CCAATACATGAAGACAAGATCTGCT
3899575 ATCCTTTCTA
Statistics
Matches: 790, Mismatches: 117, Indels: 45
0.83 0.12 0.05
Matches are distributed among these distances:
86 13 0.02
87 4 0.01
88 280 0.35
89 457 0.58
90 18 0.02
91 10 0.01
92 8 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (86 bp):
TCTTCGATCTACTTCACCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTT
Found at i:3901846 original size:18 final size:18
Alignment explanation
Indices: 3901820--3901862 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
3901810 GTTTGGTAGG
*
3901820 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
3901838 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
*
3901856 AAAAGAA
1 GAAAGAA
3901863 CATTTACTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.07, G:0.16, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:3903574 original size:24 final size:24
Alignment explanation
Indices: 3903529--3903575 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3903519 TTGGGATTCC
*
3903529 TGCATCTTCTCCGACATATCCTGT
1 TGCATCTTCTCCAACATATCCTGT
*
3903553 TGCATCTTGTCCAACCAT-TCCTG
1 TGCATCTTCTCCAA-CATATCCTG
3903576 CACTTGTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.17, C:0.34, G:0.13, T:0.36
Consensus pattern (24 bp):
TGCATCTTCTCCAACATATCCTGT
Found at i:3908690 original size:5 final size:5
Alignment explanation
Indices: 3908680--3908710 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3908670 TTACTTTAAA
3908680 TAATT TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT T
3908711 GAAGAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:3915050 original size:17 final size:17
Alignment explanation
Indices: 3915028--3915065 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3915018 TAGCAAACAA
3915028 GGTAAACAAGAACTGTT
1 GGTAAACAAGAACTGTT
3915045 GGTAAACAAGAACTGTT
1 GGTAAACAAGAACTGTT
3915062 GGTA
1 GGTA
3915066 GATAAGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (17 bp):
GGTAAACAAGAACTGTT
Found at i:3915093 original size:13 final size:13
Alignment explanation
Indices: 3915075--3915099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3915065 AGATAAGTTG
3915075 AATAAAATATAAT
1 AATAAAATATAAT
3915088 AATAAAATATAA
1 AATAAAATATAA
3915100 GTCTTTAAGG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAAATATAAT
Found at i:3920921 original size:42 final size:42
Alignment explanation
Indices: 3920862--3921033 Score: 125
Period size: 42 Copynumber: 4.1 Consensus size: 42
3920852 ACATCATTTT
* *
3920862 CAGAAGCCCA-AA-GGCTGAACAGAAGATCATGAGAGCTAAA
1 CAGAAACCCATAAGGGCTGAACAGAAGATCATAAGAGCTAAA
** * *
3920902 CAGAAACCCATAAGGGCTGAATGGAAGCTCATAAGAGCTGAA
1 CAGAAACCCATAAGGGCTGAACAGAAGATCATAAGAGCTAAA
* * * ** * *
3920944 CGGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTAAA
1 CAGAAACCCATAAGGGCTGAACAGAAGATCATAAGAGCTAAA
** * * * * * *
3920986 TGGAAACTCATATA-AGTTAAACAGAAGTTCGTAAGAGCTAAA
1 CAGAAACCCATA-AGGGCTGAACAGAAGATCATAAGAGCTAAA
3921028 CAGAAA
1 CAGAAA
3921034 GTAAAACATG
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 9 0.08
41 2 0.02
42 96 0.89
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (42 bp):
CAGAAACCCATAAGGGCTGAACAGAAGATCATAAGAGCTAAA
Found at i:3920936 original size:21 final size:21
Alignment explanation
Indices: 3920888--3920997 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
3920878 GAACAGAAGA
* **
3920888 TCATGAGAGCTAAACAGAAAC
1 TCATAAGAGCTAAATGGAAAC
* * * *
3920909 CCATAAGGGCTGAATGGAAGC
1 TCATAAGAGCTAAATGGAAAC
* *
3920930 TCATAAGAGCTGAACGGAAAC
1 TCATAAGAGCTAAATGGAAAC
* * * *
3920951 CCATAAGGGTTAAATGGAAGC
1 TCATAAGAGCTAAATGGAAAC
*
3920972 TCAAAAGAGCTAAATGGAAAC
1 TCATAAGAGCTAAATGGAAAC
3920993 TCATA
1 TCATA
3920998 TAAGTTAAAC
Statistics
Matches: 66, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
TCATAAGAGCTAAATGGAAAC
Found at i:3924193 original size:31 final size:31
Alignment explanation
Indices: 3924158--3924245 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
3924148 ACTCAGGCAT
3924158 CAAATTAAATATTAAAGTCAAACTTAGGTAC
1 CAAATTAAATATTAAAGTCAAACTTAGGTAC
* * * *
3924189 CAAATTGAA-A--AAA---AAACTCAAGTAT
1 CAAATTAAATATTAAAGTCAAACTTAGGTAC
3924214 CAAATTAAATATTAAAGTCAAACTTAGGTAC
1 CAAATTAAATATTAAAGTCAAACTTAGGTAC
3924245 C
1 C
3924246 GAATGATATT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
25 17 0.40
26 1 0.02
28 6 0.14
30 1 0.02
31 18 0.42
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (31 bp):
CAAATTAAATATTAAAGTCAAACTTAGGTAC
Found at i:3924456 original size:31 final size:31
Alignment explanation
Indices: 3924401--3924466 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
3924391 TTTTGAACTA
* * *
3924401 AATTTGACCTTCAACCTTTTAAAAAGA-TTAG
1 AATTTGACCATCAACATTTCAAAAAGAGTT-G
*
3924432 AATTTGACCATCAATATTTCAAAAAGAGTTG
1 AATTTGACCATCAACATTTCAAAAAGAGTTG
3924463 AATT
1 AATT
3924467 GTTTTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (31 bp):
AATTTGACCATCAACATTTCAAAAAGAGTTG
Found at i:3925085 original size:17 final size:17
Alignment explanation
Indices: 3925063--3925100 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3925053 TTTAAAAAAT
3925063 ATTTTTAAAAAATTTTA
1 ATTTTTAAAAAATTTTA
**
3925080 ATTTTTTTAAAATTTTA
1 ATTTTTAAAAAATTTTA
3925097 ATTT
1 ATTT
3925101 ATGAAGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTAAAAAATTTTA
Found at i:3928068 original size:2 final size:2
Alignment explanation
Indices: 3928061--3928089 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3928051 GGGTCTCACA
3928061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3928090 AGAAATGGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3932394 original size:25 final size:28
Alignment explanation
Indices: 3932360--3932413 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
3932350 TCTAATAAAC
*
3932360 TTTTAATAAATAAT-T-A-AAATATTAT
1 TTTTAATAAAAAATCTGATAAATATTAT
*
3932385 TTTTATTAAAAAATCTGATAAATATTAT
1 TTTTAATAAAAAATCTGATAAATATTAT
3932413 T
1 T
3932414 AGCAAGCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 1 0.04
27 1 0.04
28 10 0.42
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TTTTAATAAAAAATCTGATAAATATTAT
Found at i:3936814 original size:16 final size:16
Alignment explanation
Indices: 3936793--3936823 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3936783 CCGCTCGGTT
3936793 CCTCCTTCGTCTGTTG
1 CCTCCTTCGTCTGTTG
3936809 CCTCCTTCGTCTGTT
1 CCTCCTTCGTCTGTT
3936824 ATTCAATTTT
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:0.39, G:0.16, T:0.45
Consensus pattern (16 bp):
CCTCCTTCGTCTGTTG
Found at i:3943883 original size:30 final size:30
Alignment explanation
Indices: 3943849--3943913 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
3943839 GTGGGTGACC
* *
3943849 AAAATG-AAATAGTTTTTAATGACAATGCCT
1 AAAATGAAAAT-GGTTTTAATGACAATACCT
*
3943879 AAAATGAAAATGGTTTTAATGGCAATACCT
1 AAAATGAAAATGGTTTTAATGACAATACCT
3943909 AAAAT
1 AAAAT
3943914 CAATTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (30 bp):
AAAATGAAAATGGTTTTAATGACAATACCT
Found at i:3945317 original size:3 final size:3
Alignment explanation
Indices: 3945309--3945338 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3945299 ACAAAAACAA
3945309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3945339 GGATTCTACA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3948158 original size:23 final size:22
Alignment explanation
Indices: 3948126--3948187 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
3948116 CCCGGCCCGT
*
3948126 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
3948150 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
3948172 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
3948188 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:3948182 original size:16 final size:16
Alignment explanation
Indices: 3948161--3948217 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
3948151 TTTTATTAAA
*
3948161 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
3948177 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
3948193 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
3948209 ATTAAAATT
1 ATTAAAATT
3948218 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:3948311 original size:28 final size:27
Alignment explanation
Indices: 3948271--3948327 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
3948261 ATCTATCATT
* * *
3948271 TTGTTAGTAAAATTATTAATTGTATTAA
1 TTGTTACTAAAATTATCAAAT-TATTAA
3948299 TTGTTACTAAAATTATCAAATTATTAA
1 TTGTTACTAAAATTATCAAATTATTAA
3948326 TT
1 TT
3948328 ATTAATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (27 bp):
TTGTTACTAAAATTATCAAATTATTAA
Found at i:3948347 original size:76 final size:82
Alignment explanation
Indices: 3948267--3948424 Score: 229
Period size: 83 Copynumber: 2.0 Consensus size: 82
3948257 TAAAATCTAT
3948267 CATTTTGTTAGT-AAA-ATT-A-TTAATTGTATTAATTGTTACTAAAATTATCAAATTAT-T-AA
1 CATTTTGTTAGTAAAATATTAATTTAATTGTATTAATTGTTACTAAAATTATCAAATTATATAAA
3948326 TTATTAATTGTTACTAA
66 TTATTAATTGTTACTAA
*
3948343 CATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATAT
1 CATTTTGTTAGTAAAA-TATTAA-T-TTAATTGTATTAATTGTTACTAAAATTATCAAATTATAT
3948408 CAAATTATTAATTGTTA
63 -AAATTATTAATTGTTA
3948425 ATTGTATTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
76 12 0.17
77 3 0.04
79 3 0.04
80 1 0.01
83 36 0.51
84 1 0.01
86 15 0.21
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (82 bp):
CATTTTGTTAGTAAAATATTAATTTAATTGTATTAATTGTTACTAAAATTATCAAATTATATAAA
TTATTAATTGTTACTAA
Found at i:3948373 original size:40 final size:40
Alignment explanation
Indices: 3948267--3948376 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
3948257 TAAAATCTAT
3948267 CATTTTGTTAGTAAAATTATTAATTGTATTAATTGTTACTAA
1 CATTTTGTTAGTAAAATTATTAATTG--TTAATTGTTACTAA
* * *
3948309 -A----ATTA-TCAAATTATTAATTATTAATTGTTACTAA
1 CATTTTGTTAGTAAAATTATTAATTGTTAATTGTTACTAA
3948343 CATTTTGTTAGTAAAATTATTAATTGTTAATTGT
1 CATTTTGTTAGTAAAATTATTAATTGTTAATTGT
3948377 ATTAATTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
34 14 0.25
35 1 0.02
36 13 0.23
37 3 0.05
39 3 0.05
40 21 0.38
41 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (40 bp):
CATTTTGTTAGTAAAATTATTAATTGTTAATTGTTACTAA
Found at i:3948502 original size:22 final size:22
Alignment explanation
Indices: 3948471--3948517 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
3948461 TAACTTAAAA
* *
3948471 TAAAACTAAAACTAGTATAT-TT
1 TAAAAATAAAAATA-TATATATT
3948493 TAAAAATAAAAATATATATATT
1 TAAAAATAAAAATATATATATT
3948515 TAA
1 TAA
3948518 TATATTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAATATATATATT
Found at i:3956029 original size:49 final size:48
Alignment explanation
Indices: 3955873--3956738 Score: 300
Period size: 49 Copynumber: 17.6 Consensus size: 48
3955863 GTTTCCAATT
* * * *
3955873 AAAAGATTGAGGCCACAACGGTAAATCTTATTCCCAGGCAGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAG-TG
* * * * * * * * * *
3955922 AACATATTGAAGCTACAATGGCAAATTTTGCTTCCC-CGATATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* * *
3955971 AAAAAATTGAAGCCACAACGGTAAATCTTATTCCCAGGAGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAGT-G
* * * * * * * * * *
3956020 AATAGATTGAAGCTACGACAGCGAATTTTGATTCCC-TGACATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* * * *
3956069 AAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTACAGCAG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAG-TG
* * * * * * * * * *
3956118 AACAGATTGAAACTACAATGGCGAATCTTGCTTCCC-CGACATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* * * ** *
3956167 AAAAAATTGAGGCCACAACGGCAAATCTTACTTCCCAAGCGGTGCAGCG
1 AAAAGATTGAAGCCACAACGGCAAATCTTA-TTCCCAGGAAGTGCAGTG
* * ** * * * * *
3956216 AAATAGATTGAAGCTATAACGGTGAATCTTGTTTCCC-CGACATTGCAATT
1 AAA-AGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* ** *
3956266 AAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGGCGGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAG-TG
* * * ** * * * * *
3956315 AATAGATTGAAACTACAACGGTGAATCTTGCTTCCC-TGACATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* * * * *
3956364 AAAAGATTGAGGCCACAACGGCAAATCTTACTTCGCAAGCAGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCAAATCTTA-TTCCCAGGAAGTGCAG-TG
* * ** * * * * *
3956414 AACAGATTGAAGCTACAACGGTGAATCTTGTTTCCC-CGACATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT-ATTCCCAGGA-AGTGCAGTG
* * *
3956463 AAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGG-CGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAG-TGCAG-TG
* * * * * * * *
3956512 AACAGATTGAAGCTACAACGATG-AATTTCATT-TTCCC-CGACATTACAATT
1 AAAAGATTGAAGCCACAACG--GCAA-ATC-TTATTCCCAGGA-AGTGCAGTG
* * * *
3956562 AAAAGATTGATGCCACAACGGCGAATCTTATTTCCAGGCAGTGCAGTAG
1 AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAGT-G
* * * * * * * * *
3956611 AACATATTGAAGCTACGACGGCAAATCTTGCTTTCTC--GACATTGCAATT
1 AAAAGATTGAAGCCACAACGGCAAATCTT--ATTCCCAGGA-AGTGCAGTG
* * * *
3956660 AAAATATT-AAGGCCACAACGGCAAATCTTACTTCTCAGGCAGTGCAGCG
1 AAAAGATTGAA-GCCACAACGGCAAATCTTA-TTCCCAGGAAGTGCAGTG
* * *
3956709 AAATAGATTGAAGCTACAATGACAAATCTT
1 AAA-AGATTGAAGCCACAACGGCAAATCTT
3956739 GTTTTCTCCG
Statistics
Matches: 560, Mismatches: 211, Indels: 91
0.65 0.24 0.11
Matches are distributed among these distances:
47 2 0.00
48 57 0.10
49 331 0.59
50 152 0.27
51 16 0.03
52 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (48 bp):
AAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGAAGTGCAGTG
Found at i:3956266 original size:99 final size:98
Alignment explanation
Indices: 3955868--3956838 Score: 1140
Period size: 98 Copynumber: 9.8 Consensus size: 98
3955858 CCATAGTTTC
* * *
3955868 CAATTAAAAGATTGAGGCCACAACGGTAAATCTTATTCCCAGGCAGTGCAGCGGAACATATTGAA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAATAGATTGAA
* * * * *
3955933 GCTACAATGGCAAATTTTGCTTCCCCGATATTG
66 GCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * * *
3955966 CAATTAAAAAATTGAAGCCACAACGGTAAATCTTATTCCCAGG-AGGTGCAGTGGAATAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCA-GTGCAGCGGAATAGATTGA
* * * * *
3956030 AGCTACGACAGCGAATTTTGATTCCCTGACATTG
65 AGCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * *
3956064 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTACAGCAGAACAGATTGAA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAATAGATTGAA
* * *
3956129 ACTACAATGGCGAATCTTGCTTCCCCGACATTG
66 GCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * * *
3956162 CAATTAAAAAATTGAGGCCACAACGGCAAATCTTACTTCCCAAGCGGTGCAGCGAAATAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTA-TTCCCAGGCAGTGCAGCGGAATAGATTGA
* *
3956227 AGCTATAACGGTGAATCTTGTTTCCCCGACATTG
65 AGCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * *
3956261 CAATTAAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGGCGGTGCAGCGGAATAGATTGAA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAATAGATTGAA
* * * *
3956326 ACTACAACGGTGAATCTTGCTTCCCTGACATTG
66 GCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * *
3956359 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTACTTCGCAAGCAGTGCAGCGGAACAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTA-TTCCCAGGCAGTGCAGCGGAATAGATTGA
*
3956424 AGCTACAACGGTGAATCTTGTTTCCCCGACATTG
65 AGCTACAACGGCGAATCTTGTTTCCCCGACATTG
* * *
3956458 CAATTAAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGGC-GATGCAGCGGAACAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAG-TGCAGCGGAATAGATTGA
** * *
3956522 AGCTACAACGATGAAT-TTCATTTTCCCCGACATTA
65 AGCTACAACGGCGAATCTT--GTTTCCCCGACATTG
* * * ** * *
3956557 CAATTAAAAGATTGATGCCACAACGGCGAATCTTATTTCCAGGCAGTGCAGTAGAACATATTGAA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAATAGATTGAA
* * *
3956622 GCTACGACGGCAAATCTTGCTTT-CTCGACATTG
66 GCTACAACGGCGAATCTTG-TTTCCCCGACATTG
* * * *
3956655 CAATTAAAATATTAAGGCCACAACGGCAAATCTTACTTCTCAGGCAGTGCAGCGAAATAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTA-TTCCCAGGCAGTGCAGCGGAATAGATTGA
* * * *
3956720 AGCTACAATGACAAATCTTGTTTTCTCCGACATTG
65 AGCTACAACGGCGAATCTTG-TTTCCCCGACATTG
* * * * ** * * * *
3956755 CAATTTAAAGATTGAAGTCACAATGGTGAATCTTATTTCCTAGGCGGTGCAGTGGGATAGATTGA
1 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTA-TTCCCAGGCAGTGCAGCGGAATAGATTGA
*
3956820 AGCTACAACGACGAATCTT
65 AGCTACAACGGCGAATCTT
3956839 AATGCCCTGA
Statistics
Matches: 750, Mismatches: 111, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
97 4 0.01
98 369 0.49
99 299 0.40
100 78 0.10
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (98 bp):
CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAATAGATTGAA
GCTACAACGGCGAATCTTGTTTCCCCGACATTG
Found at i:3956324 original size:197 final size:196
Alignment explanation
Indices: 3955868--3956838 Score: 1169
Period size: 197 Copynumber: 4.9 Consensus size: 196
3955858 CCATAGTTTC
* * *
3955868 CAATTAAAAGATTGAGGCCACAACGGTAAATCTTATTCCCAGGCAGTGCAGCGGAACATATTGAA
1 CAATTAAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAACAGATTGAA
* * * * *
3955933 GCTACAATGGCAAATTTTGCTTCCCCGATATTGCAATTAAAAAATTGAAGCCACAACGGTAAATC
66 GCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAATC
* * * * * * *
3955998 TTATTCCCAGGAGGTGCAGTGGAATAGATTGAAGCTACGACAGCGAATTTTGATTCCCTGACATT
131 TTATTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGACATT
3956063 G
196 G
* * *
3956064 CAATTAAAAGATTGAGGCCACAACGGCAAATCTTATTCCCAGGCAGTACAGCAGAACAGATTGAA
1 CAATTAAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAACAGATTGAA
* * *
3956129 ACTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAATTGAGGCCACAACGGCAAATC
66 GCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAATC
* * * *
3956194 TTACTTCCCAAGCGGTGCAGCGAAATAGATTGAAGCTATAACGGTGAATCTTGTTTCCCCGACAT
131 TTA-TTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGACAT
3956259 TG
195 TG
* * *
3956261 CAATTAAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGGCGGTGCAGCGGAATAGATTGAA
1 CAATTAAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAACAGATTGAA
* * * * *
3956326 ACTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGATTGAGGCCACAACGGCAAATC
66 GCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAATC
* * * * *
3956391 TTACTTCGCAAGCAGTGCAGCGGAACAGATTGAAGCTACAACGGTGAATCTTGTTTCCCCGACAT
131 TTA-TTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGACAT
3956456 TG
195 TG
*
3956458 CAATTAAAAGATTGAAGCCACAACAGCAAATCTTATTCCCAGGC-GATGCAGCGGAACAGATTGA
1 CAATTAAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGCAG-TGCAGCGGAACAGATTGA
* ** * * *
3956522 AGCTACAACGATGAAT-TT-CATTTTCCCCGACATTACAATTAAAAGATTGATGCCACAACGGCG
65 AGCTACAATGGCGAATCTTGC---TTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCA
* * ** * * * * *
3956585 AATCTTATTTCCAGGCAGTGCAGTAGAACATATTGAAGCTACGACGGCAAATCTTGCTTT-CTCG
127 AATCTTATTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTTG-TTTCCCCG
3956649 ACATTG
191 ACATTG
* * * *
3956655 CAATTAAAATATT-AAGGCCACAACGGCAAATCTTACTTCTCAGGCAGTGCAGCGAAATAGATTG
1 CAATTAAAAGATTGAA-GCCACAACGGCAAATCTTA-TTCCCAGGCAGTGCAGCGGAACAGATTG
* * * * * * * **
3956719 AAGCTACAATGACAAATCTTGTTTTCTCCGACATTGCAATTTAAAGATTGAAGTCACAATGGTGA
64 AAGCTACAATGGCGAATCTTG-CTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAA
* * * *
3956784 ATCTTATTTCCTAGGCGGTGCAGTGGGATAGATTGAAGCTACAACGACGAATCTT
128 ATCTTA-TTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTT
3956839 AATGCCCTGA
Statistics
Matches: 683, Mismatches: 79, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
195 1 0.00
196 128 0.19
197 388 0.57
198 125 0.18
199 41 0.06
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (196 bp):
CAATTAAAAGATTGAAGCCACAACGGCAAATCTTATTCCCAGGCAGTGCAGCGGAACAGATTGAA
GCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAATC
TTATTCCCAGGCGGTGCAGCGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGACATT
G
Done.