Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 26 of 427
Found at i:6908982 original size:43 final size:43
Alignment explanation
Indices: 6908889--6909065 Score: 247
Period size: 43 Copynumber: 4.2 Consensus size: 43
6908879 TTGCTGATCA
* *
6908889 CATGCAGTGATTGTTGGAAAGCTATT-ACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
6908930 TATGCAATGATTATTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
6908973 CATGTAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* *
6909016 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
6909056 CATGCAATGA
1 CATGCAATGA
6909066 GTTCTTTTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
40 30 0.25
41 22 0.18
42 3 0.02
43 67 0.55
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:6909058 original size:83 final size:83
Alignment explanation
Indices: 6908889--6909065 Score: 250
Period size: 83 Copynumber: 2.1 Consensus size: 83
6908879 TTGCTGATCA
* *
6908889 CATGCAGTGATTGTTGGAAAGCTATTACTTTTTTTAATATGTATGCAATGATTATTGGAAAGTTG
1 CATGCAATGATTGTTGGAAAGCTATTACTTTTTTTAATATGCATGCAATGATTATTGG-AAGTTG
6908954 TTGACTATTTTTTAATATG
65 TTGACTATTTTTTAATATG
* * * *
6908973 CATGTAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAATGATTGTTGG-TG-T
1 CATGCAATGATTGTTGGAAAGCTATT-ACT-TTTTTTAATATGCATGCAATGATTATTGGAAGTT
*
6909036 GTTGCCTATTTTTTAATATG
64 GTTGACTATTTTTTAATATG
6909056 CATGCAATGA
1 CATGCAATGA
6909066 GTTCTTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
83 29 0.35
84 24 0.29
85 3 0.04
86 27 0.33
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (83 bp):
CATGCAATGATTGTTGGAAAGCTATTACTTTTTTTAATATGCATGCAATGATTATTGGAAGTTGT
TGACTATTTTTTAATATG
Found at i:6909748 original size:22 final size:22
Alignment explanation
Indices: 6909723--6909769 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
6909713 AAGTTGGTGT
6909723 CCAAACCCAGCAAGAGGCTACC
1 CCAAACCCAGCAAGAGGCTACC
**
6909745 CC-AAGTCAGCAAGAGGCTACC
1 CCAAACCCAGCAAGAGGCTACC
6909766 CCAA
1 CCAA
6909770 GTCAGCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.36, C:0.38, G:0.19, T:0.06
Consensus pattern (22 bp):
CCAAACCCAGCAAGAGGCTACC
Found at i:6909754 original size:21 final size:21
Alignment explanation
Indices: 6909730--6909799 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
6909720 TGTCCAAACC
6909730 CAGCAAGAGGCTACCCCAAGT
1 CAGCAAGAGGCTACCCCAAGT
6909751 CAGCAAGAGGCTACCCCAAGT
1 CAGCAAGAGGCTACCCCAAGT
* * *
6909772 CAGCAAGAGGGTACGCCAACT
1 CAGCAAGAGGCTACCCCAAGT
*
6909793 CAACAAG
1 CAGCAAG
6909800 GTGCCCAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.36, C:0.31, G:0.24, T:0.09
Consensus pattern (21 bp):
CAGCAAGAGGCTACCCCAAGT
Found at i:6910262 original size:21 final size:21
Alignment explanation
Indices: 6910236--6910275 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6910226 TATTTGTTAT
6910236 CCAACTGTTATCTTTTCTATA
1 CCAACTGTTATCTTTTCTATA
6910257 CCAACTGTTATCTTTTCTA
1 CCAACTGTTATCTTTTCTA
6910276 ACTAGCAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.05, T:0.47
Consensus pattern (21 bp):
CCAACTGTTATCTTTTCTATA
Found at i:6910310 original size:20 final size:20
Alignment explanation
Indices: 6910287--6910327 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6910277 CTAGCAGCCA
6910287 TGTATACCAACTGTTATCTT
1 TGTATACCAACTGTTATCTT
* *
6910307 TGTATATCAATTGTTATCTT
1 TGTATACCAACTGTTATCTT
6910327 T
1 T
6910328 TCTAACCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (20 bp):
TGTATACCAACTGTTATCTT
Found at i:6910332 original size:56 final size:57
Alignment explanation
Indices: 6910236--6910358 Score: 185
Period size: 56 Copynumber: 2.2 Consensus size: 57
6910226 TATTTGTTAT
* *
6910236 CCAACTGTTATCTTTTCTATACCAACTGTTATCTTTTCTAACTAGCAGCCATGTATA
1 CCAACTGTTATCTTTTCTATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
* * *
6910293 CCAACTGTTATC-TTTGTATATCAATTGTTATCTTTTCTAACCAACAGCCATGTATA
1 CCAACTGTTATCTTTTCTATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
*
6910349 CCAAATGTTA
1 CCAACTGTTA
6910359 AGCAATTTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 48 0.80
57 12 0.20
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (57 bp):
CCAACTGTTATCTTTTCTATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
Found at i:6910448 original size:28 final size:30
Alignment explanation
Indices: 6910416--6910474 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6910406 AGCCATTTTT
6910416 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
6910444 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
6910474 A
1 A
6910475 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:6910932 original size:3 final size:3
Alignment explanation
Indices: 6910917--6910970 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
6910907 CCATTTTTCC
* *
6910917 TCT TCT CCT TCT TCT TCT TC- TCT TCCT GCT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT
6910961 TCT TCT TCT T
1 TCT TCT TCT T
6910971 TTTTCAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:6912223 original size:20 final size:20
Alignment explanation
Indices: 6912200--6912238 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6912190 TGAATCAAGA
6912200 AATCACCTAATAGGAAATAG
1 AATCACCTAATAGGAAATAG
6912220 AATCACCTAATAGGAAATA
1 AATCACCTAATAGGAAATA
6912239 TAACGGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (20 bp):
AATCACCTAATAGGAAATAG
Found at i:6929895 original size:17 final size:17
Alignment explanation
Indices: 6929869--6929902 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6929859 GATAACCGTA
6929869 TTTTCATACT-TTATAT
1 TTTTCATACTATTATAT
6929885 TTTTACATACTATTATAT
1 TTTT-CATACTATTATAT
6929903 AGATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCATACTATTATAT
Found at i:6931260 original size:131 final size:130
Alignment explanation
Indices: 6931072--6931376 Score: 335
Period size: 131 Copynumber: 2.3 Consensus size: 130
6931062 AGTCGAGATC
* * *
6931072 CGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 CGATGTTTGGCAATTCG-GGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
* ** *
6931137 ATAATCGAATATCCCTTCAAAG-TTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGCAAT
65 ACAATCGAATATCCCTT-AAAGTTTTCACTCACGTCTTCT-AAAATCCTTCAAAACGAAGGCAAT
6931201 ACT
128 ACT
* * * ** * *
6931204 CGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 CGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
* * * * * * **
6931269 CAATCGAATATTCCTTTAGGTTTTCACTCACGTTTTCTAAAATCCTTCAAAATGAAGGTAATGTT
66 CAATCGAATATCCCTTAAAGTTTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGGCAATACT
* * *
6931334 CGATGTTTGGCGATTTGAGAATCGA-GCCCTATCGTGTTGGGTT
1 CGATGTTTGGCAATTCGGGAATC-ATGCCCTATCGTGTTGGGTT
6931377 ACGCTTTCCC
Statistics
Matches: 143, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
130 59 0.41
131 70 0.49
132 14 0.10
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (130 bp):
CGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
CAATCGAATATCCCTTAAAGTTTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGGCAATACT
Found at i:6931398 original size:130 final size:130
Alignment explanation
Indices: 6931072--6931405 Score: 314
Period size: 130 Copynumber: 2.5 Consensus size: 130
6931062 AGTCGAGATC
* * * * * * *
6931072 CGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 CGATGTTTGACAATTCG-AGAATCGAGCCCTATCGTGTTGGGTTGCGATTTCCCGTTT-CTCAAA
** *
6931137 ATAATCGAATATCCCTTCAAAGTTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGCAATA
64 ATAATCGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGCAATA
6931202 CT
129 CT
* * * * * *
6931204 CGGTGTTTGACAATTCGGGAATC-ATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAA
1 CGATGTTTGACAATTCGAGAATCGA-GCCCTATCGTGTTGGGTTGCGATTTCCCGTTT-CTCAAA
* * * * * * *
6931268 ACAATCGAATATTCCTT-TAGGTTTTCACTCACGTTTTCT-AAAATCCTTCAAAATGAAGGTAAT
64 ATAATCGAATATCCCTTCAAAG-TTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGCAAT
**
6931331 GTT
128 ACT
* * * * * *
6931334 CGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTACGCTTTCCCATTTCTCCAAAA
1 CGATGTTTGACAATTCGAGAATCGAGCCCTATCGTGTTGGGTTGCGATTTCCCGTTTCT-CAAAA
6931399 TAATCGA
65 TAATCGA
6931406 GCATTTCTTC
Statistics
Matches: 163, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
129 1 0.01
130 79 0.48
131 69 0.42
132 14 0.09
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (130 bp):
CGATGTTTGACAATTCGAGAATCGAGCCCTATCGTGTTGGGTTGCGATTTCCCGTTTCTCAAAAT
AATCGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGCAATACT
Found at i:6942158 original size:17 final size:17
Alignment explanation
Indices: 6942132--6942165 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6942122 GATAACCGTA
6942132 TTTTCATACT-TTATAT
1 TTTTCATACTATTATAT
6942148 TTTTACATACTATTATAT
1 TTTT-CATACTATTATAT
6942166 AGATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCATACTATTATAT
Found at i:6943491 original size:131 final size:129
Alignment explanation
Indices: 6943310--6943611 Score: 331
Period size: 131 Copynumber: 2.3 Consensus size: 129
6943300 AGTCGAGATC
* * *
6943310 CGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG-TGCAATTTCGCGTTTGCTCAAA
1 CGATGTTTGGCAATTCG-GGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
* ** *
6943374 ATAATCGAATATCCCTTCAAAGTTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGCAATA
65 ACAATCGAATATCCCTT-AAAGTTTCACTCACGTCTTCT-AAAATCCTTCAAAACGAAGGCAATA
6943439 CT
128 CT
* * * ** * *
6943441 CGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 CGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
* * * * * * **
6943506 CAATCGAATATTCCTTTAGGTTTCACTCACGTTTTCTAAAATCCTTCAAAATGAAGGTAATGTT
66 CAATCGAATATCCCTTAAAGTTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGGCAATACT
* *
6943570 CGATGTTTGGCGATT-GAGAATCGA-GCCCTATCGTGTTGGGTT
1 CGATGTTTGGCAATTCGGGAATC-ATGCCCTATCGTGTTGGGTT
6943612 ACGCTTTCCC
Statistics
Matches: 142, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
128 23 0.16
129 35 0.25
130 37 0.26
131 47 0.33
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
CGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
CAATCGAATATCCCTTAAAGTTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGGCAATACT
Found at i:6943633 original size:128 final size:131
Alignment explanation
Indices: 6943370--6943640 Score: 289
Period size: 128 Copynumber: 2.1 Consensus size: 131
6943360 CGCGTTTGCT
** *
6943370 CAAAATAATCGAATATCCCTTCAAAGTTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGC
1 CAAAATAATCGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGC
* * ** * * *
6943435 AATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGT
66 AATACTCGATGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTACGATTTCCCATTTCT
*
6943500 T
131 C
* * * * * * *
6943501 CAAAACAATCGAATATTCCTT-TAGGTTTCACTCACGTTTTCT-AAAATCCTTCAAAATGAAGGT
1 CAAAATAATCGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGC
** * * * *
6943564 AATGTTCGATGTTTGGCGATT-GAGAATCGA-GCCCTATCGTGTTGGGTTACGCTTTCCCATTTC
66 AATACTCGATGTTTGACAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTACGATTTCCCATTTC
6943627 TC
130 TC
6943629 CAAAATAATCGA
1 CAAAATAATCGA
6943641 GCATTTCTTC
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
128 44 0.39
129 35 0.31
130 16 0.14
131 19 0.17
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (131 bp):
CAAAATAATCGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAAATCCTTCAAAACGAAGGC
AATACTCGATGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTACGATTTCCCATTTCT
C
Found at i:6955173 original size:44 final size:44
Alignment explanation
Indices: 6955123--6955518 Score: 596
Period size: 44 Copynumber: 9.0 Consensus size: 44
6955113 GGTAAATCCT
*
6955123 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
6955167 GCAGATTTGGCGTCTCTGTATTGGTGGATAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
6955211 GCAGATTTAGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
6955255 GCAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
6955299 GCAGATTTGGCGTCTCTTTATTGGCGGAGAGCAGATCGAAGATC
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
6955343 GCAGATTTGGTGTCTCTGTATTGGCGGAGAGTAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
6955387 GCAGATTTGGCATTTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
6955431 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGAT-
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * * *
6955474 GACAGATTTGGTGTCTCTGTGGTTGACAGAGAGCAAATCGAAGAT
1 G-CAGATTTGGCGTCTCTGT-ATTGGCGGAGAGCAGATCGAAGAT
6955519 GATGAACCTT
Statistics
Matches: 322, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
43 1 0.00
44 301 0.93
45 20 0.06
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:6958438 original size:131 final size:131
Alignment explanation
Indices: 6958221--6958470 Score: 288
Period size: 131 Copynumber: 1.9 Consensus size: 131
6958211 AGATCCGATA
* * * *
6958221 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTGGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGGTGGCAATTTCGCGTTTGCTCAAAACAAT
** *
6958286 CGAATATCCCTTCAAAGTTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGG
66 CGAATATCCCTTCAAAGTTTCACTCACGTCTTCT-AAAATCCTTCAAAACGAAGGCAATACTCGG
6958351 TG
130 TG
* * * ** * * *
6958353 TTTGACAATTCG-GGAATCATGCCTTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACCAT
1 TTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGGTGGCAATTTCGCGTTTGCTCAAAACAAT
* * * * *
6958417 CGAATATTCCTT-TAGGTTTTCACTCACGTTTTCTAAAATCCTTCAAAATGAAGG
66 CGAATATCCCTTCAAAG-TTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGG
6958471 TAATGTTCGA
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
130 20 0.21
131 66 0.68
132 11 0.11
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (131 bp):
TTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGGTGGCAATTTCGCGTTTGCTCAAAACAAT
CGAATATCCCTTCAAAGTTTCACTCACGTCTTCTAAAATCCTTCAAAACGAAGGCAATACTCGGT
G
Found at i:6962479 original size:29 final size:30
Alignment explanation
Indices: 6962431--6962487 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
6962421 GAATTGGATC
**
6962431 AAATCAAAATTTCATGTATAAAATTGTACA
1 AAATCAAAATTTCAAATATAAAATTGTACA
*
6962461 AAATCAAAA-TTCAAATATACAATTGTA
1 AAATCAAAATTTCAAATATAAAATTGTA
6962488 TATTAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCAAATATAAAATTGTACA
Found at i:6966756 original size:2 final size:2
Alignment explanation
Indices: 6966749--6966786 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6966739 ACATATACAC
6966749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6966787 TAAAAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6967394 original size:3 final size:3
Alignment explanation
Indices: 6967388--6967647 Score: 155
Period size: 3 Copynumber: 88.7 Consensus size: 3
6967378 TATTTACTAC
** * ** * *
6967388 TAT TATT TAT TAT CGT TAT TAT CAT TAT TAT TGC TAC TAT TCT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6967434 TAT CT-T TTT TAC TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT T-T
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * *
6967478 TAT TAT CAT TAT TAT TCC TAT TAT TAT T-T T-T TA- CAGC TAA TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T
* * * * * * * **
6967522 TAT TAT CAT TAT TAT TAC TAT TA- TAT T-T T-T TAC TAC CAC TAC GGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6967567 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6967615 TAT GT-T T-T TAT TAT TA- TAT TAT TTT TAC TAT TA
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6967648 CTTTTTAAAT
Statistics
Matches: 201, Mismatches: 43, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
2 19 0.09
3 174 0.87
4 8 0.04
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6971008 original size:21 final size:22
Alignment explanation
Indices: 6970982--6971040 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
6970972 GTTTTAAGAA
*
6970982 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
6971003 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
6971025 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
6971041 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:6971055 original size:26 final size:24
Alignment explanation
Indices: 6971011--6971060 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
6971001 ATTTGTTTTA
*
6971011 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
6971035 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
6971061 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:6973137 original size:18 final size:18
Alignment explanation
Indices: 6973114--6973202 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
6973104 CGTTTACGGT
*
6973114 ACTATTCACGTATATAGC
1 ACTATTCACGTATACAGC
*
6973132 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
*
6973150 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * * *
6973168 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
6973186 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
6973203 TAGTTGGGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:6973159 original size:36 final size:36
Alignment explanation
Indices: 6973112--6973202 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
6973102 ACCGTTTACG
* *
6973112 GTACTATTCACGTATATAGCACTATTCACGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
* * *
6973148 GTACTATTCACGTATACGGCACTATTTACGAATACG
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
*
6973184 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
6973203 TAGTTGGGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGAATACA
Found at i:6982076 original size:24 final size:25
Alignment explanation
Indices: 6982039--6982086 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
6982029 AATAATTCAA
*
6982039 AAAATATATATAAAATAATAAATTT
1 AAAATATATATAAAATAAAAAATTT
6982064 AAAA-ATATATAAAATAAAAAATT
1 AAAATATATATAAAATAAAAAATT
6982087 ATTGTTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATATATATAAAATAAAAAATTT
Found at i:6983274 original size:21 final size:23
Alignment explanation
Indices: 6983229--6983273 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
6983219 AGTTTAATTT
*
6983229 TCATATTTTGTTTTCCTTAAAAAA
1 TCATATTTTATTTT-CTTAAAAAA
6983253 TCATATTTTATTTT-TTAAAAA
1 TCATATTTTATTTTCTTAAAAA
6983274 TAAGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
TCATATTTTATTTTCTTAAAAAA
Found at i:6983734 original size:24 final size:24
Alignment explanation
Indices: 6983696--6983747 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6983686 TTTCGTGAAG
* * *
6983696 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTCATTAGCATAATAT
*
6983720 ATTTAGCATTCATTAGCATAATTT
1 ATTTAGCATTCATTAGCATAATAT
6983744 ATTT
1 ATTT
6983748 GACTTACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTCATTAGCATAATAT
Found at i:6985700 original size:24 final size:24
Alignment explanation
Indices: 6985664--6985713 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
6985654 TTCTTGAAGA
* * *
6985664 TTAGTATTTATTAGTATAATATAT
1 TTAGCATTCATTAGCATAATATAT
*
6985688 TTAGCATTCATTAGCATAATTTAT
1 TTAGCATTCATTAGCATAATATAT
6985712 TT
1 TT
6985714 GACTTACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
TTAGCATTCATTAGCATAATATAT
Found at i:6987092 original size:26 final size:24
Alignment explanation
Indices: 6987063--6987110 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
6987053 TGACAATCTT
*
6987063 AAATATTAAGATGTTTATTAAATATA
1 AAATATTAA-ATGTGT-TTAAATATA
6987089 AAATATTAAATGTGTTTAAATA
1 AAATATTAAATGTGTTTAAATA
6987111 ATTTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (24 bp):
AAATATTAAATGTGTTTAAATATA
Found at i:6987641 original size:22 final size:24
Alignment explanation
Indices: 6987593--6987646 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
6987583 ATTAATAAAA
*
6987593 AATATATTTGACTACTATTGTATT
1 AATATATTTGACTACAATTGTATT
* *
6987617 AATATCTTTGACTA-AATTTTA-T
1 AATATATTTGACTACAATTGTATT
6987639 AAT-TATTT
1 AATATATTT
6987647 TTGTTGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 5 0.19
24 13 0.50
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (24 bp):
AATATATTTGACTACAATTGTATT
Found at i:6996184 original size:32 final size:31
Alignment explanation
Indices: 6996143--6996220 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
6996133 GTTATTATTT
* * *
6996143 ATTATTATTATTTTATTTCTACTTTTGTTATC
1 ATTATTATTATATTATAT-TACTATTGTTATC
*
6996175 ATTATTATTACTATTGTATTACTATTGTTATC
1 ATTATTATTA-TATTATATTACTATTGTTATC
*
6996207 AGTATTATTATATT
1 ATTATTATTATATT
6996221 TTCTTTTCTG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 4 0.10
32 31 0.77
33 5 0.12
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (31 bp):
ATTATTATTATATTATATTACTATTGTTATC
Found at i:6996471 original size:3 final size:3
Alignment explanation
Indices: 6996365--6996451 Score: 122
Period size: 3 Copynumber: 29.0 Consensus size: 3
6996355 TTTAAAATAT
*
6996365 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
6996413 TTA TTA TTA TTA TTA TGTG GTA TTG TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
6996452 ACCAATTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.03
3 71 0.96
4 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6996777 original size:11 final size:11
Alignment explanation
Indices: 6996742--6996778 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6996732 TTTATCATCA
6996742 TTATT-TTTAT
1 TTATTATTTAT
6996752 TTATTATTT-T
1 TTATTATTTAT
6996762 ATTATTATTTAT
1 -TTATTATTTAT
6996774 TTATT
1 TTATT
6996779 CATACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 17 0.71
12 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:6996825 original size:3 final size:3
Alignment explanation
Indices: 6996805--6996877 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
6996795 CAAGCTTTCG
*
6996805 ATT ATTT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6996851 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6996878 GTTCACATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6999873 original size:4 final size:4
Alignment explanation
Indices: 6999827--6999962 Score: 64
Period size: 4 Copynumber: 33.8 Consensus size: 4
6999817 TTAAGTCCTT
* * * * *
6999827 TTTA TTTTA ATTA TTTTA TTCA TTTA TTTA CTTA TTCA CTTA TTTA TTTA
1 TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * *
6999877 TTCA -TTA TTCCT- TTTA TGTTA TTCA TTTA TTTA CTCA TATA CTTA TCTA
1 TTTA TTTA TT--TA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
6999926 TTTA TATA -TTA TTCA CTTA TTTA TTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6999963 TAATCCTTGT
Statistics
Matches: 93, Mismatches: 30, Indels: 17
0.66 0.21 0.12
Matches are distributed among these distances:
3 8 0.09
4 71 0.76
5 13 0.14
6 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:6999900 original size:53 final size:53
Alignment explanation
Indices: 6999837--6999939 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 53
6999827 TTTATTTTAA
* * *
6999837 TTATTTTATTCATTTATTTACTTAT-TCACTTATTTATTTAT-TCATTATTCCTT
1 TTATGTTATTCATTTATTTACTCATAT-ACTTATCTATTTATAT-ATTATTCCTT
6999890 TTATGTTATTCATTTATTTACTCATATACTTATCTATTTATATATTATTC
1 TTATGTTATTCATTTATTTACTCATATACTTATCTATTTATATATTATTC
6999940 ACTTATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 43 0.96
54 2 0.04
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (53 bp):
TTATGTTATTCATTTATTTACTCATATACTTATCTATTTATATATTATTCCTT
Found at i:7000094 original size:14 final size:15
Alignment explanation
Indices: 7000075--7000104 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7000065 TGTACCTTTA
7000075 TTATTATTA-CTATT
1 TTATTATTATCTATT
7000089 TTATTATTATCTATT
1 TTATTATTATCTATT
7000104 T
1 T
7000105 ATCTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:7000120 original size:15 final size:15
Alignment explanation
Indices: 7000102--7000136 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7000092 TTATTATCTA
7000102 TTTATCTATTTATTT
1 TTTATCTATTTATTT
*
7000117 TTTATCTCTTTATTT
1 TTTATCTATTTATTT
7000132 TTTAT
1 TTTAT
7000137 ACATCCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATCTATTTATTT
Found at i:7000371 original size:29 final size:30
Alignment explanation
Indices: 7000333--7000396 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
7000323 ATTTATTTAT
7000333 TATTACTATAA-TATG-ATTATTAATATTAA
1 TATTACTATAATTATGCATTATTAATA-TAA
* *
7000362 TATTATTATAATTATGTCATTATTATTATAA
1 TATTACTATAATTATG-CATTATTAATATAA
7000393 TATT
1 TATT
7000397 CCTTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.33
30 4 0.13
31 7 0.23
32 9 0.30
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TATTACTATAATTATGCATTATTAATATAA
Found at i:7009768 original size:40 final size:40
Alignment explanation
Indices: 7009624--7009804 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
7009614 TGATGTCTGA
* * *
7009624 ACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGG
1 ACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG
*
7009664 ACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATCCGG
1 ACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
7009704 ACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 ACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
** * *
7009744 GTTAAGTCCCGAAGGCATCTGTGCGAATTACTATAA-CCGG
1 ACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGG
* *
7009784 GCTATGTCCCGAAGGCATTTG
1 ACTAAGTCCCGAAGGCATTTG
7009805 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 115 0.92
41 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:7009811 original size:80 final size:79
Alignment explanation
Indices: 7009672--7009827 Score: 185
Period size: 80 Copynumber: 2.0 Consensus size: 79
7009662 GGACTAAGAT
* **
7009672 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAATTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
7009736 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* *
7009752 CCGAAGGCA-TCTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTC-GTGCGAATTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
7009814 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
7009828 ACTCCAAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
79 11 0.17
80 53 0.80
81 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAATTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:7012093 original size:24 final size:24
Alignment explanation
Indices: 7012041--7012093 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7012031 TTTGTAGGAG
* * *
7012041 ATTTAGTATTTATTAGTACAATAT
1 ATTTGGTATTTATTAGCACAAAAT
*
7012065 ATTTGGTATTTATTAGCATAAAAT
1 ATTTGGTATTTATTAGCACAAAAT
*
7012089 CTTTG
1 ATTTG
7012094 TTCTTTCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTGGTATTTATTAGCACAAAAT
Found at i:7016197 original size:15 final size:15
Alignment explanation
Indices: 7016177--7016218 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
7016167 TATCTTTTGA
7016177 TTTTAATTTCAATCT
1 TTTTAATTTCAATCT
7016192 TTTTAATTT--A-CT
1 TTTTAATTTCAATCT
7016204 TGTTTAATTTCAATC
1 T-TTTAATTTCAATC
7016219 ATTTACTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.13
13 9 0.39
15 10 0.43
16 1 0.04
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTTAATTTCAATCT
Found at i:7025361 original size:13 final size:12
Alignment explanation
Indices: 7025333--7025367 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7025323 AAATCAACCT
* *
7025333 TTTTTACTTCTC
1 TTTTTGCTTTTC
7025345 TTTTTGCTTTTC
1 TTTTTGCTTTTC
7025357 TTTTTGCTTTT
1 TTTTTGCTTTT
7025368 TGATTACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.17, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTGCTTTTC
Found at i:7025501 original size:18 final size:18
Alignment explanation
Indices: 7025478--7025515 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7025468 TGTTTTTTTG
*
7025478 TTTTTGTTTTCTGCCTCT
1 TTTTTGTTTTCTCCCTCT
*
7025496 TTTTTGTTTTTTCCCTCT
1 TTTTTGTTTTCTCCCTCT
7025514 TT
1 TT
7025516 GTTTTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTTTGTTTTCTCCCTCT
Found at i:7027106 original size:22 final size:21
Alignment explanation
Indices: 7027077--7027123 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
7027067 TGTTCGTCCC
7027077 AAAAGTGAATAATGCACTCTT
1 AAAAGTGAATAATGCACTCTT
* *
7027098 AAAACGTGAGTAATGCAGTCTT
1 AAAA-GTGAATAATGCACTCTT
7027120 AAAA
1 AAAA
7027124 TAATTATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAGTGAATAATGCACTCTT
Found at i:7031595 original size:14 final size:14
Alignment explanation
Indices: 7031545--7031615 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
7031535 GTACCATGCC
*
7031545 ATTAAAA-TATAGAG
1 ATTAAAATTATA-AA
* *
7031559 ATTAAATTTTTAAA
1 ATTAAAATTATAAA
*
7031573 ATTATAATTATAAA
1 ATTAAAATTATAAA
7031587 ATTAAAATTA-AAA
1 ATTAAAATTATAAA
7031600 CATATAAAATGTATAA
1 -AT-TAAAAT-TATAA
7031616 CATATTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.07
14 29 0.64
15 9 0.20
16 2 0.04
17 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (14 bp):
ATTAAAATTATAAA
Found at i:7033669 original size:72 final size:72
Alignment explanation
Indices: 7033557--7033721 Score: 249
Period size: 72 Copynumber: 2.3 Consensus size: 72
7033547 CCTTGATCTC
* ** * * **
7033557 TCAGAAAATCAATTAAACGGTCAAATTCCGTTGTCTATAGGGAAGTTATCATCTTTGAAGTTGTT
1 TCAGAAAATCAATTAAACGGTCAAATTCCATCATCGATAGGGAAGTTATCATCTTTGAAATACTT
7033622 TGATGTT
66 TGATGTT
* *
7033629 TCAGAAAATCAATTAAATGGTCAAATTCCATCATCGATAGGGGAGTTATCATCTTTGAAATACTT
1 TCAGAAAATCAATTAAACGGTCAAATTCCATCATCGATAGGGAAGTTATCATCTTTGAAATACTT
7033694 TGATGTT
66 TGATGTT
7033701 TCAGAAAATCAATTAAACGGT
1 TCAGAAAATCAATTAAACGGT
7033722 ACTTTTCCTC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 83 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (72 bp):
TCAGAAAATCAATTAAACGGTCAAATTCCATCATCGATAGGGAAGTTATCATCTTTGAAATACTT
TGATGTT
Found at i:7039495 original size:12 final size:12
Alignment explanation
Indices: 7039464--7039505 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
7039454 TATTAGTACA
*
7039464 TTTTTTTTCTTC
1 TTTTTTTTCTTT
7039476 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
7039488 TTTTTTTTGATTT
1 TTTTTTTT-CTTT
7039501 TTTTT
1 TTTTT
7039506 AAATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:7039785 original size:118 final size:118
Alignment explanation
Indices: 7039629--7039859 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
7039619 TATTTCCGGT
7039629 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
7039694 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
7039747 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
7039812 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
7039860 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:7040652 original size:41 final size:41
Alignment explanation
Indices: 7040552--7040652 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
7040542 GGGATTCTAA
* *
7040552 GGCTAAATAG-ACTGTTTGGCTGCAGAGATATAGCATTCTG
1 GGCTGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
* * *
7040592 GGCTGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
*
7040633 GGTTGGAATAGAACT-TTTGG
1 GGCT-GAATAGAACTGTTTGG
7040653 TACCATGGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 9 0.17
41 34 0.64
42 10 0.19
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.31
Consensus pattern (41 bp):
GGCTGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
Found at i:7040744 original size:10 final size:10
Alignment explanation
Indices: 7040731--7040808 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 10
7040721 ATTAATATTT
7040731 AAATAAAATA
1 AAATAAAATA
7040741 AAATAAAATAA
1 AAATAAAAT-A
7040752 TAAATAATAA-A
1 -AAATAA-AATA
* *
7040763 TAATAAAAGA
1 AAATAAAATA
**
7040773 AAATAAAGGA
1 AAATAAAATA
7040783 AAATAATAAATAA
1 AAAT-A-AAAT-A
7040796 AAATAAAAATA
1 AAAT-AAAATA
7040807 AA
1 AA
7040809 GATTGGGTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
9 2 0.04
10 27 0.48
11 6 0.11
12 12 0.21
13 9 0.16
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAATA
Found at i:7040758 original size:7 final size:7
Alignment explanation
Indices: 7040746--7040807 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
7040736 AAATAAAATA
7040746 AAATAAT
1 AAATAAT
7040753 AAATAAT
1 AAATAAT
7040760 AAATAAT
1 AAATAAT
7040767 AAA-AGA-
1 AAATA-AT
*
7040773 AAATAAAGGA
1 AAAT-AA--T
7040783 AAATAAT
1 AAATAAT
7040790 AAATAA-
1 AAATAAT
7040796 AAATAA-
1 AAATAAT
7040802 AAATAA
1 AAATAA
7040808 AGATTGGGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
6 16 0.33
7 25 0.52
8 1 0.02
9 2 0.04
10 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (7 bp):
AAATAAT
Found at i:7040770 original size:27 final size:29
Alignment explanation
Indices: 7040737--7040810 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 29
7040727 ATTTAAATAA
*
7040737 AATAAAATAAAAT-AA-TAAATAATAAAT
1 AATAAAATAAAATAAAGAAAATAATAAAT
*
7040764 AATAAAAGAAAATAAAGGAAAATAATAAAT
1 AATAAAATAAAATAAA-GAAAATAATAAAT
7040794 -A-AAAATAAAAATAAAGA
1 AATAAAAT-AAAATAAAGA
7040811 TTGGGTTGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 12 0.30
28 8 0.20
29 9 0.22
30 11 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (29 bp):
AATAAAATAAAATAAAGAAAATAATAAAT
Found at i:7040789 original size:30 final size:29
Alignment explanation
Indices: 7040753--7040809 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
7040743 ATAAAATAAT
7040753 AAATAATAAATAATAAA-AGAAAATAAAGGA
1 AAATAATAAATAA-AAATA-AAAATAAAGGA
7040783 AAATAATAAATAAAAATAAAAATAAAG
1 AAATAATAAATAAAAATAAAAATAAAG
7040810 ATTGGGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (29 bp):
AAATAATAAATAAAAATAAAAATAAAGGA
Found at i:7045956 original size:17 final size:18
Alignment explanation
Indices: 7045926--7045962 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7045916 AAGAGTTGTA
*
7045926 TTTTTTAATTTTTGTATT
1 TTTTTTAATTTTTGAATT
7045944 TTTTTTAA-TTTTGAATT
1 TTTTTTAATTTTTGAATT
7045961 TT
1 TT
7045963 CAGTCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTAATTTTTGAATT
Found at i:7047102 original size:24 final size:23
Alignment explanation
Indices: 7047075--7047120 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
7047065 AATATTCAAC
7047075 TTTTAAAAAATAAAAATAATATAT
1 TTTTAAAAAATAAAAAT-ATATAT
* **
7047099 TTTTTAAATCTAAAAATATATA
1 TTTTAAAAAATAAAAATATATA
7047121 ACAAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTTAAAAAATAAAAATATATAT
Found at i:7047381 original size:29 final size:28
Alignment explanation
Indices: 7047349--7047408 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
7047339 TTACTAAAAA
* *
7047349 TTTAATCAAATTTATTTATTTCTGG-ATTT
1 TTTAAACAAATTTAATT-TTT-TGGAATTT
*
7047378 TTTAAACATATTTAATTTTTTGGAATTT
1 TTTAAACAAATTTAATTTTTTGGAATTT
7047406 TTT
1 TTT
7047409 GAATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 10 0.37
29 14 0.52
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTAAACAAATTTAATTTTTTGGAATTT
Found at i:7047805 original size:22 final size:23
Alignment explanation
Indices: 7047761--7047806 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
7047751 TTTATATATT
*
7047761 AAATATATTTTAATATTTTAATA
1 AAATATATTTTAATATTTAAATA
7047784 AAATAT-TTTTAACT-TTTAAATA
1 AAATATATTTTAA-TATTTAAATA
7047806 A
1 A
7047807 TAATGTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATATATTTTAATATTTAAATA
Found at i:7052252 original size:14 final size:15
Alignment explanation
Indices: 7052227--7052259 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7052217 TTAAAAAACC
7052227 TAAAACATATAATTA
1 TAAAACATATAATTA
7052242 TAAAA-ATATAATTA
1 TAAAACATATAATTA
7052256 -AAAA
1 TAAAA
7052260 TTTAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAACATATAATTA
Found at i:7052279 original size:17 final size:17
Alignment explanation
Indices: 7052253--7052287 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7052243 AAAAATATAA
7052253 TTAAAAATTTAACAAAT
1 TTAAAAATTTAACAAAT
* *
7052270 TTAAATATTTGACAAAT
1 TTAAAAATTTAACAAAT
7052287 T
1 T
7052288 ATGACTACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (17 bp):
TTAAAAATTTAACAAAT
Found at i:7057323 original size:14 final size:15
Alignment explanation
Indices: 7057304--7057336 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7057294 TAATATGTCA
7057304 AATAGTAA-AAAAAT
1 AATAGTAACAAAAAT
*
7057318 AATAGTAACAACAAT
1 AATAGTAACAAAAAT
7057333 AATA
1 AATA
7057337 CAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (15 bp):
AATAGTAACAAAAAT
Found at i:7057513 original size:26 final size:26
Alignment explanation
Indices: 7057476--7057532 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
7057466 ATTAAATTGG
* * *
7057476 TTAATATAAAAAATAATAACATATAA
1 TTAATATAAAAAAAAAGAAAATATAA
7057502 TTAA-ATACAAAAAAAAGAAAATATAA
1 TTAATATA-AAAAAAAAGAAAATATAA
7057528 -TAATA
1 TTAATA
7057533 ATAATAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
TTAATATAAAAAAAAAGAAAATATAA
Found at i:7057530 original size:3 final size:3
Alignment explanation
Indices: 7057524--7058036 Score: 121
Period size: 3 Copynumber: 170.3 Consensus size: 3
7057514 AAAAGAAAAT
* *
7057524 ATA ATA ATA ATA ATA ATA GTA ATA ATTCA ATA GTA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA ATA ATA
* * * * * *
7057570 A-A AGGT- ATA ATA AT- ATA TTA GATA GTA AAA AAA ATA ACA GTA ATA
1 ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
7057615 AAA ATG GTA ATA GTG ATA TTA GTA ATA ATA ATA ATA ATA GGA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA
* * * * *
7057661 ATA GTA CATTA ATA ATA ATA ATA TATG TTA ATA ACA ATA ATA ACA TATA
1 ATA ATA -A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
7057710 AAA ATA GGA-A ATA ATA AT- ATG GTA A-A GA-A ATA ATA ATT ATA ACA
1 ATA ATA --ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * * * *
7057754 AAA ATA GTA ATA ATA GTA TGTG A-A ATA ATA ATT GTA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
7057797 ATA GTA ATA ATT ATA TTG ATA ATA GATA ACA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * *
7057843 ATA GTA GTA A-A AAA ATA AAA AT- ATA AAA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
7057889 A-A A-A ATG ACA ATAA ATA A-G ATA ATA ATA ATG ATA ATA A-A A-A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
7057930 ATA AAA ATA GTA ATG ATG GCA ATA ATA ATA ATA CCATA ATA A-A AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
* * * * * *
7057976 AAA AGAA ATA ATA ACA TGTAA ATA ATA ATA ACA ATA ATA ACA ATA ATA
1 ATA A-TA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
7058024 GTA AAA ATA ATA A
1 ATA ATA ATA ATA A
7058037 AATTAACTAA
Statistics
Matches: 363, Mismatches: 110, Indels: 74
0.66 0.20 0.14
Matches are distributed among these distances:
2 33 0.09
3 296 0.82
4 24 0.07
5 10 0.03
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:7057876 original size:37 final size:37
Alignment explanation
Indices: 7057835--7057938 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 37
7057825 ACAATAATAC
7057835 TAATAATAATAGTAGTAAAAAAATAAAAATATAA-AA-A
1 TAATAATAATAGTAGT-AAAAAATAAAAATA-AATAAGA
* * *
7057872 TAATAATAATAATAGTAAAAAATGACAATAAATAAGA
1 TAATAATAATAGTAGTAAAAAATAAAAATAAATAAGA
*
7057909 TAATAATAAT-GATAATAAAAAATAAAAATA
1 TAATAATAATAG-TAGTAAAAAATAAAAATA
7057939 GTAATGATGG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 2 0.04
36 14 0.25
37 41 0.72
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (37 bp):
TAATAATAATAGTAGTAAAAAATAAAAATAAATAAGA
Found at i:7058281 original size:23 final size:23
Alignment explanation
Indices: 7058255--7058299 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7058245 AATTATAGGG
*
7058255 TAAAATT-AGAAATAATAAAAAAT
1 TAAAATTCA-AAACAATAAAAAAT
*
7058278 TAAATTTCAAAACAATAAAAAA
1 TAAAATTCAAAACAATAAAAAA
7058300 GCGGAAGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAATTCAAAACAATAAAAAAT
Found at i:7059553 original size:32 final size:32
Alignment explanation
Indices: 7059517--7059613 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
7059507 TGTATGCATT
7059517 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
* *
7059549 TTAGCATTTTAATAGTTAATGAATGACGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7059581 TTAACATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7059613 T
1 T
7059614 GATAAGCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:7061126 original size:26 final size:26
Alignment explanation
Indices: 7061097--7061149 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7061087 TTTACAGTTT
7061097 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
7061123 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
7061149 T
1 T
7061150 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:7064214 original size:131 final size:128
Alignment explanation
Indices: 7064022--7064540 Score: 463
Period size: 131 Copynumber: 4.0 Consensus size: 128
7064012 TTCAAAATTT
* *
7064022 TTTTAAAAAACATGAGTGAAA-TCCTAAAGGAATATTCGATTATTTTGAACACAC-AGGAAATCG
1 TTTTCAAAAA-ATGAGTGAAATTCC-AAAGGAATATTCGATTATTTTGAACAAACGA-GAAATCG
* *
7064085 CAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAA
63 CAACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCGA-TATTGCCTTCGTTTT-AA
7064150 GAG
126 GAG
* * * ** *
7064153 TTTTCAAAGATATGAGTGAAATTCCAAAGGAATCTTCGATTGTTCCGAACAAACGAGAAATCGCC
1 TTTTCAAA-AAATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCA
* * * * *
7064218 ACCCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACACCGAATATTGTCTTTGTTTTAAAGG
65 ACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCG-ATATTGCCTTCGTTTT-AAGA
7064282 G
128 G
* * * * * * * **
7064283 TTTTGAGAAAACATGAATGAAATTCAAAAGGGACATTCGGTTATTTTGAGCAAACGA-AGAATTA
1 TTTTCA-AAAA-ATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGA-AATCG
* * * * * *
7064347 CAACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATCTATCATCGCCTTCGTTTTAAT
63 CAACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCGAT-ATTGCCTTCGTTTTAA-
* *
7064412 AAA
126 GAG
* * * *** * *
7064415 TTTTTAAATAATGAGTGAAGTTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAA
1 TTTTCAAAAAATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAA
* * * * *
7064480 CCCAGCACGTTAGGGCACGATTTCAAGAATTGCCAAATATC-AAATCTCGCCTTCGTTTTAA
66 CCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCGATAT-T-GCCTTCGTTTTAA
7064541 AGAATTTTTA
Statistics
Matches: 316, Mismatches: 59, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
128 2 0.01
129 1 0.00
130 134 0.42
131 144 0.46
132 35 0.11
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (128 bp):
TTTTCAAAAAATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAA
CCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCGATATTGCCTTCGTTTTAAGAG
Found at i:7064481 original size:130 final size:131
Alignment explanation
Indices: 7063954--7064553 Score: 498
Period size: 130 Copynumber: 4.6 Consensus size: 131
7063944 GAAAAACTGA
* * * *** * *
7063954 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCGAAACATCAAGCGTTGCCTT-ATTTTCAA
1 AACCCAGCACGA-TAGGGCACGATTCCACGAATTGCCAAACATCAAATATCGCCTTCGTTTT-AA
* * * * *
7064017 A-ATTTTTTTAAAAAACATGAGTGAAATCCTAAAGGAATATTCGATTATTTTGAACACAC-AGGA
64 AGA-ATTTTT-AAATACATGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACGA-GA
7064080 AATCGC
126 AATCGC
* * * ** *
7064086 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCAAATATCGCCTTCGTTTTAAAG
* * * * * * * **
7064151 AGTTTTCAAAGATATGAGTGAAATTCCAAAGGAATCTTCGATTGTTCCGAACAAACGAGAAATCG
66 AATTTTTAAATACATGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
7064216 C
131 C
* * * * * * *
7064217 CACCCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACACCGAATATTGTCTTTGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCAAATATCGCCTTCGTTTTAAAG
** * * * * * * *
7064281 GGTTTTGAGAAAACATGAATGAAATTCAAAAGGGACATTCGGTTATTTTGAGCAAACGA-AGAAT
66 AATTTTTA-AATACATGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACGAGA-AAT
**
7064345 TAC
129 CGC
* * * * *
7064348 AACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATC-TATCATCGCCTTCGTTTTAAT
1 AACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCAAAT-ATCGCCTTCGTTTTAA-
* *** *
7064412 A-AATTTTTAAATA-ATGAGTGAAGTTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAAT
64 AGAATTTTTAAATACATGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACGAGAAAT
*
7064475 TGC
129 CGC
* * * * *
7064478 AACCCAGCACGTTAGGGCACGATTTCAAGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCAAATATCGCCTTCGTTTTAAAG
7064543 AATTTTTAAAT
66 AATTTTTAAAT
7064554 GAATAATTAT
Statistics
Matches: 383, Mismatches: 73, Indels: 26
0.79 0.15 0.05
Matches are distributed among these distances:
129 1 0.00
130 147 0.38
131 143 0.37
132 85 0.22
133 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (131 bp):
AACCCAGCACGATAGGGCACGATTCCACGAATTGCCAAACATCAAATATCGCCTTCGTTTTAAAG
AATTTTTAAATACATGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
C
Found at i:7066662 original size:14 final size:15
Alignment explanation
Indices: 7066643--7066671 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7066633 CGAAAAGGAA
7066643 GAAAATAAAT-CAAT
1 GAAAATAAATACAAT
7066657 GAAAATAAATACAAT
1 GAAAATAAATACAAT
7066672 ACAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
GAAAATAAATACAAT
Found at i:7070667 original size:64 final size:64
Alignment explanation
Indices: 7070599--7070804 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
7070589 CCAGAGCCAT
7070599 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
* * * *** * ** *
7070663 TTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGG
1 TTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGG
* * *
7070725 GCCAGA-GCCCT
53 CCCATAGGCCCA
7070736 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
7070800 TTTCA
1 TTTCA
7070805 AAATACATGC
Statistics
Matches: 99, Mismatches: 26, Indels: 34
0.62 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 21 0.21
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
Found at i:7070733 original size:137 final size:137
Alignment explanation
Indices: 7070560--7070846 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
7070550 CATTGGGCCT
**
7070560 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
7070625 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
7070690 CATATGC
131 CATATGC
* *
7070697 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
*
7070762 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAATATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
7070827 CATATGC
131 CATATGC
7070834 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7070847 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:7072661 original size:26 final size:26
Alignment explanation
Indices: 7072630--7072725 Score: 156
Period size: 26 Copynumber: 3.7 Consensus size: 26
7072620 TGAAATGCCC
7072630 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
7072656 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
7072682 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
7072708 ATCATGGAACATTTACCT
1 ATCATGGAACATTTACCT
7072726 GACACATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:7072707 original size:52 final size:52
Alignment explanation
Indices: 7072630--7072737 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
7072620 TGAAATGCCC
* *
7072630 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
* * *
7072682 ATCATAGAATATTTACCTAATCCATTATCATGGAACATTTACCTGACACATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
7072734 ATCA
1 ATCA
7072738 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
Found at i:7072733 original size:26 final size:26
Alignment explanation
Indices: 7072630--7072737 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 26
7072620 TGAAATGCCC
7072630 ATCATGGAACATTTACCTAA-ACCATT
1 ATCATGGAACATTTACCTAACA-CATT
*
7072656 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACACATT
* *
7072682 ATCATAGAATATTTACCTAATC-CATT
1 ATCATGGAACATTTACCTAA-CACATT
*
7072708 ATCATGGAACATTTACCTGACACATT
1 ATCATGGAACATTTACCTAACACATT
7072734 ATCA
1 ATCA
7072738 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.01
26 71 0.97
27 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACACATT
Found at i:7077931 original size:136 final size:136
Alignment explanation
Indices: 7077725--7078009 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
7077715 CATTGGGCCT
**
7077725 AAGCCCATTCAGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
7077790 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
7077855 ATATGC
131 ATATGC
7077861 AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
7077926 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
7077991 ATATGC
131 ATATGC
7077997 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7078010 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:7079824 original size:26 final size:26
Alignment explanation
Indices: 7079788--7079944 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
7079778 TGAAATGCCC
7079788 ATCAT-GAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
7079813 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
7079839 ATCATGGAATATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
7079864 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
7079890 ATCAT-GAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
7079915 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
7079941 ATCA
1 ATCA
7079945 ATTTGTACCA
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
25 53 0.45
26 66 0.55
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:7079861 original size:51 final size:50
Alignment explanation
Indices: 7079788--7079944 Score: 269
Period size: 51 Copynumber: 3.1 Consensus size: 50
7079778 TGAAATGCCC
*
7079788 ATCATGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAATATTTACCT-AACCATTATCATGGAACATTTACCTAACCCATT
7079839 ATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCAT-GAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
*
7079890 ATCATGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACACATT
1 ATCATGAATATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
7079941 ATCA
1 ATCA
7079945 ATTTGTACCA
Statistics
Matches: 102, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
50 14 0.14
51 77 0.75
52 11 0.11
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (50 bp):
ATCATGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:7082899 original size:25 final size:27
Alignment explanation
Indices: 7082862--7082914 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7082852 TCAAACATGC
7082862 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
7082888 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
7082914 A
1 A
7082915 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:7084413 original size:31 final size:31
Alignment explanation
Indices: 7084377--7084436 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
7084367 CTTACCATGC
*
7084377 CCATCATCTATTAACTATTAAAATGCTAATG
1 CCATCATCCATTAACTATTAAAATGCTAATG
7084408 CCATCATCCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
7084437 AATGCATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (31 bp):
CCATCATCCATTAACTATTAAAATGCTAATG
Found at i:7087291 original size:19 final size:19
Alignment explanation
Indices: 7087267--7087318 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
7087257 AAAGATACAT
7087267 ATGTATAGTATATATAAAA
1 ATGTATAGTATATATAAAA
*
7087286 ATGTATA-CATA-ATAAAA
1 ATGTATAGTATATATAAAA
* **
7087303 TTACATAGTATATATA
1 ATGTATAGTATATATA
7087319 TGTTAGTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 10 0.38
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (19 bp):
ATGTATAGTATATATAAAA
Found at i:7089301 original size:20 final size:20
Alignment explanation
Indices: 7089278--7089317 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7089268 TTATTTGGGT
7089278 TTTGGGTAAGTTTAAGTTGG
1 TTTGGGTAAGTTTAAGTTGG
**
7089298 TTTGGGTTGGTTTAAGTTGG
1 TTTGGGTAAGTTTAAGTTGG
7089318 GCCAAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (20 bp):
TTTGGGTAAGTTTAAGTTGG
Found at i:7091089 original size:23 final size:23
Alignment explanation
Indices: 7091063--7091107 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
7091053 GATATATTTT
*
7091063 GGTATATTGTTTTAGATTTATTC
1 GGTATATTGTATTAGATTTATTC
7091086 GGTATATTGTATTAGATTTATT
1 GGTATATTGTATTAGATTTATT
7091108 GCTTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (23 bp):
GGTATATTGTATTAGATTTATTC
Found at i:7094846 original size:15 final size:16
Alignment explanation
Indices: 7094826--7094858 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7094816 GCAGTAAAAA
7094826 TTCAGCACTT-AATTT
1 TTCAGCACTTAAATTT
*
7094841 TTCAGCATTTAAATTT
1 TTCAGCACTTAAATTT
7094857 TT
1 TT
7094859 AGTTTATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTCAGCACTTAAATTT
Found at i:7095029 original size:61 final size:61
Alignment explanation
Indices: 7094964--7095089 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 61
7094954 CCTAAATCTT
** ** * *
7094964 AAAAAATCAACAAATTTAGCTTTCAATGTTTAC-AAAATTTTTCATTTTAGTTCGAATTCTA
1 AAAAAATCAACAAATTTAGCCCTCAACATTTACAAAAATTTTT-AATTTAATTCGAATTCTA
* * * * *
7095025 AAAAATTCAATAAGTTTTGCCCTCAACATTTACAAAAATTTTTAATTTAATTCTAATTCTA
1 AAAAAATCAACAAATTTAGCCCTCAACATTTACAAAAATTTTTAATTTAATTCGAATTCTA
7095086 AAAA
1 AAAA
7095090 GTTCCAAAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 44 0.83
62 9 0.17
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (61 bp):
AAAAAATCAACAAATTTAGCCCTCAACATTTACAAAAATTTTTAATTTAATTCGAATTCTA
Found at i:7098963 original size:45 final size:43
Alignment explanation
Indices: 7098832--7098982 Score: 248
Period size: 43 Copynumber: 3.5 Consensus size: 43
7098822 TATTTGAAAA
7098832 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
*
7098875 AAACGCCGCTAAAGGTCATGGCCATTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
* * *
7098918 AAATGCCGCTAAAGGGGTTATAGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAA--GGTCATGGCCTTTAGCGGCGCTTTTCCCAC
7098963 AAACGCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGGTCATG
7098983 AAATTTTAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
43 59 0.60
45 39 0.40
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
Found at i:7099167 original size:19 final size:19
Alignment explanation
Indices: 7099122--7099169 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
7099112 ATCAAATTAA
*
7099122 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
7099141 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
7099160 AATAAAAATA
1 AATAAAAATA
7099170 GATTAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:7099187 original size:17 final size:18
Alignment explanation
Indices: 7099155--7099202 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
7099145 AAAACTAAAA
7099155 TAAATAATAAAAATAGAT
1 TAAATAATAAAAATAGAT
*
7099173 TAAAT-ATAAATATAGAAT
1 TAAATAATAAAAATAG-AT
*
7099191 CAAAATAATAAA
1 -TAAATAATAAA
7099203 GCACCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 4 0.16
20 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
TAAATAATAAAAATAGAT
Found at i:7111791 original size:23 final size:22
Alignment explanation
Indices: 7111764--7111864 Score: 121
Period size: 23 Copynumber: 4.4 Consensus size: 22
7111754 ATAATCCACA
7111764 ACTTCAATTTACAGCATTCAAAC
1 ACTTCAATTTACAGCATT-AAAC
* *
7111787 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTAAAC
7111810 ACTTCAATTTACAGCATTAAAAC
1 ACTTCAATTTACAGCATT-AAAC
* *
7111833 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTAAAC
*
7111856 ATTTCAATT
1 ACTTCAATT
7111865 AACAATATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.03
23 62 0.91
24 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (22 bp):
ACTTCAATTTACAGCATTAAAC
Found at i:7111817 original size:46 final size:46
Alignment explanation
Indices: 7111764--7111900 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
7111754 ATAATCCACA
*
7111764 ACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
7111810 ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
* * ** * * *
7111856 ATTTCAATTAACAATATTTATAGCACTTCAATTTGCAACA-TTTAA
1 ACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA
7111901 GCTGTAATGC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 62 0.76
47 20 0.24
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (46 bp):
ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
Found at i:7112273 original size:26 final size:26
Alignment explanation
Indices: 7112236--7112319 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7112226 TGATACAAAT
* *
7112236 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7112262 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7112288 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7112314 TGATAA
1 TGATAA
7112320 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:7115044 original size:46 final size:46
Alignment explanation
Indices: 7114973--7115271 Score: 327
Period size: 46 Copynumber: 6.5 Consensus size: 46
7114963 GCTACATAAG
*
7114973 CACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAA
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
* * * *
7115019 CATTTCAATTAACAACATTTAAACACTTCAATTTGCATCACTTTAA
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
* *
7115065 CACTTCAATTTACAGCATTAAAACACTTCAATTTGCAACACTTTAA
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
* * * * *
7115111 CATTTCAATTAACAACATTTAAACA-TCTCAATTTCCAGCAAC-TAAA
1 CACTTCAATTTACAGCATTTAAACACT-TCAATTTGCAGC-ACTTTAA
* * * * * *
7115157 CACTTCAATTTGCAGTACTTAAACACTCCAATTTACAGCACTCTAA
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
* * *
7115203 CACTTCAATTTGCAGCACTTT-AACAGTTCAATTTACAGCA-TTTAAA
1 CACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTT-AA
*
7115249 CACTTCAATTTGCAGCACTTTAA
1 CACTTCAATTTACAGCA-TTTAA
7115272 CATCTCAATT
Statistics
Matches: 214, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
45 5 0.02
46 203 0.95
47 6 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
Found at i:7115273 original size:23 final size:23
Alignment explanation
Indices: 7114973--7115281 Score: 283
Period size: 23 Copynumber: 13.4 Consensus size: 23
7114963 GCTACATAAG
*
7114973 CACTTCAATTTACAGCA-TTCAAA
1 CACTTCAATTTACAGCACTT-TAA
*
7114996 CACTTCAATTTGCAGCACTTTAA
1 CACTTCAATTTACAGCACTTTAA
* * *
7115019 CATTTCAATTAACAACA-TTTAAA
1 CACTTCAATTTACAGCACTTT-AA
* *
7115042 CACTTCAATTTGCATCACTTTAA
1 CACTTCAATTTACAGCACTTTAA
*
7115065 CACTTCAATTTACAGCA-TTAAAA
1 CACTTCAATTTACAGCACTT-TAA
* *
7115088 CACTTCAATTTGCAACACTTTAA
1 CACTTCAATTTACAGCACTTTAA
* * *
7115111 CATTTCAATTAACAACA-TTTAA
1 CACTTCAATTTACAGCACTTTAA
* *
7115133 -ACATCTCAATTTCCAGCAAC-TAAA
1 CAC-T-TCAATTTACAGC-ACTTTAA
* * *
7115157 CACTTCAATTTGCAGTACTTAAA
1 CACTTCAATTTACAGCACTTTAA
* *
7115180 CACTCCAATTTACAGCACTCTAA
1 CACTTCAATTTACAGCACTTTAA
*
7115203 CACTTCAATTTGCAGCACTTTAA
1 CACTTCAATTTACAGCACTTTAA
*
7115226 CAGTTCAATTTACAGCA-TTTAAA
1 CACTTCAATTTACAGCACTTT-AA
*
7115249 CACTTCAATTTGCAGCACTTTAA
1 CACTTCAATTTACAGCACTTTAA
7115272 CA-TCTCAATT
1 CACT-TCAATT
7115282 AATAACATTT
Statistics
Matches: 234, Mismatches: 38, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.00
22 17 0.07
23 199 0.85
24 15 0.06
25 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (23 bp):
CACTTCAATTTACAGCACTTTAA
Found at i:7115680 original size:12 final size:12
Alignment explanation
Indices: 7115665--7115714 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
7115655 ACACACACAT
7115665 ATTAACATCTCA
1 ATTAACATCTCA
*
7115677 ATTAACA--ACA
1 ATTAACATCTCA
* *
7115687 TTTATACACCTCA
1 ATTA-ACATCTCA
7115700 ATTAACATCTCA
1 ATTAACATCTCA
7115712 ATT
1 ATT
7115715 TCCAGCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 17 0.57
13 5 0.17
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAACATCTCA
Found at i:7116083 original size:15 final size:15
Alignment explanation
Indices: 7116063--7116109 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
7116053 AATTTTCTAA
7116063 TATAAATTTAGCACT
1 TATAAATTTAGCACT
*
7116078 TATAAAATTTAGCA-G
1 TAT-AAATTTAGCACT
* *
7116093 TAAAAATTCAGCACT
1 TATAAATTTAGCACT
7116108 TA
1 TA
7116110 ATTTTTCAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.35
15 7 0.27
16 10 0.38
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAATTTAGCACT
Found at i:7116087 original size:16 final size:15
Alignment explanation
Indices: 7116066--7116110 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
7116056 TTTCTAATAT
7116066 AAATTTAGCACTTATA
1 AAATTTAGCACTTA-A
*
7116082 AAATTTAGCA-GTAA
1 AAATTTAGCACTTAA
*
7116096 AAATTCAGCACTTAA
1 AAATTTAGCACTTAA
7116111 TTTTTCAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 10 0.40
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (15 bp):
AAATTTAGCACTTAA
Found at i:7116119 original size:15 final size:15
Alignment explanation
Indices: 7116099--7116134 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7116089 GCAGTAAAAA
*
7116099 TTCAGCACTTAATTT
1 TTCAGCACTTAAATT
*
7116114 TTCAGCATTTAAATT
1 TTCAGCACTTAAATT
7116129 TTCAGC
1 TTCAGC
7116135 TTATCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (15 bp):
TTCAGCACTTAAATT
Found at i:7116503 original size:2 final size:2
Alignment explanation
Indices: 7116496--7116540 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
7116486 AACATGAAAT
7116496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7116538 TA T
1 TA T
7116541 TTCATTGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7117784 original size:3 final size:3
Alignment explanation
Indices: 7117776--7117813 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
7117766 ATATATATAT
* *
7117776 TTA TTA TTA -TA TTA TTA CTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7117814 AGTATATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7118285 original size:21 final size:21
Alignment explanation
Indices: 7118250--7118291 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7118240 GTATTCTTTT
* *
7118250 TGCTAGAATAACAAAGAGAAA
1 TGCTAGAACAACAAACAGAAA
*
7118271 TGCTAGAACATCAAACAGAAA
1 TGCTAGAACAACAAACAGAAA
7118292 GTAGATATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (21 bp):
TGCTAGAACAACAAACAGAAA
Found at i:7122185 original size:30 final size:30
Alignment explanation
Indices: 7122151--7122225 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
7122141 GCAGAGACCA
*
7122151 ATTTTGACTAGCA-TGATAATTTTGACCAGC
1 ATTTTGACCAGCATTG-TAATTTTGACCAGC
* **
7122181 ATTTTGGCCAGCATTGTAATTTTGACCAAT
1 ATTTTGACCAGCATTGTAATTTTGACCAGC
*
7122211 AGTTTGACCAGCATT
1 ATTTTGACCAGCATT
7122226 ATAAACATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTTGACCAGCATTGTAATTTTGACCAGC
Found at i:7123520 original size:20 final size:20
Alignment explanation
Indices: 7123474--7123521 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
7123464 GTTTTAATAT
7123474 TATATTTTATATATTACTATG
1 TATATTTTATATATTACTA-G
7123495 TATATTTTAGTATATGTA-TA-
1 TATATTTTA-TATAT-TACTAG
7123515 TATATTT
1 TATATTT
7123522 GTGAAGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 7 0.28
23 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
TATATTTTATATATTACTAG
Found at i:7132123 original size:14 final size:14
Alignment explanation
Indices: 7132092--7132135 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7132082 CGCTGAGGTA
*
7132092 TTTTCAATTTCTGCT
1 TTTTCAATTTCT-AT
7132107 TTTT-AATTTCTAT
1 TTTTCAATTTCTAT
*
7132120 TTTTCAATTTATAT
1 TTTTCAATTTCTAT
7132134 TT
1 TT
7132136 CAAAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 17 0.65
15 4 0.15
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:7132286 original size:54 final size:54
Alignment explanation
Indices: 7132222--7132374 Score: 261
Period size: 54 Copynumber: 2.8 Consensus size: 54
7132212 TCAATTCATG
*
7132222 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTGT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
*
7132276 TTTTCAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTTTTAATTTCTGT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
*
7132330 TTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
7132375 GGGTCACATG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 57 0.61
56 36 0.39
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
Found at i:7132540 original size:73 final size:73
Alignment explanation
Indices: 7132408--7132565 Score: 271
Period size: 73 Copynumber: 2.2 Consensus size: 73
7132398 AAATTCTTTT
* *
7132408 ATTTATGTTTTTCAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
7132473 TATTTTCA
66 TATTTTCA
* * *
7132481 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
7132546 TATTTTCA
66 TATTTTCA
7132554 ATTTCTGTTTTT
1 ATTTCTGTTTTT
7132566 TCAATTTATA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (73 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCA
Found at i:7132628 original size:88 final size:87
Alignment explanation
Indices: 7132475--7132886 Score: 453
Period size: 88 Copynumber: 4.7 Consensus size: 87
7132465 CGCTGAGGTA
* * * *
7132475 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
7132540 CTGAGGTATTTTCAATTTCTGTT
66 CTGAGGTATTTTCAATTTCTG-T
7132563 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
7132628 CCGAGGTATTTTCAATTTCTGTT
66 CTGAGGTATTTTCAATTTCTG-T
**
7132651 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCAC
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* * *
7132716 ATG-TCGAGGTATTTTCAAAATT-TGC
63 ACGCT-GAGGTATTTTC-AATTTCTGT
* * * * *
7132741 TTTTCAAATTA-A-GTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCAC
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
*
7132803 GTGCTGAGCTATTTTCAATTTCTGT
65 --GCTGAGGTATTTTCAATTTCTGT
* * * * * * **
7132828 TTTT-AATGTCTGTTTTT-AAAGAGTCAATTCATATTTCGAGAAATGAGTTGAG-CTCAGGA
1 TTTTCAATTTATATTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
7132887 TCACATACCG
Statistics
Matches: 278, Mismatches: 33, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
85 3 0.01
86 7 0.03
87 24 0.09
88 212 0.76
89 1 0.00
90 10 0.04
91 17 0.06
92 4 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:7133055 original size:21 final size:21
Alignment explanation
Indices: 7133009--7133061 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
7132999 AGCAGAGCTC
*
7133009 TGAAGTTATAGTGGAGCTGAT
1 TGAAGTTACAGTGGAGCTGAT
* *
7133030 CGAAGTTGCAGTGGAGCAT-AT
1 TGAAGTTACAGTGGAGC-TGAT
7133051 TGAAGTTACAG
1 TGAAGTTACAG
7133062 ATCTTATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.28
Consensus pattern (21 bp):
TGAAGTTACAGTGGAGCTGAT
Found at i:7136536 original size:3 final size:3
Alignment explanation
Indices: 7136528--7136581 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7136518 CCACTTCTTA
* *
7136528 TAT TAT TAT TAT TA- TAT TAT TTT TAT TAC TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7136574 TTT TAT TA
1 TAT TAT TA
7136582 CTATGGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7136544 original size:14 final size:14
Alignment explanation
Indices: 7136525--7136581 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
7136515 CATCCACTTC
7136525 TTATATTATTATTA
1 TTATATTATTATTA
*
7136539 TTATATTATTTTTA
1 TTATATTATTATTA
*
7136553 -T-TACTATTATTA
1 TTATATTATTATTA
*
7136565 TTATATTATTTTTA
1 TTATATTATTATTA
7136579 TTA
1 TTA
7136582 CTATGGTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 9 0.25
13 2 0.06
14 25 0.69
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:7136560 original size:26 final size:26
Alignment explanation
Indices: 7136531--7136585 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
7136521 CTTCTTATAT
7136531 TATTATTATTATATTATTTTTATTAC
1 TATTATTATTATATTATTTTTATTAC
7136557 TATTATTATTATATTATTTTTATTAC
1 TATTATTATTATATTATTTTTATTAC
7136583 TAT
1 TAT
7136586 GGTTTATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTATTATTATATTATTTTTATTAC
Found at i:7141049 original size:19 final size:19
Alignment explanation
Indices: 7141003--7141040 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7140993 AAGCAATGTG
7141003 GCTAGGAAATTTGTGTAAC
1 GCTAGGAAATTTGTGTAAC
7141022 GCTAGGAAATTTGTGTAAC
1 GCTAGGAAATTTGTGTAAC
7141041 CGTTGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
GCTAGGAAATTTGTGTAAC
Found at i:7143953 original size:80 final size:81
Alignment explanation
Indices: 7143737--7143968 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 81
7143727 CTTAACCCCC
* * * *
7143737 CTAAGCAGCAGGGAAACAAATTGAAGATGACGAGACCTTAAACCCCTAAGCAGTAGGGTAACAGG
1 CTAAGCAGTAGGGAAACAGA-TCAAGATGACAAG-CCTT-AA-CCCTAAGCAGTAGGGTAACAGG
* ***
7143802 TTGAATTGAGATCTTATCTCC
62 TTGAATTCAGATCTTA-CAAA
* * *
7143823 CTAAGCAGTAGTGG-AGCAGATCGAAGACGAGAA-CCTTAACCCTAAGCAGTAGGGTAACAGGTT
1 CTAAGCAGTAG-GGAAACAGATC-AAGATGACAAGCCTTAACCCTAAGCAGTAGGGTAACAGGTT
7143886 GAATTACAGATC-TA-AAA
64 GAATT-CAGATCTTACAAA
* * *
7143903 CTAAGCAGTAGGGAAACAGATCAAGATGACAAGCCTTAATCCTAAACAGTAGGGTAACAGGCTGA
1 CTAAGCAGTAGGGAAACAGATCAAGATGACAAGCCTTAACCCTAAGCAGTAGGGTAACAGGTTGA
7143968 A
66 A
7143969 AATTAAATAT
Statistics
Matches: 124, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
79 10 0.08
80 48 0.39
82 31 0.25
83 7 0.06
84 4 0.03
85 1 0.01
86 21 0.17
87 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (81 bp):
CTAAGCAGTAGGGAAACAGATCAAGATGACAAGCCTTAACCCTAAGCAGTAGGGTAACAGGTTGA
ATTCAGATCTTACAAA
Found at i:7146538 original size:2 final size:2
Alignment explanation
Indices: 7146496--7146520 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7146486 GTACTATTAT
7146496 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7146521 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7149070 original size:14 final size:15
Alignment explanation
Indices: 7149051--7149079 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7149041 GTTTCCGATC
7149051 AGGATTA-AAGAAAG
1 AGGATTATAAGAAAG
7149065 AGGATTATAAGAAAG
1 AGGATTATAAGAAAG
7149080 GAAATCGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (15 bp):
AGGATTATAAGAAAG
Found at i:7149214 original size:12 final size:12
Alignment explanation
Indices: 7149197--7149223 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7149187 TTAAACGAAA
7149197 TGACGTGGGAGG
1 TGACGTGGGAGG
7149209 TGACGTGGGAGG
1 TGACGTGGGAGG
7149221 TGA
1 TGA
7149224 GTTTAATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.56, T:0.19
Consensus pattern (12 bp):
TGACGTGGGAGG
Found at i:7155140 original size:25 final size:26
Alignment explanation
Indices: 7155097--7155178 Score: 98
Period size: 25 Copynumber: 3.2 Consensus size: 26
7155087 TTAGATATAT
*
7155097 ATAATATGAAAAAACTTAAAGTAAATA
1 ATAATA-GAAAAAACTTAAAATAAATA
* *
7155124 ATAATAG-AAAAATTTAAAATAAGTA
1 ATAATAGAAAAAACTTAAAATAAATA
7155149 AT-AT-GAACAAAACTTAAAATAAATA
1 ATAATAGAA-AAAACTTAAAATAAATA
7155174 ATAAT
1 ATAAT
7155179 GATAATACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 34 0.72
26 3 0.06
27 6 0.13
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (26 bp):
ATAATAGAAAAAACTTAAAATAAATA
Found at i:7155213 original size:4 final size:4
Alignment explanation
Indices: 7155206--7155235 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7155196 TTAAAGAATG
7155206 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
7155236 CAAAACAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:7155747 original size:5 final size:5
Alignment explanation
Indices: 7155737--7155761 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7155727 AAGTAAGTAA
7155737 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
7155762 GAAACCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Done.