Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 5 of 318
Found at i:1389140 original size:14 final size:14
Alignment explanation
Indices: 1389121--1389148 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1389111 CACAAATGTC
1389121 CACAAATGTACTTG
1 CACAAATGTACTTG
1389135 CACAAATGTACTTG
1 CACAAATGTACTTG
1389149 TACTAGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
CACAAATGTACTTG
Found at i:1400555 original size:18 final size:19
Alignment explanation
Indices: 1400517--1400555 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1400507 TGGTTCAAGC
*
1400517 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
1400536 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
1400554 TT
1 TT
1400556 CTTAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:1401003 original size:51 final size:53
Alignment explanation
Indices: 1400887--1401016 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 53
1400877 AGCCGGAACA
*
1400887 GAAACAGTAACAGTAGTAGTACGGTACACAGAGTACCTCATCGGAACAAATCC
1 GAAACAGTAACAGTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCC
* * * * * * *
1400940 GGAACAGTAACAGTAATAGTAAGGTAC-GA-AGTGCCTCTTCGGAACGAATCT
1 GAAACAGTAACAGTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCC
*
1400991 GAAACAGTAACAGTAACAGTACGGTA
1 GAAACAGTAACAGTAATAGTACGGTA
1401017 ACAATATCCG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
51 41 0.62
52 1 0.02
53 24 0.36
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (53 bp):
GAAACAGTAACAGTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCC
Found at i:1401066 original size:45 final size:45
Alignment explanation
Indices: 1401003--1401151 Score: 221
Period size: 45 Copynumber: 3.3 Consensus size: 45
1400993 AACAGTAACA
* *
1401003 GTAACAGT-ACGGTAACAATATCCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
1401047 GTAACGGTAACAGTAACAATATTCGACACACAAAGTACCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
1401092 GTAACTGTAACAGT-ACTAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAAC-AATATTCGACACACAAAGTGCCGAATCG
*
1401137 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
1401152 GCGGTAACAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
44 9 0.10
45 85 0.90
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:1401584 original size:15 final size:16
Alignment explanation
Indices: 1401547--1401596 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
1401537 CAATACACAC
1401547 TTCAATT-AA-TCATAA
1 TTCAATTCAATTCA-AA
* *
1401562 TTCCATTCCATTC-AA
1 TTCAATTCAATTCAAA
1401577 TTCAATTCAATTCAAA
1 TTCAATTCAATTCAAA
1401593 TTCA
1 TTCA
1401597 CTTTTCCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 19 0.68
16 7 0.25
17 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (16 bp):
TTCAATTCAATTCAAA
Found at i:1401752 original size:20 final size:20
Alignment explanation
Indices: 1401727--1401765 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1401717 ACATATTCAT
1401727 AATTTA-ATTTATTTTTATTC
1 AATTTATATTT-TTTTTATTC
1401747 AATTTATATTTTTTTTATT
1 AATTTATATTTTTTTTATT
1401766 GTCTAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTTATATTTTTTTTATTC
Found at i:1409917 original size:21 final size:21
Alignment explanation
Indices: 1409891--1409932 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1409881 TTTAAAGCGA
1409891 AAGGGCTATTTGCGCATTTAG
1 AAGGGCTATTTGCGCATTTAG
1409912 AAGGGCTATTTGCGCATTTAG
1 AAGGGCTATTTGCGCATTTAG
1409933 CCCTTCCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (21 bp):
AAGGGCTATTTGCGCATTTAG
Found at i:1410209 original size:3 final size:3
Alignment explanation
Indices: 1410203--1410251 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1410193 TTTTTTTACT
*
1410203 TTA TTA TTA TTA TTA TTA TAA 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
1410251 T
1 T
1410252 GAGTTTATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1410393 original size:20 final size:22
Alignment explanation
Indices: 1410370--1410419 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
1410360 TCTAATATTT
*
1410370 TATTATATATATGT-TTCAT-A
1 TATTATATACATGTGTTCATAA
*
1410390 TATTATATACATGTGTTCTTAA
1 TATTATATACATGTGTTCATAA
1410412 TATTATAT
1 TATTATAT
1410420 TTTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 13 0.50
21 4 0.15
22 9 0.35
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (22 bp):
TATTATATACATGTGTTCATAA
Found at i:1414820 original size:12 final size:12
Alignment explanation
Indices: 1414803--1414838 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1414793 AGCATTTTGA
1414803 CATTCATGCATT
1 CATTCATGCATT
1414815 CATTCATGCATT
1 CATTCATGCATT
*
1414827 CATTCATACATT
1 CATTCATGCATT
1414839 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:1418903 original size:35 final size:35
Alignment explanation
Indices: 1418812--1418906 Score: 172
Period size: 35 Copynumber: 2.7 Consensus size: 35
1418802 CATGGAAAAG
* *
1418812 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1418847 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1418882 TGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATC
1418907 AAATCCATAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:1418913 original size:40 final size:36
Alignment explanation
Indices: 1418812--1418944 Score: 171
Period size: 35 Copynumber: 3.6 Consensus size: 36
1418802 CATGGAAAAG
1418812 TGTGAAATGTAGGTATGGTA-TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
*
1418847 TGTGAAATGTAGGTATGGTATT-ATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
1418882 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-TC--ATCCATACTGAGT
***
1418922 TAAAAAAATGTAGGTATGGTATT
1 T-GTGAAATGTAGGTATGGTATT
1418945 TCAATGAGGA
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
35 52 0.60
36 2 0.02
37 1 0.01
39 1 0.01
40 14 0.16
41 16 0.19
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (36 bp):
TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
Found at i:1425974 original size:14 final size:14
Alignment explanation
Indices: 1425955--1425981 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1425945 CCGAGGTATT
1425955 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
1425969 TTCAAATTCTGTT
1 TTCAAATTCTGTT
1425982 TTTAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:1426111 original size:83 final size:83
Alignment explanation
Indices: 1425993--1426231 Score: 300
Period size: 83 Copynumber: 2.8 Consensus size: 83
1425983 TTAATTATTA
*
1425993 TTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1426058 AAATTCTACTTTTCAACG
66 AAATTCTACTTTTCAACG
* *
1426076 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATCTTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT-TTT
* **
1426141 -AATTTCTACTTTTCAATT
65 CAAATTCTACTTTTCAACG
* * * * *
1426159 TATGCTTCTCAAGAAAATCAGCTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-T--TT-TC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
1426224 AATTTCAA
60 ATTTTCAA
1426232 TTTATGTTCC
Statistics
Matches: 134, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 74 0.55
84 4 0.03
86 2 0.01
87 2 0.01
88 4 0.03
89 48 0.36
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (83 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
AAATTCTACTTTTCAACG
Found at i:1426270 original size:70 final size:71
Alignment explanation
Indices: 1426151--1426383 Score: 270
Period size: 70 Copynumber: 3.2 Consensus size: 71
1426141 AATTTCTACT
* *
1426151 TTTCAATTTATGCTTCTCAAGAAAATCAGCTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTCAATTTATG--T-TCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1426216 GTTGAGGTAA
62 GTTGAGGTAA
* * * *
1426226 TTTCAATTTATGTTC-CAAAATCAACTCATATTGCCATAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTCAATTTATGTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
1426290 AGGTAA
66 AGGTAA
* * * * *
1426296 TTTTAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACATG
1 TTTCAA-TT-TA-TGTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
* *
1426361 CTGAGGTAT
63 TTGAGGTAA
*
1426370 TTTCAATTTCTGTT
1 TTTCAATTTATGTT
1426384 TTCAGTTTAT
Statistics
Matches: 134, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
70 54 0.40
71 5 0.04
72 5 0.04
73 7 0.05
74 51 0.38
75 12 0.09
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (71 bp):
TTTCAATTTATGTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
AGGTAA
Found at i:1426578 original size:55 final size:53
Alignment explanation
Indices: 1426485--1426643 Score: 219
Period size: 55 Copynumber: 2.9 Consensus size: 53
1426475 CAAATTTTGT
* *
1426485 TTTTAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTC
1 TTTTAATTTCTG-TTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
* * *
1426541 TTTTAATTTATGTTCTTCAAAAAGTTAACTCATATTGCAAGAAGTGAGTTGAGCC
1 TTTTAATTTCTGTT-TTCAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCC
1426596 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGT
1 TTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGT
1426644 AGAACCTCGG
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
54 28 0.30
55 48 0.52
56 16 0.17
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (53 bp):
TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
Found at i:1427958 original size:7 final size:7
Alignment explanation
Indices: 1427948--1427987 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
1427938 GGCCGGAGCA
1427948 CTCCCCT
1 CTCCCCT
1427955 CTCCCCT
1 CTCCCCT
1427962 CTCCCCT
1 CTCCCCT
*
1427969 CTCTCCTTT
1 CTC-CC-CT
1427978 CTCCCCT
1 CTCCCCT
1427985 CTC
1 CTC
1427988 TCATTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 21 0.72
8 4 0.14
9 4 0.14
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (7 bp):
CTCCCCT
Found at i:1427967 original size:14 final size:16
Alignment explanation
Indices: 1427948--1427989 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
1427938 GGCCGGAGCA
1427948 CTCCCCTCTC-CC-CT
1 CTCCCCTCTCTCCTCT
*
1427962 CTCCCCTCTCTCCTTT
1 CTCCCCTCTCTCCTCT
1427978 CTCCCCTCTCTC
1 CTCCCCTCTCTC
1427990 ATTTCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCCCCTCTCTCCTCT
Found at i:1427994 original size:16 final size:16
Alignment explanation
Indices: 1427961--1427996 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1427951 CCCTCTCCCC
*
1427961 TCTCCCCTCTCTCCTT
1 TCTCCCCTCTCTCATT
1427977 TCTCCCCTCTCTCATT
1 TCTCCCCTCTCTCATT
1427993 TCTC
1 TCTC
1427997 TCTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.44
Consensus pattern (16 bp):
TCTCCCCTCTCTCATT
Found at i:1428632 original size:20 final size:18
Alignment explanation
Indices: 1428609--1428699 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 18
1428599 TCTAATATTT
1428609 TATTATATATATGTTTCATA
1 TATTATATATAT-TTT-ATA
* *
1428629 TATTATATACATGTGTTCT-
1 TATTATATATAT-T-TTATA
*
1428648 TAATAT-TATATTTTATA
1 TATTATATATATTTTATA
*
1428665 TTATTATGTATATTTTAGTA
1 -TATTATATATATTTTA-TA
1428685 TATATATATATATTT
1 TAT-TATATATATTT
1428700 GTGAAATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
16 3 0.05
17 1 0.02
18 9 0.16
19 17 0.29
20 26 0.45
21 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTATATATATTTTATA
Found at i:1431509 original size:21 final size:21
Alignment explanation
Indices: 1431468--1431509 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1431458 CAAACCATAC
* *
1431468 ATAAAATAACAAATAATAAAA
1 ATAAAATAACAAAGAAAAAAA
1431489 ATAAAA-AACACAAGAAAAAAA
1 ATAAAATAACA-AAGAAAAAAA
1431510 TTGAAGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (21 bp):
ATAAAATAACAAAGAAAAAAA
Found at i:1432692 original size:3 final size:3
Alignment explanation
Indices: 1432668--1432739 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
1432658 TATATACATA
* * **
1432668 TAT TA- TAT TA- TAT TAT TGAT TAT TAT AAT TAT TAAT TGT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
*
1432713 T-T TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1432740 AATAAATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1433201 original size:24 final size:23
Alignment explanation
Indices: 1433161--1433205 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1433151 ATTTATTTAC
1433161 TTATTATTTAAGAAATAATAATTA
1 TTATTATTTAAGAAAT-ATAATTA
*
1433185 TTATTA-TTAAGTTAATATAAT
1 TTATTATTTAAG-AAATATAAT
1433206 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATTATTTAAGAAATATAATTA
Found at i:1433302 original size:6 final size:6
Alignment explanation
Indices: 1433283--1433325 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
1433273 AAAACAGGGG
* *
1433283 AGAAAA AGAGAA AGAAAA AG-GAA AGAAAA AGAAAA AGGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A-GAAAA A
1433326 CTAGAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
5 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:1433306 original size:11 final size:12
Alignment explanation
Indices: 1433283--1433325 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
1433273 AAAACAGGGG
1433283 AGAAAAAGAGAA
1 AGAAAAAGAGAA
1433295 AGAAAAAG-GAA
1 AGAAAAAGAGAA
*
1433306 AGAAAAAGAAAA
1 AGAAAAAGAGAA
1433318 AGGAAAAA
1 A-GAAAAA
1433326 CTAGAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 11 0.39
13 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:1433313 original size:17 final size:17
Alignment explanation
Indices: 1433287--1433323 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1433277 CAGGGGAGAA
*
1433287 AAAGAGAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
1433304 AAAGAAAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
1433321 AAA
1 AAA
1433324 AACTAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAGG
Found at i:1433796 original size:6 final size:6
Alignment explanation
Indices: 1433785--1433814 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1433775 ATGTGCTGAC
*
1433785 TACTGT TACTGT TACCGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT
1433815 ATCGGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:1436240 original size:29 final size:28
Alignment explanation
Indices: 1436206--1436308 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
1436196 CAATCGATCA
1436206 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TGATTTAAGCT
* *
1436235 CGCACACATAGTGCCATATGATTTAAGCC
1 CGCACACTTAGTGCCAT-TGATTTAAGCT
**
1436264 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATTGATTT-AAGCT
*
1436293 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
1436309 ATTCTCGTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTGATTTAAGCT
Found at i:1440378 original size:3 final size:3
Alignment explanation
Indices: 1440372--1440406 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1440362 ATAATAATAA
* *
1440372 TAT TAT TAT AAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1440407 GTTCATGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1440617 original size:5 final size:5
Alignment explanation
Indices: 1440609--1440669 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
1440599 AATGTTATAT
*
1440609 TATTA TATT- T-TTA TATTA TATTA CA-TA TATTA TATTA TATTCA TATT-
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT-A TATTA
*
1440656 TTTTA TA-TA TATTA
1 TATTA TATTA TATTA
1440670 CAATGTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
3 2 0.04
4 12 0.26
5 27 0.59
6 5 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:1440643 original size:19 final size:19
Alignment explanation
Indices: 1440619--1440671 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1440609 TATTATATTT
1440619 TTATATTATATTACATATA
1 TTATATTATATTACATATA
*
1440638 TTATATTATATT-CATATT
1 TTATATTATATTACATATA
*
1440656 TTTTATATATATTACA
1 TTATAT-TATATTACA
1440672 ATGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 10 0.33
19 18 0.60
20 2 0.07
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATTATATTACATATA
Found at i:1443549 original size:38 final size:38
Alignment explanation
Indices: 1443507--1443665 Score: 115
Period size: 38 Copynumber: 4.2 Consensus size: 38
1443497 ATATGCTAGA
*
1443507 ATTATAAT-AGAGTTAAATCCCACATGCTTCGTGCTGGC
1 ATTAT-ATCAGAGTTAAATCCCACAGGCTTCGTGCTGGC
* * * * *
1443545 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGT
1 ATTATATCAGAGTTAAATCCCACAGGCTTCGTGCTGGC
* * * * *
1443583 AATATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTC
1 ATTATATCAGAGTTAAATCCCACAGGCTTCGTGCTGG-C
* * * * * * * *
1443622 -TTATAACCGGGTTAAATCTCGCAGGCCTAGTGCTGGT
1 ATTATATCAGAGTTAAATCCCACAGGCTTCGTGCTGGC
1443659 ATTATAT
1 ATTATAT
1443666 TTAAGCCTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
37 2 0.02
38 100 0.98
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (38 bp):
ATTATATCAGAGTTAAATCCCACAGGCTTCGTGCTGGC
Found at i:1443580 original size:76 final size:76
Alignment explanation
Indices: 1443515--1443665 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
1443505 GAATTATAAT
* *
1443515 AGAGTTAAATCCCACATGCTTCGTGCTGG-CATTATATCCGGGTTAAATCCCGCAGGCTTCGTGC
1 AGAGTTAAATCCCACAGGCTTCGTGCTGGTC-TTATAACCGGGTTAAATCCCGCAGGCTTCGTGC
1443579 TAGTAATATATC
65 TAGTAATATATC
* * * * * * *
1443591 CGGGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATAACCGGGTTAAATCTCGCAGGCCTAGTGCT
1 AGAGTTAAATCCCACAGGCTTCGTGCTGGTCTTATAACCGGGTTAAATCCCGCAGGCTTCGTGCT
* *
1443656 GGTATTATAT
66 AGTAATATAT
1443666 TTAAGCCTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 62 0.98
77 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (76 bp):
AGAGTTAAATCCCACAGGCTTCGTGCTGGTCTTATAACCGGGTTAAATCCCGCAGGCTTCGTGCT
AGTAATATATC
Found at i:1447847 original size:3 final size:3
Alignment explanation
Indices: 1447823--1447894 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
1447813 TATATACATA
* * **
1447823 TAT TA- TAT TA- TAT TAT TGAT TAT TAT AAT TAT TAAT TGT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
*
1447868 T-T TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1447895 AATAAATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1448356 original size:24 final size:23
Alignment explanation
Indices: 1448316--1448360 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1448306 ATTTATTTAC
1448316 TTATTATTTAAGAAATAATAATTA
1 TTATTATTTAAGAAAT-ATAATTA
*
1448340 TTATTA-TTAAGTTAATATAAT
1 TTATTATTTAAG-AAATATAAT
1448361 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATTATTTAAGAAATATAATTA
Found at i:1448457 original size:6 final size:6
Alignment explanation
Indices: 1448438--1448480 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
1448428 AAAACAGGGG
* *
1448438 AGAAAA AGAGAA AGAAAA AG-GAA AGAAAA AGAAAA AGGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A-GAAAA A
1448481 CTAGAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
5 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:1448461 original size:11 final size:12
Alignment explanation
Indices: 1448438--1448480 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
1448428 AAAACAGGGG
1448438 AGAAAAAGAGAA
1 AGAAAAAGAGAA
1448450 AGAAAAAG-GAA
1 AGAAAAAGAGAA
*
1448461 AGAAAAAGAAAA
1 AGAAAAAGAGAA
1448473 AGGAAAAA
1 A-GAAAAA
1448481 CTAGAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 11 0.39
13 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:1448468 original size:17 final size:17
Alignment explanation
Indices: 1448442--1448478 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1448432 CAGGGGAGAA
*
1448442 AAAGAGAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
1448459 AAAGAAAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
1448476 AAA
1 AAA
1448479 AACTAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAGG
Found at i:1449013 original size:6 final size:6
Alignment explanation
Indices: 1449002--1449031 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1448992 ATGTACCGAC
*
1449002 TACTGT TACTGT TACCGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT
1449032 ATCAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:1452317 original size:15 final size:15
Alignment explanation
Indices: 1452289--1452325 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1452279 AAGCTAGTAG
*
1452289 AAAT-AAGAACATAA
1 AAATAAAGAAAATAA
1452303 AAATAAAGAAAATAA
1 AAATAAAGAAAATAA
1452318 AAA-AAAGA
1 AAATAAAGA
1452326 CCTTTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (15 bp):
AAATAAAGAAAATAA
Found at i:1455888 original size:8 final size:8
Alignment explanation
Indices: 1455875--1455900 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1455865 ACTTTATTTG
1455875 TTACTTTA
1 TTACTTTA
1455883 TTACTTTA
1 TTACTTTA
1455891 TTACTTTA
1 TTACTTTA
1455899 TT
1 TT
1455901 TTGAGGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTACTTTA
Found at i:1456640 original size:15 final size:15
Alignment explanation
Indices: 1456620--1456649 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1456610 AAAATTAATT
*
1456620 AAGATATTAATTTAA
1 AAGATATTAAATTAA
1456635 AAGATATTAAATTAA
1 AAGATATTAAATTAA
1456650 TTGATTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AAGATATTAAATTAA
Found at i:1456882 original size:43 final size:43
Alignment explanation
Indices: 1456834--1456936 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 43
1456824 CACTATATTC
* * * *
1456834 ATTTCCCACTGACTGTAGTTGC-TTTTGGGACAAAGTTCATTTT
1 ATTTCCCACAGACAGCAGTTGCTTTTTCGGACAAA-TTCATTTT
*
1456877 ATTT-CCACAGACAGCAGTTGCTTTTTCGGACAAATTCTTTTT
1 ATTTCCCACAGACAGCAGTTGCTTTTTCGGACAAATTCATTTT
1456919 ATTT-CCAC-GTACAGCAGT
1 ATTTCCCACAG-ACAGCAGT
1456937 GGTCTTTGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 37 0.70
43 15 0.28
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (43 bp):
ATTTCCCACAGACAGCAGTTGCTTTTTCGGACAAATTCATTTT
Found at i:1456898 original size:42 final size:42
Alignment explanation
Indices: 1456850--1456936 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
1456840 CACTGACTGT
*
1456850 AGTTGC-TTTTGGGACAAAGTTCATTTTATTTCCACAG-ACAGC
1 AGTTGCTTTTTCGGACAAA-TTCATTTTATTTCCAC-GTACAGC
*
1456892 AGTTGCTTTTTCGGACAAATTCTTTTTATTTCCACGTACAGC
1 AGTTGCTTTTTCGGACAAATTCATTTTATTTCCACGTACAGC
1456934 AGT
1 AGT
1456937 GGTCTTTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 1 0.02
42 29 0.71
43 11 0.27
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (42 bp):
AGTTGCTTTTTCGGACAAATTCATTTTATTTCCACGTACAGC
Found at i:1457015 original size:29 final size:31
Alignment explanation
Indices: 1456983--1457044 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
1456973 TACTTCTAAA
1456983 TTAAGAATTTCATTAAT-A-TATTT-TTATTT
1 TTAAGAATTT-ATTAATCATTATTTATTATTT
*
1457012 TTAAGAATTTATTATTCATTATTTATTATTT
1 TTAAGAATTTATTAATCATTATTTATTATTT
1457043 TT
1 TT
1457045 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.17
29 11 0.38
30 5 0.17
31 8 0.28
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (31 bp):
TTAAGAATTTATTAATCATTATTTATTATTT
Found at i:1457370 original size:2 final size:2
Alignment explanation
Indices: 1457363--1457394 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1457353 ATGGTTTTTA
1457363 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
1457395 TTGAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1458872 original size:19 final size:19
Alignment explanation
Indices: 1458845--1458882 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1458835 GGAATTTAAA
1458845 ATTTAAGGTCCTTATATGG
1 ATTTAAGGTCCTTATATGG
*
1458864 ATTTGAGGTCCTTATATGG
1 ATTTAAGGTCCTTATATGG
1458883 CAAATAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (19 bp):
ATTTAAGGTCCTTATATGG
Found at i:1459672 original size:25 final size:25
Alignment explanation
Indices: 1459644--1459713 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
1459634 CATCTCTTAT
* *
1459644 GAGCGTCCTGATATATGGCTCTCCA
1 GAGCTTCCCGATATATGGCTCTCCA
**
1459669 GAGCTTCCCGAT-TAATGGCTCTCTG
1 GAGCTTCCCGATAT-ATGGCTCTCCA
1459694 GAGCTTCCCGATAT-TGGCTC
1 GAGCTTCCCGATATATGGCTC
1459714 GCATAAGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 7 0.18
25 31 0.79
26 1 0.03
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCTCCA
Found at i:1459767 original size:25 final size:25
Alignment explanation
Indices: 1459734--1459787 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
1459724 CCTAATTACA
* *
1459734 GCTCTTATGAGCTTCTCATTATATG
1 GCTCATATGAGCTTCCCATTATATG
1459759 GCTCATATGAGCTTCCCATTATATG
1 GCTCATATGAGCTTCCCATTATATG
1459784 GCTC
1 GCTC
1459788 GAAAGAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (25 bp):
GCTCATATGAGCTTCCCATTATATG
Found at i:1464691 original size:12 final size:12
Alignment explanation
Indices: 1464676--1464705 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1464666 GAAATGAAAT
1464676 AATAGAAAAAGG
1 AATAGAAAAAGG
*
1464688 AATAGAAAAAGT
1 AATAGAAAAAGG
1464700 AATAGA
1 AATAGA
1464706 GAAGCCAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (12 bp):
AATAGAAAAAGG
Found at i:1465913 original size:23 final size:24
Alignment explanation
Indices: 1465882--1465930 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1465872 TCTCTTTTTG
*
1465882 GTTATATGGCA-TGTACCTAAGTT
1 GTTAAATGGCATTGTACCTAAGTT
* *
1465905 GTTAAATGGTATTGTACCTATGTT
1 GTTAAATGGCATTGTACCTAAGTT
1465929 GT
1 GT
1465931 GTATGGTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (24 bp):
GTTAAATGGCATTGTACCTAAGTT
Found at i:1468409 original size:21 final size:20
Alignment explanation
Indices: 1468363--1468400 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1468353 AAAATGAAAT
1468363 AATG-AATAAAGAATAAAGA
1 AATGAAATAAAGAATAAAGA
1468382 AATGAAATAATAGAA-AAAG
1 AATGAAATAA-AGAATAAAG
1468401 GAATAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (20 bp):
AATGAAATAAAGAATAAAGA
Found at i:1468454 original size:11 final size:11
Alignment explanation
Indices: 1468431--1468463 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1468421 CAGCCAACGT
1468431 GAAAGAGAGAAA
1 GAAAGA-AGAAA
1468443 GAAAGAAGAAA
1 GAAAGAAGAAA
1468454 GAAA-AAGAAA
1 GAAAGAAGAAA
1468464 AAGGGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 9 0.43
12 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GAAAGAAGAAA
Found at i:1469134 original size:42 final size:43
Alignment explanation
Indices: 1469074--1469157 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 43
1469064 TATTGCATGG
*
1469074 AAATGTGAATGTGATTTGAATACCCTATTAACAGTGTTAGGCT
1 AAATGTGAATATGATTTGAATACCCTATTAACAGTGTTAGGCT
1469117 AAATGTG-ATATGATTTGAATACCCTATTAACAGTGTTAGGC
1 AAATGTGAATATGATTTGAATACCCTATTAACAGTGTTAGGC
1469158 ATTTCATAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 33 0.82
43 7 0.17
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (43 bp):
AAATGTGAATATGATTTGAATACCCTATTAACAGTGTTAGGCT
Found at i:1470377 original size:22 final size:22
Alignment explanation
Indices: 1470345--1470394 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1470335 CGAGGGCACG
* *
1470345 CGGGCGTGTCCCTTAGGCTACA
1 CGGGCGCGTCCCTTAGGCCACA
1470367 CGGGCGCGTCCCTTAGGCCACA
1 CGGGCGCGTCCCTTAGGCCACA
1470389 CGGGCG
1 CGGGCG
1470395 TGTGGTACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.36, G:0.36, T:0.16
Consensus pattern (22 bp):
CGGGCGCGTCCCTTAGGCCACA
Found at i:1472794 original size:3 final size:3
Alignment explanation
Indices: 1472781--1472814 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1472771 GAATGATTAC
* *
1472781 ATA ACA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1472815 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:1472978 original size:3 final size:3
Alignment explanation
Indices: 1472972--1473041 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
1472962 AATAATGCTG
* * * * * *
1472972 ATA ATA ATA GTA AT- ACA ATA GTA ATA ATA ATA ATA ACA AGA GTA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
1473019 ATA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
1473042 TCAATAATGA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:1474050 original size:14 final size:15
Alignment explanation
Indices: 1474026--1474054 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1474016 AATGAATCTC
1474026 TTTTTGCTATTTCAA
1 TTTTTGCTATTTCAA
1474041 TTTTTG-TATTTCAA
1 TTTTTGCTATTTCAA
1474055 ATCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTTGCTATTTCAA
Found at i:1481708 original size:29 final size:27
Alignment explanation
Indices: 1481674--1481848 Score: 112
Period size: 27 Copynumber: 6.3 Consensus size: 27
1481664 TTTTGGTACA
1481674 ATATTTTTTATAATCTTTTTATAAATTTT
1 ATATTTTTTATAAT-TTTTT-TAAATTTT
1481703 ATATTTCTTTAT-ATTTTTTTAGAATTTT
1 ATATTT-TTTATAATTTTTTTA-AATTTT
* ** *
1481731 CTTATGACTTTATAATTTTTTTATATTTT
1 -ATAT-TTTTTATAATTTTTTTAAATTTT
* *
1481760 ATATTTTTTACGAA-TTTTATATAATTTT
1 ATATTTTTTA-TAATTTTTTTA-AATTTT
* *
1481788 ATAATTTTTAT-ATTTTTATTAAAATTT
1 ATATTTTTTATAATTTTT-TTAAATTTT
*
1481815 A-ATAATTTTATAAATTTTATTT--ATTTT
1 ATAT-TTTTTAT-AATTTT-TTTAAATTTT
1481842 AT-TTTTT
1 ATATTTTT
1481849 ATTCTTTTTG
Statistics
Matches: 114, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
26 5 0.04
27 34 0.30
28 32 0.28
29 28 0.25
30 15 0.13
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (27 bp):
ATATTTTTTATAATTTTTTTAAATTTT
Found at i:1481715 original size:19 final size:18
Alignment explanation
Indices: 1481679--1481843 Score: 88
Period size: 18 Copynumber: 8.8 Consensus size: 18
1481669 GTACAATATT
1481679 TTTTATAATCTTTTTATAAA
1 TTTTAT-AT-TTTTTATAAA
**
1481699 TTTTATATTTCTTTATATTT
1 TTTTATATTT-TTTATA-AA
* *
1481719 TTTTAGAATTTTCTTAT-GA
1 TTTTA-TATTTT-TTATAAA
* *
1481738 CTTTATAATTTTTT-TATA
1 TTTTAT-ATTTTTTATAAA
**
1481756 TTTTATATTTTTTACGAA
1 TTTTATATTTTTTATAAA
* *
1481774 TTTTATATAATTTTATAAT
1 TTTTATAT-TTTTTATAAA
1481793 TTTTATA-TTTTTATTAAA
1 TTTTATATTTTTTA-TAAA
* *
1481811 ATTTA-ATAATTTTATAAA
1 TTTTATAT-TTTTTATAAA
1481829 TTTTAT-TTATTTTAT
1 TTTTATATT-TTTTAT
1481844 TTTTTATTCT
Statistics
Matches: 110, Mismatches: 22, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
17 14 0.13
18 41 0.37
19 35 0.32
20 12 0.11
21 8 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTTATAAA
Found at i:1481729 original size:28 final size:26
Alignment explanation
Indices: 1481674--1481848 Score: 104
Period size: 28 Copynumber: 6.3 Consensus size: 26
1481664 TTTTGGTACA
1481674 ATATTTTTTATAATCTTTTTATAAATTTT
1 ATATTTTTTAT-AT-TTTTT-TAAATTTT
1481703 ATATTTCTTTATATTTTTTTAGAATTTT
1 ATATTT-TTTATATTTTTTTA-AATTTT
* ** *
1481731 CTTATGACTTTATAATTTTTTTATATTTT
1 -ATAT-TTTTTAT-ATTTTTTTAAATTTT
* * *
1481760 ATATTTTTTACGAATTTTATATAATTTT
1 ATATTTTTTA-TATTTTTTTA-AATTTT
* *
1481788 ATAATTTTTATATTTTTATTAAAATTTA
1 ATATTTTTTATATTTTT-TT-AAATTTT
* *
1481816 ATAATTTTATAAATTTTATTT--ATTTT
1 AT-ATTTTTTATATTTT-TTTAAATTTT
1481842 AT-TTTTT
1 ATATTTTT
1481849 ATTCTTTTTG
Statistics
Matches: 114, Mismatches: 21, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
24 4 0.04
26 6 0.05
27 18 0.16
28 36 0.32
29 35 0.31
30 15 0.13
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (26 bp):
ATATTTTTTATATTTTTTTAAATTTT
Found at i:1481805 original size:36 final size:38
Alignment explanation
Indices: 1481741--1481843 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 38
1481731 CTTATGACTT
* * * *
1481741 TATAATTTTTTTATATTTTATATTTTTTA-CGAATTTTA
1 TATAATTTTATAAT-TTTTATATTTTTTATCAAAATTTA
*
1481779 TATAATTTTATAATTTTTATA-TTTTTATTAAAATTTA
1 TATAATTTTATAATTTTTATATTTTTTATCAAAATTTA
*
1481816 -ATAATTTTATAAATTTTAT-TTATTTTAT
1 TATAATTTTATAATTTTTATATT-TTTTAT
1481844 TTTTTATTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
36 25 0.45
37 19 0.34
38 12 0.21
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (38 bp):
TATAATTTTATAATTTTTATATTTTTTATCAAAATTTA
Found at i:1482183 original size:16 final size:17
Alignment explanation
Indices: 1482158--1482198 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1482148 CCTTAAACCA
1482158 TTTT-TTTTTACATT-G
1 TTTTATTTTTACATTGG
*
1482173 TTTTATTTTTATATTGGG
1 TTTTATTTTTACATT-GG
1482191 TTTTATTT
1 TTTTATTT
1482199 AGATTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
18 9 0.41
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTACATTGG
Found at i:1488057 original size:21 final size:23
Alignment explanation
Indices: 1488031--1488077 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1488021 AATGTTTAAA
1488031 ATATAAT-ATAATAAAA-TATAT
1 ATATAATGATAATAAAAGTATAT
*
1488052 ATATAATGATAGTAAAAGTATAT
1 ATATAATGATAATAAAAGTATAT
1488075 ATA
1 ATA
1488078 ATCACCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 8 0.35
23 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATAATGATAATAAAAGTATAT
Found at i:1488172 original size:13 final size:13
Alignment explanation
Indices: 1488154--1488181 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1488144 TTAAATAAGC
1488154 TTGAATTAGTTAT
1 TTGAATTAGTTAT
1488167 TTGAATTAGTTAT
1 TTGAATTAGTTAT
1488180 TT
1 TT
1488182 AAAACAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGAATTAGTTAT
Found at i:1490712 original size:22 final size:22
Alignment explanation
Indices: 1490687--1490730 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1490677 TATATTTATG
1490687 TCACAAAAATATTGAGGAAACT
1 TCACAAAAATATTGAGGAAACT
1490709 TCACAAAAATATTGAGGAAACT
1 TCACAAAAATATTGAGGAAACT
1490731 AAGCATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
TCACAAAAATATTGAGGAAACT
Found at i:1491132 original size:30 final size:31
Alignment explanation
Indices: 1491096--1491155 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1491086 CAACCATTTT
* **
1491096 TTTTTAAAA-GTTGATAGTCAAATTTAACTC
1 TTTTTAAAAGGTTGAGAACCAAATTTAACTC
1491126 TTTTTAAAAGGTTGAGAACCAAATTTAACT
1 TTTTTAAAAGGTTGAGAACCAAATTTAACT
1491156 AAAAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (31 bp):
TTTTTAAAAGGTTGAGAACCAAATTTAACTC
Found at i:1491378 original size:19 final size:19
Alignment explanation
Indices: 1491351--1491394 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1491341 TTTCAATATA
*
1491351 ATTTTACTAACTTGATTAT
1 ATTTCACTAACTTGATTAT
1491370 ATTTCACTAACTTGATTAT
1 ATTTCACTAACTTGATTAT
1491389 ATTTCA
1 ATTTCA
1491395 ATATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTTCACTAACTTGATTAT
Found at i:1496526 original size:77 final size:77
Alignment explanation
Indices: 1496416--1496724 Score: 476
Period size: 77 Copynumber: 4.0 Consensus size: 77
1496406 TGATTCGGGG
* *
1496416 AATTGGGAATTAGGGTTTTTTATTTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGC
1 AATTGAGAATTAGGGTTTTTGA-TTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGC
*
1496481 CTTTGATAACGAT
65 CTTTGATAAGGAT
* * *
1496494 AACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAGTTATATTGACCAAAGGAATAGCC
1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC
1496559 TTTGATAAGGAT
66 TTTGATAAGGAT
* * * *
1496571 ATTTGCG-ATTAGGGTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAGTAGCC
1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC
1496635 TTTGATAAGGAT
66 TTTGATAAGGAT
* * * *
1496647 AATTGGGAATTAGGGTTTTTGATTGGTGTTCAATTTGTGTAATTTTATTGACCAAAGGAATAGCA
1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC
1496712 TTTGATAAGGAT
66 TTTGATAAGGAT
1496724 A
1 A
1496725 GACTTTAAAG
Statistics
Matches: 210, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
76 70 0.33
77 121 0.58
78 19 0.09
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (77 bp):
AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC
TTTGATAAGGAT
Found at i:1496710 original size:153 final size:154
Alignment explanation
Indices: 1496424--1496724 Score: 505
Period size: 153 Copynumber: 2.0 Consensus size: 154
1496414 GGAATTGGGA
*
1496424 ATTAGGGTTTTTTATTTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
1 ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
*
1496489 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAGTTATATTGACCAAAGGAA
66 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA
*
1496554 TAGCCTTTGATAAGGATATTTGCG
131 TAGCATTTGATAAGGATATTTGCG
*
1496578 ATTAGGG-TTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAGTAGCCTTTGATA
1 ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
* * * * * *
1496642 AGGATAATTGGGAATTAGGGTTTTTGATTGGTGTTCAATTTGTGTAATTTTATTGACCAAAGGAA
66 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA
1496707 TAGCATTTGATAAGGATA
131 TAGCATTTGATAAGGATA
1496725 GACTTTAAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
153 130 0.95
154 7 0.05
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (154 bp):
ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA
TAGCATTTGATAAGGATATTTGCG
Found at i:1499421 original size:25 final size:25
Alignment explanation
Indices: 1499377--1499438 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
1499367 TAAAATTTAA
1499377 AAAAAATTAAAATTAAAATT-ATTT
1 AAAAAATTAAAATTAAAATTAATTT
*
1499401 AAAAAGTT-AAATTATATAATTAATTT
1 AAAAAATTAAAATTA-A-AATTAATTT
**
1499427 AAATCATTAAAA
1 AAAAAATTAAAA
1499439 GACTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.20
24 8 0.27
25 4 0.13
26 9 0.30
27 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAAAATTAAAATTAAAATTAATTT
Found at i:1507299 original size:3 final size:3
Alignment explanation
Indices: 1507291--1507329 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1507281 ATAAGAGTAT
1507291 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1507330 TTTACGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1507436 original size:12 final size:12
Alignment explanation
Indices: 1507419--1507449 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1507409 TGTACACAAA
1507419 ATATATATATAC
1 ATATATATATAC
*
1507431 ATATATATATGC
1 ATATATATATAC
1507443 ATATATA
1 ATATATA
1507450 AGTTAATAAT
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:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:1507739 original size:11 final size:11
Alignment explanation
Indices: 1507674--1507746 Score: 59
Period size: 11 Copynumber: 6.9 Consensus size: 11
1507664 TGTGCTAGTG
1507674 ATAATAATATA
1 ATAATAATATA
*
1507685 ATAATGATAGT-
1 ATAATAATA-TA
1507696 ATGAATAATAT-
1 AT-AATAATATA
1507707 ATACA-AA-A-A
1 ATA-ATAATATA
1507716 ATAATAA-ATA
1 ATAATAATATA
*
1507726 ATAATGATATA
1 ATAATAATATA
1507737 ATAATAATAT
1 ATAATAATAT
1507747 TAAAATACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 10 0.20
11 26 0.51
12 7 0.14
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (11 bp):
ATAATAATATA
Found at i:1508029 original size:24 final size:27
Alignment explanation
Indices: 1507968--1508029 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 27
1507958 ATGATATAAA
1507968 ATACATACATGGAATAGTATAAGAAATAT
1 ATACATA-ATGGAATA-TATAAGAAATAT
1507997 ATA-ACTAATGGAAT-TA-AA-AAATAT
1 ATACA-TAATGGAATATATAAGAAATAT
1508021 ATACATAAT
1 ATACATAAT
1508030 ATATATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
24 13 0.42
25 3 0.10
26 2 0.06
28 8 0.26
29 5 0.16
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (27 bp):
ATACATAATGGAATATATAAGAAATAT
Found at i:1508038 original size:24 final size:24
Alignment explanation
Indices: 1507921--1508056 Score: 65
Period size: 24 Copynumber: 5.8 Consensus size: 24
1507911 AAATATATAT
* * *
1507921 ATATATATATAATAGTAT-TTAAGA
1 ATATATACATAATA-TATATAAAAA
*
1507945 ATATATACATAAGATGATAT--AAA
1 ATATATACATAATAT-ATATAAAAA
* * *
1507968 ATACATACATGGAATA-GTATAAGAA
1 ATATATACAT--AATATATATAAAAA
1507993 ATATATA-ACTAATGGA-AT-TAAAAA
1 ATATATACA-TAAT--ATATATAAAAA
*
1508017 ATATATACATAATATATATAAAAT
1 ATATATACATAATATATATAAAAA
*
1508041 ACATATA-AT-ATATATA
1 ATATATACATAATATATA
1508057 CATATTGGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
22 8 0.09
23 22 0.25
24 42 0.48
25 16 0.18
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
ATATATACATAATATATATAAAAA
Found at i:1508707 original size:13 final size:13
Alignment explanation
Indices: 1508689--1508722 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1508679 GAAAAGTACG
1508689 TATTTTTTATATA
1 TATTTTTTATATA
* *
1508702 TATTTTTTGTATT
1 TATTTTTTATATA
1508715 TATTTTTT
1 TATTTTTT
1508723 CTTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (13 bp):
TATTTTTTATATA
Found at i:1516774 original size:22 final size:21
Alignment explanation
Indices: 1516727--1516776 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1516717 TAGGTCTCTC
* **
1516727 AAAAGTTTTAAAATTTTTATT
1 AAAATTTTTAAAATTTTTAAA
*
1516748 TAAATTTTTCAAAATTTTTAAA
1 AAAATTTTT-AAAATTTTTAAA
1516770 AAAATTT
1 AAAATTT
1516777 ATTGCACCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAATTTTTAAAATTTTTAAA
Found at i:1518951 original size:27 final size:25
Alignment explanation
Indices: 1518905--1518961 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
1518895 ATAGTTTTTT
1518905 TTTAATTTTAATAATTGTTTTAAGG
1 TTTAATTTTAATAATTGTTTTAAGG
* * *
1518930 TTTAATTATTAAATTATTGTTTTGAGT
1 TTTAATT-TT-AATAATTGTTTTAAGG
1518957 TTTAA
1 TTTAA
1518962 ATCGGTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 2 0.07
27 18 0.67
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTAATTTTAATAATTGTTTTAAGG
Found at i:1521232 original size:35 final size:35
Alignment explanation
Indices: 1521175--1521270 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 35
1521165 GATGTTTTTA
*
1521175 AAAAATAA-AATATATTTAATATAATGAT-ATATATT
1 AAAAATAATAAT-TAATT-ATATAATGATAATATATT
*
1521210 AAAAAT-ATAATTTTAATTATATAATTATACATATATT
1 AAAAATAATAA--TTAATTATATAATGATA-ATATATT
* *
1521247 TAACATAATAATTAATTATATAAT
1 AAAAATAATAATTAATTATATAAT
1521271 TACATATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
34 1 0.02
35 17 0.33
36 17 0.33
37 12 0.24
38 4 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (35 bp):
AAAAATAATAATTAATTATATAATGATAATATATT
Found at i:1521343 original size:17 final size:19
Alignment explanation
Indices: 1521312--1521374 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
1521302 TAGAGTTATT
1521312 AATTAAAAATATGAATTAA
1 AATTAAAAATATGAATTAA
1521331 AATT-AAAAT-TGAATT--
1 AATTAAAAATATGAATTAA
**
1521346 AATTAAAAAGTAAAAATTAGA
1 AATTAAAAA-TATGAATTA-A
1521367 AATTAAAA
1 AATTAAAA
1521375 TATAAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 7 0.19
18 9 0.25
19 4 0.11
21 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (19 bp):
AATTAAAAATATGAATTAA
Found at i:1529625 original size:85 final size:84
Alignment explanation
Indices: 1529476--1529641 Score: 260
Period size: 85 Copynumber: 2.0 Consensus size: 84
1529466 TAACTGACAT
* * *
1529476 ATGGACTGAGGAGGATGGGGATTGTAAGATAATTCACTCGGTGGGTTGAGAGCCATAAAGTGAGG
1 ATGGACTGAGGAGGATGGGGATTGTAAGACAATTCACTCAGTGGGTTGAGAGCCATAAAATGAGG
1529541 GTTTGAAGTAAAAGAGTTG
66 GTTTGAAGTAAAAGAGTTG
* * * *
1529560 ATGGATTGAGGAGGATGGGGACTTGTAAGACAGTTCACTCAGTGGGTTGAGAGTCGTAAAATGAG
1 ATGGACTGAGGAGGATGGGGA-TTGTAAGACAATTCACTCAGTGGGTTGAGAGCCATAAAATGAG
1529625 GGTTTGAAGTAAAAGAG
65 GGTTTGAAGTAAAAGAG
1529642 CTGCAGACAA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 20 0.27
85 54 0.73
ACGTcount: A:0.31, C:0.07, G:0.37, T:0.25
Consensus pattern (84 bp):
ATGGACTGAGGAGGATGGGGATTGTAAGACAATTCACTCAGTGGGTTGAGAGCCATAAAATGAGG
GTTTGAAGTAAAAGAGTTG
Found at i:1529890 original size:21 final size:20
Alignment explanation
Indices: 1529865--1529907 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1529855 CTACATATAA
*
1529865 TTTATGTTTTTTTTTTGAATT
1 TTTATGATTTTTTTTT-AATT
1529886 TTTATGATTTTTTTTTAATT
1 TTTATGATTTTTTTTTAATT
1529906 TT
1 TT
1529908 GGGCTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (20 bp):
TTTATGATTTTTTTTTAATT
Found at i:1542036 original size:2 final size:2
Alignment explanation
Indices: 1542029--1542054 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1542019 TTTGCTTTCA
1542029 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
1542055 TAAGTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1542151 original size:43 final size:44
Alignment explanation
Indices: 1542070--1542164 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 44
1542060 TTTAAGTCTA
*
1542070 AATTAAAAAAATAATTTTACTCGTTTTAAAATAAAAAAATAAAAC
1 AATTAAAAAAATAAATTTACTCGTTTTAAAAT-AAAAAATAAAAC
* * *
1542115 AATTAAAAATATAAATTTATTTGTTTTAAAAT-AAAAATAAAAC
1 AATTAAAAAAATAAATTTACTCGTTTTAAAATAAAAAATAAAAC
1542158 AATTAAA
1 AATTAAA
1542165 TTAAATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 18 0.39
45 28 0.61
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (44 bp):
AATTAAAAAAATAAATTTACTCGTTTTAAAATAAAAAATAAAAC
Found at i:1550137 original size:27 final size:27
Alignment explanation
Indices: 1550115--1550171 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1550105 GTCAGGTAGG
1550115 CACGACTAGTCGTGCCTAACAGGCAGC
1 CACGACTAGTCGTGCCTAACAGGCAGC
1550142 CACGACTAGTCGTGCCTAACAGGCAGC
1 CACGACTAGTCGTGCCTAACAGGCAGC
1550169 CAC
1 CAC
1550172 AACACCCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.35, G:0.25, T:0.14
Consensus pattern (27 bp):
CACGACTAGTCGTGCCTAACAGGCAGC
Found at i:1550715 original size:107 final size:108
Alignment explanation
Indices: 1550515--1550730 Score: 416
Period size: 107 Copynumber: 2.0 Consensus size: 108
1550505 AAAAAACAAG
1550515 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1550580 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
1550623 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
*
1550687 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
1550730 T
1 T
1550731 TTTTTGTTTA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 94 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:1551646 original size:26 final size:26
Alignment explanation
Indices: 1551610--1551717 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
1551600 TGATACAAAT
1551610 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1551636 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1551662 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1551688 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1551714 TGAT
1 TGAT
1551718 GAGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1553202 original size:28 final size:26
Alignment explanation
Indices: 1553160--1553234 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
1553150 AAAAGTAGCT
* * *
1553160 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGAA
* * *
1553188 AAATTACTGTTATACTCATAGGTGAA
1 AAATTACTGTTATACCCCTAGATGAA
*
1553214 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
1553235 GGTTAATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 21 0.55
27 1 0.03
28 16 0.42
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGAA
Found at i:1553381 original size:27 final size:27
Alignment explanation
Indices: 1553338--1553450 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
1553328 GAGGAAGCGT
*
1553338 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
1553365 TCTGGTGGCTCTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
1553392 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
1553420 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
1553446 TCTGG
1 TCTGG
1553451 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:1553443 original size:54 final size:54
Alignment explanation
Indices: 1553336--1553450 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
1553326 TGGAGGAAGC
*
1553336 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
* * * **
1553390 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTACCACATATATCT
1553444 GTTCTGG
1 GTTCTGG
1553451 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
Found at i:1558394 original size:6 final size:7
Alignment explanation
Indices: 1558364--1558399 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 7
1558354 TTCGTTCTAC
1558364 TTTATTT
1 TTTATTT
1558371 TTTATTTT
1 TTTA-TTT
1558379 TTTATCTT
1 TTTAT-TT
1558387 TTTATTT
1 TTTATTT
1558394 TTTATT
1 TTTATT
1558400 ATAAATCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTATTT
Found at i:1558412 original size:23 final size:24
Alignment explanation
Indices: 1558359--1558413 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
1558349 CGTTCTTCGT
* * **
1558359 TCTACTTTATTTTTTATTTTTTTA
1 TCTATTTTATTTTTTATTTATAAA
1558383 TCT-TTTTATTTTTTA-TTATAAA
1 TCTATTTTATTTTTTATTTATAAA
1558405 TCTATTTTA
1 TCTATTTTA
1558414 AACAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 3 0.12
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (24 bp):
TCTATTTTATTTTTTATTTATAAA
Found at i:1560204 original size:15 final size:15
Alignment explanation
Indices: 1560184--1560214 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1560174 GAGATTTCAA
1560184 TATATTTTTAAGTTT
1 TATATTTTTAAGTTT
1560199 TATATTTTTAAGTTT
1 TATATTTTTAAGTTT
1560214 T
1 T
1560215 CTTGTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TATATTTTTAAGTTT
Found at i:1563744 original size:12 final size:13
Alignment explanation
Indices: 1563727--1563756 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1563717 TGAGACCTTC
1563727 AAAAAAAAAAG-G
1 AAAAAAAAAAGAG
1563739 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
1563752 AAAAA
1 AAAAA
1563757 GGAGAGGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:1565020 original size:45 final size:44
Alignment explanation
Indices: 1564956--1565558 Score: 182
Period size: 45 Copynumber: 13.6 Consensus size: 44
1564946 CAATTCTACA
*
1564956 AATCTTGT-TTCCCTGAAGTTTCAGTGGAGCAGATCGAAGACAGT
1 AATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATCGAAGACAGT
* **
1565000 GAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAA-ACCA-T
1 -AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGA-CAGT
* * * * * * * * **
1565044 CATCCTATCTCCCT-AAGGTTGTAGCGGAGTAG-GCTGAAGATTGT
1 AATCTTGTCTTCCTGAA-GTTGCAGTGGAGCAGATC-GAAGACAGT
* * * *
1565088 AGATCTTGTCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGAGGACG-
1 A-ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGA-CA-GT
* * **
1565134 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCATATTTAAG-C--T
1 AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGT
* * * * * * * **
1565175 AACATCCTATCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTGT
1 -A-ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATC-GAAGACAGT
* * *
1565221 AGATCTTGT-TTCCCTGAAGTTGCAGTGGAGAAGATCGAAAACAGCG
1 A-ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATCGAAGACAG-T
* * ** *
1565267 AATCTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAA-ACCA-C
1 AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGA-CAGT
* * * * ** * * **
1565310 CATCCTATC-TCTCTAAAGTTTTAGTGGAGTAG-GCTGAAGATTGT
1 AATCTTGTCTTC-CTGAAGTTGCAGTGGAGCAGATC-GAAGACAGT
* * *
1565354 ATATCTTGT-TTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATAGCG
1 A-ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATCGAAGACAG-T
* * ** *
1565400 AATCTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAA-ACCA-C
1 AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGA-CAGT
* * * * * * * * * * **
1565443 CATCCTATCTCCCTTAAGTTGTAGCGGAGTAGGTTGAAGATTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGT
* * * *
1565487 AGATCTTGTC-TCTCTGAAGTTACAGTGGAGTAGATCAAAGACAGCA
1 A-ATCTTGTCTTC-CTGAAGTTGCAGTGGAGCAGATCGAAGACAG-T
* *
1565533 AATCTTGTCTTCTTGAAGTTACAGTG
1 AATCTTGTCTTCCTGAAGTTGCAGTG
1565559 AAGTAGATTT
Statistics
Matches: 393, Mismatches: 125, Indels: 80
0.66 0.21 0.13
Matches are distributed among these distances:
42 5 0.01
43 98 0.25
44 10 0.03
45 260 0.66
46 19 0.05
47 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
AATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGT
Found at i:1565198 original size:133 final size:133
Alignment explanation
Indices: 1564957--1565607 Score: 950
Period size: 133 Copynumber: 4.9 Consensus size: 133
1564947 AATTCTACAA
* * * *
1564957 ATCTTGTTTCCCTGAAGTTTCAGTGGAGCAGATCGAAGACAGTGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCCTGAAGTTA
* * *
1565022 CAGTGAAGCAGATTTAAACCATCATCCTATCTCCCTAAGGTTGTAGCGGAGTAGGCTGAAGATTG
66 CAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
1565087 TAG
131 TAG
* * *
1565090 ATCTTGTCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGA-GGACGAATCTTGTCTTCCTGAAGTT
1 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAG-CGAATCTTGTCTTCCTGAAGTT
* * * * *
1565154 GCAGTGAAGCATATTTAAGCTAACATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
65 ACAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
1565219 GTAG
130 GTAG
*
1565223 ATCTTGTTTCCCTGAAGTTGCAGTGGAGAAGATCGAAA-ACAGCGAATCTTGTCTTCCTGAAGTT
1 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGACAGCGAATCTTGTCTTCCTGAAGTT
* *
1565287 ACAGTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAGTTTTAGTGGAGTAGGCTGAAGATT
65 ACAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
*
1565352 GTAT
130 GTAG
*
1565356 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAA-ATAGCGAATCTTGTCTTCCTGAAGTT
1 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGACAGCGAATCTTGTCTTCCTGAAGTT
* * *
1565420 ACAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTTAAGTTGTAGCGGAGTAGGTTGAAGATT
65 ACAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
1565485 GTAG
130 GTAG
* * * * * *
1565489 ATCTTGTCTCTCTGAAGTTACAGTGGAGTAGATCAAAGACAGCAAATCTTGTCTTCTTGAAGTTA
1 ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCCTGAAGTTA
* * * *
1565554 CAGTGAAGTAGATTTAAGCCACCATCCTATCT-CCTTAAGTTGCAGTGGAGTAGG
66 CAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGG
1565608 TTAAAAAAAT
Statistics
Matches: 471, Mismatches: 43, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
132 24 0.05
133 443 0.94
134 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (133 bp):
ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCCTGAAGTTA
CAGTGAAGCAGATTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
TAG
Found at i:1567398 original size:46 final size:46
Alignment explanation
Indices: 1567331--1567502 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
1567321 AACCCGCCCC
* *
1567331 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
1567377 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
1567425 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1567470 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1567503 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:1567444 original size:93 final size:93
Alignment explanation
Indices: 1567336--1567506 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
1567326 GCCCCTAAGT
* *
1567336 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1567401 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
1567429 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1567494 CGAGTTCGGATGC
66 CGAGTTCGGATGC
1567507 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:1567958 original size:30 final size:30
Alignment explanation
Indices: 1567924--1567983 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1567914 ATTTAATACG
1567924 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
1567954 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
1567984 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:1570582 original size:26 final size:26
Alignment explanation
Indices: 1570552--1570602 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1570542 TCAAATTTCT
* *
1570552 CTTTTACATGTTAATTATCTTAAACC
1 CTTTTAAATATTAATTATCTTAAACC
* *
1570578 CTTTTAAATATTATTTATTTTAAAC
1 CTTTTAAATATTAATTATCTTAAAC
1570603 TATTTGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (26 bp):
CTTTTAAATATTAATTATCTTAAACC
Found at i:1572668 original size:46 final size:46
Alignment explanation
Indices: 1572616--1573024 Score: 563
Period size: 46 Copynumber: 8.9 Consensus size: 46
1572606 GTGCTCTCTA
** *
1572616 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** *
1572662 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1572708 ATATGAAACATG--TAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATG-AA-ATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
*
1572754 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATATG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
*** *
1572800 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1572846 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
*** * *
1572892 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
1572938 ACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * *
1572984 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1573025 TCATATAAAT
Statistics
Matches: 335, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
44 3 0.01
45 3 0.01
46 324 0.97
47 2 0.01
48 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:1573324 original size:16 final size:17
Alignment explanation
Indices: 1573303--1573335 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1573293 ATGATGGAGC
1573303 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
1573319 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
1573336 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:1574260 original size:15 final size:14
Alignment explanation
Indices: 1574234--1574265 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1574224 AAATGTTTTA
1574234 TATTTTATTTATTT
1 TATTTTATTTATTT
1574248 TATTTTAATTTATTT
1 TATTTT-ATTTATTT
1574263 TAT
1 TAT
1574266 ACTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTTTATTTATTT
Found at i:1575803 original size:131 final size:131
Alignment explanation
Indices: 1575582--1576044 Score: 488
Period size: 131 Copynumber: 3.5 Consensus size: 131
1575572 CCCAGCACAG
* * * * * *
1575582 TAGGACACGATTCCTCGAATTTCTAAACATCGAGCATTGCCTT-ATTTT-TAGAATTTTTAAGAA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAA-AA
* *
1575645 ACATGAGTGAAA-TTCTAAAGCGGATATTCGATTATTTTGAACCAAC-AGAAAATCGCAACCCAG
65 ACATGAGTGAAATTTC-AAAG-GGATATTCGATTATTTTGAACAAACGAG-AAATCGCAACCTAG
*
1575708 CATGA
127 CACGA
** * * * *
1575713 TAGGGTGCGATTCCTTGAATTGCCAAACATCGAACATTACCTTCGTTTTATGGAATCTTTAAAGA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAAAAA
* * * ** *
1575778 CATGGGTGAAATTTCAAAGGAATATTTGATT-TTTTGAATGAATGAGAAATCGCAACCTAGCACG
66 CATGAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCTAGCACG
1575842 A
131 A
** * *
1575843 TAGGGCACGATTCC-CGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAGTTTTTAAAAA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTT-AAAA
* * * * *
1575907 ACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCTAGCAC
65 ACATGAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCTAGCAC
*
1575972 GT
130 GA
* * * * * * *
1575974 TAGGGCACGATTCCACGAATTGCCAAATATCAAACGTTGCCTTCGTTTTAAAGGATTTTTAGAAA
1 TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTA-AAA
1576039 ACATGA
65 ACATGA
1576045 ATGATTATAA
Statistics
Matches: 274, Mismatches: 50, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
129 38 0.14
130 67 0.24
131 90 0.33
132 66 0.24
133 13 0.05
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (131 bp):
TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAAAAA
CATGAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCTAGCACG
A
Found at i:1582811 original size:25 final size:25
Alignment explanation
Indices: 1582761--1582816 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
1582751 AAGTTTTCAA
1582761 AAAAAAGTGTAAACATCATATCTACCC
1 AAAAAAGTGTAAACATCATA-CTA-CC
*
1582788 AAAAAAGTGTAAAGATCATA-TACC
1 AAAAAAGTGTAAACATCATACTACC
1582812 AAAAA
1 AAAAA
1582817 TGGGTTAGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 2 0.07
27 19 0.68
ACGTcount: A:0.55, C:0.16, G:0.09, T:0.20
Consensus pattern (25 bp):
AAAAAAGTGTAAACATCATACTACC
Found at i:1584364 original size:2 final size:2
Alignment explanation
Indices: 1584357--1584386 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1584347 TTTCTATTTA
1584357 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
1584387 TCACATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1585150 original size:28 final size:29
Alignment explanation
Indices: 1585097--1585151 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
1585087 ACATTTTGAG
*
1585097 AAATTTAATTTTTTCTTTTATGTTCTTTT
1 AAATTTAATTTTTTCTTTCATGTTCTTTT
*
1585126 AAATTT-ATTTTATT-TTTCATTTTCTT
1 AAATTTAATTTT-TTCTTTCATGTTCTT
1585152 CTGCTTCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (29 bp):
AAATTTAATTTTTTCTTTCATGTTCTTTT
Found at i:1586136 original size:18 final size:18
Alignment explanation
Indices: 1586113--1586152 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1586103 GGGTACTTAT
1586113 ATTTAAT-TTTAATGTTCA
1 ATTTAATATTTAA-GTTCA
*
1586131 ATTTAATATTTAAGTTTA
1 ATTTAATATTTAAGTTCA
1586149 ATTT
1 ATTT
1586153 TAATGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTAATATTTAAGTTCA
Found at i:1586175 original size:31 final size:31
Alignment explanation
Indices: 1586104--1586175 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
1586094 ATTTGATAGG
1586104 GGTACTTATA-TTTAATTTTAATGTTCAATTT
1 GGTACTTA-AGTTTAATTTTAATGTTCAATTT
** *
1586135 AATATTTAAGTTTAATTTTAATGTTCAATTT
1 GGTACTTAAGTTTAATTTTAATGTTCAATTT
1586166 GGTACTTAAG
1 GGTACTTAAG
1586176 GTTTTTCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (31 bp):
GGTACTTAAGTTTAATTTTAATGTTCAATTT
Found at i:1594969 original size:2 final size:2
Alignment explanation
Indices: 1594962--1595008 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1594952 GTCAAACTAA
1594962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1595004 AT AT A
1 AT AT A
1595009 AAGAGCATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1599823 original size:17 final size:17
Alignment explanation
Indices: 1599798--1599839 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1599788 TAATTATTTT
*
1599798 AAAATATAAAAAAT-TCA
1 AAAAAATAAAAAATAT-A
*
1599815 AAAAAATAAAAAGTATA
1 AAAAAATAAAAAATATA
1599832 AAAAAATA
1 AAAAAATA
1599840 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAAAATATA
Found at i:1601972 original size:28 final size:28
Alignment explanation
Indices: 1601940--1601994 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
1601930 GCAAGTACTT
1601940 GTACAATGAATAACAATAAACCTAACTA
1 GTACAATGAATAACAATAAACCTAACTA
1601968 GTACAATGAATAACAATAAACCTAACT
1 GTACAATGAATAACAATAAACCTAACT
1601995 GGTGTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (28 bp):
GTACAATGAATAACAATAAACCTAACTA
Found at i:1604685 original size:14 final size:15
Alignment explanation
Indices: 1604657--1604685 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1604647 TCACTGCTAC
1604657 AAAGGAGAGGAAAGA
1 AAAGGAGAGGAAAGA
1604672 AAAGGAGA-GAAAGA
1 AAAGGAGAGGAAAGA
1604686 GACGACAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAGGAGAGGAAAGA
Found at i:1604739 original size:5 final size:5
Alignment explanation
Indices: 1604729--1604766 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
1604719 CATATACAGC
*
1604729 AAGAA AAGAA AAGAA AAGAA AGGAA AAGAA AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG
1604767 CAGGGAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1608440 original size:2 final size:2
Alignment explanation
Indices: 1608433--1608463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1608423 TTTGAACATA
1608433 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1608464 CGTGTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1610289 original size:13 final size:13
Alignment explanation
Indices: 1610271--1610300 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1610261 CCATCTTGAT
*
1610271 TTTTTTTTTTTGC
1 TTTTTTTTTTTCC
1610284 TTTTTTTTTTTCC
1 TTTTTTTTTTTCC
1610297 TTTT
1 TTTT
1610301 GATAAACGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTCC
Found at i:1612652 original size:119 final size:119
Alignment explanation
Indices: 1612441--1612799 Score: 594
Period size: 119 Copynumber: 3.0 Consensus size: 119
1612431 ACCAGTGGTT
*
1612441 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTTTTG
1 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
*
1612506 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
66 TGTCTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
*
1612560 AATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
1612625 TGTCTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCA
66 TGTCTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* * *
1612679 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
1 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* * * *
1612744 TG-CTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCA
66 TGTC-TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
1612798 AA
1 AA
1612800 CAGACTCAAG
Statistics
Matches: 224, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 1 0.00
119 223 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (119 bp):
AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
TGTCTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
Found at i:1612941 original size:84 final size:83
Alignment explanation
Indices: 1612723--1612957 Score: 407
Period size: 83 Copynumber: 2.8 Consensus size: 83
1612713 GAAGCAGATC
*
1612723 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
1612788 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
**
1612806 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGCCATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
1612871 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
1612889 CAAGATGGTTTAGGCATCCTTGTGCTGACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
1612954 AAAT
65 AAAT
1612958 TGTAACACCC
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 91 0.64
84 52 0.36
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:1613881 original size:28 final size:27
Alignment explanation
Indices: 1613829--1613881 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
1613819 CTATTCAGAA
* *
1613829 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
1613856 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
1613882 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Done.