Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold721
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: 30994
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Found at i:3987 original size:19 final size:17
Alignment explanation
Indices: 3963--4016 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
3953 CCATCATGGT
3963 TGTATCGATACAAATAG
1 TGTATCGATACAAATAG
*
3980 AATGTATCAATACACAAGCTAG
1 --TGTATCGATACA-AA--TAG
4002 TGTATCGATACAAAT
1 TGTATCGATACAAAT
4017 CCATCAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
19 13 0.43
20 13 0.43
22 3 0.10
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (17 bp):
TGTATCGATACAAATAG
Found at i:4160 original size:20 final size:21
Alignment explanation
Indices: 4118--4162 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
4108 CAAGCTACTA
4118 TATCAATACAAGCCTTAAAAG
1 TATCAATACAAGCCTTAAAAG
* *
4139 TATCAATACATG-CTTCAAAG
1 TATCAATACAAGCCTTAAAAG
4159 TATC
1 TATC
4163 GATAGAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (21 bp):
TATCAATACAAGCCTTAAAAG
Found at i:6514 original size:4 final size:4
Alignment explanation
Indices: 6505--6531 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6495 CAAAACAACA
6505 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6532 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:8693 original size:51 final size:51
Alignment explanation
Indices: 8625--8789 Score: 215
Period size: 51 Copynumber: 3.2 Consensus size: 51
8615 ATAACAGGGC
* * * * * ***
8625 TGGAGTATCTCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGT
1 TGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGGGT
* *
8676 TGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTGTGGA-AAATTGGTGTTTTAGAAATAAAATCGGGGT
*
8727 TGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGT
1 TGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGGGT
8778 TGGAGTATCCCC
1 TGGAGTATCCCC
8790 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
50 2 0.02
51 95 0.96
52 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGGGT
Found at i:8808 original size:28 final size:29
Alignment explanation
Indices: 8772--8845 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
8762 GAAATAAAAT
8772 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCCTCGAGAAATAA
* *
8800 CGGGATTGGAGTAT--CCTCGATGACATAA
1 CGGGGTTGGAGTATCCCCTCGA-GAAATAA
*
8828 CGGGGTTGGAGTACCCCC
1 CGGGGTTGGAGTATCCCC
8846 GATTATGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 6 0.16
28 30 0.79
30 2 0.05
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTCGAGAAATAA
Found at i:8868 original size:107 final size:107
Alignment explanation
Indices: 8725--8965 Score: 315
Period size: 107 Copynumber: 2.3 Consensus size: 107
8715 TAAAATCGGA
* *** * *
8725 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
* * * *
8790 TCGAAAATAAC-GGGATTGGAGTATCCTCGATGACATAACGGG
66 TCGAAAATAACAGGG-TTAGAGTATCCCCGATGAAATAACGAG
* * * *
8832 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
*
8897 TCGGAAATAACAGGGTTAGAGTATCCCCGATGAAATAACGAG
66 TCGAAAATAACAGGGTTAGAGTATCCCCGATGAAATAACGAG
8939 GTTGGAGTATCCCC-AGTTGTGAAAAAT
1 GTTGGAGTATCCCCGA-TTGTGAAAAAT
8966 TTAGAAATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 1 0.01
107 111 0.97
108 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (107 bp):
GTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
TCGAAAATAACAGGGTTAGAGTATCCCCGATGAAATAACGAG
Found at i:8921 original size:28 final size:27
Alignment explanation
Indices: 8881--8952 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
8871 TATAAAGCCG
**
8881 GGGTTAGAGTATCCCCTCGGAAATAAC
1 GGGTTAGAGTATCCCCGAGGAAATAAC
*
8908 AGGGTTAGAGTATCCCCGATGAAATAAC
1 -GGGTTAGAGTATCCCCGAGGAAATAAC
*
8936 GAGGTTGGAGTATCCCC
1 G-GGTTAGAGTATCCCC
8953 AGTTGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (27 bp):
GGGTTAGAGTATCCCCGAGGAAATAAC
Found at i:10070 original size:20 final size:20
Alignment explanation
Indices: 10045--10092 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10035 AAATCTGATT
10045 TTGGCACACAAATAAGCATC
1 TTGGCACACAAATAAGCATC
* *
10065 TTGGCACATAAATAAGCATG
1 TTGGCACACAAATAAGCATC
10085 TTGGCACA
1 TTGGCACA
10093 AACAACATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
TTGGCACACAAATAAGCATC
Found at i:11295 original size:20 final size:20
Alignment explanation
Indices: 11270--11324 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
11260 AAAATGCCTG
*
11270 AATATATCGATACATTGTAA
1 AATATATCGATACATTGCAA
*
11290 AATATATCGATACAATGCAA
1 AATATATCGATACATTGCAA
* *
11310 AATGTATTGATACAT
1 AATATATCGATACAT
11325 CTGGGTAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (20 bp):
AATATATCGATACATTGCAA
Found at i:11364 original size:12 final size:13
Alignment explanation
Indices: 11339--11367 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11329 GTAAACCCAG
11339 AATGTATCGATAC
1 AATGTATCGATAC
11352 AATGTAT-GATAC
1 AATGTATCGATAC
11364 AATG
1 AATG
11368 GACAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:11387 original size:20 final size:20
Alignment explanation
Indices: 11350--11405 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
11340 ATGTATCGAT
*
11350 ACAATGTAT-GATACAATGG
1 ACAATGTATCGATACAATGA
*
11369 ACAATGTATCGATATAATGA
1 ACAATGTATCGATACAATGA
11389 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
11406 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:11612 original size:13 final size:13
Alignment explanation
Indices: 11594--11620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11584 GTCCTTTTTT
11594 GCATCCCGAACAC
1 GCATCCCGAACAC
11607 GCATCCCGAACAC
1 GCATCCCGAACAC
11620 G
1 G
11621 TCCCCATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.44, G:0.19, T:0.07
Consensus pattern (13 bp):
GCATCCCGAACAC
Found at i:12087 original size:53 final size:53
Alignment explanation
Indices: 12029--12135 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
12019 TTAATTTAAG
* *
12029 AAAGACAATGGAGAAAGAAATCGCCATATTCTACCAACAAGTTTCCTTTCCCT
1 AAAGACAATGGAAAAAGAAATCGCCATATTCGACCAACAAGTTTCCTTTCCCT
12082 AAAGACAATGGAAAAAGAAATCGCCATATTCGACCAACAAGTTTCCTTTCCCT
1 AAAGACAATGGAAAAAGAAATCGCCATATTCGACCAACAAGTTTCCTTTCCCT
12135 A
1 A
12136 TTTAGTATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.23
Consensus pattern (53 bp):
AAAGACAATGGAAAAAGAAATCGCCATATTCGACCAACAAGTTTCCTTTCCCT
Found at i:12249 original size:23 final size:23
Alignment explanation
Indices: 12222--12267 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
12212 TTCAGCAAAA
12222 AAAAAAGAGAGAAAAGA-GAGAAAG
1 AAAAAAGA-A-AAAAGAGGAGAAAG
*
12246 AAAAAAGAAAAAATAGGAGAAA
1 AAAAAAGAAAAAAGAGGAGAAA
12268 ATATAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAGAGGAGAAAG
Found at i:12286 original size:31 final size:32
Alignment explanation
Indices: 12220--12293 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
12210 AGTTCAGCAA
*
12220 AAAAAAAAGAGAGAAAAGAGAGAAAGAAAAAAG
1 AAAAAATAG-GAGAAAAGAGAGAAAGAAAAAAG
* * *
12253 AAAAAATAGGAGAAAATATAGAAA-AAAATAG
1 AAAAAATAGGAGAAAAGAGAGAAAGAAAAAAG
*
12284 AAAAACTAGG
1 AAAAAATAGG
12294 CTAGTTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 15 0.42
32 13 0.36
33 8 0.22
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (32 bp):
AAAAAATAGGAGAAAAGAGAGAAAGAAAAAAG
Found at i:12733 original size:31 final size:31
Alignment explanation
Indices: 12698--12759 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12688 GTCGAAACTT
12698 GTTGAATCATTGTCTTGCTTGCTTAAACAGG
1 GTTGAATCATTGTCTTGCTTGCTTAAACAGG
12729 GTTGAATCATTGTCTTGCTTGCTTAAACAGG
1 GTTGAATCATTGTCTTGCTTGCTTAAACAGG
12760 CTGGTTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTGAATCATTGTCTTGCTTGCTTAAACAGG
Found at i:17092 original size:13 final size:13
Alignment explanation
Indices: 17074--17100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17064 ACATTATGCT
17074 TTGTATCGATACA
1 TTGTATCGATACA
17087 TTGTATCGATACA
1 TTGTATCGATACA
17100 T
1 T
17101 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:17097 original size:33 final size:32
Alignment explanation
Indices: 17055--17119 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
17045 CACACCAAGA
* * *
17055 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCAATACAT
17088 TGTATCGATACATGATCATTGTATCAATACAT
1 TGTATCGATACATGATCATTGTATCAATACAT
17120 GGACCATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCAATACAT
Found at i:17129 original size:20 final size:20
Alignment explanation
Indices: 17084--17160 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
17074 TTGTATCGAT
17084 ACATTGTATCGATACAT-GA
1 ACATTGTATCGATACATGGA
* *
17103 TCATTGTATCAATACATGGA
1 ACATTGTATCGATACATGGA
*
17123 CCATTGTATCGATACATGGA
1 ACATTGTATCGATACATGGA
*
17143 AAATTGTATCGATACATG
1 ACATTGTATCGATACATG
17161 AAACTAGCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 15 0.29
20 36 0.71
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATTGTATCGATACATGGA
Found at i:17226 original size:13 final size:13
Alignment explanation
Indices: 17205--17235 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17195 TGATACATGG
*
17205 TACAATGTATCGA
1 TACATTGTATCGA
17218 TACATTGTATCGA
1 TACATTGTATCGA
17231 TACAT
1 TACAT
17236 GATGAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:17250 original size:33 final size:33
Alignment explanation
Indices: 17189--17257 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
17179 TACCCACTCT
* * * *
17189 TTGTATTGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGAATCGATAAA
17222 TTGTATCGATACATGATGA-AATGAATCGATAAA
1 TTGTATCGATACATGAT-ACAATGAATCGATAAA
17255 TTG
1 TTG
17258 CTTGTAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGAATCGATAAA
Found at i:23836 original size:472 final size:471
Alignment explanation
Indices: 22149--27505 Score: 5988
Period size: 472 Copynumber: 11.3 Consensus size: 471
22139 AGGAATCAAA
* * *
22149 GTTTGTCCCATTTGAGGTACGAACTTAAACTTTACAAAAAATGGTGGGAAAAAAGCCTTTCTTGT
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC-AAAAATGGTGGGAAAAAAGCCTTTCTTGT
* ** **
22214 GAAACGAAAGCATCAATGTGATGTATCCTATTGAGAAGACAATGTTTATGGTGCCGAAT-CTAGA
65 GAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCT-GA
*
22278 AAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATC
129 AAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATC
* ***
22343 AAAAATGGTGGAA--AAAAGTTTTTCTAATGACCCCAAAGCATCAATTTCATGTATCCTAATGAA
194 AAAAACGGTGGAAGGAAAAGTTTTTCTTGCGA-CCCAAAGCATCAATTTCATGTATCCTAATGAA
* * * * * *
22406 GGGAATGTGTTTTGG-CTCCGATTCTTGTAAAGAATGGAGTTTGATGCAAGAATCGATGCTTGTC
258 GGGAATGTGTTTTGGTCTCC-AATCTTG-AAAGAAT-GAGATAGTTACGAGAATCGATGCTTGTC
*
22470 TTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGC
320 TTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGA
* *
22535 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAACCACAAAATGAAA
385 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAT
22600 GAAGATCATTACTAGAATCCAT
450 GAAGATCATTACTAGAATCCAT
* * * * * *
22622 GTTTGTTGCTTTTGCTTTTGATGCATGAACTTAGGCTTTGCATAAAATGGTGGGAAAAAAACCTT
1 GTTTG-T-C---T-CATTTGAGGCACGAACTTAGACTTTACA-AAAATGGTGGGAAAAAAGCCTT
* * * * ** *
22687 TTTTGTGAAACGAAAGCATCGATATAACGTATTGTAAAGAGAAGACTATGTTTATGGTGCCTTAT
59 TCTTGTGAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTAT
* * * **
22752 CCTAAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTACTTAGGAGACATGCTTTGATT
124 CCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATT
* * * *
22817 CTAACAAAAATGGTGGAAGGAAAAGTTTTTCTTGCGACACCAATGCATCAATTTCATGTAACCTA
189 CTATCAAAAACGGTGGAAGGAAAAGTTTTTCTTGCGAC-CCAAAGCATCAATTTCATGTATCCTA
* **
22882 ATGAAGGGAATGTGTTTTGG-CTTCACAATCTTGGAAAGAACTGATACCGTTACGAGAATCGATG
253 ATGAAGGGAATGTGTTTTGGTC-TC-CAATCTT-GAAAGAA-TGAGATAGTTACGAGAATCGATG
* * * *
22946 CTTGTTTTCTTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTTCACGC
314 CTTGTCTTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGC
*
23011 AAAAGAAAATCATCAATATTATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAA
379 AAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAA
*
23076 ATGAATGATGATCATTACTAGAATCCAT
444 ATGAATGAAGATCATTACTAGAATCCAT
* * * *
23104 GTTTCTCTTATTTAAGGCACGAACTTAGACTTTA-AAAAATTTGGTGGGAAAAAAGCCTTTTTTG
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAA--TGGTGGGAAAAAAGCCTTTCTTG
* * * * * ** *
23168 CGAAATGAAAAGCACCAATACGATGTATCCTAAAGAGAAGACAATGTTTATGTTGTGTTATCTTG
64 TGAAACG-AAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTG
* * * *
23233 AAAAGAATGAGGATTAGTATGAGTATTCATGTTTGTCTTAATTAAAAGACAAACTTTGATTTTAT
128 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
* * *
23298 CAGAAACGGTGGAA-GAAAATGTTTTTCTTGCGACCCCAAAGCATCAATTTCA--TAT-AT-ATA
193 CAAAAACGGTGGAAGGAAAA-GTTTTTCTTGCGA-CCCAAAGCATCAATTTCATGTATCCTAATG
* * ** * *
23358 AAGGGAATGTGTTTTGGTTTACAATCTTGAAAAGAACTGAGGCAGTTATGAGAATTGATGCTTGT
256 AAGGGAATGTGTTTTGGTCTCCAATCTTG-AAAGAA-TGAGATAGTTACGAGAATCGATGCTTGT
* * *
23423 CTTATTTAGGGGATGAACTTTGAATTT-AGGGAAAATAGGGCAAAGAAATGATTTCCATGCAAAA
319 CTTATTTAAGGGATGAACTTTG-ATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAA
* * * * *
23487 GAAAATCATCAATTTCATTTATGCTAAT-AGGGGGAATG-CTTCATAGTGCCTAATCACAAAATG
383 GAAAATCATCAATATCATTTATCCTAATGA-GGAGAATGTGTTTATAGTGCCTAATCACAAAATG
* * * *
23550 AATGAAGATTATTACCAGAATCTAA
447 AATGAAGATCATTACTAGAATCCAT
* * * * * *
23575 ATTTGTCTCATATGAGGCACGTACTGAAGACTTTACAAAAATGGTTGGAAAAAAGCCTTTCTTAT
1 GTTTGTCTCATTTGAGGCACGAACT-TAGACTTTACAAAAATGGTGGGAAAAAAGCCTTTCTTGT
* * * *
23640 GAAATGAAAGTATCAATATGATGTATCCTAAAGAGAAAACTATGTTTATGGTGCCTTATCCTGAA
65 GAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGAA
* * * * *
23705 AAGACTAGGGATTATTATGAGT-TTCATGTTTGTCTT-TTTGAGAGA-AAGAGTTTGATTCTATC
130 AAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAA-ACTTTGATTCTATC
* *
23767 AAAAACGATGGAAGGAAAAGTTTTTCTTGCGAACCCAAAGAATCAATTTCATGTATCCTAATGAA
194 AAAAACGGTGGAAGGAAAAGTTTTTCTTGCG-ACCCAAAGCATCAATTTCATGTATCCTAATGAA
* * * * *
23832 GGGAATGTGTTTTGG-CTCCGATTCTCGTAAGAATGGAGATTGTTACGAGAAAT-GATGCTTATC
258 GGGAATGTGTTTTGGTCTCC-AATCTTGAAAGAAT-GAGATAGTTACGAG-AATCGATGCTTGTC
* * * *
23895 TTATTTAAGGTATGAACATTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTCCCATACAAAAGA
320 TTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGA
* * * * *
23960 AAATCATCAATATCATTTATCCTAATGAGGTGAATGTGTTTATCGTGCCTAA-C-CTAATTGAAA
385 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAT
* * *
24023 GAAGATCGTTACTAAAATTCAT
450 GAAGATCATTACTAGAATCCAT
* * * * * *
24045 GTTTGTCTCTTTTGAAGCAGGAACTTAGATTTTACAAAAAATGGTGGG-AGAAAGCCTTTCTTGG
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC-AAAAATGGTGGGAAAAAAGCCTTTCTTGT
* * * * * * * *
24109 GAAATGAGAGCA-CCATATGGTGTATCCTAAAGAGAAGACTATGTTTATGGTGCCTAATTCAGAA
65 GAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGAA
* * *
24173 AATAATGGGGATTAGTATGAGTATCCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAACA
130 AAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCA
* * ** * *
24238 GAAACGGTGGAAGGAAAATTTTTTCTTGCGACACC-AAGCATCAATTTTGTATATCCTAATGATG
195 AAAACGGTGGAAGGAAAAGTTTTTCTTGCGAC-CCAAAGCATCAATTTCATGTATCCTAATGAAG
* * * * * * *
24302 GGAATGTGTTTTTGTCTCCATTCTCAT-AAAGAATGGAGATTGTTATGAGAAACGATGCTTTTGT
259 GGAATGTGTTTTGGTCTCCAATCT--TGAAAGAAT-GAGATAGTTACGAGAATCGATGCTTGTCT
* * ** * *
24366 TATTTAAAGGTTGAACTTTGATTTAAAGGAAAATTA-GGCGGAGAAAAGGTTT-CAAGCAAAAGA
321 TATTTAAGGGATGAACTTTGATTTAAAGGAAAA-TAGGGCAAAGAAAAGATTTCCATGCAAAAGA
* * * * *
24429 AATTCATCAATATCATTTATCTTAATGAGGAGAATGTGTTTATAAT-CCTAATCACGAAATAAAT
385 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAT
*
24493 GAAGATCGTTACTAGAATCCAT
450 GAAGATCATTACTAGAATCCAT
* * * *
24515 GTTTATCTC-TTTGAGGCATGAACTTAGACTTTATAAAAAATGGTGGGAAAAAAAGCCTTTCTTA
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTA-CAAAAATGGTGGG-AAAAAAGCCTTTCTTG
* * * * *
24579 CGAAATGAAAGCATCAATATGATGTATCC-AAATGAGAAGAAAATGTTTATGGTGCCTAATCCGG
64 TGAAACGAAAGCATCAATATGATGTATCCTAAA-GAGAAGACAATGTTTATGGTGCCTTATCCTG
* *
24643 AAAAGAATGGGGATTAGTATGAGTGTTCATGTTAGTCCTTATTTAAGAGA-AAACTTTGATTCTA
128 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGT-CTTATTTAAGAGACAAACTTTGATTCTA
* * * * *
24707 TTAAAAATGGTGGAAGGAAAAAGTTTTTCTTGCGACCCCAAAGCATTAATTTCCTGTAACCTAAT
192 TCAAAAACGGTGGAAGG-AAAAGTTTTTCTTGCGA-CCCAAAGCATCAATTTCATGTATCCTAAT
** * * * * * *
24772 GAAAAGATTGTGTTTTTGG-CTCCGATTCTCGTG-AGGAGTGGAGATTGTTACGAGAATTGATGC
255 GAAGGGAATGTG-TTTTGGTCTCC-AATCT--TGAAAGAAT-GAGATAGTTACGAGAATCGATGC
* * * * *
24835 TTGTTTTATTT-AGGGAATTAACTTTGATTTAAAGGAAAAAAGGTCAAAGAAAAGATTTCCGTGC
315 TTGTCTTATTTAAGGG-ATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGC
* * * * *
24899 AAAA-CAAATCATCAATATCAATAATCCTAATGAGGAGAATGCGTTTATAGTGCC-AAGTGACAA
379 AAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAA-TCACAA
*
24962 AATG-ATGAAGATCATTACTAGAATCCAC
443 AATGAATGAAGATCATTACTAGAATCCAT
* * *
24990 G-TTGTCTCA-TTGAGGCACGAACTTAGACCTTA-AAAATTTGGTGGGAAAAATGCCTTTCTTGC
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAA-ATGGTGGGAAAAAAGCCTTTCTTG-
* * * * **
25052 T-AAACGAAAGCACCAATACGATGTATCCTAAAGAGAAGACAATGTTCATGTTGTGTTATCCTGA
64 TGAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGA
* *
25116 AAAGAATGGGGATTAGTATGAGTTTTCATGTTTGTCTTATTTATGAGACAAAACTTTGATTCTAT
129 AAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGAC-AAACTTTGATTCTAT
* * *
25181 CAAAAA-GTGTGGAAGGAAAAGTTTTTCTTCCAACACCAAAGCATCAATTTCCTGTATCCTAATG
193 CAAAAACG-GTGGAAGGAAAAGTTTTTCTTGCGAC-CCAAAGCATCAATTTCATGTATCCTAATG
* * * *
25245 AAGGAAATGTGTTTTGG-CTCCAATTCTTGTAAAGAATAGAGATTGTTACGAGAAAC-ATGC-TA
256 AAGGGAATGTGTTTTGGTCTCCAA-TCTTG-AAAGAAT-GAGATAGTTACGAGAATCGATGCTTG
* *
25307 TCTTATTTAGGGGATGAACTTTGATTTAAAGAGGAAAATAGGGCAAAGAAAAGATTTTCATGC-A
318 TCTTATTTAAGGGATGAACTTTGATTT-AA-AGGAAAATAGGGCAAAGAAAAGATTTCCATGCAA
* * * *
25371 ATGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGCGTTATATATTGCCTAACCACAAAA
381 AAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTT-TATAGTGCCTAATCACAAAA
*
25436 TGAAAAAGAAGATCATTACTAGAATCCAT
445 TG--AATGAAGATCATTACTAGAATCCAT
** ** * *
25465 GTTTGTCATTTTTTGAAACACGAACTTAGACTTTACAAAAAAAGGGTAGGAAAAAAGCCTTTCTT
1 GTTTGTC-TCATTTGAGGCACGAACTTAGACTTTAC--AAAAATGGTGGGAAAAAAGCCTTTCTT
** * * *
25530 GCAAAACGAAAGCATC-ATATGATGTATCATAAAGAGAAGACTATG-TTATGGTGCCTTATCCTA
63 GTGAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTG
25593 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
128 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
* *** * * * *
25658 C-AAAACGGTGGAA-AAAAAGTTTTTCTAATGACCCCAAGCATAAAATTTCATGTAACCTACCT-
193 CAAAAACGGTGGAAGGAAAAGTTTTTCTTGCGACCCAAAGCAT-CAATTTCATGTATCCTA-ATG
* * * * * *
25720 AAGGAAATGTGTTTTGGGT-TCACAAATCTTGAAAGAACTGACACATTTACGAGCATCGGTG-TT
256 AAGGGAATGTGTTTT-GGTCTC-C-AATCTTGAAAGAA-TGAGATAGTTACGAGAATCGATGCTT
* * * *
25783 TTCTTATTTAAAGAGATGAACGTTGATTT-AAGGAAAATAGGGCAAAGAAAATA-TTCCATGCAA
317 GTCTTATTT-AAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAA
*
25846 AAGAAAATTATCAATATCATTATCTATCCTAATGGAGGAGAATGTGTTTATAGTGCCTAATCAAC
381 AAGAAAATCATCAATATCA-T-T-TATCCTAAT-GAGGAGAATGTGTTTATAGTGCCTAATC-AC
* * *
25911 AAAATGAATGAAGATTGTGTACTTTACTAGAATCAAAAC
441 AAAATGAATGAAGA-----T-CATTACTAGAATC--CAT
* * *
25950 GTTTGTCTCATTTGAGGTACGAACTTAAAACTTTACAAAAATGGTGGGAAAAAAGCTTTTCTTGT
1 GTTTGTCTCATTTGAGGCACGAACTT-AGACTTTACAAAAATGGTGGGAAAAAAGCCTTTCTTGT
* ** * ** *
26015 GAAACGAAAGCATCAATGTGATGTATCCTATTGAGAAGACAATGTTTATGGTGTCGAATCCAGAA
65 GAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGAA
* *
26080 AAG-ATGGGGATTAGCATGAGTATTCATGTTTGTCTTATTTAAGAGATAAACTTT-ATTCTATCA
130 AAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCA
***
26143 AAAACGGTGGAA--AAAAGTTTTTCTAATGACCACAAAGCATCAATTTCATGTATCCTAATGAAG
195 AAAACGGTGGAAGGAAAAGTTTTTCTTGCGACC-CAAAGCATCAATTTCATGTATCCTAATGAAG
* * * * * *
26206 GGAATGTGTTTTAG-CTCCAATTCTTGTAAATAATGGAGTTTGATACAAGAATCGATGCTTGTCT
259 GGAATGTGTTTTGGTCTCCAA-TCTTG-AAAGAAT-GAGATAGTTACGAGAATCGATGCTTGTCT
26270 TATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAA
321 TATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAA
* *
26335 AATCATCAATATCATTTATCCTAATAAGGAGAATGTGTTTATAGTGCCTAACCACAAAA--AA-G
386 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
26397 AAGATCATTACTAGAATCCAT
451 AAGATCATTACTAGAATCCAT
* * *
26418 GTTTGT-TGCTTTTGATGCACGAACTTAGACTTTACATAAAATGGTGGGGAAAAAAGCTTTTCTT
1 GTTTGTCT-CATTTGAGGCACGAACTTAGACTTTACA-AAAATGGT-GGGAAAAAAGCCTTTCTT
* ** ** * *
26482 GTGAAACGAAAGCATCAATATAACATATTGTAAAGAGAAGACTATGTTTATGGTGCCTTATCCTA
63 GTGAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTG
* * * * *** *
26547 AAAAAAATGGGGATTAGTATGAGTATTCATGTTTGTCTTACTTAGGAGATAGGTTTTGATTCTAA
128 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
* * *
26612 CAAAAATGGTGGAAGGAAAAG-TTTTCTTGCGACACCAAAGCATCAATTTAATGTAACCTAATGA
193 CAAAAACGGTGGAAGGAAAAGTTTTTCTTGCGAC-CCAAAGCATCAATTTCATGTATCCTAATGA
* * * *
26676 AGGGAATGTGTATTGG-CTTCACAATCTTGGAAAGAACTGACACAGTTACAAGAATCGATGCTTG
257 AGGGAATGTGTTTTGGTC-TC-CAATCTT-GAAAGAA-TGAGATAGTTACGAGAATCGATGCTTG
* * * *
26740 TTTTCTTTAAAGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAA
318 TCTTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAA
*
26805 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGCGTTTATAGTGCCTAATCACAAAATGA
383 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGA
*
26870 ATGATGATCATTACTAGAATCCAT
448 ATGAAGATCATTACTAGAATCCAT
* *
26894 GTTT-TCTCATTTAAGGCACGAGCTTAGACTTTA-AAAAATTTGGTGGGAAAAAAGCCTTTCTTG
1 GTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAA--TGGTGGGAAAAAAGCCTTTCTTG
* * * * ** *
26957 CGAAACGAAAAGCAACAATACGATGTATCCTAAAGAGAAGACAATGTTTATGTTGTGTTATGCTG
64 TGAAACG-AAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTG
27022 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
128 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
* * * * *
27087 TAGAAACGGTGGAAGGAAATGTTTTTCTTGCGACACCAAAGCATCAATTTCA--TAT-AT-ATAA
193 CAAAAACGGTGGAAGGAAAAGTTTTTCTTGCGAC-CCAAAGCATCAATTTCATGTATCCTAATGA
* * * * *
27148 AGGGAATGTGTTTTGGCTTTACAATCTTGAAAAGAACTGAGGTAGTTACGAGAATTGATGGTTGT
257 AGGGAATGTGTTTTGG-TCTCCAATCTTG-AAAGAA-TGAGATAGTTACGAGAATCGATGCTTGT
* * * * *
27213 CTTATTTAGGGGATAAACTTTGAATTT-AGGGAAAATAGGGCAAAGAAATGATTTCCATGAAAAA
319 CTTATTTAAGGGATGAACTTTG-ATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAA
* * * *
27277 GAAAATCATCAATTTCATTTATGCTAATGAGGGGAATGT-TTCATAGTGCCTAATCACAAAATGA
383 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGA
* *
27341 ATGAAGATTATTACTAGAATCCAG
448 ATGAAGATCATTACTAGAATCCAT
* * * * ** *
27365 GTTTGTCTGATATGAGGCATGGACTTAAGACTTTACAAAAAATGGTTAG-AAAAA-CCTTTCTTA
1 GTTTGTCTCATTTGAGGCACGAACTT-AGACTTTAC-AAAAATGGTGGGAAAAAAGCCTTTCTTG
* * * *
27428 TGAAACGAAAGTATCAATATGATGTATCATAAAGAGAAAACTATGTTTATGGTGCCTTATCCTGA
64 TGAAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGA
*
27493 AAAGACTGGGGAT
129 AAAGAATGGGGAT
27506 GAAAAAAAGA
Statistics
Matches: 4131, Mismatches: 592, Indels: 325
0.82 0.12 0.06
Matches are distributed among these distances:
467 12 0.00
468 157 0.04
469 290 0.07
470 415 0.10
471 429 0.10
472 644 0.16
473 286 0.07
474 117 0.03
475 406 0.10
476 167 0.04
477 189 0.05
478 122 0.03
479 220 0.05
480 64 0.02
481 80 0.02
482 222 0.05
483 143 0.03
484 134 0.03
485 34 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (471 bp):
GTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATGGTGGGAAAAAAGCCTTTCTTGTG
AAACGAAAGCATCAATATGATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTTATCCTGAAA
AGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAA
AAACGGTGGAAGGAAAAGTTTTTCTTGCGACCCAAAGCATCAATTTCATGTATCCTAATGAAGGG
AATGTGTTTTGGTCTCCAATCTTGAAAGAATGAGATAGTTACGAGAATCGATGCTTGTCTTATTT
AAGGGATGAACTTTGATTTAAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCA
TCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGAT
CATTACTAGAATCCAT
Found at i:28486 original size:9 final size:8
Alignment explanation
Indices: 28472--28512 Score: 52
Period size: 7 Copynumber: 5.4 Consensus size: 8
28462 TACAAGTTAA
28472 TTTTATTT
1 TTTTATTT
28480 CTTTTATTT
1 -TTTTATTT
28489 TTTT-TTT
1 TTTTATTT
28496 TTTT-TTT
1 TTTTATTT
28503 TTTT-TTT
1 TTTTATTT
28510 TTT
1 TTT
28513 AAATATCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.62
8 4 0.12
9 8 0.25
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTATTT
Found at i:28492 original size:1 final size:1
Alignment explanation
Indices: 28481--28512 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
28471 ATTTTATTTC
*
28481 TTTTATTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28513 AAATATCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:30861 original size:22 final size:22
Alignment explanation
Indices: 30813--30874 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
30803 ACCAATTTTC
*
30813 AAGGGGGAGAAAA--GTTT-TT
1 AAGGGGGAGAAAATCTTTTATT
*
30832 AAGAGGGAGAAAATCTTTTATT
1 AAGGGGGAGAAAATCTTTTATT
*
30854 AAGGGGGAAAAAATCTCTTTA
1 AAGGGGGAGAAAATCT-TTTA
30875 ACCGATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.34
21 3 0.09
22 16 0.46
23 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.27
Consensus pattern (22 bp):
AAGGGGGAGAAAATCTTTTATT
Found at i:30867 original size:72 final size:71
Alignment explanation
Indices: 30782--30994 Score: 294
Period size: 69 Copynumber: 3.0 Consensus size: 71
30772 AATTTATATC
30782 TAGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAAAGTTTTTAAGAGGGAGAAAATC
1 TAGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAAAGTTTTTAAGAGGGAGAAAATC
30847 TTTTAT
66 TTTTAT
* * * *
30853 TAAGGGGGAAAAAATCTCTTTAACCGATTTTCAAGGGGGAGAAATATTGTTTTGAA-A---A-TA
1 T-AGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAA-A--GTTTTTAAGAGGGAGAA
*
30913 AAT-TTATAT
62 AATCTTTTAT
30922 CTAGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAAAGTTTTTAAGAGGGAGAAAAT
1 -TAGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAAAGTTTTTAAGAGGGAGAAAAT
30987 CTTTTAT
65 CTTTTAT
30994 T
1 T
Statistics
Matches: 121, Mismatches: 10, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
66 7 0.06
67 1 0.01
68 1 0.01
69 45 0.37
70 6 0.05
71 7 0.06
72 45 0.37
73 1 0.01
74 1 0.01
75 7 0.06
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.31
Consensus pattern (71 bp):
TAGGGGGAGAAAATCTCTTTAACCAATTTTCAAGGGGGAGAAAAGTTTTTAAGAGGGAGAAAATC
TTTTAT
Found at i:30952 original size:69 final size:69
Alignment explanation
Indices: 30744--30965 Score: 308
Period size: 69 Copynumber: 3.2 Consensus size: 69
30734 CTATAACAAA
30744 AAGGGGGAGAAATATTGTTTTGAAAATAAATTTATATCTAGGGGGAGAAAATCTCTTTAACCAAT
1 AAGGGGGAGAAATATTGTTTTGAAAATAAATTTATATCTAGGGGGAGAAAATCTCTTTAACCAAT
30809 TTTC
66 TTTC
* * * *
30813 AAGGGGGAGAAA-A--GTTTTTAAGAGGGAGAAAATCTTTTAT-TAAGGGGGAAAAAATCTCTTT
1 AAGGGGGAGAAATATTGTTTTGAA-A---A-TAAAT-TTATATCT-AGGGGGAGAAAATCTCTTT
*
30874 AACCGATTTTC
59 AACCAATTTTC
30885 AAGGGGGAGAAATATTGTTTTGAAAATAAATTTATATCTAGGGGGAGAAAATCTCTTTAACCAAT
1 AAGGGGGAGAAATATTGTTTTGAAAATAAATTTATATCTAGGGGGAGAAAATCTCTTTAACCAAT
30950 TTTC
66 TTTC
30954 AAGGGGGAGAAA
1 AAGGGGGAGAAA
30966 AGTTTTTAAG
Statistics
Matches: 132, Mismatches: 10, Indels: 22
0.80 0.06 0.13
Matches are distributed among these distances:
66 7 0.05
67 1 0.01
68 1 0.01
69 57 0.43
70 6 0.05
71 6 0.05
72 45 0.34
73 1 0.01
74 1 0.01
75 7 0.05
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (69 bp):
AAGGGGGAGAAATATTGTTTTGAAAATAAATTTATATCTAGGGGGAGAAAATCTCTTTAACCAAT
TTTC
Done.