Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold254
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: 100366
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:3572 original size:23 final size:22
Alignment explanation
Indices: 3536--3593 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
3526 TTTGTTTTTA
*
3536 TTTTTC-CTTATTTTCTTTCTT
1 TTTTTCTCTTTTTTTCTTTCTT
3557 TCTTTTCTCTTTTTTTCTTTCTT
1 T-TTTTCTCTTTTTTTCTTTCTT
3580 TTTTCTCTCTTTTT
1 TTTT-TCTCTTTTT
3594 CACTGAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 8 0.24
23 24 0.73
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTCTCTTTTTTTCTTTCTT
Found at i:3581 original size:11 final size:11
Alignment explanation
Indices: 3559--3593 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
3549 TCTTTCTTTC
3559 TTTTCTCT-TT
1 TTTTCTCTCTT
*
3569 TTTTCTTTCTT
1 TTTTCTCTCTT
3580 TTTTCTCTCTT
1 TTTTCTCTCTT
3591 TTT
1 TTT
3594 CACTGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTCTCTT
Found at i:4333 original size:166 final size:164
Alignment explanation
Indices: 4050--4471 Score: 487
Period size: 166 Copynumber: 2.6 Consensus size: 164
4040 ATTAATATAT
** * * * *
4050 AAAAAAATCAAAATTCATGAAAA-AATTTGAATTTTTCAAAACTGATTTAATGTGAATTTAATAA
1 AAAAAAAGAAAAACTCATGAAAATAA-ATGAATTTTTCAAAACTGATTTAATATGAATTAAATAA
* * * ** *
4114 CAATATTAGATGAATTTTAAAAATTTTAAACCAAGAAAAATCCCCCTGAAAACATTTACGGAGTA
65 TAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTGAAAACATTTACGGAGCA
* *
4179 GAAAAC-TCGGTTTTTCGAAAATAGGAGGATTTCAAAG
130 GAAAACTTC-ATTTTTCGAAAAT-GGAGAATTTC-AAG
** *
4216 AAAAAAAGAAAAACTCATGAAAATAAATGAATTTTTTGAAACTAATTTAATATGAATTAAATAAT
1 AAAAAAAGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAAATAAT
* *
4281 AATATTTGATAAATTTTAAAAATTAAAAACCAAGGAAAATTCCTCC-GAAAACATTTACGGAGCA
66 AATATTTGATAAATTTTAAAAATTAAAAACCAA-GAAAAATCCCCCTGAAAACATTTACGGAGCA
*
4345 GAAAACTTCATTTTTCGAAACTGGAGAATTTCAAG
130 GAAAACTTCATTTTTCGAAAATGGAGAATTTCAAG
* * * * *
4380 AAAAAAATGAAAAACTTA-AAAAATGAATGAATTTTTCAAAACTGATTTAATGTTG-ATTAAATG
1 AAAAAAA-GAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAAT-ATGAATTAAATA
* * *
4443 ATAATATTTAAGAAATTTT-GAAATTAAAA
64 ATAATATTTGATAAATTTTAAAAATTAAAA
4472 GCTCGAGAAA
Statistics
Matches: 220, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
163 9 0.04
164 62 0.28
165 20 0.09
166 115 0.52
167 14 0.06
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (164 bp):
AAAAAAAGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAAATAAT
AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTGAAAACATTTACGGAGCAG
AAAACTTCATTTTTCGAAAATGGAGAATTTCAAG
Found at i:6730 original size:175 final size:174
Alignment explanation
Indices: 6432--6781 Score: 447
Period size: 175 Copynumber: 2.0 Consensus size: 174
6422 AGTGAAAAAA
* * * * *
6432 TAATGCGAACCTTAGGTTGAAAACAATCTAAATCTCAATTAGATGGAGTTAGAACCCTAGAATCA
1 TAATGCGAACCTTAGGCTGAAAACAAACTAAAACCCAATTAGATGGAATTAGAACCCTAGAATCA
* * *
6497 TCTTCAAAATCAAGTAAAGAAAACTTGACTCTAATCAAACTAGCTGATTAGGACCAAAGTTAGAA
66 TCTTCAAAATCAAGCAAAGAAAACTTGACCCTAATCAAACTAGCTGATTAGAACCAAAGTTA-AA
*
6562 AAAATCTTTATCACCAAAAGTAGCCTTGATAAGGTCA-AGTTGAGT
130 AAAATCTTGATCACCAAAAGTAGCCTTGATAAGGTCAGA-TTGAGT
* * *
6607 TAATGCGAACCTTATGCTGAAAACAAACTAAAACCCGATTGGATGGAATTAG-ACCCTTAGAATC
1 TAATGCGAACCTTAGGCTGAAAACAAACTAAAACCCAATTAGATGGAATTAGAACCC-TAGAATC
* * *
6671 ATCTTCAAAATCAAGCAAAGAGAACTTGGCCCTAATCAAACCT-GTTGATTCA-AACCAAAGTTA
65 ATCTTCAAAATCAAGCAAAGAAAACTTGACCCTAATCAAA-CTAGCTGATT-AGAACCAAAGTTA
* * * * *
6734 TAAGAATCTTGATCGCCACAAGTTGCCTTGATAAGGTCAGATTGAGT
128 AAAAAATCTTGATCACCAAAAGTAGCCTTGATAAGGTCAGATTGAGT
6781 T
1 T
6782 CTTGTTTAAA
Statistics
Matches: 151, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
174 44 0.29
175 104 0.69
176 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (174 bp):
TAATGCGAACCTTAGGCTGAAAACAAACTAAAACCCAATTAGATGGAATTAGAACCCTAGAATCA
TCTTCAAAATCAAGCAAAGAAAACTTGACCCTAATCAAACTAGCTGATTAGAACCAAAGTTAAAA
AAATCTTGATCACCAAAAGTAGCCTTGATAAGGTCAGATTGAGT
Found at i:12665 original size:112 final size:113
Alignment explanation
Indices: 12472--12711 Score: 338
Period size: 112 Copynumber: 2.1 Consensus size: 113
12462 AATTACCTGA
* * ** *
12472 GTATCGATACTTGCTGTCCAAAAATCAAATTTTAGGTACTGCTAAGGCCATGTATCAATACAATC
1 GTATCGATACTTGCTATCCAAAAATCAAATTTTAGCTACCACCAAGGCCATGTATCAATACAATC
* * *
12537 ACACTAGATATTGATACCACTCCTTGGGTATCGATACCAAGCCTTCAT
66 ACACTAGATATCGATACCACACCTTGGGTATCAATACCAAGCCTTCAT
* * **
12585 GTATCGATACTTGCTATCCAAAAGTCAAATTTTAGCTACCACCAAGG-CTTGTATCGGTACAATC
1 GTATCGATACTTGCTATCCAAAAATCAAATTTTAGCTACCACCAAGGCCATGTATCAATACAATC
12649 ACACTAGATATCGATACCACACCTTGGGTATCAATACCAAGCCTTCAT
66 ACACTAGATATCGATACCACACCTTGGGTATCAATACCAAGCCTTCAT
* *
12697 ATATTGATACATTGC
1 GTATCGATAC-TTGC
12712 ATGGAATTTC
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
112 67 0.60
113 45 0.40
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (113 bp):
GTATCGATACTTGCTATCCAAAAATCAAATTTTAGCTACCACCAAGGCCATGTATCAATACAATC
ACACTAGATATCGATACCACACCTTGGGTATCAATACCAAGCCTTCAT
Found at i:13499 original size:28 final size:28
Alignment explanation
Indices: 13415--13502 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
13405 AATTAGTAAG
* * *
13415 ATCAATAAGAAAGATC-AAGGAAATGAA
1 ATCAACAAGAAATATCAAAGGAAACGAA
*
13442 ATCAACAAGAAATAT-AAAGGGAAACAAA
1 ATCAACAAGAAATATCAAA-GGAAACGAA
13470 ATCAGA-AAGAAATATCAAAGGAAGA-GAA
1 ATCA-ACAAGAAATATCAAAGGAA-ACGAA
13498 ATCAA
1 ATCAA
13503 TGAAGGAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
27 16 0.31
28 30 0.59
29 5 0.10
ACGTcount: A:0.61, C:0.09, G:0.17, T:0.12
Consensus pattern (28 bp):
ATCAACAAGAAATATCAAAGGAAACGAA
Found at i:15286 original size:29 final size:29
Alignment explanation
Indices: 15253--15317 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
15243 AGTTATTGTT
*
15253 TAAAGAACAAAGAAAAAGTTCTCACAAAG
1 TAAAGAACAAAGAAAAAGGTCTCACAAAG
*
15282 TAAAGAACAAAGAAAAAGGTCTTACAAAG
1 TAAAGAACAAAGAAAAAGGTCTCACAAAG
*
15311 TGAAGAA
1 TAAAGAA
15318 ACTCTCAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.58, C:0.11, G:0.17, T:0.14
Consensus pattern (29 bp):
TAAAGAACAAAGAAAAAGGTCTCACAAAG
Found at i:22276 original size:20 final size:21
Alignment explanation
Indices: 22225--22277 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
22215 TTCAATAATT
22225 TGTATCAATACGATAAGGTAA
1 TGTATCAATACGATAAGGTAA
*
22246 TGTGTCAATAC-ATAA-GTGAA
1 TGTATCAATACGATAAGGT-AA
*
22266 TGTATCGATACG
1 TGTATCAATACG
22278 TGCTTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.56
21 10 0.37
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTATCAATACGATAAGGTAA
Found at i:28506 original size:12 final size:11
Alignment explanation
Indices: 28484--28559 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
28474 AGAGAAAGAA
*
28484 GAGAGAGGAGG
1 GAGATAGGAGG
28495 GATGATAGGAGG
1 GA-GATAGGAGG
*
28507 AGAGACAGGA--
1 -GAGATAGGAGG
*
28517 GAGATAGTA--
1 GAGATAGGAGG
28526 GAGATAGGAGG
1 GAGATAGGAGG
28537 GATGATAGGAGG
1 GA-GATAGGAGG
*
28549 AGAGACAGGAG
1 -GAGATAGGAG
28560 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:28516 original size:24 final size:24
Alignment explanation
Indices: 28483--28568 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
28473 AAGAGAAAGA
*
28483 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
28507 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
28525 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
28549 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
28569 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:28535 original size:42 final size:42
Alignment explanation
Indices: 28474--28592 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
28464 TAGCCCTCAA
* *
28474 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
28516 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
28558 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
28593 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:35761 original size:42 final size:42
Alignment explanation
Indices: 35706--35824 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
35696 TTCTTCTCTC
* *
35706 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
35748 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
35790 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
35825 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:35765 original size:12 final size:11
Alignment explanation
Indices: 35739--35814 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
35729 TCTATTATCT
*
35739 CTCCTGTCTCTC
1 CTCCTATCTC-C
35751 CTCCTATCATCC
1 CTCCTATC-TCC
35763 CTCCTATCT--
1 CTCCTATCTCC
*
35772 CTACTATCT--
1 CTCCTATCTCC
*
35781 CTCCTGTCTCTC
1 CTCCTATCTC-C
35793 CTCCTATCATCC
1 CTCCTATC-TCC
*
35805 CTCCTCTCTC
1 CTCCTATCTC
35815 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:35766 original size:24 final size:24
Alignment explanation
Indices: 35730--35815 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
35720 CCTCCTCTCT
* *
35730 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
35754 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
35775 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
35796 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
35816 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:35790 original size:18 final size:18
Alignment explanation
Indices: 35721--35791 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
35711 CCTGTCATCC
* *
35721 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
35739 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
35761 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
35781 CTCCTGTCTCT
1 CTCCTGTCTCT
35792 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:37584 original size:13 final size:13
Alignment explanation
Indices: 37566--37591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37556 AATTTTTTTG
37566 TGTATCGATACAT
1 TGTATCGATACAT
37579 TGTATCGATACAT
1 TGTATCGATACAT
37592 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37602 original size:32 final size:34
Alignment explanation
Indices: 37545--37609 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
37535 TACAAGCCAA
*
37545 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
37579 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
37610 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:37681 original size:65 final size:65
Alignment explanation
Indices: 37579--37739 Score: 290
Period size: 65 Copynumber: 2.5 Consensus size: 65
37569 ATCGATACAT
* *
37579 TGTATCGATACAT-ATTTT-GTGTATCGATACAAGTTTGGCTACTGCCAAGAAATTCCAATGACA
1 TGTATCGATACATCTTTTTCATGTATCGATACAAGTTTGGCTACTGCCAAGAAATTCCAATGACA
37642 TGTATCGATACATCTTTTTCATGTATCGATACAAGTTTGGCTACTGCCAAGAAATTCCAATGACA
1 TGTATCGATACATCTTTTTCATGTATCGATACAAGTTTGGCTACTGCCAAGAAATTCCAATGACA
37707 TGTATCGATACATCTTTTTCATGTATCGATACA
1 TGTATCGATACATCTTTTTCATGTATCGATACA
37740 TTGCAACATG
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 13 0.14
64 4 0.04
65 77 0.82
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (65 bp):
TGTATCGATACATCTTTTTCATGTATCGATACAAGTTTGGCTACTGCCAAGAAATTCCAATGACA
Found at i:37779 original size:20 final size:20
Alignment explanation
Indices: 37726--37781 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
37716 ACATCTTTTT
*
37726 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
37746 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
37765 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
37782 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:39756 original size:21 final size:20
Alignment explanation
Indices: 39727--39769 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
39717 GACTAGTGTG
* *
39727 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
39748 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
39768 GG
1 GG
39770 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:40218 original size:13 final size:13
Alignment explanation
Indices: 40200--40224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40190 ATAATCCCCC
40200 TGTATCGATACAG
1 TGTATCGATACAG
40213 TGTATCGATACA
1 TGTATCGATACA
40225 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:40238 original size:20 final size:20
Alignment explanation
Indices: 40213--40264 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
40203 ATCGATACAG
40213 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
40233 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
40253 TGTATCGATACA
1 TGTATCGATACA
40265 TTGAATTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:46442 original size:13 final size:13
Alignment explanation
Indices: 46424--46449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46414 AATTTTTTTG
46424 TGTATCGATACAT
1 TGTATCGATACAT
46437 TGTATCGATACAT
1 TGTATCGATACAT
46450 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46460 original size:32 final size:34
Alignment explanation
Indices: 46404--46467 Score: 105
Period size: 32 Copynumber: 1.9 Consensus size: 34
46394 ACAAGCCAAA
*
46404 GTATCGATACAATTTTTTTGTGTATCGATACATT
1 GTATCGATACAATTATTTTGTGTATCGATACATT
46438 GTATCGATAC-A-TATTTTGTGTATCGATACA
1 GTATCGATACAATTATTTTGTGTATCGATACA
46468 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 10 0.34
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
GTATCGATACAATTATTTTGTGTATCGATACATT
Found at i:48337 original size:98 final size:97
Alignment explanation
Indices: 48093--48337 Score: 339
Period size: 97 Copynumber: 2.5 Consensus size: 97
48083 TTTTATTCGT
* *
48093 GGGGATACTCCAACCCCATTCTTCCGAGGGGATATTCCAACCTCGTTTTTAAACTTGTCAAGATT
1 GGGGATACTCCAACCCCATTCTTCCAAGGGGATACTCCAACCTCGTTTTTAAACTTGTCAAGATT
* *
48158 TAAATCTTGTTTTTGCCTAAATTGTCATCATT
66 TAAATCTTATTTTTGCCTAAATTGTCATCATC
** * * * * *
48190 GGGGATACTCCAACCTAATTCTTCTGAA-GGGACACTCCAACCCCATTTTTAAACTTGTCACGAT
1 GGGGATACTCCAACCCCATTCTTC-CAAGGGGATACTCCAACCTCGTTTTTAAACTTGTCAAGAT
*
48254 TTAAATCTTATTTTTGCTTAAAATTGTCATCATC
65 TTAAATCTTATTTTTGCCT-AAATTGTCATCATC
* *
48288 GGGGACACTCCAACCCCATTCTTCCAAGGGGATACTCCAACCTTGTTTTT
1 GGGGATACTCCAACCCCATTCTTCCAAGGGGATACTCCAACCTCGTTTTT
48338 CAATCAAAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
97 72 0.58
98 53 0.42
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (97 bp):
GGGGATACTCCAACCCCATTCTTCCAAGGGGATACTCCAACCTCGTTTTTAAACTTGTCAAGATT
TAAATCTTATTTTTGCCTAAATTGTCATCATC
Found at i:56533 original size:83 final size:83
Alignment explanation
Indices: 56391--56910 Score: 456
Period size: 83 Copynumber: 6.3 Consensus size: 83
56381 AACTCCATGA
* *** *
56391 CACCTTTTAGTCCTCAAAGAGCAGGACATATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAGGA
1 CACCTTTTAGTCCTCAAAGAGCAAGATGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGA
*
56456 CACACTTTATTTCCTTTT
66 CGCACTTTATTTCCTTTT
* * * * *
56474 CATCTTTTAGCCCTCAAAAAGCAAAATGCATTTCCTTCTTTTCCTTTTGTCCTCAAAGAGCAAGA
1 CACCTTTTAGTCCTCAAAGAGCAAGATGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGA
56539 CGCACTTTATTTCCTTTT
66 CGCACTTTATTTCCTTTT
* *
56557 CACCTTTTAGTCCTCAAAGAGGAAGATGCATTTCCTTCTATTCCCTTTGTCCTCAAAGAGCAAGA
1 CACCTTTTAGTCCTCAAAGAGCAAGATGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGA
*
56622 TGCACTTTATTTCCTTTT
66 CGCACTTTATTTCCTTTT
* * * * * * *
56640 CACCTTTTAGTCCTCAAAGAGCAGGACGCAATTCCTTCTTTTTCC-TT-TCCTTAAGGAGCAGGA
1 CACCTTTTAGTCCTCAAAGAGCAAGATGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGA
56703 TC-CA-TTTCATTCTCCTTTT
66 -CGCACTTT-ATT-TCCTTTT
** * * * ** * *
56722 TTCC-TTT-GTCCTTAAAGAGTAGGATGCACTTTATTTCCTTTTCTCTTTTATCCTCAAAGAGCA
1 CACCTTTTAGTCCTCAAAGAGCAAGATGCA-TTTCCTT-CTTTTC-CCTTTGTCCTCAAAGAGCA
* *
56785 AGATGCACTTTATTTCTTTTT
63 AGACGCACTTTATTTCCTTTT
* * * * *
56806 CTCC-TTT-G-CCATCAAAGCGTAGGACGCACTTCATTTCCTT-TTTT-CCTTTGTCCACAAAGA
1 CACCTTTTAGTCC-TCAAA--G-AGCAAG-A-TGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGA
* *
56866 GCAGGACGCATTTTA-TTCTCTTTT
60 GCAAGACGCACTTTATTTC-CTTTT
**
56890 TTCC-TTT-GTCCTCAAAGAGCA
1 CACCTTTTAGTCCTCAAAGAGCA
56911 GGACATACTG
Statistics
Matches: 359, Mismatches: 60, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
80 21 0.06
81 28 0.08
82 17 0.05
83 192 0.53
84 60 0.17
85 20 0.06
86 8 0.02
87 4 0.01
88 6 0.02
89 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (83 bp):
CACCTTTTAGTCCTCAAAGAGCAAGATGCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGA
CGCACTTTATTTCCTTTT
Found at i:56781 original size:42 final size:42
Alignment explanation
Indices: 56400--56913 Score: 391
Period size: 42 Copynumber: 12.4 Consensus size: 42
56390 ACACCTTTTA
*
56400 GTCCTCAAAGAGCAGGA--CA---TATTTCCTTCTTTTCCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTT-TTCT-CCTTT
** *
56439 GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTCATCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTC-TCCTTT
* * ** ** *
56482 AGCCCTCAAAAAGCAAAATGCA-TTTCCTT-CTTTTC-CTTTT
1 -GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* * *
56522 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTCACCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCC-TTT
* * ** *
56565 AGTCCTCAAAGAGGAAGATGCA-TTTCCTT-CTATTC-CCTTT
1 -GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* *
56605 GTCCTCAAAGAGCAAGATGCACTTTATTTCCTTTTCACCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCC-TTT
* * **
56648 AGTCCTCAAAGAGCAGGACGCA-ATTCCTT-CTTTT-TCC-TT
1 -GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* * * *
56687 -TCCTTAAGGAGCAGGATCCA-TTTCATTCTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTT-ATT-TCCTTTTCTCCTTT
* * *
56729 GTCCTTAAAGAGTAGGATGCACTTTATTTCCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* * *
56771 ATCCTCAAAGAGCAAGATGCACTTTATTTCTTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* * * * *
56813 G-CCATCAAAGCGTAGGACGCACTTCATTTCCTTTTTTCCTTT
1 GTCC-TCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
* * * *
56855 GTCCACAAAGAGCAGGACGCATTTTA-TTCTCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTC-CTTTTCTCCTTT
56897 GTCCTCAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
56914 CATACTGATT
Statistics
Matches: 384, Mismatches: 64, Indels: 51
0.77 0.13 0.10
Matches are distributed among these distances:
37 18 0.05
38 1 0.00
39 57 0.15
40 23 0.06
41 25 0.07
42 146 0.38
43 48 0.12
44 66 0.17
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
Found at i:56948 original size:77 final size:78
Alignment explanation
Indices: 56845--56992 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 78
56835 TTCATTTCCT
*
56845 TTTTTCCTTTGTCCACAAAGAGCAGGACGCATTTT-ATTCT-CTTTTTTCCTTTGTCCTCAAAGA
1 TTTTCCCTTTGTCCACAAAGAGCAGGACGC-TTTTCATTCTCCTTTTTTCCTTTGTCCTCAAAGA
56908 GCAGGACATACTGA
65 GCAGGACATACTGA
* * * * * *
56922 TTTTCCCTTTGTCCTC-AAGAAGCAGGACGCTTTTCTTTTTCCTTTTTTCTTTTGTCCTTAAGGA
1 TTTTCCCTTTGTCCACAAAG-AGCAGGACGCTTTTCATTCTCCTTTTTTCCTTTGTCCTCAAAGA
56986 GCAGGAC
65 GCAGGAC
56993 CCATTTCATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
76 7 0.11
77 27 0.44
78 27 0.44
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.41
Consensus pattern (78 bp):
TTTTCCCTTTGTCCACAAAGAGCAGGACGCTTTTCATTCTCCTTTTTTCCTTTGTCCTCAAAGAG
CAGGACATACTGA
Found at i:56971 original size:14 final size:15
Alignment explanation
Indices: 56952--56980 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56942 AGCAGGACGC
56952 TTTTCTTTT-TCCTT
1 TTTTCTTTTGTCCTT
56966 TTTTCTTTTGTCCTT
1 TTTTCTTTTGTCCTT
56981 AAGGAGCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTCTTTTGTCCTT
Found at i:56989 original size:43 final size:43
Alignment explanation
Indices: 56929--57010 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
56919 TGATTTTCCC
* * * *
56929 TTTGTCCTCAAGAAGCAGGACGCTTTTCTTTTTCCTTTTTTCT
1 TTTGTCCTCAAGAAGCAGGACCCATTTCATTCTCCTTTTTTCT
* *
56972 TTTGTCCTTAAGGAGCAGGACCCATTTCATTCTCCTTTT
1 TTTGTCCTCAAGAAGCAGGACCCATTTCATTCTCCTTTT
57011 CCTTTATCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (43 bp):
TTTGTCCTCAAGAAGCAGGACCCATTTCATTCTCCTTTTTTCT
Found at i:57069 original size:120 final size:120
Alignment explanation
Indices: 56839--57058 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 120
56829 ACGCACTTCA
* * * *
56839 TTTCCTTTTTTCCTTTGTCCACAAAGAGCAGGACGCATTTTATTCTCTTTTTTCCTTTGTCCTCA
1 TTTCCTTTTTTCCTTTGTCCACAAAGAGCAGGACCCATTTCATTCTCTCTTTTCCTTTATCCTCA
56904 AAGAGCAGGACATACTGATTTTCCCTTTGTCCTCAAGAAGCAGGACGCTTTTCTT
66 AAGAGCAGGACATACTGATTTTCCCTTTGTCCTCAAGAAGCAGGACGCTTTTCTT
* ** * * *
56959 TTTCCTTTTTTCTTTTGTCCTTAAGGAGCAGGACCCATTTCATTCTC-CTTTTCCTTTATCTTCG
1 TTTCCTTTTTTCCTTTGTCCACAAAGAGCAGGACCCATTTCATTCTCTCTTTTCCTTTATCCTCA
* ** *
57023 AAGAGTAGGACATACTCTTTTTTCCCTTTTTCCTCA
66 AAGAGCAGGACATACT-GATTTTCCCTTTGTCCTCA
57059 GGGAATAGGA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 28 0.33
120 57 0.67
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.43
Consensus pattern (120 bp):
TTTCCTTTTTTCCTTTGTCCACAAAGAGCAGGACCCATTTCATTCTCTCTTTTCCTTTATCCTCA
AAGAGCAGGACATACTGATTTTCCCTTTGTCCTCAAGAAGCAGGACGCTTTTCTT
Found at i:57088 original size:120 final size:120
Alignment explanation
Indices: 56687--57099 Score: 279
Period size: 120 Copynumber: 3.4 Consensus size: 120
56677 CTTTTTCCTT
* * * * * * **
56687 TCCTTAAGGAGCAGGATCCATTTCATTCTCCTTTTTTCCTTTGTCCTTAAAGAGTAGGATGCACT
1 TCCTCAAGAAGCAGGACCCATTTCAGTCTCATTTTTTCCTTTGTCCTTAAAGAGCAGGACCCA-T
* * **
56752 TT-ATT-TC-CTTTTCTCTTTTATCCTCAAAGAGCAAGATGCACTTTATTTCTTTTTCTCCTTTG
65 TTCATTCTCTCTTTTC-C-TTTATCCTCAAAGAGC-AG--G-AC-ATA-CTGATTTTC-CCTTTG
* * * * ** *
56814 -CCATC-A-AAGCGTAGGACGCACTTCA-TTTCCTTTTTTCCTTTGTCCACAAAGAGCAGGACGC
1 TCC-TCAAGAAGC--AGGACCCATTTCAGTCTCATTTTTTCCTTTGTCCTTAAAGAGCAGGACCC
* * *
56875 ATTTTATTCTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACATACTGATTTTCCCTTTG
63 ATTTCATTCTCTCTTTTCCTTTATCCTCAAAGAGCAGGACATACTGATTTTCCCTTTG
* * ** * * * *
56933 TCCTCAAGAAGCAGGACGCTTTTCTTTTTCCTTTTTTCTTTTGTCCTTAAGGAGCAGGACCCATT
1 TCCTCAAGAAGCAGGACCCATTTCAGTCTCATTTTTTCCTTTGTCCTTAAAGAGCAGGACCCATT
* * * ** *
56998 TCATTCTC-CTTTTCCTTTATCTTCGAAGAGTAGGACATACTCTTTTTTCCCTTTT
66 TCATTCTCTCTTTTCCTTTATCCTCAAAGAGCAGGACATACT-GATTTTCCCTTTG
* *
57053 TCCTCAGGGAA-TAGGACCCATTTCAGTCTCA-TTTTTCCTTTGTCCTT
1 TCCTCA-AGAAGCAGGACCCATTTCAGTCTCATTTTTTCCTTTGTCCTT
57100 GAATTTATCC
Statistics
Matches: 232, Mismatches: 42, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
119 61 0.26
120 79 0.34
121 9 0.04
122 2 0.01
123 1 0.00
125 8 0.03
126 53 0.23
127 14 0.06
128 5 0.02
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (120 bp):
TCCTCAAGAAGCAGGACCCATTTCAGTCTCATTTTTTCCTTTGTCCTTAAAGAGCAGGACCCATT
TCATTCTCTCTTTTCCTTTATCCTCAAAGAGCAGGACATACTGATTTTCCCTTTG
Found at i:57305 original size:31 final size:31
Alignment explanation
Indices: 57263--57352 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
57253 TCCTTAGAAT
* * *
57263 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAACCCACACAAGTTGGTGGCACCCGA
*
57294 GTCAAAACCCACACAAGTTGGTGGCTCCCGA
1 GTCAAAACCCACACAAGTTGGTGGCACCCGA
* * * *
57325 GTCAAAGCCTACATAAGTTAGTGGCACC
1 GTCAAAACCCACACAAGTTGGTGGCACC
57353 TAAGTTGAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (31 bp):
GTCAAAACCCACACAAGTTGGTGGCACCCGA
Found at i:57436 original size:149 final size:149
Alignment explanation
Indices: 57156--57506 Score: 456
Period size: 149 Copynumber: 2.4 Consensus size: 149
57146 CCAAAGCCGG
** * * *
57156 CACAAGTTGGCAGCACCCGAGTCAAAGCCCACACGAGTTGGTGGCACCTAAGTTTGAGTCAAGGC
1 CACAAGTTGGTGGCTCCCGAGTCAAAGCCCACACAAGTTAGTGGCACCTAAGTTTGAGTCAAGGC
* * * * * * *
57221 CACATTAGTTGGCACTTGTCTGAAGAGGTTAATCCTTAGAATGTCAAAGCCCACACGAGTTGGTG
66 CAAATTAGTTGCCACCTATCTGAAGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTG
57286 GCACCCTAGTCAAAACCCA
131 GCACCCTAGTCAAAACCCA
* * *
57305 CACAAGTTGGTGGCTCCCGAGTCAAAGCCTACATAAGTTAGTGGCACCTAAG-TTGAAGTCAAGT
1 CACAAGTTGGTGGCTCCCGAGTCAAAGCCCACACAAGTTAGTGGCACCTAAGTTTG-AGTCAAGG
57369 CCAAATTAGTTGCCACCTATCT-AAGGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAG
65 CCAAATTAGTTGCCACCTATCTGAA-GAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAG
* *
57433 TGGCACCCTAGTCAAAGCCCG
129 TGGCACCCTAGTCAAAACCCA
* * * * *
57454 CACAAATTGGTGG-TACCCGAGTCAAAGCTCGCACAAGTTGGTGGCACCCAAGT
1 CACAAGTTGGTGGCT-CCCGAGTCAAAGCCCACACAAGTTAGTGGCACCTAAGT
57507 CAAAGCTCGC
Statistics
Matches: 174, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
148 6 0.03
149 168 0.97
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.21
Consensus pattern (149 bp):
CACAAGTTGGTGGCTCCCGAGTCAAAGCCCACACAAGTTAGTGGCACCTAAGTTTGAGTCAAGGC
CAAATTAGTTGCCACCTATCTGAAGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTG
GCACCCTAGTCAAAACCCA
Found at i:57450 original size:31 final size:31
Alignment explanation
Indices: 57412--57562 Score: 185
Period size: 31 Copynumber: 4.9 Consensus size: 31
57402 GCCTTAGAAT
* * *
57412 GTCAAAGCCCACACAAGTTAGTGGCACCCTA
1 GTCAAAGCCCGCACAAGTTGGTGGCACCCGA
* *
57443 GTCAAAGCCCGCACAAATTGGTGGTACCCGA
1 GTCAAAGCCCGCACAAGTTGGTGGCACCCGA
* *
57474 GTCAAAGCTCGCACAAGTTGGTGGCACCCAA
1 GTCAAAGCCCGCACAAGTTGGTGGCACCCGA
* *
57505 GTCAAAGCTCGCACAAGTTGGCGGCACCCGA
1 GTCAAAGCCCGCACAAGTTGGTGGCACCCGA
* * **
57536 GTAAAAGCCCACATGAGTTGGTGGCAC
1 GTCAAAGCCCGCACAAGTTGGTGGCAC
57563 TTAAGTTTGA
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (31 bp):
GTCAAAGCCCGCACAAGTTGGTGGCACCCGA
Found at i:57627 original size:211 final size:209
Alignment explanation
Indices: 57263--57717 Score: 642
Period size: 211 Copynumber: 2.1 Consensus size: 209
57253 TCCTTAGAAT
* * * *
57263 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAACCCACACAAGTTGGTGGCTCCCGAGTC
1 GTCAAAGCCCACA--AGTTGGTGGCACCCAAGTCAAAACCCACACAAGTTGGCGGCACCCGAGTA
*
57328 AAAGCCTACATAAGTTAGTGGCACCTAAGTTGAAGTCAAGTCCAAATTAGTTGCCACCTATCTAA
64 AAAGCCCACATAAGTTAGTGGCACCTAAGTTGAAGTCAAGTCCAAATTAGTTGCCACCTATCTAA
57393 GGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTGGCACCCTAGTCAAAGCCCGCACA
129 GGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTGGCACCCTAGTCAAAGCCCGCACA
* **
57458 AATTGGTGGTACCCGA
194 AATTGGCGACACCCGA
* * *
57474 GTCAAAGCTCGCACAAGTTGGTGGCACCCAAGTCAAAGCTCGCACAAGTTGGCGGCACCCGAGTA
1 GTCAAAGC-C-CACAAGTTGGTGGCACCCAAGTCAAAACCCACACAAGTTGGCGGCACCCGAGTA
* * * ** * * *
57539 AAAGCCCACATGAGTTGGTGGCACTTAAGTTTG-AGTCAAGTCCACGTTAGTTGGCACTTTTCTA
64 AAAGCCCACATAAGTTAGTGGCACCTAAG-TTGAAGTCAAGTCCAAATTAGTTGCCACCTATCTA
*
57603 AGGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCGCAC
128 AGGAGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTGGCACCCTAGTCAAAGCCCGCAC
*
57668 AAGTTGGCGACACCCGA
193 AAATTGGCGACACCCGA
*
57685 GTCAAAGCCCACATGAGTTGGTGGCACCTAAGT
1 GTCAAAGCCCACA--AGTTGGTGGCACCCAAGT
57718 TCAAGTCCAA
Statistics
Matches: 217, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
209 4 0.02
210 1 0.00
211 204 0.94
212 4 0.02
213 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.20
Consensus pattern (209 bp):
GTCAAAGCCCACAAGTTGGTGGCACCCAAGTCAAAACCCACACAAGTTGGCGGCACCCGAGTAAA
AGCCCACATAAGTTAGTGGCACCTAAGTTGAAGTCAAGTCCAAATTAGTTGCCACCTATCTAAGG
AGGTTAAGCCTTAGAATGTCAAAGCCCACACAAGTTAGTGGCACCCTAGTCAAAGCCCGCACAAA
TTGGCGACACCCGA
Found at i:57661 original size:31 final size:31
Alignment explanation
Indices: 57623--57712 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
57613 GCCTTAGAAT
*
57623 GTCAAAGCCCACACAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCGA
* * *
57654 GTCAAAGCCCGCACAAGTTGGCGACACCCGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCGA
**
57685 GTCAAAGCCCACATGAGTTGGTGGCACC
1 GTCAAAGCCCACACAAGTTGGTGGCACC
57713 TAAGTTCAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGTTGGTGGCACCCGA
Found at i:57836 original size:88 final size:87
Alignment explanation
Indices: 57685--58026 Score: 502
Period size: 87 Copynumber: 4.0 Consensus size: 87
57675 CGACACCCGA
*
57685 GTCAAAGCCCACATGAGTTGGTGGCACCTAAG-T----TCAAGTCCAAATTAGTTGGCACCTGTC
1 GTCAAAGCCCACATGAGTTGGTGGCACCTAAGTTCGAGTCAAGTCCACATTAGTTGGCACCTGTC
57745 TAAGGAGGTTAAGCCTTAGAAT
66 TAAGGAGGTTAAGCCTTAGAAT
**
57767 GTCAAAGCCCACATGAGACGGTGGCACCTAAGTTCGAGTTCAAGTCCACATTAGTTGGCACCTGT
1 GTCAAAGCCCACATGAGTTGGTGGCACCTAAGTTCGAG-TCAAGTCCACATTAGTTGGCACCTGT
*
57832 CTAAGGAGGTTAAGCCTTAGATT
65 CTAAGGAGGTTAAGCCTTAGAAT
* * *
57855 GTCAAAGCCTACACA-G-GTTGGTGG-ACCTAAGTTTGAGTCAAGTCCACGTTAGTTAGCACCTG
1 GTCAAAGCC--CACATGAGTTGGTGGCACCTAAGTTCGAGTCAAGTCCACATTAGTTGGCACCTG
*
57917 TCTAAGAAGGTTAAGCCTTAGAAT
64 TCTAAGGAGGTTAAGCCTTAGAAT
* *
57941 GTCAAAGCCCACACGAGTTGGTGGCACCTAAGTCCGAGTCAAGTCCACATTAGTTGGCACCTGTC
1 GTCAAAGCCCACATGAGTTGGTGGCACCTAAGTTCGAGTCAAGTCCACATTAGTTGGCACCTGTC
*
58006 TAAGGAGGTCAAGCCTTAGAA
66 TAAGGAGGTTAAGCCTTAGAA
58027 AACCAAAACT
Statistics
Matches: 232, Mismatches: 17, Indels: 17
0.87 0.06 0.06
Matches are distributed among these distances:
82 30 0.13
83 1 0.00
84 4 0.02
85 1 0.00
86 62 0.27
87 67 0.29
88 62 0.27
89 1 0.00
90 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
GTCAAAGCCCACATGAGTTGGTGGCACCTAAGTTCGAGTCAAGTCCACATTAGTTGGCACCTGTC
TAAGGAGGTTAAGCCTTAGAAT
Found at i:61968 original size:37 final size:37
Alignment explanation
Indices: 61927--61997 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
61917 GCAGCACCTA
* * *
61927 AGTCAAGGCTCACACAAGCTGGTGGCAACCTAGTTCG
1 AGTCAAAGCCCACACAAGCTGGCGGCAACCTAGTTCG
61964 AGTCAAAGCCCACACAAGCTGGCGGCAACCTAGT
1 AGTCAAAGCCCACACAAGCTGGCGGCAACCTAGT
61998 CTGAGTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (37 bp):
AGTCAAAGCCCACACAAGCTGGCGGCAACCTAGTTCG
Found at i:65872 original size:163 final size:163
Alignment explanation
Indices: 65673--65980 Score: 467
Period size: 163 Copynumber: 1.9 Consensus size: 163
65663 AATTATGCAT
* *
65673 TTTTCTTCTCCGTAAATTTTTTTCGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTTCGGAGGATTTTTCTTAATTTTCAATTTTTAAAATTCATCAAA
* * *
65738 CATTATCATTTATCTCATATTAATTTACGTTTTTAAAAATTCATTCATTTTCATGAGCTTTTGA-
66 CATTATCATTTATCTCATATTAATTCA-GTTTTCAAAAATTCATTCATTTTCATAAGCTTTTGAT
65802 TTTTTTCCTTGAAACTTTTTTTCGAAATACGATG
130 TTTTTTCCTTGAAACTTTTTTTCGAAATACGATG
* * **
65836 TTTTCTACTCCGTAAA-TTTTTTCGGGGGGGTTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTTC-GGAGGATTTTTCTTAATTTTCAATTTTTAAAATTCATCAA
* * *
65900 ACATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTTAT
65 ACATTATCATTTATCTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATAAGCTTTTGAT
*
65965 TTTTTTCTTTGAAACT
130 TTTTTTCCTTGAAACT
65981 CCCATTTTTT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
162 39 0.30
163 91 0.70
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.52
Consensus pattern (163 bp):
TTTTCTACTCCGTAAATTTTTTTCGGAGGATTTTTCTTAATTTTCAATTTTTAAAATTCATCAAA
CATTATCATTTATCTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATAAGCTTTTGATT
TTTTTCCTTGAAACTTTTTTTCGAAATACGATG
Found at i:67865 original size:168 final size:168
Alignment explanation
Indices: 67574--68351 Score: 1274
Period size: 168 Copynumber: 4.6 Consensus size: 168
67564 TATTTCCATA
* * *
67574 TTAATTATCTTTTTTAATCTTTTATATTCTTAT-AGGCATCTGTAGGGGTATAAAAGATTTTCAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGA-GCATCCGTAGGGGTATAAAAGATTTTCAA
* * *
67638 AAACTTTTCGTATCTTTTCGGGCTTCCATTAAGGTACGAAATAATATTTTTCAAAATTAAATAAA
65 AAACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTAAATAAA
* * **
67703 TAAATAATTAAATTAACACTTTCATAACCAAAATAAATT
130 TAAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
*
67742 TTAATCATCTTTTTTAATCTTTTATATTCCTATGAGCATCCGTAGGGGAATAAAAGATTTTCAAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTTCAAA
* * *
67807 AACTTTTCGTATCTTTTTGGGCTTTTATTAAAGTACGAAATGATATTTTTCGAAATTAAATAAAT
66 AACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTAAATAAAT
*
67872 AAATAATTAAATTAACATTTTCATAATAAAAATAAATT
131 AAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
67910 TTAATCATCTTTTTTAATCTTTTATATTCCTATG-GCCATCCGTAGGGGTATAAAAGATTTTCAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGAG-CATCCGTAGGGGTATAAAAGATTTTCAA
*
67974 AAACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTTGAAATTAAATAAA
65 AAACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTAAATAAA
68039 TAAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
130 TAAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
* *
68078 TTAATCATATTTTTTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTTCAAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTTCAAA
** *
68143 AACTTTTCGTATCTTTTCAAGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTACATAAAT
66 AACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTAAATAAAT
*
68208 AAATAATTAAATTAAAATTTTCATAATCAAAATAAATT
131 AAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
* * *
68246 TTAATTATCTTTTTTAATCTTTTATATTCCTAAGGGCATCCGTAGGGGTATAAAAGATTTTC-AA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTTCAAA
* *
68310 AACTTTTCGTATCTTTTCGGGCTTCCATTAAGGTACTAAATG
66 AACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATG
68352 GAATTTTCAA
Statistics
Matches: 575, Mismatches: 32, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
167 41 0.07
168 532 0.93
169 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (168 bp):
TTAATCATCTTTTTTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTTCAAA
AACTTTTCGTATCTTTTCGGGCTTCTATTAAGGTACGAAATGATATTTTTCGAAATTAAATAAAT
AAATAATTAAATTAAAATTTTCATAATAAAAATAAATT
Found at i:67910 original size:19 final size:20
Alignment explanation
Indices: 67874--67911 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67864 AAATAAATAA
* *
67874 ATAATTAAATTAACATTTTC
1 ATAATAAAAATAACATTTTC
67894 ATAATAAAAATAA-ATTTT
1 ATAATAAAAATAACATTTT
67912 AATCATCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATAAAAATAACATTTTC
Found at i:68758 original size:154 final size:154
Alignment explanation
Indices: 68501--68934 Score: 663
Period size: 154 Copynumber: 2.8 Consensus size: 154
68491 TATATGGAAG
* * * * * **
68501 GTATCCCCTAAGGGCGTTTTTTTAATTTTTCAAAACCAAGTCCTAGGCTATCACTAGGTCCACTT
1 GTATCCCCTAAGGGCATTTTTTTATTTTTTCAGAACCGAGTCCTAGGTTATCACCGGGTCCACTT
*
68566 TTATGCTGAAGGTAGGCATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTAAGG
66 TTATGCTGAAGGTGGGCATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTAAGG
*
68631 GTATCGGGTACTTCTACGTTGAAA
131 GTATCGAGTACTTCTACGTTGAAA
* * * *
68655 GTATTCCCTAAGGGCATTTTTGTATTTTTTCAGAATCGAGTCCTAGGTTATCACCGGGTCCGCTT
1 GTATCCCCTAAGGGCATTTTTTTATTTTTTCAGAACCGAGTCCTAGGTTATCACCGGGTCCACTT
* * * *
68720 TTATGCTGAAGCTGGGCATTTAGGATAGGTTCACGCCATCCACATCCTTTTTCAGTCCTTTAGGG
66 TTATGCTGAAGGTGGGCATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTAAGG
68785 GTATCGAGTACTTCTACGTTGAAA
131 GTATCGAGTACTTCTACGTTGAAA
* * *
68809 GTATCCCCTAGGGGCATTTTTTTATTTTTTTAGAACCGAGTCCTAGGTTATCACCGGGTTCACTT
1 GTATCCCCTAAGGGCATTTTTTTATTTTTTCAGAACCGAGTCCTAGGTTATCACCGGGTCCACTT
* *
68874 TTATGCCGAAGGTGGGCA-TTAGGATAGGTTCATGCCTTCCACATCCTTTTTTAGTCCTTTA
66 TTATGCTGAAGGTGGGCATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTA
68935 GGCATATCAA
Statistics
Matches: 251, Mismatches: 29, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
153 40 0.16
154 211 0.84
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (154 bp):
GTATCCCCTAAGGGCATTTTTTTATTTTTTCAGAACCGAGTCCTAGGTTATCACCGGGTCCACTT
TTATGCTGAAGGTGGGCATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTAAGG
GTATCGAGTACTTCTACGTTGAAA
Found at i:69066 original size:116 final size:115
Alignment explanation
Indices: 68840--69053 Score: 322
Period size: 116 Copynumber: 1.8 Consensus size: 115
68830 TTATTTTTTT
* *
68840 AGAACCGAGTCCTAGGTTATCACCGGGTTCACTTTTATGCCGAAGGTGGGCATTAGGATAGGTTC
1 AGAACCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCCAAAGGTGGGCATTAGGATAGGTTC
*
68905 ATGCCTTCCACATCCTTTTTTAGTCCTTTAGGCATATCAAATACTTTTACG
66 A-GCCTTCCACATCCTATTTTAGTCCTTTAGGCATATCAAATACTTTTACG
* ** *
68956 AGAACCGAGTCCTAGGTTATTATTGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTT
1 AGAACCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCCAAAGGTGGGCA-TTAGGATAGGTT
69021 CA-CACTATCCACATCCTATTTTAGTCCTTTAGG
65 CAGC-CT-TCCACATCCTATTTTAGTCCTTTAGG
69054 GTATCAGGTA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
115 1 0.01
116 48 0.55
117 39 0.44
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (115 bp):
AGAACCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCCAAAGGTGGGCATTAGGATAGGTTC
AGCCTTCCACATCCTATTTTAGTCCTTTAGGCATATCAAATACTTTTACG
Found at i:69334 original size:154 final size:155
Alignment explanation
Indices: 68963--69398 Score: 517
Period size: 154 Copynumber: 2.9 Consensus size: 155
68953 ACGAGAACCG
* * * * *
68963 AGTCCTAGGTTATTATTGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACACTA
1 AGTCCTAGGTTATCACTAGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCACACCA
* *
69028 TCCACATCCTATTTTAGTCCTTTA-GGGTATC-AGGTACTTCTGCGTCGAAAGTATCTCC-TAGG
66 TCCACATCCTTTTTTAGTCCTTTAGGGGTATCGA-GTACTTCTACGTCGAAAGTATC-CCTTAGG
* *
69090 GGCATTTTTGTATTTGTTTCAGAACTT
129 GGCAATTTTGTATTTGTTTCAGAACTA
* * * *
69117 AGTCTTAGGTTATCACTAGGT---C---TA--CTGAAGGTGGGCATTTAGGATAGATTCACGCCA
1 AGTCCTAGGTTATCACTAGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCACACCA
*
69174 TCCACATCCTTTTTTAGTCCTTTAGGGGTATCGAGTACTTCTATGTCGAAAGTATCCCTTAGGGG
66 TCCACATCCTTTTTTAGTCCTTTAGGGGTATCGAGTACTTCTACGTCGAAAGTATCCCTTAGGGG
*
69239 TAATTTTGTAATTT-TTT-AGAA-TCA
131 CAATTTTGT-ATTTGTTTCAGAACT-A
* *
69263 AGTCCTAGGTTATCACCAGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCACCCCA
1 AGTCCTAGGTTATCACTAGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCACACCA
* * * * *
69328 TCCACATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTTCTACGTCGAATGTAT-CCTCTAGGG
66 TCCACATCCTTTTTTAGTCCTTTAGGGGTATCGAGTACTTCTACGTCGAAAGTATCCCT-TAGGG
69392 GC-ATTTT
130 GCAATTTT
69399 CGTTTATTTT
Statistics
Matches: 241, Mismatches: 27, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
145 1 0.00
146 76 0.32
147 43 0.18
148 7 0.03
149 1 0.00
151 1 0.00
152 2 0.01
153 8 0.03
154 102 0.42
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (155 bp):
AGTCCTAGGTTATCACTAGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCACACCA
TCCACATCCTTTTTTAGTCCTTTAGGGGTATCGAGTACTTCTACGTCGAAAGTATCCCTTAGGGG
CAATTTTGTATTTGTTTCAGAACTA
Found at i:72657 original size:17 final size:17
Alignment explanation
Indices: 72635--72673 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
72625 AACATTAAAG
72635 GTAGCACTTACATTACC
1 GTAGCACTTACATTACC
72652 GTAGCACTTACATTACC
1 GTAGCACTTACATTACC
*
72669 ATAGC
1 GTAGC
72674 TGCTTGGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (17 bp):
GTAGCACTTACATTACC
Found at i:84547 original size:10 final size:10
Alignment explanation
Indices: 84532--84557 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
84522 TAACTATCTT
84532 TTTTTTTTTC
1 TTTTTTTTTC
84542 TTTTTTTTTC
1 TTTTTTTTTC
84552 TTTTTT
1 TTTTTT
84558 GAAGATGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:85406 original size:58 final size:58
Alignment explanation
Indices: 85301--85417 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 58
85291 AACAATAGGC
* * * **
85301 CCATAAATATATGCAAATTGGGCTCAACTCTTCTTGGATATGTGAATTGAGCTCCAAG
1 CCATAAATACATGCAAATTAGGCTCAACTCTTCTTGGACATACGAATTGAGCTCCAAG
* * *
85359 CCATGAATACATGCAAATTAGGCTTC-ACTTTTCTTGGACATACGAATTGGGCTCCAAG
1 CCATAAATACATGCAAATTAGGC-TCAACTCTTCTTGGACATACGAATTGAGCTCCAAG
85417 C
1 C
85418 TTTATTCTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
58 48 0.96
59 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (58 bp):
CCATAAATACATGCAAATTAGGCTCAACTCTTCTTGGACATACGAATTGAGCTCCAAG
Found at i:99428 original size:21 final size:21
Alignment explanation
Indices: 99404--99447 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
99394 TTAAATTTTA
99404 TTTGATAA-TAATATTTATCAT
1 TTTGATAATTAA-ATTTATCAT
* *
99425 TTTGTTAATTAAATTTATTAT
1 TTTGATAATTAAATTTATCAT
99446 TT
1 TT
99448 AATTTAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTGATAATTAAATTTATCAT
Done.