Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008597.1 Hibiscus syriacus cultivar Beakdansim tig00111546_pilon, whole genome shotgun sequence
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: 105663
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3209 original size:28 final size:29
Alignment explanation
Indices: 3176--3234 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
3166 AAATTAATGT
*
3176 TATTTCAAGTTTTAATTAATAAGAAT-TA
1 TATTTCAAGTTTTAATTAATAAAAATATA
*
3204 TATTTCGAGTTTTAATTAATAAAAATATA
1 TATTTCAAGTTTTAATTAATAAAAATATA
3233 TA
1 TA
3235 GGTGCTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (29 bp):
TATTTCAAGTTTTAATTAATAAAAATATA
Found at i:7031 original size:15 final size:14
Alignment explanation
Indices: 7011--7073 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
7001 CAGATAAAAA
7011 AATATAATCTTAATT
1 AATATAATCTTAA-T
*
7026 AATATAAACCTTAAT
1 AATAT-AATCTTAAT
*
7041 AATA-AATATTAATCT
1 AATATAATCTTAA--T
7056 AATATAAT-TTAAT
1 AATATAATCTTAAT
7069 AATAT
1 AATAT
7074 TGTATAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
13 12 0.29
15 19 0.46
16 10 0.24
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAATCTTAAT
Found at i:9719 original size:23 final size:22
Alignment explanation
Indices: 9677--9757 Score: 108
Period size: 23 Copynumber: 3.6 Consensus size: 22
9667 ATTCTACCTG
*
9677 TATGACACATTTTTTCTGTCTT
1 TATGACACATTTTTTTTGTCTT
*
9699 TATGACATATTTTTCTTTGTCTT
1 TATGACACATTTTT-TTTGTCTT
* *
9722 TATGACACAATTTTATTTATCTT
1 TATGACAC-ATTTTTTTTGTCTT
9745 TATGACACATTTT
1 TATGACACATTTT
9758 CGTTCATTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 18 0.35
23 29 0.56
24 5 0.10
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.54
Consensus pattern (22 bp):
TATGACACATTTTTTTTGTCTT
Found at i:15467 original size:20 final size:20
Alignment explanation
Indices: 15442--15483 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15432 CCTTGATAAT
*
15442 TATAGGGTGAAGTATACAAA
1 TATAGGGTAAAGTATACAAA
15462 TATAGGGTAAAGTATACAAA
1 TATAGGGTAAAGTATACAAA
15482 TA
1 TA
15484 ATCCCTCGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
TATAGGGTAAAGTATACAAA
Found at i:33698 original size:18 final size:18
Alignment explanation
Indices: 33675--33711 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33665 GAAGGCGGCG
*
33675 GCGGCATCATATATGGTT
1 GCGGCATCATAAATGGTT
33693 GCGGCATCATAAATGGTT
1 GCGGCATCATAAATGGTT
33711 G
1 G
33712 TGGTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (18 bp):
GCGGCATCATAAATGGTT
Found at i:35440 original size:17 final size:18
Alignment explanation
Indices: 35399--35437 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
35389 ATTATATTAG
35399 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
35416 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
35434 TAAA
1 TAAA
35438 TACATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:40362 original size:6 final size:6
Alignment explanation
Indices: 40351--40384 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
40341 CTAAAAACCC
40351 ACTCTA ACTCTA ACTCTA ACTCTA ACTCTA ACTC
1 ACTCTA ACTCTA ACTCTA ACTCTA ACTCTA ACTC
40385 GTCTTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTCTA
Found at i:41084 original size:13 final size:13
Alignment explanation
Indices: 41066--41097 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
41056 ACGATTAAAT
41066 ATGTCATAATTAA
1 ATGTCATAATTAA
41079 ATGTCATAATTAA
1 ATGTCATAATTAA
41092 ATGTCA
1 ATGTCA
41098 ATCTACAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (13 bp):
ATGTCATAATTAA
Found at i:41501 original size:21 final size:21
Alignment explanation
Indices: 41475--41550 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
41465 GAATATGTAA
* *
41475 ATCGCAATGCGATAGTCGATT
1 ATCGCATTGCGATAGTCGACT
* * *
41496 ATCGCATTGCGATAGCCCAAGT
1 ATCGCATTGCGATAG-TCGACT
41518 -TCGCATTGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
41538 ATCGCATTGCGAT
1 ATCGCATTGCGAT
41551 TTACATATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:41564 original size:20 final size:22
Alignment explanation
Indices: 41539--41595 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 22
41529 TAGTCGACTA
41539 TCGCATTGCGATTTACATATTCGC
1 TCGCATTGCGATTTACATATT--C
41563 ATCGCATTGCGATTTACATA-T-
1 -TCGCATTGCGATTTACATATTC
41584 TCGCATTGCGAT
1 TCGCATTGCGAT
41596 AATCCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.38
24 1 0.03
25 19 0.59
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (22 bp):
TCGCATTGCGATTTACATATTC
Found at i:41572 original size:25 final size:25
Alignment explanation
Indices: 41538--41589 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
41528 ATAGTCGACT
41538 ATCGCATTGCGATTTACATATTCGC
1 ATCGCATTGCGATTTACATATTCGC
41563 ATCGCATTGCGATTTACATATTCGC
1 ATCGCATTGCGATTTACATATTCGC
41588 AT
1 AT
41590 TGCGATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (25 bp):
ATCGCATTGCGATTTACATATTCGC
Found at i:41609 original size:21 final size:21
Alignment explanation
Indices: 41583--41636 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
41573 GATTTACATA
41583 TTCGCATTGCGATAATCCAAG
1 TTCGCATTGCGATAATCCAAG
* *
41604 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAATCCAAG
*
41625 TTCGCGTTGCGA
1 TTCGCATTGCGA
41637 ATCTGAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAATCCAAG
Found at i:46955 original size:205 final size:205
Alignment explanation
Indices: 46603--47012 Score: 802
Period size: 205 Copynumber: 2.0 Consensus size: 205
46593 TTCTCAAATG
*
46603 GTGATTTTCAGTTAGCCTCTTATGCAGAACCATTCTGTGCTAGCACACTACTAGATTTTGAATTA
1 GTGATTTTCAGTTAGCCTATTATGCAGAACCATTCTGTGCTAGCACACTACTAGATTTTGAATTA
46668 ATTTAGATGTTAAGTTCATGATCTATTTTGGCACAAATTACTATCTTCATTTAGTTGTACAAGAA
66 ATTTAGATGTTAAGTTCATGATCTATTTTGGCACAAATTACTATCTTCATTTAGTTGTACAAGAA
46733 AAACAATCACATCATGCCATGTTTTATCTGGAATAGTTGTCCTTGGATTGATGAAAATTTCATCA
131 AAACAATCACATCATGCCATGTTTTATCTGGAATAGTTGTCCTTGGATTGATGAAAATTTCATCA
46798 GCCTTTGTTT
196 GCCTTTGTTT
46808 GTGATTTTCAGTTAGCCTATTATGCAGAACCATTCTGTGCTAGCACACTACTAGATTTTGAATTA
1 GTGATTTTCAGTTAGCCTATTATGCAGAACCATTCTGTGCTAGCACACTACTAGATTTTGAATTA
46873 ATTTAGATGTTAAGTTCATGATCTATTTTGGCACAAATTACTATCTTCATTTAGTTGTACAAGAA
66 ATTTAGATGTTAAGTTCATGATCTATTTTGGCACAAATTACTATCTTCATTTAGTTGTACAAGAA
*
46938 AAACAATCATATCATGCCATGTTTTATCTGGAATAGTTGTCCTTGGATTGATGAAAATTTCATCA
131 AAACAATCACATCATGCCATGTTTTATCTGGAATAGTTGTCCTTGGATTGATGAAAATTTCATCA
47003 GCCTTTGTTT
196 GCCTTTGTTT
47013 TATCTTCTCA
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
205 203 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (205 bp):
GTGATTTTCAGTTAGCCTATTATGCAGAACCATTCTGTGCTAGCACACTACTAGATTTTGAATTA
ATTTAGATGTTAAGTTCATGATCTATTTTGGCACAAATTACTATCTTCATTTAGTTGTACAAGAA
AAACAATCACATCATGCCATGTTTTATCTGGAATAGTTGTCCTTGGATTGATGAAAATTTCATCA
GCCTTTGTTT
Found at i:48225 original size:2 final size:2
Alignment explanation
Indices: 48218--48251 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48208 ATAGTTCTAC
48218 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
48252 GGGTCACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49570 original size:17 final size:17
Alignment explanation
Indices: 49548--49586 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
49538 TGAATCAAAT
49548 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
49565 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
49582 -AATTA
1 TAATTA
49587 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:60963 original size:20 final size:21
Alignment explanation
Indices: 60938--60977 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60928 ATTGCAAATT
*
60938 ATATAAC-TTTTAGGTTAAAC
1 ATATAACATTTTAGATTAAAC
60958 ATATAACATTTTAGATTAAA
1 ATATAACATTTTAGATTAAA
60978 AACTATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
ATATAACATTTTAGATTAAAC
Found at i:69168 original size:20 final size:20
Alignment explanation
Indices: 69145--69196 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
69135 AACGCGATCC
69145 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
69165 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
69185 CCAAAATCGCAA
1 CCAGAATCGCAA
69197 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:69213 original size:21 final size:20
Alignment explanation
Indices: 69186--69284 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
69176 AATCAGTTTC
69186 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
69207 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
69228 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
69248 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
69269 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
69285 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:69313 original size:20 final size:20
Alignment explanation
Indices: 69251--69444 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
69241 CGATTTTCCA
* ** *
69251 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
69271 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
69291 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
69311 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
69331 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
69351 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
69371 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
69391 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
69411 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
69432 AAATCGCAACGCG
1 AAATCGCAACGCG
69445 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:69335 original size:60 final size:60
Alignment explanation
Indices: 69251--69444 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
69241 CGATTTTCCA
* ** * *
69251 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
69311 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
69371 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
69432 AAATCGCAACGCG
1 AAATCGCAACGCG
69445 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:69865 original size:33 final size:33
Alignment explanation
Indices: 69826--69896 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
69816 TTCACTTAGA
*
69826 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
69859 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
69892 TTTCA
1 TTTCA
69897 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:70036 original size:14 final size:14
Alignment explanation
Indices: 70017--70071 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
70007 AGAATGACTG
70017 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
70031 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
70050 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
70064 TCGCAACG
1 TCGCAACG
70072 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:70084 original size:33 final size:33
Alignment explanation
Indices: 70017--70087 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
70007 AGAATGACTG
***
70017 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
70050 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
70083 TCGCA
1 TCGCA
70088 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:70105 original size:19 final size:19
Alignment explanation
Indices: 70083--70180 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
70073 GAAACCAAAA
*
70083 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
70102 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
70116 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
70135 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
70149 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
70168 TCGCGTTGCGATT
1 TCGCGTTGCGATT
70181 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:70124 original size:14 final size:14
Alignment explanation
Indices: 70105--70194 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
70095 TTTCATTTCG
70105 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
70119 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
70138 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
70152 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
70169 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
70185 CGTTGCGATT
1 CGTTGCGATT
70195 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:70130 original size:33 final size:33
Alignment explanation
Indices: 70088--70202 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
70078 CAAAATCGCA
70088 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
70121 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
70154 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
70187 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
70203 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:72128 original size:185 final size:186
Alignment explanation
Indices: 71900--72371 Score: 921
Period size: 185 Copynumber: 2.5 Consensus size: 186
71890 TAGATTGCTT
71900 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
71964 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
72029 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCGTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
72084 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
72149 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
72214 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
72270 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
72335 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
72372 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 13 0.05
185 141 0.49
186 131 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
Found at i:72213 original size:93 final size:93
Alignment explanation
Indices: 71900--72371 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
71890 TAGATTGCTT
71900 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
71964 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
71992 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
72056 TTTGTCGTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
72084 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
72149 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
72177 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
72242 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
72270 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
72335 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
72363 AGTAAATTT
1 AGTAAATTT
72372 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
92 104 0.28
93 272 0.72
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:72455 original size:19 final size:19
Alignment explanation
Indices: 72415--72549 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
72405 TAGTTTACTT
* *
72415 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
72435 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
72454 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
72473 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
72487 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
72506 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
**
72520 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
72539 TCGCAATGCGA
1 TCGCAACGCGA
72550 TTTTCATTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
14 19 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 50 0.53
20 13 0.14
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:72494 original size:33 final size:32
Alignment explanation
Indices: 72451--72544 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
72441 CGCGAAACCA
72451 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
**
72483 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
72516 AAGATCGCAACGCGAAATGAAAATCGCAA
1 AA-ATCGCAACGCGAAATGAAAATCGCAA
72545 TGCGATTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:72541 original size:52 final size:51
Alignment explanation
Indices: 72415--72549 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
72405 TAGTTTACTT
*
72415 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
72467 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAATGA-A-AATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
* *
72520 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACACGAAATGAAAATCGCAACGCGA
72550 TTTTCATTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 44 0.66
53 4 0.06
54 7 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (51 bp):
TCGCAACACGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:72567 original size:19 final size:19
Alignment explanation
Indices: 72545--72673 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
72535 AAAATCGCAA
**
72545 TGCGATTTTCATTTCTTGT
1 TGCGATTTTCATTTCGCGT
72564 TGCGA--TTC-TTT--CGT
1 TGCGATTTTCATTTCGCGT
*
72578 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
72597 TGCGA--TTC-TGT--CGT
1 TGCGATTTTCATTTCGCGT
72611 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
**
72630 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
* *
72649 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
72669 TGCGA
1 TGCGA
72674 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 14 0.16
16 11 0.12
17 11 0.12
19 41 0.46
20 12 0.13
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:72587 original size:12 final size:14
Alignment explanation
Indices: 72562--72617 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
72552 TTCATTTCTT
72562 GTTGCGATTCTTTC
1 GTTGCGATTCTTTC
72576 GTTGCGATTTTCATTTC
1 GTTGCGA--TTC-TTTC
*
72593 GCATTGCGATTCTGTC
1 G--TTGCGATTCTTTC
72609 GTTGCGATT
1 GTTGCGATT
72618 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 15 0.42
16 7 0.19
17 8 0.22
19 6 0.17
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (14 bp):
GTTGCGATTCTTTC
Found at i:72587 original size:33 final size:33
Alignment explanation
Indices: 72545--72636 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
72535 AAAATCGCAA
** *
72545 TGCGATTTTCATTTCTTGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
*
72578 TGCGATTTTCATTTCGCATTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
72611 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
72637 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.49
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
Found at i:74590 original size:14 final size:14
Alignment explanation
Indices: 74571--74606 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
74561 ATTGTTTAAT
74571 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
74585 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
74599 TGATTTGT
1 TGATTTGT
74607 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:74728 original size:19 final size:19
Alignment explanation
Indices: 74712--74811 Score: 124
Period size: 19 Copynumber: 5.6 Consensus size: 19
74702 CAAAATGACT
*
74712 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
74731 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
74749 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
74763 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
74782 ATCGCAATGCAGAAATG-AA
1 ATCGCAATGC-GAAATGAAA
74801 ATCGCAATGCG
1 ATCGCAATGCG
74812 TTTATAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.01
14 9 0.13
16 4 0.06
18 11 0.15
19 40 0.56
20 6 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:74860 original size:33 final size:33
Alignment explanation
Indices: 74818--75145 Score: 217
Period size: 33 Copynumber: 9.5 Consensus size: 33
74808 TGCGTTTATA
74818 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
74851 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
74887 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
74922 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
74960 ATTTCGCATTGCGATTATGTCGGTT-CGATTTTC
1 ATTTCGCATTGCGATTATCTC-GTTGCGATTTTC
*
74993 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
75033 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
75064 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* * *
75097 ATTTCGCGTTGCGATTTTCAT-GTTGGGATTTTC
1 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
*
75130 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
75146 GTATTTTCCG
Statistics
Matches: 251, Mismatches: 20, Indels: 48
0.79 0.06 0.15
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 126 0.50
34 3 0.01
35 19 0.08
36 20 0.08
37 4 0.02
38 53 0.21
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:74864 original size:19 final size:19
Alignment explanation
Indices: 74840--75145 Score: 356
Period size: 19 Copynumber: 17.4 Consensus size: 19
74830 GATTATCTCG
74840 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74859 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74878 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
74892 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74911 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74930 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
74949 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
74968 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
74983 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75001 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
75020 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
75034 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75053 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
75072 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
75086 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
75105 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
75119 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
75138 TTGCGATT
1 TTGCGATT
75146 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 50
0.80 0.04 0.16
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 31 0.12
18 2 0.01
19 151 0.61
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:75080 original size:52 final size:52
Alignment explanation
Indices: 74840--75117 Score: 352
Period size: 52 Copynumber: 5.2 Consensus size: 52
74830 GATTATCTCG
*
74840 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
74892 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
74949 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
75001 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
*
75053 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
75105 TTGCGATTTTCAT
1 TTGCGATTTTCAT
75118 GTTGGGATTT
Statistics
Matches: 211, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 168 0.80
53 2 0.01
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:77462 original size:13 final size:13
Alignment explanation
Indices: 77444--77468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77434 CTTCGGGGAC
77444 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
77457 TTTTTCTTCTTC
1 TTTTTCTTCTTC
77469 AGGATTATAT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:78387 original size:20 final size:20
Alignment explanation
Indices: 78359--78727 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
78349 AAATTTCAGT
* * * *
78359 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
78379 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
78399 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
78419 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
78439 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
78459 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
78479 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
78499 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
78519 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
78539 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
78559 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
78579 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
78599 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
78619 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
78639 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
78659 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
78679 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
78699 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
78719 GTTGCGATT
1 GTTGCGATT
78728 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:79079 original size:19 final size:21
Alignment explanation
Indices: 79038--79079 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
79028 GGTATTTTAG
*
79038 GGTTTGTTTGATTATTGTGTT
1 GGTTTGTTTGATTATTGTATT
*
79059 GGTTT-TTT-ATTTTTGTATT
1 GGTTTGTTTGATTATTGTATT
79078 GG
1 GG
79080 GTTTCAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.10, C:0.00, G:0.26, T:0.64
Consensus pattern (21 bp):
GGTTTGTTTGATTATTGTATT
Found at i:83769 original size:24 final size:24
Alignment explanation
Indices: 83742--83789 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
83732 TATATTTTAT
*
83742 ATAAATCAAATAAAAACATATGAA
1 ATAAATAAAATAAAAACATATGAA
* * *
83766 ATAATTAAAATTAAAACATTTGAA
1 ATAAATAAAATAAAAACATATGAA
83790 GTTTTAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (24 bp):
ATAAATAAAATAAAAACATATGAA
Found at i:84270 original size:73 final size:75
Alignment explanation
Indices: 84134--84337 Score: 240
Period size: 73 Copynumber: 2.7 Consensus size: 75
84124 TGCAGACGGT
* * *
84134 TTTTTGAAAATATGTATATAATAAATAGTTTTTCTAAAACATTTTTGAAAACTATATAATATATA
1 TTTTAGAAAATA--TATATAATATATA-TTTTT-AAAAACATTTTTGAAAACTATATAATATATA
84199 GTTTTT-AAAAT-A
62 GTTTTTGAAAATGA
84211 TTTTAGAAAATATATATAATATATGATTTTTAAAAAGCATTTTT-AAAACT-TATAATATATAGT
1 TTTTAGAAAATATATATAATATAT-ATTTTTAAAAA-CATTTTTGAAAACTATATAATATATAGT
*
84274 TTTTGAAAATGT
64 TTTTGAAAATGA
* * * *
84286 TTTTA-AAACT-TATATAATATATAATTTTAAAAACATTTTTGGAAATTATATA
1 TTTTAGAAAATATATATAATATATATTTTTAAAAACATTTTTGAAAACTATATA
84338 GTTTTAAAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
71 7 0.06
72 14 0.12
73 33 0.29
74 19 0.17
75 28 0.25
76 1 0.01
77 11 0.10
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (75 bp):
TTTTAGAAAATATATATAATATATATTTTTAAAAACATTTTTGAAAACTATATAATATATAGTTT
TTGAAAATGA
Found at i:84355 original size:32 final size:32
Alignment explanation
Indices: 84314--84402 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 32
84304 ATATAATTTT
*
84314 AAAAACATTTTTGGAAATTATATAGTTTTAAA
1 AAAAACATTTTTGAAAATTATATAGTTTTAAA
***
84346 AAAAACATTTTTGAAAATTATATAGTTTTTTT
1 AAAAACATTTTTGAAAATTATATAGTTTTAAA
84378 AAAAACATTTTTGAAAATTTATATA
1 AAAAACATTTTTGAAAA-TTATATA
84403 TAATATATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 45 0.87
33 7 0.13
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (32 bp):
AAAAACATTTTTGAAAATTATATAGTTTTAAA
Found at i:86230 original size:19 final size:20
Alignment explanation
Indices: 86189--86251 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 20
86179 AATCATTTCA
* * *
86189 TTAATACAT-TAATAAACAA
1 TTAATAAATATAATACACAT
* *
86208 TTAATAAATTTAATA-ACTT
1 TTAATAAATATAATACACAT
86227 TTAAT-AATATAATACACAT
1 TTAATAAATATAATACACAT
86246 TTAATA
1 TTAATA
86252 TATACTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.22
19 23 0.64
20 5 0.14
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATAAATATAATACACAT
Found at i:87240 original size:15 final size:15
Alignment explanation
Indices: 87220--87249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87210 CTCTATGCGA
87220 CTCTTCGTCATCTTC
1 CTCTTCGTCATCTTC
*
87235 CTCTTCTTCATCTTC
1 CTCTTCGTCATCTTC
87250 TATCAACTTA
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:0.07, C:0.40, G:0.03, T:0.50
Consensus pattern (15 bp):
CTCTTCGTCATCTTC
Found at i:98839 original size:26 final size:26
Alignment explanation
Indices: 98809--98871 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
98799 ATACATATCA
*
98809 TGTCATCACTTTGAACATATAAGATT
1 TGTCATCACTTTGAACATATAAGACT
98835 TGTCATCACTTTGAACATATAAGACT
1 TGTCATCACTTTGAACATATAAGACT
98861 TGTCATCACTT
1 TGTCATCACTT
98872 ATGTACATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (26 bp):
TGTCATCACTTTGAACATATAAGACT
Done.