Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000997.1 Hibiscus syriacus cultivar Beakdansim tig00001997_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: 96913
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Found at i:1359 original size:2 final size:2
Alignment explanation
Indices: 1325--1351 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1315 ATAAGAGATA
1325 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1352 GTTATATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1380 original size:21 final size:22
Alignment explanation
Indices: 1345--1385 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1335 ATATATATAT
*
1345 ATATATAGTTATATAAGACTTG
1 ATATATAGATATATAAGACTTG
*
1367 ATATA-AGATATATATGACT
1 ATATATAGATATATAAGACT
1386 AAGTGAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (22 bp):
ATATATAGATATATAAGACTTG
Found at i:1635 original size:33 final size:32
Alignment explanation
Indices: 1576--1682 Score: 128
Period size: 32 Copynumber: 3.4 Consensus size: 32
1566 AAGAGTCGAG
*
1576 GATTACCTATGCCTTTCGGGACATATGGACAA
1 GATTACCTATGTCTTTCGGGACATATGGACAA
* * * *
1608 GATTACTTATGTCTTTCGGGGACATATGAATAT
1 GATTACCTATGTCTTTC-GGGACATATGGACAA
* *
1641 GATTACCTATATCCTTCGGGACATATGGAC-A
1 GATTACCTATGTCTTTCGGGACATATGGACAA
1672 -ATTACCTATGT
1 GATTACCTATGT
1683 TCTTATAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
30 10 0.16
32 26 0.42
33 26 0.42
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (32 bp):
GATTACCTATGTCTTTCGGGACATATGGACAA
Found at i:2394 original size:20 final size:19
Alignment explanation
Indices: 2371--2430 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
2361 ATTACTGTTC
*
2371 ACACAGTATCGGTACTATTT
1 ACACAGTAT-AGTACTATTT
*
2391 ACACAGTATTAATACTATTT
1 ACACAGTA-TAGTACTATTT
*
2411 ATACAGTATAGTACTATTT
1 ACACAGTATAGTACTATTT
2430 A
1 A
2431 TAAAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.31
20 23 0.66
21 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ACACAGTATAGTACTATTT
Found at i:2427 original size:19 final size:20
Alignment explanation
Indices: 2382--2432 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2372 CACAGTATCG
*
2382 GTACTATTTACACAGTATTA
1 GTACTATTTATACAGTATTA
*
2402 ATACTATTTATACAGTA-TA
1 GTACTATTTATACAGTATTA
2421 GTACTATTTATA
1 GTACTATTTATA
2433 AAAATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (20 bp):
GTACTATTTATACAGTATTA
Found at i:7422 original size:20 final size:20
Alignment explanation
Indices: 7399--7436 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7389 TTACTGTTCA
*
7399 CACAGTATCGGTACTATTTG
1 CACAGTATCGATACTATTTG
7419 CACAGTATCGATACTATT
1 CACAGTATCGATACTATT
7437 CATATAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (20 bp):
CACAGTATCGATACTATTTG
Found at i:7453 original size:19 final size:19
Alignment explanation
Indices: 7429--7478 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
7419 CACAGTATCG
* *
7429 ATACTATTCATATAGTATA
1 ATACTATTCATACAATATA
7448 ATACTATTCATACAATATA
1 ATACTATTCATACAATATA
* *
7467 GTGCTATTCATA
1 ATACTATTCATA
7479 AAAACATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (19 bp):
ATACTATTCATACAATATA
Found at i:8911 original size:20 final size:22
Alignment explanation
Indices: 8888--8927 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
8878 TAGAATAAAT
8888 TATTAATTT-T-TTAAATATAA
1 TATTAATTTATGTTAAATATAA
*
8908 TATTATTTTATGTTAAATAT
1 TATTAATTTATGTTAAATAT
8928 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTAATTTATGTTAAATATAA
Found at i:11485 original size:18 final size:17
Alignment explanation
Indices: 11445--11489 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
11435 AATTTAAATA
11445 TAATATTAGTTTTTTAAT
1 TAATATTA-TTTTTTAAT
11463 T--TATTATATTTTTAAT
1 TAATATTAT-TTTTTAAT
11479 TAATATTATTT
1 TAATATTATTT
11490 ATCTTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 1 0.04
16 14 0.58
17 2 0.08
18 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TAATATTATTTTTTAAT
Found at i:11802 original size:23 final size:23
Alignment explanation
Indices: 11773--11824 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
11763 ATTAATTTAT
11773 AAAATTTATTCTATAAACGTACA
1 AAAATTTATTCTATAAACGTACA
* *
11796 AAAATTTATTCTTTAAGCGTACA
1 AAAATTTATTCTATAAACGTACA
11819 AAAATT
1 AAAATT
11825 ACTACATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (23 bp):
AAAATTTATTCTATAAACGTACA
Found at i:12705 original size:16 final size:18
Alignment explanation
Indices: 12684--12731 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
12674 GTGGACAGAG
12684 TATTTTA-ATT-TTTTTA
1 TATTTTAGATTATTTTTA
12700 TATTTTAGATTATTTTTTA
1 TATTTTAGATTA-TTTTTA
* *
12719 TAATTTCGATTAT
1 TATTTTAGATTAT
12732 AATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 1 0.04
19 16 0.59
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTAGATTATTTTTA
Found at i:12717 original size:19 final size:19
Alignment explanation
Indices: 12693--12731 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12683 GTATTTTAAT
*
12693 TTTTTTATATTTTAGATTA
1 TTTTTTATAATTTAGATTA
*
12712 TTTTTTATAATTTCGATTA
1 TTTTTTATAATTTAGATTA
12731 T
1 T
12732 AATATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTATAATTTAGATTA
Found at i:16334 original size:16 final size:15
Alignment explanation
Indices: 16313--16342 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16303 CTGTACCGAA
16313 ATATAAAACATATAAG
1 ATATAAAA-ATATAAG
16329 ATATAAAAATATAA
1 ATATAAAAATATAA
16343 AACTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
ATATAAAAATATAAG
Found at i:23236 original size:21 final size:22
Alignment explanation
Indices: 23163--23242 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
23153 ATTTGGCAGA
* *
23163 GGGAATCGATACCCCCAT-AA-
1 GGGAATCGATTCCCCCTTGAAG
*
23183 GGGAATCGATTCCCCCTTTGAAT
1 GGGAATCGATTCCCCC-TTGAAG
* * *
23206 GGGAACCGATTCCTCC-TGTAG
1 GGGAATCGATTCCCCCTTGAAG
*
23227 GGGAATCGATACCCCC
1 GGGAATCGATTCCCCC
23243 CTGGGGTTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 15 0.31
21 17 0.35
22 2 0.04
23 14 0.29
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTGAAG
Found at i:26576 original size:10 final size:10
Alignment explanation
Indices: 26558--26668 Score: 69
Period size: 10 Copynumber: 10.1 Consensus size: 10
26548 GTGTTTGTGT
*
26558 TGTTTGTTTA
1 TGTTCGTTTA
26568 TGTTCGTTTA
1 TGTTCGTTTA
*
26578 TTGTGTTTGTTTA
1 ---TGTTCGTTTA
*
26591 TGTTCATTTATTA
1 TGTTC--GT-TTA
*
26604 TATTCGTTTA
1 TGTTCGTTTA
*
26614 TGTTTGTTCGTTTG
1 TG--T-T-CGTTTA
26628 TGTTCGTTTA
1 TGTTCGTTTA
*
26638 CGTTCGTTTA
1 TGTTCGTTTA
26648 TGTTCGTTTA
1 TGTTCGTTTA
*
26658 CGTTCGTTTA
1 TGTTCGTTTA
26668 T
1 T
26669 CATTTAAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
10 49 0.63
11 2 0.03
12 3 0.04
13 17 0.22
14 7 0.09
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:26584 original size:23 final size:23
Alignment explanation
Indices: 26558--26668 Score: 104
Period size: 23 Copynumber: 4.9 Consensus size: 23
26548 GTGTTTGTGT
*
26558 TGTTTGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
* * *
26581 TGTTTGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCGTTTATTG
* *
26604 TATTCGTTTATGTTTGTTCGT-TTG
1 TGTTCGTTTATGTTCGTT--TATTG
*
26628 TGTTCGTTTACGTTCGTTTA---
1 TGTTCGTTTATGTTCGTTTATTG
*
26648 TGTTCGTTTACGTTCGTTTAT
1 TGTTCGTTTATGTTCGTTTAT
26669 CATTTAAATG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
20 20 0.27
22 1 0.01
23 35 0.47
24 17 0.23
25 1 0.01
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:26644 original size:20 final size:20
Alignment explanation
Indices: 26619--26668 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
26609 GTTTATGTTT
*
26619 GTTCGTTTGTGTTCGTTTAC
1 GTTCGTTTATGTTCGTTTAC
26639 GTTCGTTTATGTTCGTTTAC
1 GTTCGTTTATGTTCGTTTAC
26659 GTTCGTTTAT
1 GTTCGTTTAT
26669 CATTTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.56
Consensus pattern (20 bp):
GTTCGTTTATGTTCGTTTAC
Found at i:26710 original size:31 final size:31
Alignment explanation
Indices: 26675--26755 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
26665 TTATCATTTA
26675 AATGAACGAAAATGAACAAGCTATATTCATT
1 AATGAACGAAAATGAACAAGCTATATTCATT
* *
26706 AATGAACGAAAATGAACAAGTTATATTCCTT
1 AATGAACGAAAATGAACAAGCTATATTCATT
* *
26737 AATGAACGTACATGAACAA
1 AATGAACGAAAATGAACAA
26756 AAAAAATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (31 bp):
AATGAACGAAAATGAACAAGCTATATTCATT
Found at i:26785 original size:16 final size:16
Alignment explanation
Indices: 26764--26812 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
26754 AAAAAAAATT
26764 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
26780 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
26796 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
26812 T
1 T
26813 TTTTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:37712 original size:15 final size:16
Alignment explanation
Indices: 37692--37731 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
37682 TTTACTTCAA
37692 AATGATT-AAACACTG
1 AATGATTCAAACACTG
**
37707 AATGATTCAAATGCTG
1 AATGATTCAAACACTG
37723 AATGATTCA
1 AATGATTCA
37732 GAGACTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (16 bp):
AATGATTCAAACACTG
Found at i:37814 original size:27 final size:27
Alignment explanation
Indices: 37783--38091 Score: 510
Period size: 27 Copynumber: 11.4 Consensus size: 27
37773 TTTACTGGCT
* *
37783 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
*
37810 CTGAATCATTCAGAATGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
**
37837 CTGAAGCATTCAGACCGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
**
37864 CTGAAGCATTCAGACCGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
**
37891 CTGAAGCATTCAGACCGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
37918 CTGAAGCATTCAGAATGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
37945 CTGAAGCATTCAGAATGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
37972 CTGAAGCATTCAGAATGTGCTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
*
37999 CTGAAGCATTCAGAATGTGCATCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
*
38026 CTGAAGCATTCAGAATGTGTTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
*
38053 CTGAAGCATTCAGAATGTACTTCTGTG
1 CTGAAGCATTCAGAATGTGCTTCTGTG
38080 CTGAAGCATTCA
1 CTGAAGCATTCA
38092 ACACTGTTTT
Statistics
Matches: 271, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 271 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGAAGCATTCAGAATGTGCTTCTGTG
Found at i:38353 original size:2 final size:2
Alignment explanation
Indices: 38340--38399 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
38330 ACAATCATGA
*
38340 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38382 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
38400 GTGTGTGTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42179 original size:19 final size:19
Alignment explanation
Indices: 42155--42209 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
42145 AGAATGTCCA
42155 GGGGGTA-CAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
42174 GGGGGTATCGATTCCCCTG
1 GGGGGTATCGATTCCCCTG
42193 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
42210 CTAAATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 34 0.97
20 1 0.03
ACGTcount: A:0.13, C:0.27, G:0.36, T:0.24
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:43203 original size:31 final size:31
Alignment explanation
Indices: 43161--43316 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
43151 AGGGTCGAGG
43161 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
43192 GTTTACTTATGTTCTTCGAGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
43223 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
43254 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
43285 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
43316 G
1 G
43317 GTCCTTCGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:43822 original size:21 final size:21
Alignment explanation
Indices: 43797--43839 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43787 AAAGAATATA
43797 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
43818 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
43839 T
1 T
43840 AAATGTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:44150 original size:2 final size:2
Alignment explanation
Indices: 44143--44185 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
44133 ATGAGTTATG
* *
44143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT TT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44184 AT
1 AT
44186 GATAGATGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:46363 original size:19 final size:18
Alignment explanation
Indices: 46328--46362 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46318 AGAATGTCCA
46328 GGGGGTACAGATTCCCCT
1 GGGGGTACAGATTCCCCT
46346 GGGGGTATC-GATTCCCC
1 GGGGGTA-CAGATTCCCC
46363 CCTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.14, C:0.29, G:0.34, T:0.23
Consensus pattern (18 bp):
GGGGGTACAGATTCCCCT
Found at i:47352 original size:31 final size:31
Alignment explanation
Indices: 47314--47562 Score: 428
Period size: 31 Copynumber: 8.0 Consensus size: 31
47304 AGGGTCGAGG
47314 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
47345 GTTTACCTATATTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
47376 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
47407 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
47438 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
47469 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
47500 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
47531 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
47562 G
1 G
47563 GTCCTTCGGG
Statistics
Matches: 208, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 207 1.00
32 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:48069 original size:21 final size:21
Alignment explanation
Indices: 48044--48086 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48034 AAAGAATATA
48044 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
48065 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
48086 T
1 T
48087 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:48244 original size:18 final size:17
Alignment explanation
Indices: 48221--48275 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
48211 TAGAAGGTAA
*
48221 ATTTTTTTATTATATTAT
1 ATTTTTTTA-TATATTTT
48239 ATTTTTTTA-ATATTTT
1 ATTTTTTTATATATTTT
48255 ATTTTTTTATAATATTTT
1 ATTTTTTTAT-ATATTTT
48273 ATT
1 ATT
48276 ATACTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.44
18 19 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTTTATATATTTT
Found at i:48366 original size:18 final size:17
Alignment explanation
Indices: 48340--48394 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
48330 TAGAATGTAA
48340 ATTTTTTTATTATATTAT
1 ATTTTTTTA-TATATTAT
*
48358 ATTTATTTA-ATATTAT
1 ATTTTTTTATATATTAT
*
48374 ATTTTTTTATAATATTTT
1 ATTTTTTTAT-ATATTAT
48392 ATT
1 ATT
48395 ATACTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 15 0.47
18 17 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTTATATATTAT
Found at i:48372 original size:16 final size:16
Alignment explanation
Indices: 48351--48394 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
48341 TTTTTTTATT
48351 ATATTATATTTATTTA
1 ATATTATATTTATTTA
*
48367 ATATTATATTT-TTTT
1 ATATTATATTTATTTA
*
48382 ATAATAT-TTTATT
1 ATATTATATTTATT
48395 ATACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 11 0.44
16 11 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTATATTTATTTA
Found at i:48410 original size:14 final size:13
Alignment explanation
Indices: 48372--48410 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
48362 ATTTAATATT
48372 ATATTTTTTTATA
1 ATATTTTTTTATA
*
48385 ATATTTTATTATA
1 ATATTTTTTTATA
*
48398 CTAATTTTTTTAT
1 AT-ATTTTTTTAT
48411 TACTTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
ATATTTTTTTATA
Found at i:48439 original size:118 final size:119
Alignment explanation
Indices: 48209--48446 Score: 442
Period size: 119 Copynumber: 2.0 Consensus size: 119
48199 AGTCATAGTT
* *
48209 TATAGAAGGTAAATTTTTTTATTATATTATATTTTTTTAATATTTTATTTTTTTATAATATTTTA
1 TATAGAAGGTAAATTTTTTTATTATATTATATTTATTTAATATTATATTTTTTTATAATATTTTA
48274 TTATACTAATTATTTTTATTACTTTTGTATTTGTAAAAATGAAAGGCGGGATGC
66 TTATACTAATTATTTTTATTACTTTTGTATTTGTAAAAATGAAAGGCGGGATGC
*
48328 TATAGAATGTAAATTTTTTTATTATATTATATTTATTTAATATTATATTTTTTTATAATATTTTA
1 TATAGAAGGTAAATTTTTTTATTATATTATATTTATTTAATATTATATTTTTTTATAATATTTTA
48393 TTATACTAATT-TTTTTATTACTTTTGTATTTGTAAAAATGAAAGGCGGGATGC
66 TTATACTAATTATTTTTATTACTTTTGTATTTGTAAAAATGAAAGGCGGGATGC
48446 T
1 T
48447 GCGATTGAAT
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
118 43 0.37
119 73 0.63
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (119 bp):
TATAGAAGGTAAATTTTTTTATTATATTATATTTATTTAATATTATATTTTTTTATAATATTTTA
TTATACTAATTATTTTTATTACTTTTGTATTTGTAAAAATGAAAGGCGGGATGC
Found at i:51790 original size:20 final size:19
Alignment explanation
Indices: 51732--51790 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
51722 TATCTTACCC
* *
51732 CTAAACCATTAAAATAAACA
1 CTAAATCATTTAAA-AAACA
* *
51752 CTAATATAATTTTAAAAACA
1 CTAA-ATCATTTAAAAAACA
51772 CTAAATCATTTAAACAAAC
1 CTAAATCATTTAAA-AAAC
51791 CTTAAACCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 8 0.26
20 17 0.55
21 6 0.19
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (19 bp):
CTAAATCATTTAAAAAACA
Found at i:51821 original size:18 final size:19
Alignment explanation
Indices: 51787--51837 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
51777 TCATTTAAAC
51787 AAACCTT-AAACCACTT-A
1 AAACCTTAAAACCACTTAA
*
51804 AAACCTTAAAATCACTTAA
1 AAACCTTAAAACCACTTAA
51823 AAACCTT-AAACCACT
1 AAACCTTAAAACCACT
51838 ACAACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 7 0.23
18 15 0.50
19 8 0.27
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (19 bp):
AAACCTTAAAACCACTTAA
Found at i:52202 original size:2 final size:2
Alignment explanation
Indices: 52195--52226 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52185 AGTTTTCCAC
52195 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
52227 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:52231 original size:2 final size:2
Alignment explanation
Indices: 52226--52263 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
52216 ACACACACAC
52226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52264 TATTCTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53310 original size:20 final size:20
Alignment explanation
Indices: 53275--53400 Score: 134
Period size: 20 Copynumber: 6.3 Consensus size: 20
53265 AATCTGTAAA
53275 TCGCAACACAGA-AGTCAAAT
1 TCGCAACAC-GATAGTCAAAT
* *
53295 TCACAACGCGATAGTCAAAT
1 TCGCAACACGATAGTCAAAT
*
53315 TCGCAACACGAATTTGT-AAAT
1 TCGCAACACG-A-TAGTCAAAT
53336 T-GCAACACAGA-AGTCAAAT
1 TCGCAACAC-GATAGTCAAAT
*
53355 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGATAGTCAAAT
* *
53375 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGATAGTCAAAT
53395 TCGCAA
1 TCGCAA
53401 ATGAATTTCA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.02
19 9 0.10
20 68 0.76
21 7 0.08
22 3 0.03
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (20 bp):
TCGCAACACGATAGTCAAAT
Found at i:53319 original size:40 final size:38
Alignment explanation
Indices: 53275--53463 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 38
53265 AATCTGTAAA
* *
53275 TCGCAACACAGAAGTCAAATTCACAACGCGATAGTCAAAT
1 TCGCAACAC-GAAGTCAAATTCGCAACACGA-AGTCAAAT
53315 TCGCAACACGAATTTGT-AAATT-GCAACACAGAAGTCAAAT
1 TCGCAACACGAA---GTCAAATTCGCAACAC-GAAGTCAAAT
* *
53355 TCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACACGA-AGTCAAATTCGCAACAC-GAAGTCAAAT
* * ** *
53395 TCGCAA-ATGAATTTCAAATTCGCAA-TTGAATTTCAAAT
1 TCGCAACACGAA-GTCAAATTCGCAACACGAA-GTCAAAT
* *
53433 TCGCAAC-TGAATTTCAAATTCGCAACACGAA
1 TCGCAACACGAA-GTCAAATTCGCAACACGAA
53464 TTTAATTTCG
Statistics
Matches: 125, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
37 2 0.02
38 33 0.26
39 25 0.20
40 55 0.44
41 8 0.06
42 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (38 bp):
TCGCAACACGAAGTCAAATTCGCAACACGAAGTCAAAT
Found at i:53335 original size:60 final size:60
Alignment explanation
Indices: 53263--53383 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
53253 TTTCACAATG
53263 CGAATCTGTAAATCGCAACACAGAAGTCAAATTCACAACGCGATAGTCAAATTCGCAACA
1 CGAATCTGTAAATCGCAACACAGAAGTCAAATTCACAACGCGATAGTCAAATTCGCAACA
* * *
53323 CGAATTTGTAAATTGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACA
1 CGAATCTGTAAATCGCAACACAGAAGTCAAATTCACAACGCGATAGTCAAATTCGCAACA
53383 C
1 C
53384 AAAAGTCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (60 bp):
CGAATCTGTAAATCGCAACACAGAAGTCAAATTCACAACGCGATAGTCAAATTCGCAACA
Found at i:53478 original size:19 final size:20
Alignment explanation
Indices: 53309--53466 Score: 148
Period size: 19 Copynumber: 8.1 Consensus size: 20
53299 AACGCGATAG
53309 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
* *
53329 TGTAAATT-GCAACACAGAA-G
1 T-CAAATTCGCAACAC-GAATT
* *
53349 TCAAATTCGCAACGCG-ATAG
1 TCAAATTCGCAACACGAAT-T
* **
53369 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACACGAATT
*
53389 TCAAATTCGCAA-ATGAATT
1 TCAAATTCGCAACACGAATT
**
53408 TCAAATTCGCAA-TTGAATT
1 TCAAATTCGCAACACGAATT
*
53427 TCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACACGAATT
53446 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
53466 T
1 T
53467 AATTTCGTAA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.01
19 58 0.50
20 49 0.42
21 9 0.08
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:54465 original size:24 final size:24
Alignment explanation
Indices: 54414--54467 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54404 GTATTCAAAA
*
54414 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
54438 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
54462 TTTGAT
1 TTTGAT
54468 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:57113 original size:14 final size:14
Alignment explanation
Indices: 57096--57125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57086 TTCGCAATGC
57096 AAAATCGCAAACCG
1 AAAATCGCAAACCG
*
57110 AAAATCGCAAAGCG
1 AAAATCGCAAACCG
57124 AA
1 AA
57126 TTTGACTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.23, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAAACCG
Found at i:57228 original size:22 final size:20
Alignment explanation
Indices: 57173--57229 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
57163 TTATTCCGCA
57173 TTGCGAATTTTA-CTTTCGCG
1 TTGCGAA-TTTACCTTTCGCG
*
57193 TTGTGAATTTACCTTTCGCG
1 TTGCGAATTTACCTTTCGCG
57213 TTGCGAAAGTTTACCTT
1 TTGCG-AA-TTTACCTT
57230 CAACAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.12
20 18 0.56
21 2 0.06
22 8 0.25
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (20 bp):
TTGCGAATTTACCTTTCGCG
Found at i:57316 original size:24 final size:25
Alignment explanation
Indices: 57284--57333 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
57274 ACAACAAATC
*
57284 AATTAAACATTGTTGT-GGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
57308 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
57333 A
1 A
57334 TTTGGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:57741 original size:18 final size:18
Alignment explanation
Indices: 57720--57756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57710 GTAATTGGAG
57720 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
57738 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
57756 T
1 T
57757 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:57763 original size:24 final size:24
Alignment explanation
Indices: 57712--57764 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
57702 TTTCATATGT
* * *
57712 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
57736 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
57760 AATTT
1 AATTT
57765 CGATTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:59094 original size:20 final size:20
Alignment explanation
Indices: 59071--59116 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
59061 AATAAGCGTT
*
59071 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
59091 GCGAAATTCAAATTTGCAAC
1 GCGAAAGTCAAATTCGCAAC
59111 GCGAAA
1 GCGAAA
59117 TCGCAAACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:59117 original size:20 final size:20
Alignment explanation
Indices: 59078--59117 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
59068 GTTGCGATAG
59078 TCAAATTCGCAACGCGAAAT
1 TCAAATTCGCAACGCGAAAT
*
59098 TCAAATTTGCAACGCGAAAT
1 TCAAATTCGCAACGCGAAAT
59118 CGCAAACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
TCAAATTCGCAACGCGAAAT
Found at i:59163 original size:20 final size:20
Alignment explanation
Indices: 59140--59185 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
59130 ATCGCAACGT
59140 GAATTTGACTTTCGCATTGC
1 GAATTTGACTTTCGCATTGC
*
59160 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCATTGC
59180 GAATTT
1 GAATTT
59186 ACCTTCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (20 bp):
GAATTTGACTTTCGCATTGC
Found at i:59308 original size:66 final size:64
Alignment explanation
Indices: 59238--59381 Score: 227
Period size: 66 Copynumber: 2.2 Consensus size: 64
59228 AATTTAAAAC
*
59238 AACAAATGAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTAC-ACATCAAAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTT-CTACATC-AAT
59302 TA
63 TA
* *
59304 AACAACTCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCTTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCTACATCAATTA
59368 AACAAATCAACTTT
1 AACAAATCAACTTT
59382 CAATGTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
64 19 0.26
65 22 0.30
66 32 0.44
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCTACATCAATTA
Found at i:60776 original size:21 final size:21
Alignment explanation
Indices: 60709--60802 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
60699 ATGAATCGGG
* *
60709 CTCTTGAACGGTGGGCGAGAC
1 CTCTTGAACGGTGGGAGAGGC
* ** *
60730 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAGGC
60751 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGGTGGGAGAGGC
* * * * *
60772 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGGTGGGAGAGGC
60793 CTCTTGAACG
1 CTCTTGAACG
60803 ATAGGAGGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 1 0.02
21 52 0.96
22 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGAGGC
Found at i:60785 original size:42 final size:42
Alignment explanation
Indices: 60709--60827 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
60699 ATGAATCGGG
*
60709 CTCTTGAACGGTGGGCGAGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGGGGC
* * * *
60751 CTCTTGAACGGTGGGAGAGGCTTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGAGACCTCTT-GAACGATGACAGGGGC
* * *
60793 CTCTTGAACGATAGGAG-GCACCTCTTGAATGATGA
1 CTCTTGAACGGTGGGAGAG-ACCTCTTGAACGATGA
60828 TAGGTGCATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 62 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGGGGC
Found at i:60810 original size:21 final size:21
Alignment explanation
Indices: 60729--60827 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
60719 GTGGGCGAGA
*
60729 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * *
60750 CCTCTTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAGGGG
* *
60771 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
**
60792 CCTCTTGAACGAT-AGGAGGCA
1 CCTCTTGAACGATGA-GAGGGG
*
60813 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
60828 TAGGTGCATC
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:63052 original size:14 final size:14
Alignment explanation
Indices: 63029--63076 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
63019 TGCGATTTTC
*
63029 ATTTTCGCGTTGTG
1 ATTTTCGCGTTGCG
*
63043 ATTTTTGCGTTGCG
1 ATTTTCGCGTTGCG
* *
63057 ATTTTGGTGTTGCG
1 ATTTTCGCGTTGCG
63071 ATTTTC
1 ATTTTC
63077 ATTTTCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.08, C:0.12, G:0.27, T:0.52
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:63102 original size:20 final size:20
Alignment explanation
Indices: 63063--63102 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63053 TGCGATTTTG
* * *
63063 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
63083 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
63103 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:63597 original size:26 final size:26
Alignment explanation
Indices: 63568--63632 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
63558 ACTGTTTACA
*
63568 TTTGTGTTGCGAAATTAATATTGTGT
1 TTTGCGTTGCGAAATTAATATTGTGT
*
63594 TTTGCGTTACGAAATTAATATTGTGT
1 TTTGCGTTGCGAAATTAATATTGTGT
*
63620 TTCGCGTTGCGAA
1 TTTGCGTTGCGAA
63633 TTTGAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (26 bp):
TTTGCGTTGCGAAATTAATATTGTGT
Found at i:63671 original size:20 final size:20
Alignment explanation
Indices: 63623--63732 Score: 103
Period size: 20 Copynumber: 5.5 Consensus size: 20
63613 ATTGTGTTTC
* *
63623 GCGTTGCGAATTTGAAATTAT
1 GCGTTGCGAATTTG-ACTTTT
63644 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTT
* * * *
63664 GTGTTGCGAATTTGGCTATC
1 GCGTTGCGAATTTGACTTTT
* * *
63684 GCGTTGTGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTT
* * *
63704 GTGTTGCAAATTTGACTTCT
1 GCGTTGCGAATTTGACTTTT
63724 GCGTTGCGA
1 GCGTTGCGA
63733 TTTACAAATT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
20 58 0.81
21 14 0.19
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTT
Found at i:63728 original size:40 final size:40
Alignment explanation
Indices: 63625--63732 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
63615 TGTGTTTCGC
* * * *
63625 GTTGCGAATTTGAAATTATGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTG-ACTTCTGCGTTGCGAATTTGACTATCGT
* *
63666 GTTGCGAATTTGGCTATC-GCGTTGTGAATTTGACTATCGT
1 GTTGCGAATTTGACT-TCTGCGTTGCGAATTTGACTATCGT
*
63706 GTTGCAAATTTGACTTCTGCGTTGCGA
1 GTTGCGAATTTGACTTCTGCGTTGCGA
63733 TTTACAAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.04
40 41 0.73
41 13 0.23
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (40 bp):
GTTGCGAATTTGACTTCTGCGTTGCGAATTTGACTATCGT
Found at i:63746 original size:40 final size:40
Alignment explanation
Indices: 63702--63803 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 40
63692 AATTTGACTA
63702 TCGTGTTGCAAATT-T-GACTTC-TGCGTTGCGATTTACAAAT
1 TCGTGTTGCAAATTATAGA-TTCAT--GTTGCGATTTACAAAT
* * *
63742 TCGTGTTGCGATTTATAGATTCATGTTGCGATTTACAGAT
1 TCGTGTTGCAAATTATAGATTCATGTTGCGATTTACAAAT
* *
63782 TCGCGTTGCAAATTACAGATTC
1 TCGTGTTGCAAATTATAGATTC
63804 GCGTTGCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
40 45 0.87
41 4 0.08
42 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (40 bp):
TCGTGTTGCAAATTATAGATTCATGTTGCGATTTACAAAT
Found at i:63815 original size:20 final size:20
Alignment explanation
Indices: 63724--63810 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
63714 TTTGACTTCT
*
63724 GCGTTGCGATTTACAAATTC
1 GCGTTGCGATTTACAGATTC
* *
63744 GTGTTGCGATTTATAGATTC
1 GCGTTGCGATTTACAGATTC
**
63764 ATGTTGCGATTTACAGATTC
1 GCGTTGCGATTTACAGATTC
* *
63784 GCGTTGCAAATTACAGATTC
1 GCGTTGCGATTTACAGATTC
63804 GCGTTGC
1 GCGTTGC
63811 AAATTTGGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACAGATTC
Found at i:64207 original size:11 final size:11
Alignment explanation
Indices: 64169--64212 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
64159 AACCTAATAT
64169 AATATTAAAAA
1 AATATTAAAAA
*
64180 AAGACTTAACTAAA
1 AATA-TTAA--AAA
64194 AATATTAAAAA
1 AATATTAAAAA
64205 AATATTAA
1 AATATTAA
64213 TATTTTCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 14 0.50
12 4 0.14
13 4 0.14
14 6 0.21
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (11 bp):
AATATTAAAAA
Found at i:65202 original size:30 final size:30
Alignment explanation
Indices: 65166--65228 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
65156 GCAGACTAGT
* *
65166 ACAAAGAAGGATGGAAGAAAATTATCAGAG
1 ACAAAGAAGGAAGGAAGAAAATCATCAGAG
* *
65196 ACAAAGAAGGAAGGAAGAAGATCATCGGAG
1 ACAAAGAAGGAAGGAAGAAAATCATCAGAG
65226 ACA
1 ACA
65229 TTTAGGAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.29, T:0.10
Consensus pattern (30 bp):
ACAAAGAAGGAAGGAAGAAAATCATCAGAG
Found at i:69088 original size:36 final size:36
Alignment explanation
Indices: 69048--69169 Score: 133
Period size: 36 Copynumber: 3.4 Consensus size: 36
69038 GAAGCATAAG
*
69048 CACTTTCGATTCAAAGTGAACGGAATGAAGCATCGA
1 CACTTTCGATTCAAAGTGAACGGAAAGAAGCATCGA
* * *
69084 CACTTTCGATTC-AAGAAGAAC-GAAAGAAAACATCGG
1 CACTTTCGATTCAAAG-TGAACGGAAAG-AAGCATCGA
* *
69120 CATTTTCGATTCAAAGTGAAC-GAAAGGAAGCATCAA
1 CACTTTCGATTCAAAGTGAACGGAAA-GAAGCATCGA
*
69156 CACTTTCGACTCAA
1 CACTTTCGATTCAA
69170 TTGTTCATCT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
35 7 0.10
36 60 0.85
37 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (36 bp):
CACTTTCGATTCAAAGTGAACGGAAAGAAGCATCGA
Found at i:73233 original size:20 final size:20
Alignment explanation
Indices: 73205--73264 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
73195 AAATAAAATT
73205 TTGAA-ATATTTTTAAAAAA
1 TTGAATATATTTTTAAAAAA
*
73224 TTGAATATATTTAT-AAAAA
1 TTGAATATATTTTTAAAAAA
* *
73243 TCTTAATATATTGTTAGAAAAA
1 T-TGAATATATTTTTA-AAAAA
73265 AATATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 11 0.33
20 17 0.52
22 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (20 bp):
TTGAATATATTTTTAAAAAA
Found at i:73236 original size:18 final size:20
Alignment explanation
Indices: 73209--73254 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
73199 AAAATTTTGA
*
73209 AATATTTTTA-AAAAAT-TG
1 AATATATTTATAAAAATCTG
*
73227 AATATATTTATAAAAATCTT
1 AATATATTTATAAAAATCTG
73247 AATATATT
1 AATATATT
73255 GTTAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATATATTTATAAAAATCTG
Found at i:73263 original size:22 final size:19
Alignment explanation
Indices: 73209--73264 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 19
73199 AAAATTTTGA
73209 AATAT-TTTTAAAAAATTG
1 AATATATTTTAAAAAATTG
*
73227 AATATA-TTTATAAAAATCTT
1 AATATATTTTA-AAAAAT-TG
73247 AATATATTGTTAGAAAAA
1 AATATATT-TTA-AAAAA
73265 AATATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 7 0.23
21 1 0.03
22 8 0.26
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (19 bp):
AATATATTTTAAAAAATTG
Found at i:79768 original size:63 final size:64
Alignment explanation
Indices: 79654--79795 Score: 261
Period size: 63 Copynumber: 2.2 Consensus size: 64
79644 GTTTTGTAGA
79654 TTTATGATATGGTCATTTATTGTATTTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
1 TTTATGATATGGTCATTTATTGTATTTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
79718 TTTATGATATGGTCATTTATTGTA-TTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
1 TTTATGATATGGTCATTTATTGTATTTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
79781 TTTAT-ATATTGGTCA
1 TTTATGATA-TGGTCA
79796 CTTTGGAGTA
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
62 3 0.04
63 50 0.65
64 24 0.31
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (64 bp):
TTTATGATATGGTCATTTATTGTATTTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
Found at i:79811 original size:63 final size:63
Alignment explanation
Indices: 79654--79811 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
79644 GTTTTGTAGA
** *
79654 TTTATGATATGGTCATTTATTGTATTTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
1 TTTATGATATGGTCATTTAGAGTA-TATATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
** *
79718 TTTATGATATGGTCATTTATTGTATTTATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
1 TTTATGATATGGTCATTTAGAGTATATATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
*
79781 TTTAT-ATATTGGTCACTTTGGAGTA-ATATTT
1 TTTATGATA-TGGTCA-TTTAGAGTATATATTT
79812 TGTAAATTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
62 3 0.03
63 55 0.62
64 30 0.34
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (63 bp):
TTTATGATATGGTCATTTAGAGTATATATTTATTTTGTATTTTATACCTCAAATTTGTAAAGT
Found at i:84538 original size:30 final size:30
Alignment explanation
Indices: 84494--84554 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84484 CTGCATGAAT
* * **
84494 AAATTCATCATTTATAATGCATCACCAATA
1 AAATGCATAATTTATAACACATCACCAATA
*
84524 AAATGCATAATTTATAACACATTACCAATA
1 AAATGCATAATTTATAACACATCACCAATA
84554 A
1 A
84555 TTCTTAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGCATAATTTATAACACATCACCAATA
Found at i:91590 original size:7 final size:7
Alignment explanation
Indices: 91578--91699 Score: 117
Period size: 7 Copynumber: 17.1 Consensus size: 7
91568 CTTGAAGAAG
91578 AGAAAAA
1 AGAAAAA
91585 AGAAAAA
1 AGAAAAA
91592 ATGAAAAA
1 A-GAAAAA
91600 AGAAAAA
1 AGAAAAA
91607 ATGAAAAA
1 A-GAAAAA
91615 AGAAAAA
1 AGAAAAA
*
91622 A-AGAAGA
1 AGA-AAAA
91629 AGAAAAA
1 AGAAAAA
*
91636 AGGAAAA
1 AGAAAAA
91643 AGAAAAA
1 AGAAAAA
*
91650 A-AGAAGA
1 AGA-AAAA
91657 AGAAAAA
1 AGAAAAA
*
91664 ATAAAAA
1 AGAAAAA
91671 AGAAAAA
1 AGAAAAA
91678 A-AAAGAGA
1 AGAAA-A-A
*
91686 A-AAGAA
1 AGAAAAA
91692 AGAAAAA
1 AGAAAAA
91699 A
1 A
91700 TAAATAAAGG
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
6 7 0.07
7 69 0.72
8 20 0.21
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AGAAAAA
Found at i:91605 original size:14 final size:14
Alignment explanation
Indices: 91579--91677 Score: 82
Period size: 15 Copynumber: 6.9 Consensus size: 14
91569 TTGAAGAAGA
91579 GAAAAAAGAAAAAAT
1 GAAAAAAG-AAAAAT
91594 GAAAAAAGAAAAAAT
1 GAAAAAAG-AAAAAT
91609 GAAAAAAGAAAAA-
1 GAAAAAAGAAAAAT
*
91622 -AAGAAGAAGAAAAAA
1 GAA-AA-AAGAAAAAT
*
91637 GGAAAAAGAAAAA-
1 GAAAAAAGAAAAAT
91650 -AAGAAGAAGAAAAAAT
1 GAA-AA-AAG-AAAAAT
91666 -AAAAAAGAAAAA
1 GAAAAAAGAAAAA
91678 AAAAGAGAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.04
13 9 0.12
14 27 0.36
15 32 0.43
16 3 0.04
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (14 bp):
GAAAAAAGAAAAAT
Found at i:91634 original size:28 final size:29
Alignment explanation
Indices: 91579--91708 Score: 160
Period size: 28 Copynumber: 4.6 Consensus size: 29
91569 TTGAAGAAGA
* *
91579 GAAAAAAGAAAAAATGAAAAAAGAAAAAAT
1 GAAAAAAGAAAAAAAG-AAGAAGAAAAAAT
91609 GAAAAAAGAAAAAAAGAAGAAGAAAAAA-
1 GAAAAAAGAAAAAAAGAAGAAGAAAAAAT
*
91637 GGAAAAAGAAAAAAAGAAGAAGAAAAAAT
1 GAAAAAAGAAAAAAAGAAGAAGAAAAAAT
*
91666 -AAAAAAGAAAAAAA-AAG-AGAAAAGAAA
1 GAAAAAAGAAAAAAAGAAGAAGAAAA-AAT
* *
91693 GAAAAAATAAATAAAG
1 GAAAAAAGAAAAAAAG
91709 GAGGGTTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
26 6 0.07
27 5 0.06
28 52 0.58
29 11 0.12
30 15 0.17
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (29 bp):
GAAAAAAGAAAAAAAGAAGAAGAAAAAAT
Found at i:92898 original size:134 final size:134
Alignment explanation
Indices: 92658--92921 Score: 359
Period size: 134 Copynumber: 2.0 Consensus size: 134
92648 TGACCAGATA
* * *
92658 TCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCACCTCATCACGTAGGAGCCGTGTTA
1 TCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGAACACCTCATCACGTAGGAGCCGTGTCA
** * *
92723 AACATAAATAACCAGTCTTCCTCATCAAGTAGGAACCGAGTTATCAC-CACTCTTAAAGATGGCC
66 AACATAAATAACCAACCGTCCTCATCAAGTAGGAACCGAGTTATCACTC-CTCCTAAAGATGGCC
92787 AGCCG
130 AGCCG
* * *
92792 TCCTCATCACGTAGGAATCATGTCATCCCCCGACCAGAACTCCTCATCATGTAGGAGCCGTGTCA
1 TCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGAACACCTCATCACGTAGGAGCCGTGTCA
** * * ** *
92857 CCCCTAGATAACCAACCGTCCTCATCGCGTAGGAACCGAGTTATCACTCTTCCTAAAGATGGCCA
66 AACATAAATAACCAACCGTCCTCATCAAGTAGGAACCGAGTTATCACTCCTCCTAAAGATGGCCA
92922 TAACTCTTCA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 111 0.99
135 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.22
Consensus pattern (134 bp):
TCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGAACACCTCATCACGTAGGAGCCGTGTCA
AACATAAATAACCAACCGTCCTCATCAAGTAGGAACCGAGTTATCACTCCTCCTAAAGATGGCCA
GCCG
Found at i:93165 original size:3 final size:3
Alignment explanation
Indices: 93146--93191 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
93136 TCTTTTCTAT
* * *
93146 TTA TTT TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTT TTA CTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93192 ATATATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.