Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009043.1 Hibiscus syriacus cultivar Beakdansim tig00112453_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: 500226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:324535 original size:19 final size:19
Alignment explanation
Indices: 324507--324604 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
324497 GCGAATTAAA
*
324507 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
324526 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
324540 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
324559 TTCGCATTGCGATTCTC--
1 TTCGCATTGCGATTTTCAT
324576 TT-G--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
324592 TTCGCATTGCGAT
1 TTCGCATTGCGAT
324605 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 21 0.35
16 3 0.05
17 3 0.05
19 33 0.55
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:324547 original size:33 final size:33
Alignment explanation
Indices: 324504--324603 Score: 150
Period size: 33 Copynumber: 3.0 Consensus size: 33
324494 AACGCGAATT
324504 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
324537 AAATTAGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
324570 --ATTCTCTTGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGC--GTTGCGATTTTCATTTCGCATTGCG
324603 A
1 A
324604 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
31 4 0.07
33 57 0.93
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:326875 original size:12 final size:12
Alignment explanation
Indices: 326858--326894 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
326848 TCTTCGGGGA
326858 CTTTTTCTTCTT
1 CTTTTTCTTCTT
326870 CTTTTTCTTCTT
1 CTTTTTCTTCTT
* *
326882 TTTTTTTTTCTT
1 CTTTTTCTTCTT
326894 C
1 C
326895 AGGATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:327905 original size:20 final size:21
Alignment explanation
Indices: 327880--327931 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
327870 TTTTCCTAAT
*
327880 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
327900 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
327921 TCGCAATGCGA
1 TCGCAATGCGA
327932 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:327945 original size:20 final size:20
Alignment explanation
Indices: 327920--327977 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
327910 AATTTGGAAA
* *
327920 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
*
327940 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
327960 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
327978 AAATCGCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:327984 original size:20 final size:20
Alignment explanation
Indices: 327916--327986 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
327906 TGCGAATTTG
* * *
327916 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATTCT
**
327936 GACTATCGCAACGAGATTCT
1 GAAAATCGCAACGAGATTCT
***
327956 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATTCT
327976 GAAAATCGCAA
1 GAAAATCGCAA
327987 TCATCTTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
GAAAATCGCAACGAGATTCT
Found at i:328233 original size:20 final size:20
Alignment explanation
Indices: 328196--328235 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
328186 ATCGCAACGG
*
328196 GGAAATCGCAACGCGAAAAT
1 GGAAATCGCAACGAGAAAAT
*
328216 GGAAATCGCAACTAGAAAAT
1 GGAAATCGCAACGAGAAAAT
328236 CGCAATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.12
Consensus pattern (20 bp):
GGAAATCGCAACGAGAAAAT
Found at i:328278 original size:14 final size:14
Alignment explanation
Indices: 328259--328312 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
328249 GAAAATCGCA
328259 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
328273 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
328290 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
328306 TTGCGAT
1 TTGCGAT
328313 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:328278 original size:33 final size:33
Alignment explanation
Indices: 328241--328311 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
328231 AAAATCGCAA
328241 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
328274 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
328307 TGCGA
1 TGCGA
328312 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:328458 original size:14 final size:14
Alignment explanation
Indices: 328439--328475 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
328429 CATCAATTAA
328439 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
328453 ACAAATCATCTTTT
1 ACAAATCAACATTT
328467 ACAAATCAA
1 ACAAATCAA
328476 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:329942 original size:21 final size:20
Alignment explanation
Indices: 329918--329977 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
329908 AACGGTGGGG
329918 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
329939 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
329960 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
329978 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:330365 original size:20 final size:20
Alignment explanation
Indices: 330342--330388 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
330332 GAAACTTAAA
330342 ATCGCAACGC-GAAAATGACT
1 ATCGCAACGCGGAAAATG-CT
*
330362 ATCGCAACGCGGAAATTGCT
1 ATCGCAACGCGGAAAATGCT
330382 ATCGCAA
1 ATCGCAA
330389 TGTGAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGGAAAATGCT
Found at i:330476 original size:14 final size:14
Alignment explanation
Indices: 330457--330514 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
330447 TTTCATTTCG
330457 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
330471 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
330487 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
330503 CGTTGCGATTTT
1 CGTTGCGATTTT
330515 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:330521 original size:33 final size:33
Alignment explanation
Indices: 330444--330530 Score: 158
Period size: 32 Copynumber: 2.7 Consensus size: 33
330434 ATCGCATTGT
*
330444 GATTTTCATTTCGCGTTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
330477 GA-TTTCATTTCGCATTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
330509 GATTTTCATTTCGCATTGCGAT
1 GATTTTCATTTCGCATTGCGAT
330531 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.60
33 21 0.40
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
Found at i:330549 original size:20 final size:19
Alignment explanation
Indices: 330515--330569 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
330505 TTGCGATTTT
*
330515 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
330534 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
330554 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
330570 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:331077 original size:18 final size:18
Alignment explanation
Indices: 331051--331095 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
331041 GTCGATCAGA
**
331051 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCAAGG
*
331069 TGATAGCTCTGGGCAAGG
1 TGATGGCTCTGGGCAAGG
331087 TGATGGCTC
1 TGATGGCTC
331096 CCGAAGTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCAAGG
Found at i:332463 original size:20 final size:20
Alignment explanation
Indices: 332415--332473 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
332405 AATAGTTTCT
** *
332415 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
332435 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
332455 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
332474 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:332762 original size:22 final size:22
Alignment explanation
Indices: 332736--332779 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
332726 GATAGAGATA
332736 GACGGATTTCG-CAGGAGATGGG
1 GACGGATTTCGTC-GGAGATGGG
332758 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
332780 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.14, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:332993 original size:20 final size:20
Alignment explanation
Indices: 332968--333019 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
332958 ATTATGTATT
332968 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
332988 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
333008 AT-GTCGTTGCGA
1 ATCG-CGTTGCGA
333020 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:333053 original size:20 final size:20
Alignment explanation
Indices: 333028--333081 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
333018 GATTTTGTAT
333028 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
333048 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
333068 TATCGCATTGCGAT
1 TATCGCATTGCGAT
333082 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:333053 original size:61 final size:61
Alignment explanation
Indices: 332947--333084 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
332937 CGCTTTGAAA
* * * *
332947 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * *
333008 AT-GTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCG-CATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
333069 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
333085 CCCAATTCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 1 0.02
61 64 0.97
62 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:333795 original size:87 final size:87
Alignment explanation
Indices: 333649--333811 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
333639 TATGTTATAT
*
333649 TATTTAACTGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
333714 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
333736 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
333801 AGCGCTTATAT
66 AGCGCTTATAT
333812 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (87 bp):
TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:337537 original size:120 final size:120
Alignment explanation
Indices: 337324--337570 Score: 413
Period size: 120 Copynumber: 2.1 Consensus size: 120
337314 TTTTTCTTCT
* * *
337324 ATTCTAGACATAAAGTACTGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
337389 AATAAAACCAGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCAGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
337444 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* ** * *
337509 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCAGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
337564 ATTCTGG
1 ATTCTGG
337571 GTTCCGATGT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCAGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:337728 original size:302 final size:303
Alignment explanation
Indices: 337159--337752 Score: 1064
Period size: 302 Copynumber: 2.0 Consensus size: 303
337149 TTAAAATTAG
*
337159 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
337224 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
* *
337289 CACTTTTTGACAAGGTATCGACACATTTTTCTTCTATTCTAGACATAAAGTACTGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCGACACAATATT
337354 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCAGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCAGTATACTTATACCGGTTATA
337419 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
337462 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
337527 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAAT-TTGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
* *
337591 CACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCGACACAATATT
* * * *
337656 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCAGTATACTTATACCGGTTATA
*
337721 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
337753 GTTCCGATGT
Statistics
Matches: 278, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
302 156 0.56
303 122 0.44
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCAGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:337751 original size:182 final size:183
Alignment explanation
Indices: 337444--338396 Score: 1707
Period size: 183 Copynumber: 5.2 Consensus size: 183
337434 GTACATTATA
*
337444 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
337509 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* *
337574 CCGATGTGTAAAT-TTGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
337626 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
337691 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
337756 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
337809 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
337874 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* *
337939 CCGATGTGTAAATATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* *
337992 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTTTAGACATATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
338057 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
338122 CCGATGTGTAAATGTCGACACTTTTTGACAAGTTATCGACACA-TTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
338174 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
338239 CATAAAATCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * * *
338304 CCGATGTTTTTTCAA--TCGATACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
338358 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
338397 GAAAACTTTG
Statistics
Matches: 745, Mismatches: 21, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
182 281 0.38
183 412 0.55
184 48 0.06
185 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:338171 original size:365 final size:366
Alignment explanation
Indices: 337444--338396 Score: 1732
Period size: 365 Copynumber: 2.6 Consensus size: 366
337434 GTACATTATA
*
337444 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
337509 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
337574 CCGATGTGTAAAT-TTGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATA
*
337638 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGT
337703 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
337768 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
337809 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
337874 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
337939 CCGATGTGTAAATATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATA
*
338004 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTTTAGACATATTCGCTCATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGT
338069 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
*
338134 TGTCGACACTTTTTGACAAGTTATCGACACA-TTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
338174 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
338239 CATAAAATCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*** * * *
338304 CCGATGT-TTTTTCAATCGATACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACA
131 CCGATGTGTAAAT--ATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACA
338368 TAAAGTACCGACACAATATTAAAAAGTGT
194 TAAAGTACCGACACAATATTAAAAAGTGT
338397 GAAAACTTTG
Statistics
Matches: 570, Mismatches: 15, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
364 2 0.00
365 284 0.50
366 284 0.50
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (366 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATATCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATA
AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGT
ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:339636 original size:12 final size:12
Alignment explanation
Indices: 339606--339663 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
339596 CTTGTTTGGA
* *
339606 TCATCATCATCA
1 TCATCGTCATCT
*
339618 TCGTCGTCATCT
1 TCATCGTCATCT
339630 TCATCGTCATCT
1 TCATCGTCATCT
* *
339642 TCATCGTTAGCT
1 TCATCGTCATCT
*
339654 TCATCTTCAT
1 TCATCGTCAT
339664 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:341283 original size:200 final size:200
Alignment explanation
Indices: 340959--341722 Score: 1341
Period size: 200 Copynumber: 3.8 Consensus size: 200
340949 AACATTAAAC
* * * * *
340959 AGTGTCGATACA-TATTATATACCAATTCTCCCATAAAACTGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * * *
341023 AAAAATTACCTAATACATTATACTTTTGGGTTTCAATGTTTATGGGATCAACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
341088 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
341153 TACAAA
195 TACAAA
*
341159 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
341224 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGAGCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
341289 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
341354 ACAAA
196 ACAAA
341359 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
341424 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
341489 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
341554 ACAAA
196 ACAAA
*
341559 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
341624 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACATTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
341689 GATCGATACTTTATGGTTGCATCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
341723 ATTGTAAATT
Statistics
Matches: 541, Mismatches: 22, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
200 537 0.99
201 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:341967 original size:18 final size:18
Alignment explanation
Indices: 341944--342004 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
341934 TCTCATTCAT
*
341944 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
341962 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
341981 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
342000 AATTA
1 AATTA
342005 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:341980 original size:19 final size:19
Alignment explanation
Indices: 341956--342004 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
341946 TTATATTCAC
341956 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
341975 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
341994 ATACAAAATTA
1 ATACAAAATTA
342005 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:343885 original size:21 final size:21
Alignment explanation
Indices: 343860--343924 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
343850 CCCCTTATGC
* *
343860 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
343881 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
343902 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
343923 CT
1 CT
343925 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:346367 original size:20 final size:19
Alignment explanation
Indices: 346321--346381 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
346311 TCTGGTAACG
346321 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
346340 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
*
346361 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
346380 TT
1 TT
346382 GGATCGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:346411 original size:181 final size:181
Alignment explanation
Indices: 346107--346576 Score: 710
Period size: 181 Copynumber: 2.6 Consensus size: 181
346097 CGTACTTTCG
* *
346107 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
346172 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATC-TTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
346237 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
346288 AAAGTATCGACACTTTCAATGTATCTGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
346353 TATCATATTTTTACCTGGTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATC-TTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
346418 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
346470 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTTAATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * * *
346535 TGTCATAGTTTTA-CTGTTATATCGTTTGGATCAACACATTTT
66 TATCATATTTTTACCTGTTATATCTTTTGGATCGATACATTTT
346577 AATTTGGATC
Statistics
Matches: 263, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
180 16 0.06
181 176 0.67
182 71 0.27
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:347454 original size:21 final size:21
Alignment explanation
Indices: 347430--347490 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
347420 CTTTGAAAAA
347430 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
347451 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
347465 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
347486 AAATG
1 AAATG
347491 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:347521 original size:37 final size:36
Alignment explanation
Indices: 347428--347541 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 36
347418 AACTTTGAAA
347428 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
347464 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
347499 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 AAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
347535 AAAAATG
1 AAAAATG
347542 ATAATGGGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 36 0.49
36 14 0.19
37 23 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.43
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:352073 original size:21 final size:21
Alignment explanation
Indices: 352049--352109 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
352039 CTTTGAAAAA
352049 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
352070 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
352084 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
352105 AAATG
1 AAATG
352110 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:352140 original size:37 final size:36
Alignment explanation
Indices: 352047--352160 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 36
352037 AACTTTGAAA
352047 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
352083 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
352118 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 AAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
352154 AAAAATG
1 AAAAATG
352161 ATAATGGGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 36 0.49
36 14 0.19
37 23 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.43
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:353845 original size:2 final size:2
Alignment explanation
Indices: 353840--353890 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
353830 TATAATGAAC
353840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
353882 AT AT AT AT A
1 AT AT AT AT A
353891 ATTATGATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:357276 original size:4 final size:4
Alignment explanation
Indices: 357256--357335 Score: 60
Period size: 4 Copynumber: 19.2 Consensus size: 4
357246 CATATTAGAT
*
357256 ATAA AAAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA AT-A A-AA ATAA
1 ATAA ATAA AT-AA ATAA ATAA ATAA A-T-AA --ATAA ATAA ATAA ATAA
357302 ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA ATAA A
1 AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA A
357336 GCATAAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 22
0.72 0.02 0.25
Matches are distributed among these distances:
3 6 0.10
4 42 0.67
5 12 0.19
6 2 0.03
8 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:357356 original size:36 final size:34
Alignment explanation
Indices: 357302--357413 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 34
357292 ATAAAAATAA
*
357302 ATAAAATAAAATAATAAATAAATAAATAAATAAAGC
1 ATAAAA-AAGATAATAAATAAATAAATAAATAAA-C
* * *
357338 ATAAAAAATGATAGTAAAT-AATAGTATAAATATAAA
1 ATAAAAAA-GATAATAAATAAATA-AATAAATA-AAC
* * *
357374 ATAAAAAAGGTAATATATATAATAAATAAATACAC
1 ATAAAAAAGATAATAAATA-AATAAATAAATAAAC
357409 ATAAA
1 ATAAA
357414 GAAAATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
35 19 0.31
36 36 0.59
37 6 0.10
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (34 bp):
ATAAAAAAGATAATAAATAAATAAATAAATAAAC
Found at i:358901 original size:106 final size:108
Alignment explanation
Indices: 358596--359219 Score: 627
Period size: 109 Copynumber: 5.9 Consensus size: 108
358586 GTTCCGAGTC
* * ** **
358596 CAATATCCTCCG-CTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAGTCAG
1 CAATATCCTCCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG
* * * *
358660 CCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCTCGAGT-C-
65 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * *
358702 TAATATCCTTCAC-T-GTGAAGTTGAAATTGACTCTGAACA-----AAA-T-CTTGTTGACAATC
1 CAATATCC-TC-CGTCGTGAAGTTGAAATTGGCTCTGAA-ATTGGGAAATTGTTTGTTGACAACC
358758 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-
63 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * *
358802 CAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTATTGACAACCAG
1 CAATATCCTCCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG
*
358866 CTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCA
65 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * ** * * *
358911 CGATATCCTCCGTCGTGGAGTTGAAA-TCGCGGATGAAACT-GAAAAGTTGTTCGTTGACAACCA
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGC-TCTGAAATTGGGAAA-TTGTTTGTTGACAACCA
* *
358974 GCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGGGTAGCA
64 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * * * * *
359020 CGATATCCTCCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCGTTGACAACCAGT
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
*
359085 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCA
66 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * * * * *
359129 CGATATCCTCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTG-TTGTTGGCAACCAAC
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
359193 CGTCCCTTCGTTGTGAAGTTGAACTTG
66 CGTCCCTTCGTTGTGAAGTTGAACTTG
359220 ACTCTAGCTA
Statistics
Matches: 447, Mismatches: 49, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
98 1 0.00
99 2 0.00
100 80 0.18
101 1 0.00
102 3 0.01
104 3 0.01
105 1 0.00
106 79 0.18
107 3 0.01
108 48 0.11
109 220 0.49
110 6 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (108 bp):
CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
Found at i:359103 original size:218 final size:210
Alignment explanation
Indices: 358590--359218 Score: 706
Period size: 218 Copynumber: 3.0 Consensus size: 210
358580 AATATTGTTC
**
358590 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
** * * * *
358655 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCTCGAGT-CTA--ATATCCTTCAC-T
66 ACCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-ACGATATCC-TC-CGT
* ** * *
358716 -GTGAAGTTGAAATTGAC-TCTG-AAC--AAAA-TCTTGTTGACAATCAGCCGTCCCTTCGTTGT
127 CGTGGAGTTGAAA-TG-CGGATGAAACTGAAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGT
*
358775 GAAGTTGAACTTGTGTTGTCT
190 GAAGTTGAACTTATGTTGTCT
* * * * * * *
358796 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTATTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
358861 ACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTCG
66 ACCAGC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCGTCG
358926 TGGAGTTGAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTG
129 TGGAGTTGAAAT-GCGGATGAAACTGAAAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTG
358991 AAGTTGAACTTATGTTGTCT
191 AAGTTGAACTTATGTTGTCT
* * * * *
359011 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCGTT
1 CGAGT--C-CAATATCCTCCGCT-GTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTT
*
359075 GACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCC
62 GACAACCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCC
* * * * *
359140 GTCGTGGAGTTGAAAT-CGGTTCCGAAATTGGGAAATTGTTGTTGGCAACCAACCGTCCCTTCGT
125 GTCGTGGAGTTGAAATGCGGAT--GAAACT-GAAAATTGTTGTTGACAACCAGCCGTCCCTTCGT
359204 TGTGAAGTTGAACTT
187 TGTGAAGTTGAACTT
359219 GACTCTAGCT
Statistics
Matches: 360, Mismatches: 40, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
205 1 0.00
206 94 0.26
207 2 0.01
208 6 0.02
209 20 0.06
210 3 0.01
212 4 0.01
214 3 0.01
215 50 0.14
216 4 0.01
217 39 0.11
218 129 0.36
219 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (210 bp):
CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
ACCAGCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCTCCGTCGTG
GAGTTGAAATGCGGATGAAACTGAAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
GAACTTATGTTGTCT
Found at i:359853 original size:65 final size:65
Alignment explanation
Indices: 359745--359914 Score: 297
Period size: 65 Copynumber: 2.6 Consensus size: 65
359735 GGGAGACAAA
359745 ATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
359809 GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
359874 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
359915 TTGTTTCGAG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 3 0.03
65 96 0.97
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
Found at i:360029 original size:102 final size:102
Alignment explanation
Indices: 359814--360029 Score: 387
Period size: 102 Copynumber: 2.1 Consensus size: 102
359804 TCAATGTTTA
* *
359814 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
359879 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
359916 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
*
359981 TGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
360018 TGTTTCAAGGGA
1 TGTTTCAAGGGA
360030 GACAAAATTC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 108 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:360032 original size:87 final size:87
Alignment explanation
Indices: 359935--360116 Score: 310
Period size: 87 Copynumber: 2.1 Consensus size: 87
359925 GGAAACTATC
* *
359935 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
*
360000 TTAAGGGAGACAAAATTTTGTT
66 TCAAGGGAGACAAAATTTTGTT
360022 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
* **
360087 TCAATGGAGACGGAATTTTGTT
66 TCAAGGGAGACAAAATTTTGTT
360109 TCAAGGGA
1 TCAAGGGA
360117 AACTATCTCA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTT
Found at i:360046 original size:21 final size:22
Alignment explanation
Indices: 360002--360050 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
359992 AAACTGTCTT
**
360002 AAGGGAGACAAAATTTTGTTTC
1 AAGGGAGACAAAATTTCATTTC
360024 AAGGGAGACAAAA-TTCATTTC
1 AAGGGAGACAAAATTTCATTTC
360045 AAGGGA
1 AAGGGA
360051 AATGTTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (22 bp):
AAGGGAGACAAAATTTCATTTC
Found at i:360168 original size:189 final size:189
Alignment explanation
Indices: 359833--360218 Score: 673
Period size: 189 Copynumber: 2.0 Consensus size: 189
359823 AGAAACTATC
* * *
359833 TCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAGAGAAACTGTC
1 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTC
* *
359898 TCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGG
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGG
*
359963 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTTTGTT
131 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
*
360022 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTC
* **
360087 TCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGG
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGG
*
360152 AAATGTTTTTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
131 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
360211 TCAAGGGA
1 TCAAGGGA
360219 AACTGTCTCA
Statistics
Matches: 186, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (189 bp):
TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
Found at i:360249 original size:102 final size:102
Alignment explanation
Indices: 360022--360256 Score: 371
Period size: 102 Copynumber: 2.3 Consensus size: 102
360012 AAATTTTGTT
*
360022 TCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
* **
360087 TCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATC
* **
360124 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
*
360189 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATC
* **
360226 TCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAA
360257 CTGTCTCAAG
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 121 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (102 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATC
Found at i:360252 original size:36 final size:36
Alignment explanation
Indices: 360170--360274 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
360160 TTAATGTTTA
* * *
360170 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
360207 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
360243 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
360275 TAGTGAGCAC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 37 0.57
37 28 0.43
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:361160 original size:22 final size:22
Alignment explanation
Indices: 361135--361185 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
361125 TTGTGTTTGG
361135 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
361157 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
361179 TCAAAGG
1 TCAAAGG
361186 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:361842 original size:20 final size:21
Alignment explanation
Indices: 361797--361855 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
361787 TGTCCCCTTT
* *
361797 TTTTTTATTTTTGTTCTTTCC
1 TTTTTTGTTCTTGTTCTTTCC
361818 -TTTTTGTTCTTGTT-TTTCC
1 TTTTTTGTTCTTGTTCTTTCC
361837 TTTTTTGCTTCTT-TTCTTT
1 TTTTTTG-TTCTTGTTCTTT
361856 TTTCTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 5 0.15
20 20 0.61
21 8 0.24
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTTTGTTCTTGTTCTTTCC
Found at i:361851 original size:18 final size:19
Alignment explanation
Indices: 361813--361851 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
361803 ATTTTTGTTC
* *
361813 TTTCCTTTTTGTTCTTGTT
1 TTTCCTTTTTGTGCTTCTT
361832 TTTCCTTTTT-TGCTTCTT
1 TTTCCTTTTTGTGCTTCTT
361850 TT
1 TT
361852 CTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (19 bp):
TTTCCTTTTTGTGCTTCTT
Found at i:361857 original size:17 final size:17
Alignment explanation
Indices: 361804--361858 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
361794 TTTTTTTTTA
*
361804 TTTTTG-TTCTTTCCTT
1 TTTTTGCTTCTTTTCTT
* *
361820 TTTGTT-CTTGTTTTTCCT
1 TTT-TTGCTT-CTTTTCTT
361838 TTTTTGCTTCTTTTCTT
1 TTTTTGCTTCTTTTCTT
361855 TTTT
1 TTTT
361859 CTTTTTGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.10
17 16 0.53
18 11 0.37
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTTTGCTTCTTTTCTT
Found at i:364854 original size:5 final size:5
Alignment explanation
Indices: 364844--364903 Score: 54
Period size: 5 Copynumber: 12.4 Consensus size: 5
364834 TAGATATAAA
* * **
364844 AAAAT AAAAT AAAAT -AAAT -AAAT AAATT CAACC AAAAT AAAA- ATAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT
364892 AAAAT AAAAT AA
1 AAAAT AAAAT AA
364904 TAAATAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
4 9 0.20
5 35 0.78
6 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:364864 original size:4 final size:4
Alignment explanation
Indices: 364839--364919 Score: 53
Period size: 4 Copynumber: 19.2 Consensus size: 4
364829 CATGTTAGAT
*
364839 ATAA AAAA ATAAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA AT-A A-AA
1 ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA A-T-AA --ATAA ATAA ATAA
364886 ATAA ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA A
1 ATAA AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA A
364920 GCATAAAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 22
0.73 0.02 0.25
Matches are distributed among these distances:
3 6 0.09
4 38 0.59
5 17 0.27
6 2 0.03
8 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:364961 original size:23 final size:22
Alignment explanation
Indices: 364878--364987 Score: 66
Period size: 23 Copynumber: 4.8 Consensus size: 22
364868 AATTCAACCA
*
364878 AAATA-AAAATAAATAAAATA-
1 AAATATAAAATAAATAAAGTAT
*
364898 AAATAATAAATAAATAAATAAAGCAT
1 AAAT-AT--A-AAATAAATAAAGTAT
* * *
364924 AAAAATGATAGTAAATAATAGTAT
1 AAATAT-AAAATAAATAA-AGTAT
364948 AAATATAAAATAAA-AAAGGTA-
1 AAATATAAAATAAATAAA-GTAT
*
364969 ATATATATAAATAAATAAA
1 AAATATA-AAATAAATAAA
364988 ATACACATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.06
21 8 0.12
22 12 0.17
23 17 0.25
24 11 0.16
25 14 0.20
26 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (22 bp):
AAATATAAAATAAATAAAGTAT
Found at i:367911 original size:68 final size:68
Alignment explanation
Indices: 367826--367962 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
367816 TATTGGAGGT
*
367826 AGAGACGAACACATGATTTTATATAAGAAGAAAGAAGTTCAACTTATAAACTTTTAGGGGATGAA
1 AGAGACGAACACATGATTTTATATAAGAAGAAAGAAGTTCAACTTATAAACTTTTAGGGGACGAA
367891 AAC
66 AAC
* *
367894 AGAGACGTACACATGATTTTATATAAGACGAAAGAAGTTCAACTTATAAACTTTTAGGGGACGAA
1 AGAGACGAACACATGATTTTATATAAGAAGAAAGAAGTTCAACTTATAAACTTTTAGGGGACGAA
367959 AAC
66 AAC
367962 A
1 A
367963 TAATTTAAAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.25
Consensus pattern (68 bp):
AGAGACGAACACATGATTTTATATAAGAAGAAAGAAGTTCAACTTATAAACTTTTAGGGGACGAA
AAC
Found at i:368947 original size:9 final size:9
Alignment explanation
Indices: 368933--368985 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
368923 CTGCTGGAAA
*
368933 ACCGGTTTG
1 ACCGGTTCG
368942 ACCGGTTCCG
1 ACCGGTT-CG
*
368952 ACTGGTTCG
1 ACCGGTTCG
*
368961 ACCGGTCCG
1 ACCGGTTCG
*
368970 AACCGGTTTG
1 -ACCGGTTCG
368980 ACCGGT
1 ACCGGT
368986 CAGACCTGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 22 0.61
10 14 0.39
ACGTcount: A:0.13, C:0.30, G:0.32, T:0.25
Consensus pattern (9 bp):
ACCGGTTCG
Found at i:368986 original size:19 final size:19
Alignment explanation
Indices: 368932--368986 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
368922 GCTGCTGGAA
368932 AACCGGTTTGACCGGTTCCG
1 AACCGGTTTGACCGG-TCCG
* *
368952 -ACTGGTTCGACCGGTCCG
1 AACCGGTTTGACCGGTCCG
368970 AACCGGTTTGACCGGTC
1 AACCGGTTTGACCGGTC
368987 AGACCTGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.24
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCCG
Found at i:372177 original size:13 final size:13
Alignment explanation
Indices: 372161--372191 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
372151 GTCAACGGGT
*
372161 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
372174 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
372187 CGGGT
1 CGGGT
372192 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:372224 original size:10 final size:10
Alignment explanation
Indices: 372204--372247 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
372194 ACGGGTCGTG
372204 ACCGGTC-AA
1 ACCGGTCAAA
372213 ACCGGTCAAA
1 ACCGGTCAAA
*
372223 ACCGGT-TAA
1 ACCGGTCAAA
372232 ACCGGTCAAA
1 ACCGGTCAAA
372242 ACCGGT
1 ACCGGT
372248 TTCCAACGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:372248 original size:19 final size:19
Alignment explanation
Indices: 372204--372248 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
372194 ACGGGTCGTG
*
372204 ACCGGTCAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
372223 ACCGGTTAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
372242 ACCGGTT
1 ACCGGTT
372249 TCCAACGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (19 bp):
ACCGGTTAAACCGGTCAAA
Found at i:379393 original size:13 final size:13
Alignment explanation
Indices: 379375--379434 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
379365 ACGGGTCAAC
379375 GGTCAACGGGTCG
1 GGTCAACGGGTCG
379388 GGTCAACGGGTCG
1 GGTCAACGGGTCG
379401 GGT---CGGGTCG
1 GGTCAACGGGTCG
379411 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
379424 GGTAAACGGGT
1 GGTCAACGGGT
379435 AAACGGGTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
10 10 0.23
13 33 0.77
ACGTcount: A:0.15, C:0.20, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:379411 original size:23 final size:23
Alignment explanation
Indices: 379381--379426 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
379371 CAACGGTCAA
379381 CGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCAACGGGTCGGGT
379404 CGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCAACGGGTCGGGT
379427 AAACGGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (23 bp):
CGGGTCGGGTCAACGGGTCGGGT
Found at i:379467 original size:10 final size:10
Alignment explanation
Indices: 379447--379501 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 10
379437 ACGGGTCGTG
379447 ACCGGTC-AA
1 ACCGGTCAAA
379456 ACCGGTCAAA
1 ACCGGTCAAA
379466 ACCGGTTCAAA
1 ACCGG-TCAAA
*
379477 ACCGGT-TAA
1 ACCGGTCAAA
379486 ACCGGTCAAA
1 ACCGGTCAAA
*
379496 ATCGGT
1 ACCGGT
379502 TTCCAACGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 15 0.38
10 15 0.38
11 10 0.25
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:379477 original size:11 final size:11
Alignment explanation
Indices: 379454--379502 Score: 61
Period size: 10 Copynumber: 4.8 Consensus size: 11
379444 GTGACCGGTC
379454 AAACCGG-TCA
1 AAACCGGTTCA
379464 AAACCGGTTCA
1 AAACCGGTTCA
379475 AAACCGGTT--
1 AAACCGGTTCA
379484 AAACCGG-TCA
1 AAACCGGTTCA
*
379494 AAATCGGTT
1 AAACCGGTT
379503 TCCAACGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
10 13 0.38
11 13 0.38
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:379502 original size:19 final size:20
Alignment explanation
Indices: 379454--379502 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
379444 GTGACCGGTC
*
379454 AAACCGGTCAAAACCGGTTCA
1 AAACCGGT-TAAACCGGTTCA
379475 AAACCGGTTAAACCGG-TCA
1 AAACCGGTTAAACCGGTTCA
*
379494 AAATCGGTT
1 AAACCGGTT
379503 TCCAACGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 8 0.31
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
AAACCGGTTAAACCGGTTCA
Found at i:380418 original size:77 final size:77
Alignment explanation
Indices: 380227--380403 Score: 345
Period size: 77 Copynumber: 2.3 Consensus size: 77
380217 GGTTGTTACA
*
380227 CAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAATAAGTATCTAATATAAATTAAATATA
1 CAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAATAAGTATCTAATACAAATTAAATATA
380292 ATGCTACAAAAG
66 ATGCTACAAAAG
380304 CAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAATAAGTATCTAATACAAATTAAATATA
1 CAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAATAAGTATCTAATACAAATTAAATATA
380369 ATGCTACAAAAG
66 ATGCTACAAAAG
380381 CAAATCCCGAAGATTACTTCAAT
1 CAAATCCCGAAGATTACTTCAAT
380404 AAATATATAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 99 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (77 bp):
CAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAATAAGTATCTAATACAAATTAAATATA
ATGCTACAAAAG
Found at i:382179 original size:16 final size:16
Alignment explanation
Indices: 382148--382213 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
382138 AAGTAAAAGA
382148 AATAAAGAATGAAAGAAG
1 AATAAAGAA-G-AAGAAG
*
382166 ACTAAAGAAGAAGAAG
1 AATAAAGAAGAAGAAG
* *
382182 AATGAAGAAAAAGAA-
1 AATAAAGAAGAAGAAG
* *
382197 AACAGAGAAG-AGAAG
1 AATAAAGAAGAAGAAG
382212 AA
1 AA
382214 GGAACGACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.10
15 8 0.21
16 18 0.46
17 1 0.03
18 8 0.21
ACGTcount: A:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (16 bp):
AATAAAGAAGAAGAAG
Found at i:383554 original size:22 final size:22
Alignment explanation
Indices: 383529--383579 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
383519 ACACGCACAC
383529 GCGCGCACGCACA-CATACGCAG
1 GCGCGCACGCA-AGCATACGCAG
383551 GCGCGCACGCAAGCATACGCAG
1 GCGCGCACGCAAGCATACGCAG
*
383573 GTGCGCA
1 GCGCGCA
383580 TGCGCTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.25, C:0.37, G:0.31, T:0.06
Consensus pattern (22 bp):
GCGCGCACGCAAGCATACGCAG
Found at i:383997 original size:19 final size:19
Alignment explanation
Indices: 383958--384015 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
383948 TTAGATTAAT
* *
383958 ATATTTT-ATAA-TAATTT
1 ATATTTTAATAATTAAATA
383975 ATATTTTAATAATTAAATA
1 ATATTTTAATAATTAAATA
* *
383994 ATATATTAGTAATATAAA-A
1 ATATTTTAATAAT-TAAATA
384013 ATA
1 ATA
384016 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.21
18 4 0.12
19 19 0.56
20 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTTTAATAATTAAATA
Found at i:391474 original size:35 final size:36
Alignment explanation
Indices: 391405--391494 Score: 130
Period size: 35 Copynumber: 2.5 Consensus size: 36
391395 TATATAATAA
* *
391405 AATAAAATAAATAATTATAATTTAAAAAGAGAAAAT
1 AATAAAATAAATAATAATAATATAAAAAGAGAAAAT
*
391441 AATAAAATAAATAATAATAA-ATAAAAAGGGAAAAT
1 AATAAAATAAATAATAATAATATAAAAAGAGAAAAT
391476 AATAAAAT-AATAAATAATA
1 AATAAAATAAAT-AATAATA
391495 GTAGTAAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
34 3 0.06
35 28 0.56
36 19 0.38
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (36 bp):
AATAAAATAAATAATAATAATATAAAAAGAGAAAAT
Found at i:391494 original size:15 final size:14
Alignment explanation
Indices: 391436--391492 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
391426 TTAAAAAGAG
391436 AAAATAATAAAATAA
1 AAAATAAT-AAATAA
*
391451 ATAATAATAAATAA
1 AAAATAATAAATAA
***
391465 AAAGGGA-AAATAA
1 AAAATAATAAATAA
391478 TAAAATAATAAATAA
1 -AAAATAATAAATAA
391493 TAGTAGTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 6 0.19
14 13 0.41
15 13 0.41
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAATAATAAATAA
Found at i:391557 original size:18 final size:18
Alignment explanation
Indices: 391536--391578 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
391526 GTTGTTTTTA
391536 AAATAAAAGATAAA-AATT
1 AAATAAAAGA-AAATAATT
391554 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
391572 AAATAAA
1 AAATAAA
391579 TAATCTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:393028 original size:18 final size:15
Alignment explanation
Indices: 392993--393032 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 15
392983 ATCTCTTTAA
392993 TTTATTTATTTTTCT
1 TTTATTTATTTTTCT
393008 TTTATTTAATTCTTATCT
1 TTTATTT-ATT-TT-TCT
393026 TTTATTT
1 TTTATTT
393033 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 2 0.09
18 10 0.45
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTTTCT
Found at i:393631 original size:76 final size:71
Alignment explanation
Indices: 393455--393654 Score: 197
Period size: 76 Copynumber: 2.7 Consensus size: 71
393445 AAAACAAGCT
* * * *
393455 AAAATATCTTAAATCCTAATTAAAACACTTAAAA-TTATTTAAACTAAAATACCTAAAAAAATAA
1 AAAATAT-TAAAATTCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAAAAATAA
** *
393519 TGTTTAAA
64 AATATAAA
* **
393527 ATAATATTTTAATTCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACCTAAAAGAAAGA
1 AAAATATTAAAATT-CTAATTAAAATACT-AAAACCTATTTAAACTAAAATACCT-AAA-AAA-A
393592 TAAAATATAAA
61 TAAAATATAAA
*
393603 AAAATATCCTAAAATT-TAATTAAAATACTCAAACCTATTTTAAACTAAAATA
1 AAAATAT--TAAAATTCTAATTAAAATACTAAAACCTA-TTTAAACTAAAATA
393655 AAAAGATAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
71 6 0.06
72 22 0.21
73 19 0.18
74 3 0.03
75 10 0.09
76 42 0.39
78 5 0.05
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.32
Consensus pattern (71 bp):
AAAATATTAAAATTCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAATAAAA
TATAAA
Found at i:395411 original size:6 final size:5
Alignment explanation
Indices: 395366--395410 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
395356 AGTTTCTAAA
* * *
395366 AAAAT AAAAT AAAAT AAAAC GAAAT AAAACG AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAA
395411 AATAGAACGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:400929 original size:35 final size:36
Alignment explanation
Indices: 400859--400948 Score: 114
Period size: 35 Copynumber: 2.5 Consensus size: 36
400849 ATATATAATA
*
400859 AATAAAATAAATAA-ATATAATTTAAAAAGAAAAAAT
1 AATAAAATAAATAATA-ATAATATAAAAAGAAAAAAT
**
400895 AATAAAATAAATAATAATAA-ATAAAAAGGGAAAAT
1 AATAAAATAAATAATAATAATATAAAAAGAAAAAAT
400930 AATAAAAT-AATAAATAATA
1 AATAAAATAAAT-AATAATA
400949 TTAGTAAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
34 3 0.06
35 27 0.55
36 18 0.37
37 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (36 bp):
AATAAAATAAATAATAATAATATAAAAAGAAAAAAT
Found at i:400944 original size:15 final size:15
Alignment explanation
Indices: 400846--400948 Score: 58
Period size: 15 Copynumber: 7.1 Consensus size: 15
400836 GATGAAGTTG
400846 AAAAT-ATATAATAAAT
1 AAAATAATA-AAT-AAT
400862 AAAATAAATAAAT-AT
1 AAAAT-AATAAATAAT
** *
400877 AATTTAA-AAAGAA-
1 AAAATAATAAATAAT
400890 AAAATAATAAAATAA-
1 AAAATAAT-AAATAAT
*
400905 ATAATAATAAATAA-
1 AAAATAATAAATAAT
***
400919 AAAGGGA-AAATAAT
1 AAAATAATAAATAAT
400933 AAAATAATAAATAAT
1 AAAATAATAAATAAT
400948 A
1 A
400949 TTAGTAAAGA
Statistics
Matches: 66, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
13 14 0.21
14 16 0.24
15 25 0.38
16 5 0.08
17 3 0.05
18 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:401012 original size:18 final size:18
Alignment explanation
Indices: 400991--401033 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
400981 GTTGTTTTTA
400991 AAATAAAAGATAAA-AATT
1 AAATAAAA-ATAAATAATT
*
401009 AAATAAAATTAAATAATT
1 AAATAAAAATAAATAATT
401027 AAATAAA
1 AAATAAA
401034 TAATCTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAAATAAATAATT
Found at i:401685 original size:14 final size:15
Alignment explanation
Indices: 401650--401691 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
401640 TACTTAAAAC
401650 TATTTAAAATAA-AA
1 TATTTAAAATAATAA
**
401664 TACCTAAAA-AATAA
1 TATTTAAAATAATAA
401678 TATTTAAAATAATA
1 TATTTAAAATAATA
401692 TTCTAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.09
14 16 0.73
15 4 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
TATTTAAAATAATAA
Found at i:401705 original size:71 final size:75
Alignment explanation
Indices: 401624--401813 Score: 250
Period size: 76 Copynumber: 2.6 Consensus size: 75
401614 TAAAACATCT
* *
401624 TAAATCCTAATTAAAATACTTAAAA-CTATTTAAAATAAAATACCT-AAA-AAA-T--AATATTT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGTCAAATA-TA
*
401683 AAAATAATATTC
64 AAAATAATATCC
*
401695 TAAATCCTAATTAAAATACTAAAACCTACTTAAACTAAAATACCTAAAACAAAGTTCAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAG-TCAAATATAA
401760 AAATAATATCC
65 AAATAATATCC
*
401771 TAAAAT-TTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 T-AAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
401814 AAAGATAAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
70 5 0.05
71 37 0.35
72 3 0.03
73 3 0.03
75 1 0.01
76 48 0.46
77 8 0.08
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGTCAAATATAAA
AATAATATCC
Found at i:401809 original size:24 final size:24
Alignment explanation
Indices: 401706--401813 Score: 69
Period size: 24 Copynumber: 4.3 Consensus size: 24
401696 AAATCCTAAT
*
401706 TAAAATACTAAAACCTACTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** *
401730 TAAAATACCTAAAACAAAGTTCAAA-
1 TAAAATA-CTAAAACCTA-TTTAAAC
* * *
401755 TATAAA-AATAATATCCTAAAATTT-AAT
1 TA-AAATACTAA-AACCT---ATTTAAAC
401782 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
401806 TAAAATAC
1 TAAAATAC
401814 AAAGATAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
23 4 0.06
24 20 0.32
25 13 0.21
26 16 0.26
27 8 0.13
28 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:401837 original size:76 final size:75
Alignment explanation
Indices: 401625--401849 Score: 241
Period size: 76 Copynumber: 3.0 Consensus size: 75
401615 AAAACATCTT
* * *
401625 AAATCCTAATTAAAATACTTAAAA-CTATTTAAAATAAAATAC---CTAAAAAATAATATTTAAA
1 AAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAATAAAATATAATATTTAAA
*
401686 ATAATATTCT-
65 ATAATATCCTA
* * * *
401696 AAATCCTAATTAAAATACTAAAACCTACTTAAACTAAAATACCTAAAACAAAGT-TCAA-ATATA
1 AAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAATAAAATAT-AATAT-TT
401759 AAAATAATATCCTA
62 AAAATAATATCCTA
* *
401773 AAAT-TTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAA
1 AAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAA-ATAAAATATAATATTTAAA
*
401837 ATATTATCCTA
65 ATAATATCCTA
401848 AA
1 AA
401850 CTTGAGTTTA
Statistics
Matches: 127, Mismatches: 15, Indels: 20
0.78 0.09 0.12
Matches are distributed among these distances:
70 5 0.04
71 33 0.26
72 1 0.01
74 3 0.02
75 27 0.21
76 54 0.43
77 4 0.03
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (75 bp):
AAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAATAAAATATAATATTTAAAA
TAATATCCTA
Found at i:402534 original size:25 final size:23
Alignment explanation
Indices: 402504--402574 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 23
402494 TTAAATTCAT
402504 AATATTTTATATATATTAACTTAA
1 AATATTTT-TATATATTAACTTAA
402528 AAGTA-TTTT-TATATTAACTTATTA
1 AA-TATTTTTATATATTAACTTA--A
402552 AATATATTTTAT-TATTAACTTAA
1 AATAT-TTTTATATATTAACTTAA
402575 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
22 12 0.29
23 4 0.10
24 8 0.20
25 16 0.39
26 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (23 bp):
AATATTTTTATATATTAACTTAA
Found at i:402543 original size:22 final size:22
Alignment explanation
Indices: 402515--402574 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 22
402505 ATATTTTATA
402515 TATATTAACTTAAAAGTAT-TTT
1 TATATTAACTTAAAA-TATATTT
402537 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
402561 TATTATTAACTTAA
1 TA-TATTAACTTAA
402575 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 8 0.24
25 10 0.29
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:402579 original size:27 final size:24
Alignment explanation
Indices: 402524--402585 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 24
402514 ATATATTAAC
*
402524 TTAAAAGTATTTTTATATTAACTTA
1 TTAAAAATA-TTTTATATTAACTTA
*
402549 TTAAATATATTTTATTATTAACTTAA
1 TTAAAAATATTTTA-TATTAACTT-A
402575 TTTAAAAATAT
1 -TTAAAAATAT
402586 ATATTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 16 0.52
26 1 0.03
27 9 0.29
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAAAAATATTTTATATTAACTTA
Found at i:402767 original size:31 final size:32
Alignment explanation
Indices: 402719--402797 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
402709 TAACCCGTGA
* *
402719 TGACTACATATTA-ATTAAATAAAAACAAAAG
1 TGACCACATCTTATATTAAATAAAAACAAAAG
* *
402750 TGACCATATCTT-TATTAAATAAAAACGAAAG
1 TGACCACATCTTATATTAAATAAAAACAAAAG
*
402781 TGATCACATCTTATATT
1 TGACCACATCTTATATT
402798 TTTCGAAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 36 0.90
32 4 0.10
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.32
Consensus pattern (32 bp):
TGACCACATCTTATATTAAATAAAAACAAAAG
Found at i:403152 original size:21 final size:21
Alignment explanation
Indices: 403108--403152 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
403098 ATCACATCTG
*
403108 AATTTATTTTGTAATTTATGA
1 AATTTATTTTGTAATTCATGA
*
403129 AATTTATTTT-TAAATTCATTA
1 AATTTATTTTGT-AATTCATGA
403150 AAT
1 AAT
403153 ATTTTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
AATTTATTTTGTAATTCATGA
Found at i:408427 original size:39 final size:39
Alignment explanation
Indices: 408369--408456 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
408359 ATGCATCTTG
* *
408369 TAATATACGATTTCTGGAAATGATAACATGCGACAGTCT
1 TAATATACGACTTCCGGAAATGATAACATGCGACAGTCT
* * *
408408 TAATATACGACTTCCGGAAATGATCACCTGCGATAGTCT
1 TAATATACGACTTCCGGAAATGATAACATGCGACAGTCT
408447 TAATATACGA
1 TAATATACGA
408457 TTAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (39 bp):
TAATATACGACTTCCGGAAATGATAACATGCGACAGTCT
Found at i:408918 original size:17 final size:18
Alignment explanation
Indices: 408877--408920 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
408867 AGTGCCTAAC
408877 AATAACAAAACCGGTAGAAAA
1 AATAACAAAACCGGT---AAA
408898 AATAACAAAACCGGT-AA
1 AATAACAAAACCGGTAAA
408915 AATAAC
1 AATAAC
408921 CAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
21 15 0.65
ACGTcount: A:0.61, C:0.16, G:0.11, T:0.11
Consensus pattern (18 bp):
AATAACAAAACCGGTAAA
Found at i:414825 original size:182 final size:182
Alignment explanation
Indices: 414516--414995 Score: 709
Period size: 182 Copynumber: 2.6 Consensus size: 182
414506 TGATCCAAAT
* * * *
414516 TAAAAATGTATCGATCCATATCAATATAACAGGTAAAAATGTCGATAAAACCGGTCA-CGAAAA-
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATAT-GATAAAACCGGT-ATC-AAAAT
* * **
414579 CACAATAT-CGGTAAA-TCCTTACCGGATATATTGAACA-TGTCGATACTTTAATACAAGGATCG
63 GATAA-ATCCGGTAAAGAGC-TACCGGATATATTGAA-AGTGTCGATACTTTAATACAAGGATCG
*
414641 ACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTA
125 ACACGTTGTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTA
*
414699 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* * * *
414764 AAATCCGGTAAAGAGCTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACGT
66 AAATCCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATACAAGGATCGACACGT
* *
414829 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTA
131 TGTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTA
414881 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
414946 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 AAATCCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
414996 AGTACGTGTA
Statistics
Matches: 271, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
181 8 0.03
182 224 0.83
183 39 0.14
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
AAATCCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATACAAGGATCGACACGT
TGTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTA
Found at i:414935 original size:20 final size:19
Alignment explanation
Indices: 414912--414957 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
414902 CGATATAACA
414912 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
414932 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
414952 GGTAAA
1 GGTAAA
414958 GCGCTACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:417214 original size:21 final size:21
Alignment explanation
Indices: 417190--417233 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
417180 AAGACAATCA
417190 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
417211 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
417232 AG
1 AG
417234 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:417303 original size:33 final size:33
Alignment explanation
Indices: 417266--417331 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
417256 AAATAGATGG
*
417266 AGTGGTAAAAGAAGTAAAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTAAAGGTGTTAAGGGGTGA
* **
417299 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTAAAAGAAGTAAAGGTGTTAAGGGGTGA
417332 TCTTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTAAAGGTGTTAAGGGGTGA
Found at i:419150 original size:19 final size:19
Alignment explanation
Indices: 419123--419168 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
419113 TAGGGTTAAT
*
419123 TTTTTTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
419142 TTTTGTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
419161 TTTTGTAT
1 TTTTGTAT
419169 GTGAATGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (19 bp):
TTTTGTATAAGATTTATAA
Found at i:419776 original size:201 final size:201
Alignment explanation
Indices: 419431--419971 Score: 958
Period size: 201 Copynumber: 2.7 Consensus size: 201
419421 AGGTAAAATT
419431 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
* *
419496 TATAAATATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATTGACACTTTTTTAATTTTGT
66 TATAAATATTCCAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
* *
419561 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAATGTCGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGAGTGCAACCATAAAATGTCAATACATTTAT
419626 AAAAAG
196 AAAAAG
* *
419632 TATCGATCCCAGGAACATATGCATCCATAAGTATAATATAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
*
419697 TATAAATATTCCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
66 TATAAATATTCCAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
* *
419762 GTCGATACTTTTGGTTCAGAATGAATGCCAAAAAGAGTGCAACCATAAAGTGTCAATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGAGTGCAACCATAAAATGTCAATACATTTAT
419827 AAAAAG
196 AAAAAG
*
419833 TATCGATCCCAGAAACATATGCATCTATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
* *
419898 TATAAATATAT-CAGTTTTATGAAAGAATAGGTCTACAACATGTATCGACACATTTTTAATTTTG
66 TATAAATAT-TCCAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTG
419962 TGTCGATACT
130 TGTCGATACT
419972 AATTTAAATA
Statistics
Matches: 324, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
201 323 1.00
202 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (201 bp):
TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
TATAAATATTCCAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGAGTGCAACCATAAAATGTCAATACATTTAT
AAAAAG
Found at i:421462 original size:12 final size:12
Alignment explanation
Indices: 421450--421505 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
421440 CAATGAAGAT
*
421450 GAAGATGACGAT
1 GAAGATGACGAC
421462 GAAGATGACGAC
1 GAAGATGACGAC
* *
421474 GACGACGACGAC
1 GAAGATGACGAC
* *
421486 GACGATGACGGC
1 GAAGATGACGAC
*
421498 GATGATGA
1 GAAGATGA
421506 TGATGATCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.18, G:0.36, T:0.11
Consensus pattern (12 bp):
GAAGATGACGAC
Found at i:421477 original size:18 final size:18
Alignment explanation
Indices: 421442--421478 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
421432 CAAGCGGTCA
*
421442 ATGAAGATGAAGATGACG
1 ATGAAGATGAAGACGACG
*
421460 ATGAAGATGACGACGACG
1 ATGAAGATGAAGACGACG
421478 A
1 A
421479 CGACGACGAC
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:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (18 bp):
ATGAAGATGAAGACGACG
Found at i:423019 original size:51 final size:53
Alignment explanation
Indices: 422964--423073 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 53
422954 AGAATGGATG
*
422964 CCAAAAAGGG-TGAAC-CTACAAAGTGTCGATACATTT-TCATAGAGTGTCGAT-
1 CCAAAAAGGGTTGAACGC-ACAAAGTGTCGATACATTTATCA-AAAGTGTCGATC
* * * *
423015 CC-AAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATC
1 CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATCAAAAGTGTCGATC
423067 CCAAAAA
1 CCAAAAA
423074 CATCGAAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
50 7 0.14
51 33 0.67
52 5 0.10
53 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (53 bp):
CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATCAAAAGTGTCGATC
Found at i:426408 original size:199 final size:199
Alignment explanation
Indices: 425968--426452 Score: 583
Period size: 199 Copynumber: 2.4 Consensus size: 199
425958 ACCTAAATAT
* * * *
425968 GTGTCGATACATATTAT-ACAAGTATC-AACCCAAAAAACATCAAAACCAATAATTATAACGTAA
1 GTGTCGATACAT-TTATAAAAAGTATCGATCCC-AAAAACATCGAAACCAATAATTATAATGTAA
* * * *
426031 TAGGTAAATTAATAATGTAACCGGTATAAATATACCGGTTAATTAGAAAACAGGTCAACATAATG
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTAATGAGAAAACAGGTCAACATAATG
* * *
426096 TATCGACACTTGTGTAATTTGTGTCAATACTTATTGTCTAGGATGAATGCAAAAACGAGGTGCAC
129 TATCGACACTTGTGAAATTTGTGTCAATACTTATGGTCTA-GATGAATCCAAAAACGAGGTGCAC
426161 GCATAAA
193 GCATAAA
* * *
426168 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * * *
426233 GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGATAAAATAGGTCAGCATCAA-G
66 GGTAAATTTACAATGTAACCGATATAAATATACC-GGTTAATGAGAAAACAGGTCAACAT-AATG
*
426297 TATCGACACTTGCT-AAATTTGTGTCGATACTT-TGGTTCATA-ATGAATACCAAAAA-G-GGTG
129 TATCGACACTTG-TGAAATTTGTGTCAATACTTATGG-TC-TAGATGAAT-CCAAAAACGAGGTG
426357 CAAC-CATAAA
190 C-ACGCATAAA
* ** * *
426367 GTGTTGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
*
426432 GGTAAATTTTCAATGTAACCG
66 GGTAAATTTACAATGTAACCG
426453 GTTTATGAGA
Statistics
Matches: 249, Mismatches: 27, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
199 93 0.37
200 91 0.37
201 60 0.24
202 5 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTAATGAGAAAACAGGTCAACATAATGTA
TCGACACTTGTGAAATTTGTGTCAATACTTATGGTCTAGATGAATCCAAAAACGAGGTGCACGCA
TAAA
Found at i:426782 original size:87 final size:86
Alignment explanation
Indices: 426679--426845 Score: 280
Period size: 87 Copynumber: 1.9 Consensus size: 86
426669 AAATAGGTCA
* *
426679 ATATAAGCACTACCTATTACATTATATAAGAGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
426744 CCGGTTAAATGCATATTTTATT
66 CCGGTTAAATG-ATATTTTATT
* * *
426766 ATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
426831 CCGGTTAAATGATAT
66 CCGGTTAAATGATAT
426846 AACATTACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 4 0.05
87 71 0.95
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (86 bp):
ATATAAGCACTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
CCGGTTAAATGATATTTTATT
Found at i:426813 original size:23 final size:23
Alignment explanation
Indices: 426763--426807 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
426753 TGCATATTTT
*
426763 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
426786 ATTATATAAGCGCTACTTAATA
1 ATTATATAAGCGCTACCTAATA
426808 TGTTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:426815 original size:26 final size:24
Alignment explanation
Indices: 426760--426817 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
426750 AAATGCATAT
426760 TTTATTATATAAGCGCTACCTAT-
1 TTTATTATATAAGCGCTACCTATA
** *
426783 TACATTATATAAGCGCTACTTAATA
1 TTTATTATATAAGCGCTACCT-ATA
426808 TGTTATTATA
1 T-TTATTATA
426818 CTTGATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 18 0.67
24 2 0.07
25 1 0.04
26 6 0.22
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (24 bp):
TTTATTATATAAGCGCTACCTATA
Found at i:428338 original size:30 final size:30
Alignment explanation
Indices: 428302--428411 Score: 94
Period size: 30 Copynumber: 3.7 Consensus size: 30
428292 TTACCATATA
* *
428302 CACTGAGTGTCCTTACACACCACAGTGTTG
1 CACTAAGTGTCCTTACACACAACAGTGTTG
* * *
428332 CACTGAGAGTCCTTACACACAACAATGTTG
1 CACTAAGTGTCCTTACACACAACAGTGTTG
* * * * * * *
428362 TACTAAATTTCCTTATACACTATAGTATTG
1 CACTAAGTGTCCTTACACACAACAGTGTTG
* *
428392 TACTAAGTGTCCTTATACAC
1 CACTAAGTGTCCTTACACAC
428412 TATAGTACCA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
CACTAAGTGTCCTTACACACAACAGTGTTG
Found at i:428412 original size:30 final size:30
Alignment explanation
Indices: 428359--428418 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
428349 CACAACAATG
*
428359 TTGTACTAAATTTCCTTATACACTATAGTA
1 TTGTACTAAATGTCCTTATACACTATAGTA
*
428389 TTGTACTAAGTGTCCTTATACACTATAGTA
1 TTGTACTAAATGTCCTTATACACTATAGTA
428419 CCATATGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (30 bp):
TTGTACTAAATGTCCTTATACACTATAGTA
Found at i:428560 original size:22 final size:23
Alignment explanation
Indices: 428530--428573 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
428520 CATACCTAAA
*
428530 ATATCATTCATGATAAATATCAG
1 ATATCATTCATGATAAACATCAG
428553 ATAT-ATTCATGATAAACATCA
1 ATATCATTCATGATAAACATCA
428574 TATGTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATCATTCATGATAAACATCAG
Found at i:435896 original size:24 final size:24
Alignment explanation
Indices: 435884--435939 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
435874 AATAATGTTG
435884 CGTAGAATTGCACATAAAATGCCA
1 CGTAGAATTGCACATAAAATGCCA
* *
435908 CGTAGAATTGCACATAAAGTCCCA
1 CGTAGAATTGCACATAAAATGCCA
*
435932 TGTAGAAT
1 CGTAGAAT
435940 GTACACGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (24 bp):
CGTAGAATTGCACATAAAATGCCA
Found at i:441510 original size:27 final size:27
Alignment explanation
Indices: 441480--441556 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
441470 GTATAGTTAT
441480 ATAAATAATATTAG-TATACTTTTTGTA
1 ATAAA-AATATTAGTTATACTTTTTGTA
*
441507 ATAAAAATA-TAGTTTATAGTTTTTGTA
1 ATAAAAATATTAG-TTATACTTTTTGTA
* *
441534 ATGAAAATA-TAGTTTATAGTTTT
1 ATAAAAATATTAG-TTATACTTTT
441557 ATAAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.07
26 4 0.09
27 39 0.85
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.48
Consensus pattern (27 bp):
ATAAAAATATTAGTTATACTTTTTGTA
Found at i:441515 original size:29 final size:28
Alignment explanation
Indices: 441494--441556 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
441484 ATAATATTAG
441494 TATACTTTTTGTAATAAAAAT-ATAGTT
1 TATACTTTTTGTAATAAAAATAATAGTT
* *
441521 TATAGTTTTTGTAATGAAAAT-ATAGTT
1 TATACTTTTTGTAATAAAAATAATAGTT
*
441548 TATAGTTTT
1 TATACTTTT
441557 ATAAATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.51
Consensus pattern (28 bp):
TATACTTTTTGTAATAAAAATAATAGTT
Found at i:441575 original size:20 final size:19
Alignment explanation
Indices: 441546--441597 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
441536 GAAAATATAG
*
441546 TTTATAGTTTTATAAATAA
1 TTTATAGTTTTAAAAATAA
441565 TTTAGTAGTTTTAAAAAT-A
1 TTTA-TAGTTTTAAAAATAA
*
441584 TAATATAGTTTTAA
1 T-TTATAGTTTTAA
441598 TATGATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
TTTATAGTTTTAAAAATAA
Found at i:441592 original size:22 final size:21
Alignment explanation
Indices: 441537--441592 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
441527 TTTTGTAATG
*
441537 AAAATATAGTTTA-TAGTTTT
1 AAAATATAATTTAGTAGTTTT
*
441557 ATAA-ATAATTTAGTAGTTTT
1 AAAATATAATTTAGTAGTTTT
*
441577 AAAAATATAATATAGT
1 -AAAATATAATTTAGT
441593 TTTAATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 3 0.10
22 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATATAATTTAGTAGTTTT
Found at i:441640 original size:15 final size:13
Alignment explanation
Indices: 441620--441658 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
441610 TAATATATAT
441620 AGTTTTAATGTCAA
1 AGTTTTAATGT-AA
*
441634 AGTTTTTAATGTAT
1 AG-TTTTAATGTAA
441648 AGTTTTAATGT
1 AGTTTTAATGT
441659 TTTTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 5 0.22
15 9 0.39
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (13 bp):
AGTTTTAATGTAA
Found at i:448496 original size:3 final size:3
Alignment explanation
Indices: 448488--448516 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
448478 TAGCCATTTC
448488 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
448517 ACTCATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:450039 original size:45 final size:45
Alignment explanation
Indices: 449688--450018 Score: 527
Period size: 45 Copynumber: 7.4 Consensus size: 45
449678 AAACGAATGA
* * *
449688 ATAATTGAAATGCATATGGGTGCATTGTTGGTATGAAGGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* **
449733 GTAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGTA
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* * *
449778 ATAATTGAAATGCATATGGGTACATTGTTGGCATGAAAGGATCCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
449823 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* * * *
449868 ATAATTGAAGTGCATATGGGTGCATTATTGGCATCAAAGTATGTC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
*
449913 ATAATTGAAATGCATATGGGTGCATTGTTGGCATGAAAGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
*
449958 AAAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
450003 ATAATTGAAATGCATA
1 ATAATTGAAATGCATA
450019 ATGTTGTATT
Statistics
Matches: 259, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 259 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (45 bp):
ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
Found at i:454520 original size:12 final size:13
Alignment explanation
Indices: 454505--454558 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
454495 CACCTCTTTA
454505 TTCTT-TTCTTCC
1 TTCTTCTTCTTCC
454517 TTCTTCTT-TTCC
1 TTCTTCTTCTTCC
454529 TTCTT-TTCTTCATC
1 TTCTTCTTCTTC--C
*
454543 ATCTTCTTCTTCC
1 TTCTTCTTCTTCC
454556 TTC
1 TTC
454559 ACAATGAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 5 0.14
15 6 0.17
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCTTCC
Found at i:454533 original size:24 final size:26
Alignment explanation
Indices: 454505--454558 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 26
454495 CACCTCTTTA
*
454505 TTCTTTTCTTC-CTTCTTCTT-TTCC
1 TTCTTTTCTTCACATCTTCTTCTTCC
454529 TTCTTTTCTTCATCATCTTCTTCTTCC
1 TTCTTTTCTTCA-CATCTTCTTCTTCC
454556 TTC
1 TTC
454559 ACAATGAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.42
26 8 0.31
27 7 0.27
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (26 bp):
TTCTTTTCTTCACATCTTCTTCTTCC
Found at i:456104 original size:20 final size:20
Alignment explanation
Indices: 456076--456120 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
456066 CTTTGGTATT
* *
456076 GGTATCATATGAACGATATC
1 GGTACCATATGAACAATATC
456096 GGTACCATATGAACAATATC
1 GGTACCATATGAACAATATC
456116 GGTAC
1 GGTAC
456121 TTGTTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
GGTACCATATGAACAATATC
Found at i:461231 original size:45 final size:45
Alignment explanation
Indices: 461167--461678 Score: 704
Period size: 45 Copynumber: 11.4 Consensus size: 45
461157 AAACGAATGA
* ** * * *
461167 ATAATTAAAATGCATATGGGTATATTGTTGGTATGAAAGGATACC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* * *
461212 ATAATTGAAATGCATATGGGTGCGTTATTGGTATGATAA-GATGTC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGA-AAGGATGCC
* * *
461257 ATAATTGAAATGAATATAGGTGCATTATTGACATGAAAAGG-TGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATG-AAAGGATGCC
* * *
461302 ATAATTGAAATGCATATGGATGCATTGTTGGCATGAAATGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* *
461347 ATAATTGAAATGCATATGGGTGCATTGTTGCCATGAAAGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* * * **
461392 ATAATTGAAATGCATATAGGTGCATTGTTGGCATGAAATGATGAT
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
461437 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
*
461482 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGAATGCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* * *
461527 ATAATTGAAATGCATATGGGTGTATTGTTGGCATGAAAGGATTCC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* *
461572 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAATGATGTC
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
* **
461617 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAATGATGTT
1 ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
461662 ATAATTGAAAATGCATA
1 ATAATTG-AAATGCATA
461679 ATGGTACATT
Statistics
Matches: 419, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
44 4 0.01
45 402 0.96
46 13 0.03
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (45 bp):
ATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCC
Found at i:461269 original size:22 final size:21
Alignment explanation
Indices: 461211--461416 Score: 74
Period size: 23 Copynumber: 9.1 Consensus size: 21
461201 GAAAGGATAC
*
461211 CATAATTGAAATGCATATGGGTG
1 CATAATTGAAATG-ATA-AGGTG
* * ** *
461234 CGTTATTGGTATGATAAGATG
1 CATAATTGAAATGATAAGGTG
461255 TCATAATTGAAATGAATATAGGTG
1 -CATAATTGAAATG-ATA-AGGTG
* * *
461279 CATTATTGACATGAAAAGGTG
1 CATAATTGAAATGATAAGGTG
*
461300 CCATAATTGAAATGCATATGGATG
1 -CATAATTGAAATG-ATAAGG-TG
** ** *
461324 CATTGTTGGCATGA-AATGATG
1 CATAATTGAAATGATAA-GGTG
*
461345 CCATAATTGAAATGCATATGGGTG
1 -CATAATTGAAATG-ATA-AGGTG
** **
461369 CATTGTTGCCATGA-AAGGATG
1 CATAATTGAAATGATAAGG-TG
461390 CCATAATTGAAATGCATATAGGTG
1 -CATAATTGAAATG-ATA-AGGTG
461414 CAT
1 CAT
461417 TGTTGGCATG
Statistics
Matches: 128, Mismatches: 39, Indels: 32
0.64 0.20 0.16
Matches are distributed among these distances:
20 2 0.02
21 14 0.11
22 46 0.36
23 50 0.39
24 13 0.10
25 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
CATAATTGAAATGATAAGGTG
Done.