Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009656.1 Corchorus capsularis cultivar CVL-1 contig09677, 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: 61195
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Found at i:1375 original size:4 final size:4
Alignment explanation
Indices: 1361--1399 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
1351 CACCTGAATG
1361 AGCC AGCCC AGCC AGCC AGCC AGCC AGCC A--C AGCC AGCC
1 AGCC AG-CC AGCC AGCC AGCC AGCC AGCC AGCC AGCC AGCC
1400 TTTCACAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.26, C:0.51, G:0.23, T:0.00
Consensus pattern (4 bp):
AGCC
Found at i:14650 original size:6 final size:6
Alignment explanation
Indices: 14639--14670 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
14629 CAGAGAAGCA
14639 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GG
1 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GG
14671 ATTGGTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGCGTT
Found at i:22413 original size:2 final size:2
Alignment explanation
Indices: 22406--22433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22396 ATTAGTTTAT
22406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22434 ATGGAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23439 original size:8 final size:8
Alignment explanation
Indices: 23423--23453 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
23413 ACTCCCACTT
*
23423 ACCATATA
1 ACCAAATA
23431 ACCAAATA
1 ACCAAATA
23439 ACCAAATA
1 ACCAAATA
23447 ACCAAAT
1 ACCAAAT
23454 TGAAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (8 bp):
ACCAAATA
Found at i:24816 original size:33 final size:33
Alignment explanation
Indices: 24730--24824 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 33
24720 GGGCGGCTTA
* * * *
24730 CCGTGGCGAAACCGCCCCACTTGGGAGGCT--A
1 CCGTGGCGAAGCCGCCCCAGTGGGGAGGCTCCG
24761 CCGTGGCGAAGCCGCCCCAGTGGGGAGGCTCCG
1 CCGTGGCGAAGCCGCCCCAGTGGGGAGGCTCCG
* *
24794 CCGTGGCTGAA-CCGTCCTAGTGGGGAGGCTC
1 CCGTGGC-GAAGCCGCCCCAGTGGGGAGGCTC
24825 AGTGTAAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.49
33 25 0.45
34 3 0.05
ACGTcount: A:0.15, C:0.34, G:0.38, T:0.14
Consensus pattern (33 bp):
CCGTGGCGAAGCCGCCCCAGTGGGGAGGCTCCG
Found at i:25047 original size:29 final size:29
Alignment explanation
Indices: 24971--25058 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
24961 ACTAATCTAC
* * *
24971 CATTTTGCCCCCTGAACTTGTAGTGTTTAGA
1 CATTTTGCCCCCTGAACTT-CAAT-TTTGGA
* *
25002 CGTTTTGCCCACC-GAACTTCAATCTTGGA
1 CATTTTGCCC-CCTGAACTTCAATTTTGGA
25031 CATTTTGCCCCCTGAACTTCAATTTTGG
1 CATTTTGCCCCCTGAACTTCAATTTTGG
25059 GACGTTTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.04
29 27 0.56
30 2 0.04
31 15 0.31
32 2 0.04
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (29 bp):
CATTTTGCCCCCTGAACTTCAATTTTGGA
Found at i:25071 original size:29 final size:28
Alignment explanation
Indices: 25000--25078 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
24990 GTAGTGTTTA
* *
25000 GACGTTTTGCCCACCGAACTTCAATCTTG
1 GACGTTTTACCC-CTGAACTTCAATCTTG
* * *
25029 GACATTTTGCCCCCTGAACTTCAATTTTGG
1 GACGTTTT-ACCCCTGAACTTCAATCTT-G
*
25059 GACGTTTTACCCCTCAACTT
1 GACGTTTTACCCCTGAACTT
25079 AACGGCTCCG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 30 0.73
30 11 0.27
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (28 bp):
GACGTTTTACCCCTGAACTTCAATCTTG
Found at i:25149 original size:29 final size:30
Alignment explanation
Indices: 25091--25170 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
25081 CGGCTCCGTT
*
25091 AAGTTGAGGGGGCAAAACGTCCCAAAATTG
1 AAGTTCAGGGGGCAAAACGTCCCAAAATTG
* * *
25121 AAGTTCAGGGGGTAAAATGT-CCAAGATTG
1 AAGTTCAGGGGGCAAAACGTCCCAAAATTG
*
25150 AAGTTCGGGGGGCAAAACGTC
1 AAGTTCAGGGGGCAAAACGTC
25171 TAAGCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.19
Consensus pattern (30 bp):
AAGTTCAGGGGGCAAAACGTCCCAAAATTG
Found at i:26817 original size:2 final size:2
Alignment explanation
Indices: 26773--26802 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26763 TCATTAAATA
26773 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
26803 ACACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32905 original size:36 final size:36
Alignment explanation
Indices: 32854--32924 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
32844 GACGAGAATA
*
32854 CACAGACATCAAATGCCATTGCTCAGCATGTTTTGC
1 CACAGACATCAAATGCCATTGCTCAGCATGGTTTGC
** *
32890 CACAGACATTGAATGCCATTGCTCTGCATGGTTTG
1 CACAGACATCAAATGCCATTGCTCAGCATGGTTTG
32925 GCAGCTCCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (36 bp):
CACAGACATCAAATGCCATTGCTCAGCATGGTTTGC
Found at i:33539 original size:2 final size:2
Alignment explanation
Indices: 33532--33565 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
33522 CGCCAGGTAA
*
33532 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33566 TCTTCTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:34515 original size:18 final size:18
Alignment explanation
Indices: 34492--34527 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34482 TTAACGATAA
*
34492 AATGAAAAAGAAAAAGGT
1 AATGAAAAAAAAAAAGGT
34510 AATGAAAAAAAAAAAGGT
1 AATGAAAAAAAAAAAGGT
34528 CAATAGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (18 bp):
AATGAAAAAAAAAAAGGT
Found at i:41418 original size:2 final size:2
Alignment explanation
Indices: 41411--41441 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
41401 TTATCTAAGC
41411 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41442 TGTATGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:41939 original size:12 final size:12
Alignment explanation
Indices: 41922--41946 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41912 TTACATTGAT
41922 ATATATACTAAA
1 ATATATACTAAA
41934 ATATATACTAAA
1 ATATATACTAAA
41946 A
1 A
41947 CTAGTACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATATACTAAA
Found at i:49661 original size:1 final size:1
Alignment explanation
Indices: 49655--49691 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
49645 TCTCTCTCTC
*
49655 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49692 AAATTTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:53909 original size:50 final size:50
Alignment explanation
Indices: 53850--53948 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
53840 GGTCAATTTT
*
53850 TGCCTTCGAAAGTAGGGATGGAAGGTTAGATGAGTTGAAACATGATTTAG
1 TGCCTTCGAAAGTAGGGATGGAAGGTTAGATGAGTTGAAACAGGATTTAG
*
53900 TGCCTTCGAAAGTAGTGATGGAAGGTTAGATGAGTTGAAACAGGATTTA
1 TGCCTTCGAAAGTAGGGATGGAAGGTTAGATGAGTTGAAACAGGATTTA
53949 AATACTCGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (50 bp):
TGCCTTCGAAAGTAGGGATGGAAGGTTAGATGAGTTGAAACAGGATTTAG
Found at i:54860 original size:304 final size:289
Alignment explanation
Indices: 54435--55277 Score: 797
Period size: 304 Copynumber: 2.9 Consensus size: 289
54425 AATATTTTGT
* * * *** * * ** **
54435 CACAATACTCACAAAAAATATATAATTCAACGCCAAAAAG-ATTGAAGAGCTTTTCATACTTCTA
1 CACAATACTCATAAAAGATATATAACTCAACGCCAAAAAGAAAAAAAGGGATTTTCACGCTTAAA
* * *
54499 ATATCG-TTTT-TT-TTTTTCAAATTAATTTCAAATAAAATCGAAACATGATTCAGATGCTCGTG
66 ATATCGTTTTTCTTATTTTTCAAATTAATTTCTAATTAAATCGAAACATGATTGAGATGCTCGTG
* * * *
54561 AAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGATTATAGATATTTCAATTACT
131 AAAACAAATCCTTAAATCCAATGTGCCTGAGATTTTGTTAGATGAATATAGAAATTTCAATTACT
** * * *
54626 GATGGCGCAAAAAATAATGCAAAACTGAGCCGGGGCTCCGGAACACGTTTTCAGCCAAAGTTTTG
196 CTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGGAACGCGTTTTCAGCCAAA------
* * ** * * *
54691 CAAAAGT-TGACGCAAAAATTTTTTTCCTCAATTTTTGTC
255 -AAAACTGTGACAC-AAAA-TTTCGTCC-AAAATTTAG-C
* * *
54730 CACAATACTCATAAAAGATATATAACTCAACGTCAAAAAGAAAAAAAGGGCTTTTGACGCTAATA
1 CACAATACTCATAAAAGATATATAACTCAACGCCAAAAAGAAAAAAAGGGATTTTCACGCT--T-
*
54795 AAAATATCGTTTTTCTTATTTTTCAAAAATTAATTTCTAATTAAATCGTAACATGATTGAGATGC
63 AAAATATCGTTTTTCTTATTTTTC--AAATTAATTTCTAATTAAATCGAAACATGATTGAGATGC
* * * * *
54860 TCGTAGAAAA-TAATCCTTAAATTCAATGTGTCTGAGATTTTGTTAGATAAATCTAGAAATTTCA
126 TCGT-GAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTTGTTAGATGAATATAGAAATTTCA
* * * * * * * *
54924 GTTACTCTTGACGCCAAAAATCATAC-AAATTGAGCCGCGGCCCCAGAACGCGTTTTCA-AC-AA
190 ATTACTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGGAACGCGTTTTCAGCCAAA
* **
54986 AAAACTGTGATACACGATTTCGTCCAAAATTTAGC
255 AAAACTGTGACACAAAATTTCGTCCAAAATTTAGC
* * * * **
55021 TACAATACTCATAAAAGATATATAATTCAACGCCAAGAAGAAAAAAAGGGATTTTCCCGCTTCTA
1 CACAATACTCATAAAAGATATATAACTCAACGCCAAAAAGAAAAAAAGGGATTTTCACGCTTAAA
* *
55086 ATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTGAGATGCTCGT
66 ATATCGTTTTTCTTATTTTT-CAAATTAATTTCTAATTAAATCGAAACATGATTGAGATGCTCGT
* * * * ** * * *
55151 AAAAACAAATCCTTAAATCGAACGTGCCTGATATTTTCATAGATGAATATTGACATTTAAATTAC
130 GAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTTGTTAGATGAATATAGAAATTTCAATTAC
* * * *
55216 TCTTGGGGCCAAAAATCAGGCAAAACTGAGCCAGGG-TCCCGGAACGCATTTTCAGCCAAAAA
195 TCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCT-CCGGAACGCGTTTTCAGCCAAAAA
55278 CCGTGATGGT
Statistics
Matches: 445, Mismatches: 86, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
286 4 0.01
287 102 0.23
288 46 0.10
289 3 0.01
290 4 0.01
291 55 0.12
292 6 0.01
293 6 0.01
294 7 0.02
295 40 0.09
296 13 0.03
298 1 0.00
299 7 0.02
300 4 0.01
301 4 0.01
302 7 0.02
303 27 0.06
304 104 0.23
305 5 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (289 bp):
CACAATACTCATAAAAGATATATAACTCAACGCCAAAAAGAAAAAAAGGGATTTTCACGCTTAAA
ATATCGTTTTTCTTATTTTTCAAATTAATTTCTAATTAAATCGAAACATGATTGAGATGCTCGTG
AAAACAAATCCTTAAATCCAATGTGCCTGAGATTTTGTTAGATGAATATAGAAATTTCAATTACT
CTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGGAACGCGTTTTCAGCCAAAAAAACT
GTGACACAAAATTTCGTCCAAAATTTAGC
Found at i:55801 original size:330 final size:331
Alignment explanation
Indices: 55022--57632 Score: 3727
Period size: 330 Copynumber: 8.0 Consensus size: 331
55012 AAATTTAGCT
** * * *
55022 ACAATACTCATAAAAGATATATAATTCAACGCCAAGAAGAAAAAAAGGGATTTTCCCGCTTCTAA
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAG-AAAAAAGGGCTTTTCACGCTTCTAA
* *
55087 TATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTGAGATGCTCGTA
65 TATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTA
* * * * *
55152 AAAACAAATCCTTAAATCGAACGTGCCTGATATTTTCATAGATGAATATTGACATTTAAATTACT
130 AAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACT
* * *
55217 CTTGGGGCCAAAAATCAGGCAAAACTGAGCCAGGGTCCCGGAACGCATTTTCAGCCAAAAACCGT
195 CTTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGT
* * * *
55282 GATGGTTAGCTCACGATTTCGTCCTAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATT
260 GATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATT
*
55347 TTTGGTC
325 TTTGGCC
* * *
55354 ACAATGCTCATAAACTATATATAATTCAACGCCAAAAAGATAAAAGGGCTTTTCTCGCTTCTAAT
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
*
55419 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCTGATGTTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
*
55484 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAAATACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
* *
55549 TTGGGGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGAATTTTCAGCCAAAAACCGTG
196 TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
* *
55614 ATGGTTAGCCCATGGTTTCGT-CAAAATTTGACAAAAATTGACCCGATAATTTTTTCCACAATTT
261 ATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
*
55678 TTGGCA
326 TTGGCC
* * * *
55684 AGAGTAGTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAA
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* * *
55749 ATCGTTTTTCTTATTTTGCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGGTGCTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
* * * *
55814 AAACAAATCTTTAAATCGAATGTGCCCGAGATTTTAATAGATGAATATAGATATTTCAATTACAC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
* * *
55879 TTGGGGCAAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACACATTTTCAGCCAAAAACCGTG
196 TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
* * * * * *
55944 A-----CGCTCACGGTTTCGTCCAAAATTTGGCAAAAGTTGACACGAAAA-TTTTTCCTCAATTT
261 ATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
56003 TTGGCC
326 TTGGCC
* * *
56009 AGAATACTCATAAATTATATATAATTCAACGCCAAAAAGAAAAAATGGCTTTTCACGCTTCTAAT
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* * *
56074 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATAAAATCGAAACATGATTCAGATGCTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
* *
56139 AAACAAATCCTTAAATCGAATGTGCCCGAGATTTTAATAGATGAATATAGATA-TTCAACTTACT
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAA-TTACT
*
56203 CTTGGGGCAAAAAATCATGCAAAACTGA-------------AACGCATTTTCAGCCAAAAACCGT
195 CTTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGT
* * * * *
56255 GATGGTTAGCTCACGGTTTCGCCCAAAATTTGGCAAAAACTGACCCGAAAAATTTTTCCACAATT
260 GATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATT
56320 TTTGGCC
325 TTTGGCC
* * *
56327 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAG-GAAAAGGGCTTTTTACGCTTGTAAT
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* **
56391 ATCGTTTTTCTTATTTTTCCGAATTACTTTCTGTTTAAATCGAAACGTGATTCAGATGTTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
* *
56456 AAACAAATCCTTAAATCGAATTTGCCTGAGATTTTCATAGATGAATTTAGATATTTCAATTACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
* * * *
56521 TGGGGGCCAAAAATAATGCAAAACTAAGCCGAGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
196 TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
**
56586 ATGGTTAGCCCACGGTTTCGTAAAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
261 ATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
56651 TTGGCC
326 TTGGCC
* * * * * *
56657 AGAATGCTCATAAACTATATATAATTCAAAGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAAC
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* *
56722 ATCATTTTTCTTATTTTTCCGAATTAATTT-TAATTAAATCGAAACGTGATTCAAATGTTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
* ** * *
56786 AAACAAATCCTTAAATTGAATGTGGTTGAGATTTTCATAGACGAATATAGATATATCAATTACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
* *
56851 TTGGGCCCAAAATAT-ATGCAAAACTGAGTCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGT
196 TTGGGGCCAAAA-ATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGT
*
56915 GATGGTTAGCCCCACGATTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAAT
260 GATGGTTAG-CCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAAT
56980 TTTTGGCC
324 TTTTGGCC
* * *
56988 ACAATACTCGTAAACTATATATAATTCAACGCCAAAAAGGAAAAAGGGCTTTTCACGCTTGTAAT
1 ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* * *
57053 ATCGTTTTTCTTATTTTTCCGAATTACTTTCTATTTAAATCAAAACGTGATTCAGATGTTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
* * * *
57118 AAACAAATGCTTAAATCGAATGTGGCTGAGATTTTCATAGACGAATATAGATATATCAATTACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
* * *
57183 TTGGGGCCAATAATTATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACAGTG
196 TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
* * * *
57248 A----T-GCCCACGATTTCGTCCAAAATTTGGCAAAAATTG--CCAAAAAATTTTTCCACAATTT
261 ATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
*
57306 TTAGCC
326 TTGGCC
* * *
57312 ACAATACTGATAAACTATATATAATTCAACGACATAAAGAAAAAAAAGGGCTTTTCACGCTTCTA
1 ACAATACTCATAAACTATATATAATTCAACGCCA-AAA-AGAAAAAAGGGCTTTTCACGCTTCTA
* ** *
57377 ATATCGTTTTTCTTACTTTTATGAATTAATTTCTAATTAAATGGAAACGTGATTCAGATGTTCGT
64 ATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGT
* *
57442 AAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATATCAGTTAC
129 AAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTAC
* ** ** * * * *
57507 TCTTGGGGCCAAAAATTAAACAAAAGAGAGCCGAGGCCCCGAAACGCATTTTCAGCTAAAAACTG
194 TCTTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCG
* * * * * *
57572 TGATGGTTAGCCCTCGGTTTCGTCAAAAAGTTGACAAAAATTAACTCGAAATTTTTTTCCA
259 TGATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCA
57633 TAGATGAATA
Statistics
Matches: 2053, Mismatches: 190, Indels: 71
0.89 0.08 0.03
Matches are distributed among these distances:
312 25 0.01
317 197 0.10
318 61 0.03
324 61 0.03
325 238 0.12
326 257 0.13
327 1 0.00
328 1 0.00
330 564 0.27
331 449 0.22
332 187 0.09
333 12 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (331 bp):
ACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAA
AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTC
TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTG
ATGGTTAGCCCACGGTTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTT
TTGGCC
Found at i:57303 original size:972 final size:969
Alignment explanation
Indices: 55022--57632 Score: 3552
Period size: 972 Copynumber: 2.7 Consensus size: 969
55012 AAATTTAGCT
* * * *
55022 ACAATACTCATAAAAGATATATAATTCAACGCCAAGAAGAAAAAAAGGGATTTTCCCGCTTCTAA
1 ACAATACTCATAAAATATATATAATTCAACGCCAAAAAG-AAAAAAGGGCTTTTCACGCTTCTAA
*
55087 TATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTGAGATGCTCGTA
65 TATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGCTCGTA
* * * * *
55152 AAAACAAATCCTTAAATCGAACGTGCCTGATATTTTCATAGATGAATATTGACATTTAAATTACT
130 AAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATA-TTCAATTACT
*
55217 CTTGGGGCCAAAAATCAGGCAAAACTGAGCCAGGGTCCCGGAACGCATTTTCAGCCAAAAACCGT
194 CTTGGGGCCAAAAATCATGCAAAACTGAGCC-GGG-CCCGGAACGCATTTTCAGCCAAAAACCGT
*
55282 GATGGTTAGCTCACGATTTCGTCCTAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATT
257 GA--G-TAGCTCACGATTTCGTCCAAAATTTGGCAAAAATTGA-CC-AAAA-----T--ACAATT
* *
55347 TTTGGTCACAATGCTCATAAACTATATATAATTCAACGCCAAAAAGATAAAAGGGCTTTTCT-CG
310 TTT-GCCACAATACTCATAAACTATATATAATTCAACGCCAAAAAGA-AAAAGGGCTTTT-TACG
*
55411 CTTCTAATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCTGAT
372 CTTCTAATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGAT
55476 GTTCGTAAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTC
437 GTTCGTAAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTC
* * * * *
55541 AAATACTCTTGGGGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGAATTTTCAGCCAA
502 AATTACTCTTGGGGCCAAAAATAATACAAAACTAAGCCGAGGCCCCGGAACGCATTTTCAGCCAA
* * *
55606 AAACCGTGATGGTTAGCCCATGGTTTCGTCAAAATTTGACAAAAATTGACCCGATAATTTTTTCC
567 AAACCGTGATGGTTAGCCCACGGTTTCGTAAAAATTTGACAAAAATTGACCCGAAAATTTTTTCC
* *
55671 ACAATTTTTGGCAAGAGTAGTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTT
632 ACAATTTTTGGCAAGAATAGTCATAAACTATATATAATTCAAAGCCAAAAAGAAAAAAGGGCTTT
*
55736 TCACGCTTCTAAAATCGTTTTTCTTATTTTGCCGAATTAATTTCTAATTAAATCGAAACGTGATT
697 TCACGCTTCTAAAATCATTTTTCTTATTTTGCCGAATTAATTTCTAATTAAATCGAAACGTGATT
** * *
55801 CAGGTGCTCGTAAAAACAAATCTTTAAATCGAATGTGCCCGAGATTTTAATAGATGAATATAGAT
762 CAAATGCTCGTAAAAACAAATCCTTAAATCGAATGTGCCCGAGATTTTAATAGACGAATATAGAT
* *
55866 ATTTCAATTACACTTGGGGCAAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACACATTTTCA
827 ATATCAATTACACTTGGGCCAAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACACATTTTCA
* * * * *
55931 GCCAAAAACCGTGACGCTCACGGTTTCGTCCAAAATTTGGCAAAAGTTGACACGAAAATTTTTCC
892 GCCAAAAACCGTGAAGCCCACGATTTCGTCCAAAATTTGACAAAAATTGACACGAAAATTTTTCC
*
55996 TCAATTTTTGGCC
957 ACAATTTTTGGCC
* * *
56009 AGAATACTCATAAATTATATATAATTCAACGCCAAAAAGAAAAAATGGCTTTTCACGCTTCTAAT
1 ACAATACTCATAAAATATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* *
56074 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATAAAATCGAAACATGATTCAGATGCTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGCTCGTAA
* *
56139 AAACAAATCCTTAAATCGAATGTGCCCGAGATTTTAATAGATGAATATAGATATTCAACTTACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTCAA-TTACTC
*
56204 TTGGGGCAAAAAATCATGCAAAACTGA-----------AACGCATTTTCAGCCAAAAACCGTGAT
195 TTGGGGCCAAAAATCATGCAAAACTGAGCCGGGCCCGGAACGCATTTTCAGCCAAAAACCGTGA-
* * *
56258 GGTTAGCTCACGGTTTCGCCCAAAATTTGGCAAAAACTGACCCGAAAAATTTTTCCACAATTTTT
259 -G-TAGCTCACGATTTCGTCCAAAATTTGGCAAAAATTGA-CC--AAAA----T--ACAATTTTT
* *
56323 GGCCACAATACTCATAAACTATATATAATTCAACGCCAAAAAGGAAAAGGGCTTTTTACGCTTGT
313 -GCCACAATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAGGGCTTTTTACGCTTCT
* **
56388 AATATCGTTTTTCTTATTTTTCCGAATTACTTTCTGTTTAAATCGAAACGTGATTCAGATGTTCG
377 AATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCG
* *
56453 TAAAAACAAATCCTTAAATCGAATTTGCCTGAGATTTTCATAGATGAATTTAGATATTTCAATTA
442 TAAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTA
* *
56518 CTCTGGGGGCCAAAAATAATGCAAAACTAAGCCGAGGCCCCGGAACGCATTTTCAGCCAAAAACC
507 CTCTTGGGGCCAAAAATAATACAAAACTAAGCCGAGGCCCCGGAACGCATTTTCAGCCAAAAACC
56583 GTGATGGTTAGCCCACGGTTTCGTAAAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAA
572 GTGATGGTTAGCCCACGGTTTCGT-AAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAA
* *
56648 TTTTTGGCCAGAAT-GCTCATAAACTATATATAATTCAAAGCCAAAAAGAAACAAGGGCTTTTCA
636 TTTTTGGCAAGAATAG-TCATAAACTATATATAATTCAAAGCCAAAAAGAAAAAAGGGCTTTTCA
* * *
56712 CGCTTGTAACATCATTTTTCTTATTTTTCCGAATTAATTT-TAATTAAATCGAAACGTGATTCAA
700 CGCTTCTAAAATCATTTTTCTTATTTTGCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAA
* * *** *
56776 ATGTTCGTAAAAACAAATCCTTAAATTGAATGTGGTTGAGATTTTCATAGACGAATATAGATATA
765 ATGCTCGTAAAAACAAATCCTTAAATCGAATGTGCCCGAGATTTTAATAGACGAATATAGATATA
* * * * *
56841 TCAATTACTCTTGGGCCCAAAATAT-ATGCAAAACTGAGTCGGGGCCCCGGAACGCATTTTCAGC
830 TCAATTACACTTGGG-CCAAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACACATTTTCAGC
*
56905 CAAAAACCGTGATGGTTAGCCCCACGATTTCGTCCAAAATTTGACAAAAATTGACCCGAAAATTT
894 CAAAAACCGTGA-----AG-CCCACGATTTCGTCCAAAATTTGACAAAAATTGACACGAAAA-TT
56970 TTTCCACAATTTTTGGCC
952 TTTCCACAATTTTTGGCC
* * * *
56988 ACAATACTCGTAAACTATATATAATTCAACGCCAAAAAGGAAAAAGGGCTTTTCACGCTTGTAAT
1 ACAATACTCATAAAATATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
* * * *
57053 ATCGTTTTTCTTATTTTTCCGAATTACTTTCTATTTAAATCAAAACGTGATTCAGATGTTCGTAA
66 ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGCTCGTAA
* * *
57118 AAACAAATGCTTAAATCGAATGTGGCTGAGATTTTCATAGACGAATATAGATATATCAATTACTC
131 AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATAT-TCAATTACTC
* * *
57183 TTGGGGCCAATAATTATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACAGTG
195 TTGGGGCCAAAAATCATGCAAAACTGAGCC-GGG-CCCGGAACGCATTTTCAGCCAAAAACCGTG
*
57248 A-T-GCCCACGATTTCGTCCAAAATTTGGCAAAAATTG-CCAAAAAATTTTTCCACAATTTTTAG
258 AGTAGCTCACGATTTCGTCCAAAATTTGGCAAAAATTGACC--AAAA----T--ACAATTTTT-G
* * * *
57310 CCACAATACTGATAAACTATATATAATTCAACGACATAAAGAAAAAAAAGGGCTTTTCACGCTTC
314 CCACAATACTCATAAACTATATATAATTCAACG-C-CAAA-AAGAAAAAGGGCTTTTTACGCTTC
* ** *
57375 TAATATCGTTTTTCTTACTTTTATGAATTAATTTCTAATTAAATGGAAACGTGATTCAGATGTTC
376 TAATATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTC
* *
57440 GTAAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATATCAGTT
441 GTAAAAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATT
* * *
57505 ACTCTTGGGGCCAAAAATTAA-ACAAAA-GAGAGCCGAGGCCCCGAAACGCATTTTCAGCTAAAA
506 ACTCTTGGGGCCAAAAA-TAATACAAAACTA-AGCCGAGGCCCCGGAACGCATTTTCAGCCAAAA
* * * * * *
57568 ACTGTGATGGTTAGCCCTCGGTTTCGTCAAAAAGTTGACAAAAATTAACTCGAAATTTTTTTCCA
569 ACCGTGATGGTTAGCCCACGGTTTCGT-AAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCA
57633 TAGATGAATA
Statistics
Matches: 1460, Mismatches: 132, Indels: 63
0.88 0.08 0.04
Matches are distributed among these distances:
971 1 0.00
972 364 0.25
973 262 0.18
974 4 0.00
977 1 0.00
978 37 0.03
979 216 0.15
980 4 0.00
985 60 0.04
986 164 0.11
987 69 0.05
988 250 0.17
989 3 0.00
992 25 0.02
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (969 bp):
ACAATACTCATAAAATATATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAT
ATCGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGCTCGTAA
AAACAAATCCTTAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTCAATTACTCT
TGGGGCCAAAAATCATGCAAAACTGAGCCGGGCCCGGAACGCATTTTCAGCCAAAAACCGTGAGT
AGCTCACGATTTCGTCCAAAATTTGGCAAAAATTGACCAAAATACAATTTTTGCCACAATACTCA
TAAACTATATATAATTCAACGCCAAAAAGAAAAAGGGCTTTTTACGCTTCTAATATCGTTTTTCT
TATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCT
TAAATCGAATGTGCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAA
AATAATACAAAACTAAGCCGAGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCC
ACGGTTTCGTAAAAATTTGACAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCAAGAATA
GTCATAAACTATATATAATTCAAAGCCAAAAAGAAAAAAGGGCTTTTCACGCTTCTAAAATCATT
TTTCTTATTTTGCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAAATGCTCGTAAAAACAA
ATCCTTAAATCGAATGTGCCCGAGATTTTAATAGACGAATATAGATATATCAATTACACTTGGGC
CAAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACACATTTTCAGCCAAAAACCGTGAAGCCC
ACGATTTCGTCCAAAATTTGACAAAAATTGACACGAAAATTTTTCCACAATTTTTGGCC
Found at i:58984 original size:329 final size:331
Alignment explanation
Indices: 57721--59090 Score: 2233
Period size: 330 Copynumber: 4.1 Consensus size: 331
57711 CATCCAAAAA
* *
57721 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGA
1 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
* * * *
57786 ATACTCATAAACTATATTTAATTCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTATAATATC
66 ATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGATTTTCACGCTTGTAATATC
*
57851 GTTTTTCTTATTTTTCCGAATTAATTTGTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAA
131 GTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAA
* * * * *
57916 CAAATCCTTAAATCGAATGTGGCTGAGATTTCCATAGACGAATATAGATATATCAATTACTCTTG
196 CAAATCCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTG
* *
57981 GGGCCAAAAATTATGCAAAACTGAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATG
261 GGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAACGCATTTTCAGCCAAAAACCGTGATG
**
58046 ACTAGCC
326 GTTAG-C
*
58053 CCATGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
1 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
* *
58118 ATACTCATAAAATATATATAATTCAACGCCAAAAAGAAAAAAGGGCATTGTCACGCTTGTAATAT
66 ATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGG-ATTTTCACGCTTGTAATAT
58183 CGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAA
130 CGTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAA
* * *
58248 ACAAATCCTTAAATCGATTGTGCCTGAGATTTTCATATATGAATATAGATATTTCAATTACTCTT
195 ACAAATCCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTT
* * * * * * *
58313 GGGGCTAAAAATCATGCAAAACTTAGTCGGGGCCCCTGAATGCATTTTCAGCCAAAAACCGTAAT
260 GGGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAACGCATTTTCAGCCAAAAACCGTGAT
58378 GGTTAGC
325 GGTTAGC
* *
58385 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAAATGTTTCCACAATTTTTGGCCACA
1 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
* ** *
58450 ATACTCATAAA-AATATATAATTCAACGCCAAAAAGAAAAAAGGTCTTTTCACGCTTTTAATATC
66 ATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGATTTTCACGCTTGTAATATC
* * * *
58514 TTTTTTCTTATTTTTCCGAATTAATTTTTAATTAAATCGAAACGTGATTCAAATGTTCGTAAGAA
131 GTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAA
* *
58579 CAAATCCTTAAATCGAATGTGCCCGAGATTCTCATAGATGATTATAGATATTTCAATTACTCTTG
196 CAAATCCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTG
* * * *
58644 GGGCAAAAAATAATGCAAAACTGAGCCAGGGTCCCAGAACGCATTTTCAGCCAAAAACCATGATG
261 GGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAACGCATTTTCAGCCAAAAACCGTGATG
58709 GTTAGC
326 GTTAGC
58715 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
1 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
58780 ATACTCATAAACTATATATAATTCAACGCC-AAAAG-AAAAAGGGATTTTCACGCTTGTAATATC
66 ATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGATTTTCACGCTTGTAATATC
* *
58843 GTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGACACGTGATTCAGATGTTCATAAAAA
131 GTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAA
* *
58908 CAAATTCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACACTTG
196 CAAATCCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTG
* * *
58973 GGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAATGCATTTTCAACCAAAAATCGTGATG
261 GGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAACGCATTTTCAGCCAAAAACCGTGATG
59038 GTTAGC
326 GTTAGC
59044 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTT
1 CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTT
59091 TCAATAGACG
Statistics
Matches: 961, Mismatches: 75, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
329 256 0.27
330 278 0.29
331 48 0.05
332 178 0.19
333 201 0.21
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (331 bp):
CCACGATTTCGTCCAAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACA
ATACTCATAAACTATATATAATTCAACGCCAAAAAGAAAAAAGGGATTTTCACGCTTGTAATATC
GTTTTTCTTATTTTTCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAA
CAAATCCTTAAATCGAATGTGCCCGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTG
GGGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCAGAACGCATTTTCAGCCAAAAACCGTGATG
GTTAGC
Found at i:59244 original size:153 final size:152
Alignment explanation
Indices: 58936--59245 Score: 480
Period size: 153 Copynumber: 2.0 Consensus size: 152
58926 GTGCCCGAGA
* *
58936 TTTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCG
1 TTTTCATAGACGAATATAGATATATCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCG
* * **
59001 GGGCCCCAGAATGCATTTTCAACCAAAAATCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
66 GGGCCCCAGAACGCATTTTCAACCAAAAACCGTGATGACTAGCCCACGATTTCGTCCAAAATTTG
*
59066 GCAAAAATTGACCCGAAAATTT
131 GCAAAAATTGACCCGAAAATAT
* *
59088 TTTTCAATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACTGAGCC
1 TTTTC-ATAGACGAATATAGATATATCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCC
* *
59153 GGGGCCCCTA-AACGCATTTTCAGCCAAAAACCGTGATGACTAGCCCCATGATTTCGTCCAAAAT
65 GGGGCCCC-AGAACGCATTTTCAACCAAAAACCGTGATGACTAG-CCCACGATTTCGTCCAAAAT
59217 TTGGCAAAAATTGACCCGAAAA-AT
128 TTGGCAAAAATTGACCCGAAAATAT
59241 TTTTC
1 TTTTC
59246 CACAATTTTT
Statistics
Matches: 144, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
152 5 0.03
153 97 0.67
154 42 0.29
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (152 bp):
TTTTCATAGACGAATATAGATATATCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCG
GGGCCCCAGAACGCATTTTCAACCAAAAACCGTGATGACTAGCCCACGATTTCGTCCAAAATTTG
GCAAAAATTGACCCGAAAATAT
Found at i:59527 original size:485 final size:482
Alignment explanation
Indices: 58612--59575 Score: 1590
Period size: 485 Copynumber: 2.0 Consensus size: 482
58602 CGAGATTCTC
* * * *
58612 ATAGATGATTATAGATATTTCAATTACTCTTGGGGCAAAAAATAATGCAAAACTGAGCCAGGGTC
1 ATAGACGAATATAGATATATCAATTACTCTTGGGGCAAAAAATAATGCAAAACTGAGCCAGGGCC
**
58677 CCAGAACGCATTTTCAGCCAAAAACCATGATGGTTAGCCCACGATTTCGTCCAAAATTTGGCAAA
66 CCAGAACGCATTTTCAGCCAAAAACCATGATGACTAGCCCACGATTTCGTCCAAAATTTGGCAAA
* * **
58742 AATTGACCCGAAAATTTTTTCCACAATTTTTGGCCACAATACTCATAAACTATATATAATTCAAC
131 AATTGACCCGAAAAATTTTTCCACAATTTTTCGCCACAATACTCATAAAAAATATATAATTCAAC
*
58807 GCCAAAAGAAAAAGGGATTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATTAATTTCT
196 GCCAAAAGAAAAAAGGATTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATTAATTTCT
* *
58872 AATTAAATCGACACGTGATTCAGATGTTCATAAAAACAAATTCTTAAATCGAATGTGCCCGAGAT
261 AATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGCCCGAGAT
58937 TTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCGG
326 TTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCGG
*
59002 GGCCCCAGAATGCATTTTCAACCAAAAATCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTGG
391 GGCCCCAGAATGCATTTTCAACCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTGG
59067 CAAAAATTGACCCGAAAATTTTTTTCA
456 CAAAAATTGACCCGAAAATTTTTTTCA
* * *
59094 ATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACTGAGCCGGGGCC
1 ATAGACGAATATAGATATATCAATTACTCTTGGGGCAAAAAATAATGCAAAACTGAGCCAGGGCC
* *
59159 CCTA-AACGCATTTTCAGCCAAAAACCGTGATGACTAGCCCCATGATTTCGTCCAAAATTTGGCA
66 CC-AGAACGCATTTTCAGCCAAAAACCATGATGACTAG-CCCACGATTTCGTCCAAAATTTGGCA
*
59223 AAAATTGACCCGAAAAATTTTTCCACAATTTTTCGCCAGAATACTCATAAAAAATATATAATTCA
129 AAAATTGACCCGAAAAATTTTTCCACAATTTTTCGCCACAATACTCATAAAAAATATATAATTCA
59288 ACGCCAAAAAGAAAAAAGG-TCTTGTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATTAA
194 ACGCC-AAAAGAAAAAAGGAT-TT-TCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATTAA
* * *
59352 TTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGATTGTGCCT
256 TTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGCCC
* * * *
59417 GAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAGAATCATGCAAAACTGA
321 GAGATTTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATGCAAAACTGA
* * * *
59482 GTCGGGGCCCCTGAATGGATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAA
386 GCCGGGGCCCCAGAATGCATTTTCAACCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAA
59547 TTTGGCAAAAATTGACCCGAAAATTTTTT
451 TTTGGCAAAAATTGACCCGAAAATTTTTT
59576 CCACAATTTT
Statistics
Matches: 446, Mismatches: 31, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
482 90 0.20
483 92 0.21
484 14 0.03
485 250 0.56
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (482 bp):
ATAGACGAATATAGATATATCAATTACTCTTGGGGCAAAAAATAATGCAAAACTGAGCCAGGGCC
CCAGAACGCATTTTCAGCCAAAAACCATGATGACTAGCCCACGATTTCGTCCAAAATTTGGCAAA
AATTGACCCGAAAAATTTTTCCACAATTTTTCGCCACAATACTCATAAAAAATATATAATTCAAC
GCCAAAAGAAAAAAGGATTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATTAATTTCT
AATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGCCCGAGAT
TTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATGCAAAACTGAGCCGG
GGCCCCAGAATGCATTTTCAACCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTGG
CAAAAATTGACCCGAAAATTTTTTTCA
Found at i:60682 original size:659 final size:659
Alignment explanation
Indices: 59088--61195 Score: 3446
Period size: 659 Copynumber: 3.2 Consensus size: 659
59078 CCGAAAATTT
* * * *
59088 TTTTCAATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACTGAGCC
1 TTTTC-ATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCC
** ** *
59153 GGGGCCCCTAAACGCATTTTCAGCCAAAAACCGTGATGACTAGCCCCATGATTTCGTCCAAAATT
65 GGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAG-CCCACGATTTCGTCCAAAATT
* *
59218 TGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTCGCCAGAATACTCATAAAAAATATATA
129 TGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATA
* * *
59283 ATTCAACGCCAAAAAGAAAAAAGGTCTTGTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAA
194 ATTCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAA
* *
59348 TTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGATTGT
259 TTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGT
* * *
59413 GCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAGAATCATGCAAAA
324 GCCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATAATGCAAAA
* * * *
59478 CTGAGTCGGGGCCCCTGAATGGATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCC
389 CTGAGCCGGGGCCCAT-AACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCC
* * *
59543 AAAATTTGGCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCTACAATACTCATAAAAAA
453 AAAATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCAT--AAAC
* *
59608 TATATAATTCAACGTCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCATTTTTCTTA-TTT
516 TATATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTT
*
59672 TCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTTGTAAAAACAAATCCTTAAATC
581 TCCGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATC
*
59737 GATTGTGCCTGAGA
646 GAATGTGCCTGAGA
* ** **
59751 TTTTC----------ATAG--ATTTCAATTACTGTTGGGGC-AAAGGGTCATGCAAAGTTGAGCC
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAA-AATCATGCAAAACTGAGCC
*
59803 GGTGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTT
65 GGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTT
*
59868 GGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACGATATATAA
130 GGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAA
*
59933 TTCAATGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAAT
195 TTCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAAT
*
59998 TAATTTCTATTTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTG
260 TAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTG
* *
60063 CCTGAGATTTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATCCAAAAC
325 CCTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATAATGCAAAAC
* *
60128 TGAGCCGGGGTCCCATAACACATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCG
390 TGAGCCGGGG-CCCATAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCA
60193 AAATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCATAAACTAT
454 AAATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCATAAACTAT
60258 ATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCC
519 ATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCC
60323 GAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAA
584 GAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAA
*
60388 TGTGTCTGAGA
649 TGTGCCTGAGA
60399 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCC-
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCCG
* *
60463 GGGCCCCGGAACGCATTTACAGCCAAAAACCGTGATGGTTAGCCCACGGTTTCGTCCAAAATTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
* *
60528 GCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCAGAATACTCATAAACTATATATAAT
131 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
60593 TCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
196 TCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
60658 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGC
261 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGC
* * *
60723 CTGAGATTTTCATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACT
326 CTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATAATGCAAAACT
**
60788 GAGCCGGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAA
391 GAGCCGGGG-CCCATAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAA
* *
60853 AATTTGGCAAAACTTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACTATA
455 AATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCATAAAC--TA
60918 TATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTC
518 TATAATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTC
60983 CGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGA
583 CGAATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGA
61048 ATGTGCCTGAGA
648 ATGTGCCTGAGA
* *
61060 TTTTCATAGATGAATATAGATATTTCAAATACTCTTGGGGTTAAAAATCATGCAAAACTGAGCCG
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCCG
* * *
61125 GGGCCCCTGAATGCATTTTCAGCCAAAAACCGTGAT-G--A--CCACGATTTCGTCCAAATTTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
61185 GCAAAAATTGA
131 GCAAAAATTGA
Statistics
Matches: 1352, Mismatches: 74, Indels: 44
0.92 0.05 0.03
Matches are distributed among these distances:
647 62 0.05
648 84 0.06
649 379 0.28
650 74 0.05
652 4 0.00
657 31 0.02
658 4 0.00
659 433 0.32
660 34 0.03
661 209 0.15
662 33 0.02
663 5 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (659 bp):
TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCCG
GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
TCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGC
CTGAGATTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATAATGCAAAACT
GAGCCGGGGCCCATAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAA
ATTTGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCATAAACTATAT
AATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGA
ATTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATG
TGCCTGAGA
Found at i:60692 original size:330 final size:331
Alignment explanation
Indices: 59088--61195 Score: 3441
Period size: 331 Copynumber: 6.4 Consensus size: 331
59078 CCGAAAATTT
* * *
59088 TTTTCAATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACTGAGCC
1 TTTTC-ATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCC
** ** *
59153 GGGGCCCCTAAACGCATTTTCAGCCAAAAACCGTGATGACTAGCCCCATGATTTCGTCCAAAATT
65 GGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAG-CCCACGATTTCGTCCAAAATT
* *
59218 TGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTCGCCAGAATACTCATAAAAAATATATA
129 TGGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATA
* *
59283 ATTCAACGCCAAAAAGAAAAAAGGTCTTGTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAA
194 ATTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAA
*
59348 TTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGATTGT
259 TTAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGT
59413 GCCTGAGA
324 GCCTGAGA
* * *
59421 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAGAATCATGCAAAACTGAGTCG
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
* * *
59486 GGGCCCCTGAATGGATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
* * * *
59551 GCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCTACAATACTCATAAAAAATATATAAT
131 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
* *
59616 TCAACGTCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCATTTTTCTTA-TTTTCCGAATT
196 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
* *
59680 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTTGTAAAAACAAATCCTTAAATCGATTGTGC
261 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
59745 CTGAGA
326 CTGAGA
* ** **
59751 TTTTC----------ATAG--ATTTCAATTACTGTTGGGG-CAAAGGGTCATGCAAAGTTGAGCC
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAA-AATCATGCAAAACTGAGCC
*
59803 GGTGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTT
65 GGGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTT
*
59868 GGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACGATATATAA
130 GGCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAA
* *
59933 TTCAATGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAAT
195 TTCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAAT
* *
59998 TAATTTCTATTTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTG
260 TAATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTG
60063 CCTGAGA
325 CCTGAGA
* * *
60070 TTTTCATAGATGAATATAGATATTTCAATTACACTTGGGGCCAAAAATAATCCAAAACTGAGCCG
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
* ** * *
60135 GGGTCCCATAACACATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCGAAATTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
*
60200 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCACAATACTCATAAAC--TATATAAT
131 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
60263 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
196 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
*
60328 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGT
261 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
60393 CTGAGA
326 CTGAGA
*
60399 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCTAAAAATCATGCAAAACTGAGCC-
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
* *
60463 GGGCCCCGGAACGCATTTACAGCCAAAAACCGTGATGGTTAGCCCACGGTTTCGTCCAAAATTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
* *
60528 GCAAAAATTGACCCGAAAATTTTTTCCACAATTTTTGGCCAGAATACTCATAAACTATATATAAT
131 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
*
60593 TCAACGCCAAAAAGAAACAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
196 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
*
60658 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCATAAAAACAAATCCTTAAATCGAATGTGC
261 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
60723 CTGAGA
326 CTGAGA
* * *
60729 TTTTCATAGACGAATATAGATATATCAATTACTCTTGGGGCCAAAAATTATGCAAAACTGAGCCG
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
60794 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
* *
60859 GCAAAACTTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACTATATATAAT
131 GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
60924 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
196 TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
60989 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
261 AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
61054 CTGAGA
326 CTGAGA
* **
61060 TTTTCATAGATGAATATAGATATTTCAAATACTCTTGGGGTTAAAAATCATGCAAAACTGAGCCG
1 TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
* * *
61125 GGGCCCCTGAATGCATTTTCAGCCAAAAACCGTGAT-G--A--CCACGATTTCGTCCAAATTTTG
66 GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
61185 GCAAAAATTGA
131 GCAAAAATTGA
Statistics
Matches: 1655, Mismatches: 102, Indels: 43
0.92 0.06 0.02
Matches are distributed among these distances:
317 2 0.00
318 203 0.12
319 83 0.05
320 4 0.00
326 31 0.02
328 112 0.07
329 203 0.12
330 288 0.17
331 629 0.38
332 95 0.06
333 5 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (331 bp):
TTTTCATAGATGAATATAGATATTTCAATTACTCTTGGGGCCAAAAATCATGCAAAACTGAGCCG
GGGCCCCGGAACGCATTTTCAGCCAAAAACCGTGATGGTTAGCCCACGATTTCGTCCAAAATTTG
GCAAAAATTGACCCGAAAAATTTTTCCACAATTTTTGGCCAGAATACTCATAAACAATATATAAT
TCAACGCCAAAAAGAAAAAAGGGCTTTTCACGCTTGTAATATCGTTTTTCTTATTTTTCCGAATT
AATTTCTAATTAAATCGAAACGTGATTCAGATGTTCGTAAAAACAAATCCTTAAATCGAATGTGC
CTGAGA
Done.