Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016504.1 Corchorus olitorius cultivar O-4 contig16537, 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: 16285
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Found at i:24 original size:2 final size:2
Alignment explanation
Indices: 19--47 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9 CGTTTTTTCT
19 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48 TCATTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1081 original size:61 final size:58
Alignment explanation
Indices: 982--1442 Score: 389
Period size: 61 Copynumber: 8.2 Consensus size: 58
972 TGGAGCACCG
982 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTT
1 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG--TCTGTCTT
*
1042 CGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTTGCCT--CT-------GTCT-TC-T
1 C-TGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGTCTGTCTT
* *
1090 C-CTGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGA----G-C--
1 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGTCTGTCTT
1140 C--TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTTGT
1 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG--TCTG---TC----
1203 GTAAT
57 -T--T
*
1208 CGTGTGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAG-C---C-T
1 C-TGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGTCTGTCTT
* * * *
1262 C--TGTCTTCTCGTGCACCTTTGTGTCTGGCCTTGCCTCACTGTGGAGAG-C---C-T
1 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGTCTGTCTT
* *
1313 C--TGTCTTCTCGTGTACCTTCGTGTTTGGCCTCACCTCACTGCGGAGAGCCTCTGTCTT
1 CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG--TCTGTCTT
1371 CGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTT
1 C-TGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG--TCTGTCTT
1432 CTCGTGTCTTC
1 CT-GTGTCTTC
1443 GTGTGTTGTC
Statistics
Matches: 338, Mismatches: 19, Indels: 87
0.76 0.04 0.20
Matches are distributed among these distances:
46 33 0.10
48 4 0.01
49 47 0.14
50 4 0.01
51 88 0.26
52 1 0.00
54 3 0.01
55 1 0.00
57 1 0.00
58 2 0.01
59 3 0.01
60 2 0.01
61 100 0.30
62 1 0.00
68 2 0.01
71 46 0.14
ACGTcount: A:0.07, C:0.33, G:0.25, T:0.36
Consensus pattern (58 bp):
CTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGTCTGTCTT
Found at i:1083 original size:46 final size:46
Alignment explanation
Indices: 1031--1176 Score: 170
Period size: 46 Copynumber: 3.1 Consensus size: 46
1021 ACTGCGGAGA
*
1031 GCCTCTGTCTTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTT
1 GCCTCTGTCTTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTC
* *
1077 GCCTCTGTCTTC-TCCTGTCTTCTTGTGTACCTTCGTGTCTGGCCTC
1 GCCTCTGTCTTCGT-GTGTCTTCTCGTGTACCTTCGTGTCTGGCCTC
*** *
1123 GCCTCACTG-CGGAGAGCCTGTCTTCTCGTGTACCTTCGTGTCTGGCCTC
1 GCCT--CTGTCTTCGTG--TGTCTTCTCGTGTACCTTCGTGTCTGGCCTC
1172 GCCTC
1 GCCTC
1177 ACTGCGGAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
45 1 0.01
46 45 0.53
47 2 0.02
48 3 0.04
49 34 0.40
ACGTcount: A:0.04, C:0.34, G:0.23, T:0.38
Consensus pattern (46 bp):
GCCTCTGTCTTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTC
Found at i:1162 original size:49 final size:49
Alignment explanation
Indices: 1046--1205 Score: 202
Period size: 49 Copynumber: 3.3 Consensus size: 49
1036 TGTCTTCGTG
* ****
1046 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTTGCCT--CTGTC--TTCTCC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTG-CGGAGAGCC
*
1092 TGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCC
1141 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG-C-C
*
1192 TGTCTTCTTGTGTA
1 TGTCTTCTCGTGTA
1206 ATCGTGTGTC
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 33 0.33
47 1 0.01
48 3 0.03
49 48 0.48
50 1 0.01
51 14 0.14
ACGTcount: A:0.06, C:0.33, G:0.24, T:0.38
Consensus pattern (49 bp):
TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCC
Found at i:1216 original size:51 final size:49
Alignment explanation
Indices: 1090--1205 Score: 205
Period size: 49 Copynumber: 2.3 Consensus size: 49
1080 TCTGTCTTCT
1090 CCTGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG
1 CCTGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG
*
1139 CCTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG
1 CCTGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG
1188 CCTCTGTCTTCTTGTGTA
1 -C-CTGTCTTCTTGTGTA
1206 ATCGTGTGTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
49 48 0.76
50 1 0.02
51 14 0.22
ACGTcount: A:0.08, C:0.33, G:0.25, T:0.34
Consensus pattern (49 bp):
CCTGTCTTCTTGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG
Found at i:1267 original size:51 final size:51
Alignment explanation
Indices: 1212--1446 Score: 303
Period size: 51 Copynumber: 4.5 Consensus size: 51
1202 TGTAATCGTG
*
1212 TGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
* * * *
1263 TGTCTTCTCGTGCACCTTTGTGTCTGGCCTTGCCTCACTGTGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
* *
1314 TGTCTTCTCGTGTACCTTCGTGTTTGGCCTCACCTCACTGCGGAGAGCCTCTGTCTTC
1 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAG---C---C-TC
1372 GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
1 ---TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
1426 TGTCTTCTCGTGT--CTTCGTGT
1 TGTCTTCTCGTGTACCTTCGTGT
1447 GTTGTCTCTC
Statistics
Matches: 161, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
49 8 0.05
51 100 0.62
54 3 0.02
55 1 0.01
57 1 0.01
58 3 0.02
61 45 0.28
ACGTcount: A:0.08, C:0.32, G:0.25, T:0.35
Consensus pattern (51 bp):
TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTC
Found at i:1287 original size:71 final size:71
Alignment explanation
Indices: 1141--1276 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
1131 GCGGAGAGCC
* * *
1141 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTTGTGTA
1 TGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTCGTGCA
1206 ATCGTG
66 ATCGTG
1212 TGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTCGTGCA
1 TGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTCGTGCA
1277 CCTTTGTGTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.09, C:0.32, G:0.24, T:0.35
Consensus pattern (71 bp):
TGTCTTCTCGTGTACCTTCATGTCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTCGTGCA
ATCGTG
Found at i:5772 original size:637 final size:631
Alignment explanation
Indices: 2281--7726 Score: 5783
Period size: 637 Copynumber: 8.5 Consensus size: 631
2271 TATGTTATGA
* * *
2281 TCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTG-
* * * * *
2346 TTAAGATT-TAATTAGAAATT-AA-TTCGGAAAAAAGTGGAAAAACAATATAAGAAGCGTGAAAA
64 TTACGATTGT-ATTA-AAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA
* * * * * *
2408 TTCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCAGAGTGTGGTGGCAAAAATTTAAGAA
127 TTCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAGAA
* *
2473 AAAAAGTTTTCGGGTCAATTTTTAACCGAAATCGTGTACAAACCATCACAGTTTTTTTGGCTAAA
191 AAAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC---GCATCAC-G--TTTTTGGCTAAA
* *
2538 AACGCGTTTTGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCC
249 AACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC
* * *
2603 ATATTTATCTAACCAAATCTCAGCTAAATTGGAATTAAGGATTTTTTTTACGAGCATCTGAATCT
314 ATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCT
*
2668 TGTTTCGATTGTATTAGAATTAAATTTAGG-AAAAAATGGAAAAACGAA-ATTAGAAGCATGAAA
379 TGTTTCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAAC-AATATTAGAAGCGTGAAA
* * *
2731 AACCCTTCAATTTTTTTGGCGTTGAAATTTATATATATTTT-TAGTATTAAT-GCAAAGAATTGA
443 AACCCTTCAATCTTTTTGGCGTTGAAA-TTATATAT-TTTTAGAGTATT-ATGGCAAAAAATTGA
* *
2794 GGAAAAAAATTTCGAG-TCAGTTTTAGCCAAAATCGTGTACTGTTAC-ATCACAGTTTCTAGCTA
505 -GAAAAAAATTTCGGGTTCAGTTTTAGCCAAAATCGTGTA-TG--ACGAT-----TTTTTAGCTA
* * *
2857 AAAATGCGTTTCGGGGCCCCGACTTAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATAT
561 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT
2922 CCATAT
626 CCATAT
* *
2928 TCATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
* * *
2993 TAAGATT-TAATTAGAAATT-AA-TTCGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAT
65 TACGATTGT-ATTA-AAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
*
3055 TCCGTCAATCTTTTTGGCATGGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGAAA
128 TCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAGAAA
* **
3120 AAAATTTTTCGGGTCAATTTTTAGCCGAAATCGTG-ACG-GT----TTTTTGGCTGGAAACGCGT
192 AAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTACGCATCACGTTTTTGGCTAAAAACGCGT
* * * *
3179 TTCAGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATATTTA
256 TTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCA
*
3244 TCTAACCAAATCTCAGCCAAATTGGATTTAAGGAATTTTTTTACGAGCATCTG-ATCTTGTTTCG
321 TCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTTTCG
*
3308 ATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTC
386 ATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTTC
* **
3373 AATTTTTTTGGCGTTGAAAATTATATATATATTTTTTAGTATTGA-GG-AAAAGAATTGAGGAAA
451 AATCTTTTTGGCGTTG-AAA-T-TATATAT-TTTTAGAGTATT-ATGGCAAAA-AATTGA-GAAA
* * * * *
3436 AAAATTTCGAG-TCAGTTTTAGTCAAAATCGTGTACTAACCATCACAGTTTTTAGCTAAAAATGC
509 AAAATTTCGGGTTCAGTTTTAGCCAAAATCGTGTA-TGACGAT-----TTTTTAGCTAAAAACGC
* * * * *
3500 GTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATCTATAA
568 GTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* * * *
3564 TCATCTAACCGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
* * * * *
3629 TAAGATT-TAAATAGAAATT-AATTCA-GAAAAAAATGAAAAAACAATATTAGAAGCGTGAAAAT
65 TACGATTGT-ATTA-AAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
* *
3691 TCCGTCAATCTTTTTGGCATGGAATTATATATTTTTTCAGAGTGTTGTGGCAAAAAATTGAGAAA
128 TCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAGAAA
* *
3756 AAAAGTTTTCGAGTCAAGTTTTAGCCGAAATCGTGTATAAAC-CATCACGTTTTTGGCTAAAAAC
192 AAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTG--T--ACGCATCACGTTTTTGGCTAAAAAC
* *
3820 GCGTTTCGGGGCCCCGACTCAGTTTTGCAAGATTTTTTGCAGAAAGACTCCTTGAAATATCCA-A
252 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATA
* *
3884 GTTCATCTAACCAAATCTCAGTCAAATTGGATTTAAGGA-TTTTTTTACGAGCATATGAATCTT-
317 -TTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTG
* *
3947 TTTCAATTGTATTAGAATTAAATTTAGG-AAAAAATTGAAAAACAATATTAGAAGCGTGAAAAAC
381 TTTCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAAC
* * * * *
4011 CCTTTAATTTTTTTGGCGTTGAAAATTATATATTTTTATGAGTACTGA-GGCAAAGAATTGAGGA
446 CCTTCAATCTTTTTGGCGTTG-AAATTATATATTTTTA-GAGTA-TTATGGCAAAAAATTGAGAA
* * * * *
4075 AAATATTTC-GGCTCAGTTTTAGCCAAAATCATGTATTAACAATCACGGTTTTTAGCTAAAAACG
508 AAAAATTTCGGGTTCAGTTTTAGCCAAAATCGTGTA-TGACGAT-----TTTTTAGCTAAAAACG
* * * * *
4139 CGTTTCGGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGA-TCTTTTAAATATCCATAT
567 CGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* *
4203 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATCTAAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * * * *
4268 TCGATTGTATTAGAATTAAGTTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTTAAAATTCC
66 ACGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * *
4333 GT-AATTCTTTTTTGCGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAGAAATTGAGAAAAA
131 GTCAA-TCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAGAAAAA
* ** *
4397 AA-TTTCGGGTCAATTTTTAGTCGAAATCGTGTATAAACTATCACGATTTTTGGCTGAAAACGCG
194 AATTTTCGGGTCAATTTTTAGCCGAAATCGTG--TACGC-ATCACG-TTTTTGGCTAAAAACGCG
* *
4461 --T----------ACTCAGATTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATATTC
255 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTC
* * * *
4514 ATCTAACCAAATCTCAGCCTAATTGGATTTAAAGA-TTTTTTTACGAGCATCTGAATCTTATTCC
320 ATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTTTC
* * * * * ** *
4578 GATTGTAATATAATTAAATTTAGGAAAGAAAATGGAAAAACGATATTAGGAGAGTGAAAATTCCG
385 GATTGTATTAGAATTAAATTTAGGAAA-AAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCT
* *
4643 T-AATTCCTTTTT-GCGTTG-AATTATATATTTTTTCAGAGTATTGTGGCAAGAAATTGAGAAAA
449 TCAA-T-CTTTTTGGCGTTGAAATTATATA-TTTTT-AGAGTATTATGGCAAAAAATTGAG--AA
* * * * *
4705 AAAAATTTCGGG-TCAATTTTTAGCCGAAATCGTGTATAAACCATCACGGTTTTTGGCTAAAAAC
508 AAAAATTTCGGGTTC-AGTTTTAGCCAAAATCGTGTAT-GACGAT-----TTTTTAGCTAAAAAC
* * *
4769 GTGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCATA
566 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATA
4834 T
631 T
* *
4835 TCATCTAACCAAATCTCAACCAAATTGGATATAAGG-TTTTTTTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * **
4899 CCGATTGTACTAAAATTAAATTTAGGAAAAAAATGGAAAAGCGATATTA-AAGCGTGAAAAAACC
66 ACGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAATTC
* * ** * * * * * *
4963 CTTCAATTTTTTTGGCGATAAAGATTATA-AATTTTTCTGAGTATTGAGGCAGAGAATTCAGGAA
130 CGTCAATCTTTTTGGCG-TGGA-ATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGA-GAA
* ** * * * **
5027 AAAAA-TTTCGAGTC-GGTTTTAGCCAAAATCGTGTACGCACCACAGTTTTTAGCTAAAATTGCG
191 AAAAATTTTCGGGTCAATTTTTAGCCGAAATCGTGTACGCATCAC-GTTTTTGGCTAAAAACGCG
* *** * * * * * *
5090 TTTCAGGGCCTTAATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTGAAATATCTATAATC
255 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTC
*
5155 ATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTA
320 ATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT-
5220 T-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAACAATATTAGAAGCGTGAAAA
383 TCGATTGT-ATTAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACAATATTAGAAGCGTGAAAA
** * * * *
5281 TTCCGTCAATCATTTTGGCG-TGGAATTATATATATTTTCAGAGTATTATGGGAAAAAATTGAGA
444 ACCCTTCAATCTTTTTGGCGTTGAAATTATATAT-TTTT-AGAGTATTATGGCAAAAAATTGAGA
* * * * *
5345 AAAAAAGTTTTCGGGTTAATTTTTAGCCGAAATCGTGTATGACGGTTTTTTGGCTAAAAACGCGT
507 AAAAAA--TTTCGGGTTCAGTTTTAGCCAAAATCGTGTATGACGATTTTTTAGCTAAAAACGCGT
* *
5410 TTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCATAT
570 TTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
***
5472 TCATCTAACCAAATCTCAGCCAAATAAAATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * **
5537 CCGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAGCGATATTA-AAGCGTGAAAAACCC
66 ACGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * ** * * *
5601 TTCAATTTTTTTGGCGATAAAGATTATATA-TTTTTCGGAGTATTGAGGAAAAGAATTTAGGAAA
131 GTCAATCTTTTTGGCG-TGGA-ATTATATATTTTTTCAGAGTATTGTGGAAAA-AATTGA-GAAA
* * * * * *
5665 AAAA-TTTCGAGTC-AGTTTTAGCCAAAATCGTGTACGCATCACAGTTTTTAGCTAAAAATGCCT
192 AAAATTTTCGGGTCAATTTTTAGCCGAAATCGTGTACGCATCAC-GTTTTTGGCTAAAAACGCGT
* ** * * * * * *
5728 TTCGAGGCCTTGATTCAGTTTTGCAT-AGTTATTGGCATAAAGACTCTTTGAAATATCTATAATC
256 TTCGGGGCCCCGACTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATCCATATTC
*
5792 ATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTA
320 ATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT-
*
5857 T-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAACAGTATTAGAAGCGTGAAAA
383 TCGATTGT-ATTAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACAATATTAGAAGCGTGAAAA
*** * * * *
5918 TTTCGTCAATCATTTAGGCG-TGGAATTATATACTTTTTTAGAGTATTATGGCAAAAAATTGAGA
444 ACCCTTCAATCTTTTTGGCGTTGAAATTATATA--TTTTTAGAGTATTATGGCAAAAAATTGAGA
* * * *
5982 AAAAAAGTTTTCGGG-TCAATTTTTAGCCGAAATCGTGTATAAAAGCATCACGATTTATTGGCTA
507 AAAAAA--TTTCGGGTTC-AGTTTTAGCCAAAATCGTGTAT----G----ACGATTTTTTAGCTA
* * * *
6046 AAAACGTGTTTCGGGTCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAATTAT
561 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT
6111 CCATAT
626 CCATAT
* * *
6117 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGAGTTTTTTTTACGACCATCTGATTCTTAT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGA-TTTTTTTTACGAGCATCTGAATCTTGT
* * * * *
6182 TCCGATTGTAATAGAATTAAATTTAGGGAAAAAAAAT-GAAAAACGATATTAGGAGAGTGAAAAT
65 TACGATTGTATTAAAATTAAATTTA-GG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
* ** * * *
6246 TCTGT-AATTACTTTTT-GCGTTAAATTATATATTTTTCCAGAGTATTGTGGCAAGAAATTGAAA
128 TCCGTCAA-T-CTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTG-AG
*
6309 AAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAC-CATCACGGTTTTTGGCTAAAA
189 AAAAAAATTTTCGGGTCAATTTTTAGCCGAAATCGTG--T-ACGCATCAC-GTTTTTGGCTAAAA
* *
6373 ACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCA
250 ACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
* *
6438 TATTCATCTAACCAAATCTCAGCCAAATTTGATTTAAGGATTTTTTTTACGACCATCTGAATCTT
315 TATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTT
* * *
6503 CTTCCGATTGTATTA-AATTTAAATTTAGGAAAAAAATGGAAAAGCAATATTA-AAGCGTGAAAA
380 GTTTCGATTGTATTAGAA-TTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAA
* * * * * *
6566 ACCCTTCAATTTTTTTGGCGATAAAGATTATATATTTTTCTGAGTATTGA-GGCAAAGAATTCAG
444 ACCCTTCAATCTTTTTGGCGTTGAA-ATTATATATTTTT-AGAGTATT-ATGGCAAAAAATTGA-
* * * * *
6630 GAAAAAAATTTCGAG-TCAGTTTTAGCCAAAATCGTTTACGCATTAC-AGTTTTTAGCTAAAAAT
505 GAAAAAAATTTCGGGTTCAGTTTTAGCCAAAATCG--T--GTATGACGATTTTTTAGCTAAAAAC
** * * * * *
6693 GCGTTTCGGGGCCTTGATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTAAAATA-CCTAT
566 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC-AT
*
6757 AA
630 AT
* * * *
6759 TCACCTAACCAAATCTCAGCCACATTGGATTGAAGGATTTGTTTTTATGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
*
6824 TATGATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAAC-AGTATTAGAAGCGTGAA
65 TACGATTGT-ATTA-AAATTAAATTTAGGAAAAA-A-ATGGAAAAACGA-TATTAGAAGCGTGAA
* * * * **
6885 AGTTCCGTCAATCATTTTGGCGTGGAATTATATATTTTTTTAGAGTTTTAAGGCAAAAAATTGAG
125 AATTCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAG
* * * *
6950 AAAAAAAGTTTCCGGGTCAATTTTTAGCCGAAATCGTGTATG--TTACGTTTTTTGCTAAAAACG
189 AAAAAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTACGCATCACGTTTTTGGCTAAAAACG
**
7013 CGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGTTTCCTTGAAATATCCATAT
253 CGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
*
7078 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTCTTACGAGCATCTGAATCTTGTT
318 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * *
7143 TCGGTTGTATTATAATTAAATTTAGGAAAAAAATGGAAAAACGATCTTAGAAGTGTGAAAAACCC
383 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCC
* * *
7208 TTCAATCTTTTTGGCATTGAAAATTATATATTTTTATGAGTATTGA-GGCAAAGAATTGAGGAAA
448 TTCAATCTTTTTGGCGTTG-AAATTATATATTTTTA-GAGTATT-ATGGCAAAAAATTGAGAAAA
* * * * *
7272 ATATTTCGGGTT-AGTTTTAGCCAAAATCGTGTATTAACAATCACGGTTTT-GACTAAAAACGCT
510 AAATTTCGGGTTCAGTTTTAGCCAAAATCGTGTA-TGACGAT----TTTTTAG-CTAAAAACGCG
* * * * * *
7335 TTTCGGGGTCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGACTCCTTTAAATAACCATAT
569 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* *
7398 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATTTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
** * * * *
7463 TTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTGAAAATTCC
66 ACGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * *
7528 GT-AATTCTTTTTTGCGTTGAATTATATATTTTTCCAGAGTATTGTGGTAAGAAATTGAGAAAAA
131 GTCAA-TCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGG-AAAAAATTGAG-AAAA
*
7592 AAATTTT-GGGTCAATTTTTAGCCG-AATCGTGTATAAAC-CATCATAGTTTTTGGCTAAAAACG
193 AAATTTTCGGGTCAATTTTTAGCCGAAATCGTG--T--ACGCATCA-CGTTTTTGGCTAAAAACG
* ** * * *
7654 CGTTTCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGTAGAAAGATTCCTTAAAATATCCATAT
253 CGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
7719 TCATCTAA
318 TCATCTAA
7727 AATGGAAAAT
Statistics
Matches: 4216, Mismatches: 422, Indels: 328
0.85 0.08 0.07
Matches are distributed among these distances:
626 101 0.02
627 35 0.01
628 26 0.01
629 57 0.01
630 25 0.01
631 173 0.04
632 91 0.02
633 59 0.01
634 185 0.04
635 17 0.00
636 332 0.08
637 892 0.21
638 258 0.06
639 266 0.06
640 113 0.03
641 215 0.05
642 247 0.06
643 202 0.05
644 52 0.01
645 228 0.05
646 207 0.05
647 122 0.03
648 74 0.02
649 60 0.01
650 54 0.01
651 122 0.03
652 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (631 bp):
TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
ACGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
GTCAATCTTTTTGGCGTGGAATTATATATTTTTTCAGAGTATTGTGGAAAAAATTGAGAAAAAAA
TTTTCGGGTCAATTTTTAGCCGAAATCGTGTACGCATCACGTTTTTGGCTAAAAACGCGTTTCGG
GGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCATCTAA
CCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTTTCGATTGT
ATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTTCAATCT
TTTTGGCGTTGAAATTATATATTTTTAGAGTATTATGGCAAAAAATTGAGAAAAAAATTTCGGGT
TCAGTTTTAGCCAAAATCGTGTATGACGATTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTC
AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
Found at i:6950 original size:969 final size:960
Alignment explanation
Indices: 2281--7726 Score: 6139
Period size: 969 Copynumber: 5.7 Consensus size: 960
2271 TATGTTATGA
* * *
2281 TCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
* * * * *
2346 TTAAGATT-TAATTAGAAATT-AA-TTCGGAAAAAAGTGGAAAAACAATATAAGAAGCGTGAAAA
65 TT-CGATTGTAA-TAG-AATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA
* * * * *
2408 TTCCGTCAA-TCTTTTTGGCGTTGAATTATATATCTTTTCAGAGTGTGGTGGCAAAAATTTAAGA
127 TTCCGTCAATTCTTTTTGGCGTTAAATTATATATATTTTCAGAGTATTGTGGCAAAAATTGAA-A
* * * *
2472 AAAAAAGTTTTCGGGTCAATTTTTAACCGAAATCGTGTACAAACCATCACAGTTTTTTTGGCTAA
191 AAAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCAC-G-GTTTTTGGCTAA
*
2537 AAACGCGTTTTGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATC
253 AAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATC
* * *
2602 CATATTTATCTAACCAAATCTCAGCTAAATTGGAATTAAGGATTTTTTTTACGAGCATCTGAATC
318 CATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATC
* *
2667 TTGTTTCGATTGTATTAGAATTAAATTTAGG-AAAAAATGGAAAAACGAA-ATTAGAAGCATGAA
383 TTGTTCCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAAC-AATATTAGAAGCGTGAA
* * * * *
2730 AAACCCTTCAATTTTTTTGGCGTTGAAATTTATATATATTTT--TAGTATTAATGCAAAGAATTG
447 AAACCCTTCAATTTTTTTGGCGAT-AAAATTATATAT-TTTTCAGAGTATTGAGGCAAAGAATTG
* *
2793 AGGAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTGTACTGTTACATCACAGTTTCTAGCTAA
510 AGGAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTTTAC-G---CATCACAGTTTTTAGCTAA
*
2858 AAATGCGTTTCGGGGCCCCGACTT-AGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATAT
571 AAATGCGTTTCGGGGCCCCGA-TTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT
*
2922 CCATATTCATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
635 CCATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
* * *
2987 TCTTGTTAAGATTTAATTAGAAATTAATTCGGAAAAAA-ATGGAAAAACAATATTAGAAGCGTGA
700 TCTTGTTATGATTTAATTAGAAATTAATTTGGAAAAAATATGGAAAAACAGTATTAGAAGCGTGA
* * *
3051 AAATTCCGTCAATCTTTTTGGCATGGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGA
765 AAATTCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTTAGAGTATTGAGGCAAAAAATTGA
* * * **
3116 GAAAAAAATTTTTCGGGTCAATTTTTAGCCGAAATC--G--T-G-A-C-GGTTTTTTGGCTGGAA
830 GAAAAAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAGCATCACGATTTTTAGCTAAAA
* *
3173 ACGCGTTTCAGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCA
894 ACGCGTTTC-GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
3238 TAT
958 TAT
* *
3241 TTATCTAACCAAATCTCAGCCAAATTGGATTTAAGGAATTTTTTTACGAGCATCTG-ATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* **
3305 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
66 TCGATTGTAATAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* *** * * **
3370 TTCAATT-TTTTTGGCGTTGAAAATTATATATATATTTTTTAGTATTGAGGAAAAGAATTGAGGA
131 GTCAATTCTTTTTGGCGTT--AAATTATATATAT-TTTCAGAGTATTGTGGCAAA-AATTGAAAA
* * * * * * *
3434 AAAAAATTTCGAGTC-AGTTTTAGTCAAAATCGTGTACTAACCATCACAGTTTTTAGCTAAAAAT
192 AAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAC
* * * * *
3498 GCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATCTATA
257 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATA
* * * * *
3563 ATCATCTAACCGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTG
322 TTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTG
** * * *
3628 TTAAGATT-TAAATAGAAATT-AATTCA-GAAAAAAATGAAAAAACAATATTAGAAGCGTGAAAA
386 TTCCGATTGT-ATTAG-AATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAA
** * * ** * * *
3690 TTCCGTCAATCTTTTTGGC-ATGGAATTATATATTTTTTCAGAGTGTTGTGGCAAAAAATTGA-G
449 ACCCTTCAATTTTTTTGGCGATAAAATTATATA-TTTTTCAGAGTATTGAGGCAAAGAATTGAGG
* *
3753 AAAAAAAGTTTTCGAGTCAAGTTTTAGCCGAAATCGTGTATAAAC-CATCAC-GTTTTTGGCTAA
513 AAAAAAA--TTTCGAGTC-AGTTTTAGCCAAAATCGT-T-T--ACGCATCACAGTTTTTAGCTAA
* * * *
3816 AAACGCGTTTCGGGGCCCCGACTCAGTTTTGCAAGATTTTTTGCAGAAAGACTCCTTGAAATATC
571 AAATGCGTTTCGGGGCCCCGATTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATC
* * *
3881 CA-AGTTCATCTAACCAAATCTCAGTCAAATTGGATTTAAGGA-TT-TTTTTACGAGCATATGAA
636 CATA-TTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
* *
3943 TCTT-TT-TCAATTGT-ATTAG-AATTAAATTTAGGAAAAAAT-T-GAAAAACAATATTAGAAGC
700 TCTTGTTAT-GATT-TAATTAGAAATT-AATTT-GGAAAAAATATGGAAAAACAGTATTAGAAGC
** * * * * * * *
4002 GTGAAAAACCCTTTAATTTTTTTGGCGTTGAAAATTATATATTTTTAT-GAGTACTGAGGCAAAG
761 GTGAAAATTCCGTCAATCTTTTTGGCG-TG-GAATTATATATTTTTTTAGAGTATTGAGGCAAAA
* * * * * * * *
4066 AATTGAGGAAAATA-TTTCGGCTC-AGTTTTAGCCAAAATCATGTATTAACAATCACGGTTTTTA
824 AATTGAGAAAAAAATTTTCGGGTCAATTTTTAGCCGAAATCGTGTA-TAGC-ATCACGATTTTTA
* * * * *
4129 GCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGA-TCTTTTAA
887 GCTAAAAACGCGTTTC-GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAA
4193 ATATCCATAT
951 ATATCCATAT
* *
4203 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATCTAAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * * *
4268 TCGATTGTATTAGAATTAAGTTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTTAAAATTCC
66 TCGATTGTAATAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * *
4333 GT-AATTCTTTTTTGCGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAGAAATTG-AGAAAA
131 GTCAATTCTTTTTGGCGTTAAATTATATATATTTTCAGAGTATTGTGGCAA-AAATTGAAAAAAA
* * * *
4396 AAATTTCGGGTCAATTTTTAGTCGAAATCGTGTA-TAAACTATCACGATTTTTGGCTGAAAACGC
195 AAATTTCGGGTCAATTTTTAGCCGAAATCGTGTACT-AACCATCACGGTTTTTGGCTAAAAACGC
*
4460 G--T----------ACTCAGATTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATATT
259 GTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATATT
* * *
4513 CATCTAACCAAATCTCAGCCTAATTGGATTTAAAGA-TTTTTTTACGAGCATCTGAATCTTATTC
324 CATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTTC
* * * * * **
4577 CGATTGTAATATAATTAAATTTAGGAAAGAAAATGGAAAAACGATATTAGGAGAGTGAAAATTCC
389 CGATTGTATTAGAATTAAATTTAGGAAA-AAAATGGAAAAACAATATTAGAAGCGTGAAAAACCC
* ** * *
4642 GT-AATTCCTTTTT-GCG-TTGAATTATATATTTTTTCAGAGTATTGTGGC-AAGAAATTGAGAA
453 TTCAATT--TTTTTGGCGATAAAATTATATA-TTTTTCAGAGTATTGAGGCAAAG-AATTGAG-G
* * * * *
4703 AAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAAC-CATCACGGTTTTTGGCTAAAA
513 AAAAAAATTTCGAGTC-AGTTTTAGCCAAAATCGT-T-T--ACGCATCACAGTTTTTAGCTAAAA
* * * * *
4767 ACGTGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCA
573 ATGCGTTTCGGGGCCCCGATTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
* * *
4832 TATTCATCTAACCAAATCTCAACCAAATTGGATATAAGG-TTT-TTTTTACGAGCATCTGAATCT
638 TATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT
** * *
4895 TGTTCCGATTGT-ACTA-AAATTAAATTTAGGAAAAAA-ATGGAAAAGC-GATATTA-AAGCGTG
703 TGTTATGATT-TAATTAGAAATT-AATTT-GGAAAAAATATGGAAAAACAG-TATTAGAAGCGTG
** * * ** * * * *
4955 AAAAAACCCTTCAATTTTTTTGGCGATAAAGATTATAAATTTTTCT-GAGTATTGAGGCAGAGAA
764 -AAAATTCCGTCAATCTTTTTGGCG-TGGA-ATTATATATTTTTTTAGAGTATTGAGGCAAAAAA
* * ** * * *
5019 TTCAGGAAAAAAA-TTTCGAGTC-GGTTTTAGCCAAAATCGTGTA-CGCACCAC-AGTTTTTAGC
826 TTGA-GAAAAAAATTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAGCATCACGA-TTTTTAGC
** *** * * * *
5080 TAAAATTGCGTTTCAGGGCCTTAATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTGAAAT
889 TAAAAACGCGTTTC-GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAAT
* *
5145 ATCTATAA
953 ATCCATAT
*
5153 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
*
5218 TAT-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAACAATATTAGAAGCGTGAA
65 T-TCGATTGTAA-TAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACGATATTAGAAGCGTGAA
* ** * *
5279 AATTCCGTCAA-TCATTTTGGCGTGGAATTATATATATTTTCAGAGTATTATGGGAAAAAATTGA
125 AATTCCGTCAATTCTTTTTGGCGTTAAATTATATATATTTTCAGAGTATTGT-GGCAAAAATTGA
** * *
5343 GAAAAAAAGTTTTCGGGTTAATTTTTAGCCGAAATCGTG---T----ATGACGGTTTTTTGGCTA
189 -AAAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTA
*
5401 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTAT
252 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTAT
***
5466 CCATATTCATCTAACCAAATCTCAGCCAAATAAAATTTAAGGATTTTTTTTACGAGCATCTGAAT
317 CCATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAAT
* * *
5531 CTTGTTCCGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAGCGATATTA-AAGCGTGAA
382 CTTGTTCCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAA
* * *
5595 AAACCCTTCAATTTTTTTGGCGATAAAGATTATATATTTTTCGGAGTATTGAGGAAAAGAATTTA
447 AAACCCTTCAATTTTTTTGGCGATAAA-ATTATATATTTTTCAGAGTATTGAGGCAAAGAATTGA
*
5660 GGAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTGTACGCATCACAGTTTTTAGCTAAAAATG
511 GGAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTTTACGCATCACAGTTTTTAGCTAAAAATG
* * ** * * * *
5725 CCTTTCGAGGCCTTGATTCAGTTTTGCAT-AGTTATTGGCATAAAGACTCTTTGAAATATCTATA
576 CGTTTCGGGGCCCCGATTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATCCATA
*
5789 ATCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
640 TTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
5854 TTATGATTTAATTAGAAATTAATTTGGAAAAAGATATGGAAAAACAGTATTAGAAGCGTGAAAAT
705 TTATGATTTAATTAGAAATTAATTTGGAAAAA-ATATGGAAAAACAGTATTAGAAGCGTGAAAAT
* * * *
5919 TTCGTCAATCATTTAGGCGTGGAATTATATACTTTTTTAGAGTATT-ATGGCAAAAAATTGAGAA
769 TCCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTTAGAGTATTGA-GGCAAAAAATTGAGAA
*
5983 AAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAAAGCATCACGATTTATTGGCTAAA
833 AAAAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTAT---AGCATCACGATTT-TTAGCTAAA
* * *
6048 AACGTGTTTCGGGTCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAATTATCC
893 AACGCGTTTCGGG-CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC
6113 ATAT
957 ATAT
* * *
6117 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGAGTTTTTTTTACGACCATCTGATTCTTAT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGA-TTTTTTTTACGAGCATCTGAATCTTGT
* * *
6182 TCCGATTGTAATAGAATTAAATTTAGGGAAAAAAAAT-GAAAAACGATATTAGGAGAGTGAAAAT
65 TTCGATTGTAATAGAATTAAATTTA-GG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
*
6246 TCTGT-AATTACTTTTT-GCGTTAAATTATATAT-TTTTCCAGAGTATTGTGGCAAGAAATTGAA
128 TCCGTCAATT-CTTTTTGGCGTTAAATTATATATATTTT-CAGAGTATTGTGGCAA-AAATTG-A
6308 AAAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAA
189 AAAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
*
6372 AACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCC
254 AACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCC
* *
6437 ATATTCATCTAACCAAATCTCAGCCAAATTTGATTTAAGGATTTTTTTTACGACCATCTGAATCT
319 ATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCT
* *
6502 TCTTCCGATTGTATTA-AATTTAAATTTAGGAAAAAAATGGAAAAGCAATATTA-AAGCGTGAAA
384 TGTTCCGATTGTATTAGAA-TTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAA
* *
6565 AACCCTTCAATTTTTTTGGCGATAAAGATTATATATTTTTCTGAGTATTGAGGCAAAGAATTCAG
448 AACCCTTCAATTTTTTTGGCGATAAA-ATTATATATTTTTCAGAGTATTGAGGCAAAGAATTGAG
*
6630 GAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTTTACGCATTACAGTTTTTAGCTAAAAATGC
512 GAAAAAAATTTCGAGTCAGTTTTAGCCAAAATCGTTTACGCATCACAGTTTTTAGCTAAAAATGC
** * * * * *
6695 GTTTCGGGGCCTTGATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTAAAATA-CCTATAA
577 GTTTCGGGGCCCCGATTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC-ATAT
* * *
6759 TCACCTAACCAAATCTCAGCCACATTGGATTGAAGGATTTGTTTTTATGAGCATCTGAATCTTGT
641 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
*
6824 TATGATTTAATTAGAAATTAATTTGGAAAAAGATATGGAAAAACAGTATTAGAAGCGTGAAAGTT
706 TATGATTTAATTAGAAATTAATTTGGAAAAA-ATATGGAAAAACAGTATTAGAAGCGTGAAAATT
* * *
6889 CCGTCAATCATTTTGGCGTGGAATTATATATTTTTTTAGAGTTTTAAGGCAAAAAATTGAGAAAA
770 CCGTCAATCTTTTTGGCGTGGAATTATATATTTTTTTAGAGTATTGAGGCAAAAAATTGAGAAAA
* * *
6954 AAAGTTTCCGGGTCAATTTTTAGCCGAAATCGTGTAT-G--TTACG-TTTTTTGCTAAAAACGCG
835 AAA-TTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAGCATCACGATTTTTAGCTAAAAACGCG
**
7015 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGTTTCCTTGAAATATCCATAT
899 TTTC-GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
*
7078 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTCTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * * **
7143 TCGGTTGTATTATAATTAAATTTAGGAAAAAAATGGAAAAACGATCTTAGAAGTGTGAAAAACCC
66 TCGATTGTAATAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * **
7208 TTCAA-TCTTTTTGGCATTGAAAATTATATAT-TTTT-ATGAGTATTGAGGCAAAGAATTG-AGG
131 GTCAATTCTTTTTGGCGTT--AAATTATATATATTTTCA-GAGTATTGTGGCAAA-AATTGAAAA
* * * * * * *
7269 AAAATATTTCGGGT-TAGTTTTAGCCAAAATCGTGTATTAACAATCACGG-TTTTGACTAAAAAC
192 AAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAC
* * * * * * * *
7332 GCTTTTCGGGGTCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGACTCCTTTAAATAACCATA
257 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATA
* *
7397 TTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATTTGAATCTTGT
322 TTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGT
** * * * * **
7462 TTTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTGAAAATTC
387 TCCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACC
* * ** * * *
7527 CGT-AATTCTTTTTTGCG-TTGAATTATATATTTTTCCAGAGTATTGTGG-TAAGAAATTGAGAA
452 CTTCAATT-TTTTTGGCGATAAAATTATATATTTTT-CAGAGTATTGAGGCAAAG-AATTGAGGA
* * * * * *
7589 AAAAAATTTTGGGTCAATTTTTAGCC-GAATCGTGTATAAAC-CATCATAGTTTTTGGCTAAAAA
514 AAAAAATTTCGAGTC-AGTTTTAGCCAAAATCGT-T-T--ACGCATCACAGTTTTTAGCTAAAAA
* ** ** * * *
7652 CGCGTTTCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGTAGAAAGATTCCTTAAAATATCCAT
574 TGCGTTTCGGGGCCCCGATTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCAT
7717 ATTCATCTAA
639 ATTCATCTAA
7727 AATGGAAAAT
Statistics
Matches: 3865, Mismatches: 457, Indels: 328
0.83 0.10 0.07
Matches are distributed among these distances:
945 4 0.00
946 35 0.01
947 17 0.00
948 206 0.05
949 195 0.05
950 111 0.03
951 102 0.03
952 110 0.03
953 20 0.01
954 48 0.01
955 159 0.04
956 123 0.03
957 438 0.11
958 402 0.10
959 171 0.04
960 401 0.10
961 220 0.06
962 84 0.02
963 162 0.04
964 226 0.06
965 15 0.00
966 4 0.00
967 5 0.00
968 3 0.00
969 597 0.15
970 7 0.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (960 bp):
TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
TCGATTGTAATAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
GTCAATTCTTTTTGGCGTTAAATTATATATATTTTCAGAGTATTGTGGCAAAAATTGAAAAAAAA
AATTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGT
TTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATATTCA
TCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTTCCG
ATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTTC
AATTTTTTTGGCGATAAAATTATATATTTTTCAGAGTATTGAGGCAAAGAATTGAGGAAAAAAAT
TTCGAGTCAGTTTTAGCCAAAATCGTTTACGCATCACAGTTTTTAGCTAAAAATGCGTTTCGGGG
CCCCGATTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCATCTAACC
AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTATGATTTAA
TTAGAAATTAATTTGGAAAAAATATGGAAAAACAGTATTAGAAGCGTGAAAATTCCGTCAATCTT
TTTGGCGTGGAATTATATATTTTTTTAGAGTATTGAGGCAAAAAATTGAGAAAAAAATTTTCGGG
TCAATTTTTAGCCGAAATCGTGTATAGCATCACGATTTTTAGCTAAAAACGCGTTTCGGGCCCCG
ACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
Found at i:7622 original size:320 final size:321
Alignment explanation
Indices: 2281--7726 Score: 5930
Period size: 320 Copynumber: 17.0 Consensus size: 321
2271 TATGTTATGA
* * *
2281 TCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
* * * * *
2346 TTAAGATT-TAATTAGAAATT-AA-TTCGGAAAAAAGTGGAAAAACAATATAAGAAGCGTGAAAA
65 TT-CGATTGT-ATTAG-AATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA
* * * *
2408 TTCCGTCAA-TCTTTTTGGCGTTGAATTATATATCTTTTCAGAGTGTGGTGGCAAAAATTTAAGA
127 TTCCGTCAATTCTTTTTGGCGTTGAATTATATAT-TTTTCAGAGTATTGTGGCAAAAAATTGAGA
* * ** *
2472 AAAAAAGTTTTCGGGTCAATTTTTAACCGAAATCGTGTACAAACCATCACAGTTTTTTTGGCTAA
191 AAAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCAC-G--GTTTTGGCTAA
* *
2537 AAACGCGTTTTGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATC
252 AAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATC
2602 CATAT
317 CATAT
* * *
2607 TTATCTAACCAAATCTCAGCTAAATTGGAATTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * **
2672 TCGATTGTATTAGAATTAAATTTAGG-AAAAAATGGAAAAACGAAATTAGAAGCATGAAAAACCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * * *
2736 TTCAATT-TTTTTGGCGTTGAAATTTATATATATTTT--TAGTATTAAT-GCAAAGAATTGAGGA
131 GTCAATTCTTTTTGGCGTTG-AA-TTATATAT-TTTTCAGAGTATT-GTGGCAAAAAATTGAGAA
* * * * * *
2797 AAAAAATTTCGAGTC-AGTTTTAGCCAAAATCGTGTACTGTTA-CATCACAGTTTCTAGCTAAAA
192 AAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTA-T-TAACCATCACGGTTT-TGGCTAAAA
* * *
2860 ATGCGTTTCGGGGCCCCGACTTAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
254 ACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
2925 TAT
319 TAT
* *
2928 TCATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
** * *
2993 TAAGATT-TAATTAGAAATT-AA-TTCGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAT
65 TTCGATTGT-ATTAG-AATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
* *
3055 TCCGTCAA-TCTTTTTGGCATGGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGAA
128 TCCGTCAATTCTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTGAGAA
* ** * **
3119 AAAAATTTTTCGGGTCAATTTTTAGCCGAAATCGTG-----ACGGT----TTTTTGGCTGGAAAC
192 AAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAAAAC
* * *
3175 GCGTTTCAGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATA
256 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATA
3240 T
321 T
* *
3241 TTATCTAACCAAATCTCAGCCAAATTGGATTTAAGGAATTTTTTTACGAGCATCTG-ATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
**
3305 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* *** * *
3370 TTCAATT-TTTTTGGCGTTGAAAATTATATATATATTTTTTAGTATTGAGG-AAAAGAATTGAGG
131 GTCAATTCTTTTTGGCGTTG--AATTATATAT-T-TTTCAGAGTATTGTGGCAAAA-AATTGAGA
* * * * * * *
3433 AAAAAAATTTCGAGTC-AGTTTTAGTCAAAATCGTGTACTAACCATCACAGTTTTTAGCTAAAAA
191 AAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCAC-GGTTTTGGCTAAAAA
* * * * *
3497 TGCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATCTAT
255 CGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCAT
*
3562 AA
320 AT
* * * *
3564 TCATCTAACCGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
** * * * *
3629 TAAGATT-TAAATAGAAATT-AATTCA-GAAAAAAATGAAAAAACAATATTAGAAGCGTGAAAAT
65 TTCGATTGT-ATTAG-AATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
* * *
3691 TCCGTCAA-TCTTTTTGGCATGGAATTATATATTTTTTCAGAGTGTTGTGGCAAAAAATTGAGAA
128 TCCGTCAATTCTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTGAGAA
* * * * *
3755 AAAAAGTTTTCGAGTCAAGTTTTAGCCGAAATCGTGTATAAACCATCACGTTTTTGGCTAAAAAC
192 AAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAAAAC
* *
3820 GCGTTTCGGGGCCCCGACTCAGTTTTGCAAGATTTTTTGCAGAAAGACTCCTTGAAATATCCA-A
256 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATA
3884 GT
321 -T
* *
3886 TCATCTAACCAAATCTCAGTCAAATTGGATTTAAGGA-TTTTTTTACGAGCATATGAATCTT-TT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * **
3949 TCAATTGTATTAGAATTAAATTTAGG-AAAAAATTGAAAAACAATATTAGAAGCGTGAAAAACCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * * * *
4013 TTTAATT-TTTTTGGCGTTGAAAATTATATATTTTT-ATGAGTACTGAGGCAAAGAATTGAG-GA
131 GTCAATTCTTTTTGGCGTTG--AATTATATATTTTTCA-GAGTATTGTGGCAAAAAATTGAGAAA
* * * * * * *
4075 AAATATTTCGGCTC-AGTTTTAGCCAAAATCATGTATTAACAATCACGGTTTTTAGCTAAAAACG
193 AAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGG-TTTTGGCTAAAAACG
* * * * *
4139 CGTTTCGGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGA-TCTTTTAAATATCCATAT
257 CGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* *
4203 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATCTAAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * *
4268 TCGATTGTATTAGAATTAAGTTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTTAAAATTCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* *
4333 GT-AATTCTTTTTTGCGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAGAAATTGAG-AAAA
131 GTCAATTCTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTGAGAAAAA
* * * * *
4396 AAATTTCGGGTCAATTTTTAGTCGAAATCGTGTATAAACTATCACGATTTTTGGCTGAAAACGCG
195 AAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACG-GTTTTGGCTAAAAACGCG
* *
4461 --T----------ACTCAGATTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCCATAT
259 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* * *
4512 TCATCTAACCAAATCTCAGCCTAATTGGATTTAAAGA-TTTTTTTACGAGCATCTGAATCTTATT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * *
4576 CCGATTGTAATATAATTAAATTTAGGAAAGAAAATGGAAAAACGATATTAGGAGAGTGAAAATTC
66 TCGATTGTATTAGAATTAAATTTAGGAAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAATTC
*
4641 CGT-AATTCCTTTTT-GCGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAGAAATTGAGAAA
130 CGTCAATT-CTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTGAG-AA
*
4704 AAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAACCATCACGGTTTTTGGCTAAAAAC
192 AAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGG-TTTTGGCTAAAAAC
* * *
4769 GTGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCATA
256 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATA
4834 T
321 T
* *
4835 TCATCTAACCAAATCTCAACCAAATTGGATATAAGG-TTTTTTTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * **
4899 CCGATTGTACTAAAATTAAATTTAGGAAAAAAATGGAAAAGCGATATTA-AAGCGTGAAAAAACC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAATTC
* ** * * * * * * *
4963 CTTCAATT-TTTTTGGCGATAAAGATTATAAATTTTTCTGAGTATTGAGGCAGAGAATTCAGGAA
130 CGTCAATTCTTTTTGGCG-TTGA-ATTATATATTTTTCAGAGTATTGTGGCAAAAAATTGAGAAA
* ** * *** * * **
5027 AAAAATTTCGAGTC-GGTTTTAGCCAAAATCGTGTACGCACCA-CA-GTTTTTAGCTAAAATTGC
193 AAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAAAACGC
* *** * * * * * *
5089 GTTTCAGGGCCTTAATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTGAAATATCTATAA
258 GTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
*
5153 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
*
5218 TAT-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAACAATATTAGAAGCGTGAA
65 T-TCGATTGT-ATTAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACGATATTAGAAGCGTGAA
* * * *
5279 AATTCCGTCAA-TCATTTTGGCGTGGAATTATATATATTTTCAGAGTATTATGGGAAAAAATTGA
125 AATTCCGTCAATTCTTTTTGGCGTTGAATTATATAT-TTTTCAGAGTATTGTGGCAAAAAATTGA
* * * ** *
5343 GAAAAAAAGTTTTCGGGTTAATTTTTAGCCGAAATCGTGTA-TGACGGT----TTTTTGGCTAAA
189 GAAAAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAA
* *
5403 AACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCC
253 AACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC
5468 ATAT
318 ATAT
***
5472 TCATCTAACCAAATCTCAGCCAAATAAAATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * **
5537 CCGATTGTATTAAAATTAAATTTAGGAAAAAAATGGAAAAGCGATATTA-AAGCGTGAAAAACCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* ** * * * *
5601 TTCAATT-TTTTTGGCGATAAAGATTATATATTTTTCGGAGTATTGAGG-AAAAGAATTTAGGAA
131 GTCAATTCTTTTTGGCG-TTGA-ATTATATATTTTTCAGAGTATTGTGGCAAAA-AATTGAGAAA
* * * * * *
5664 AAAAATTTCGAGTC-AGTTTTAGCCAAAATCGTG---T-ACGCATCACAGTTTTTAGCTAAAAAT
193 AAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAAC-CATCAC-GGTTTTGGCTAAAAAC
* * ** * * * * *
5724 GCCTTTCGAGGCCTTGATTCAGTTTTGCAT-AGTTATTGGCATAAAGACTCTTTGAAATATCTAT
256 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATCCAT
*
5788 AA
320 AT
*
5790 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
5855 TAT-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAAC-AGTATTAGAAGCGTGA
65 T-TCGATTGT-ATTAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACGA-TATTAGAAGCGTGA
* * * * * *
5915 AAATTTCGTCAA-TCATTTAGGCGTGGAATTATATACTTTTTTAGAGTATTATGGCAAAAAATTG
124 AAATTCCGTCAATTCTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTG
* * * *
5979 AGAAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAAAGCATCACGATTTATTGGC
188 AGAAAAAAA-ATTTCGGGTCAATTTTTAGCCGAAATCGTGTAT-TAACCATCACG-GTT-TTGGC
* * * *
6044 TAAAAACGTGTTTCGGGTCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAATT
249 TAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAAT
6109 ATCCATAT
314 ATCCATAT
* * *
6117 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGAGTTTTTTTTACGACCATCTGATTCTTAT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGA-TTTTTTTTACGAGCATCTGAATCTTGT
* * * *
6182 TCCGATTGTAATAGAATTAAATTTAGGGAAAAAAAAT-GAAAAACGATATTAGGAGAGTGAAAAT
65 TTCGATTGTATTAGAATTAAATTTA-GG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAT
* * * *
6246 TCTGT-AATTACTTTTT-GCGTTAAATTATATATTTTTCCAGAGTATTGTGGCAAGAAATTGAAA
128 TCCGTCAATT-CTTTTTGGCGTTGAATTATATATTTTT-CAGAGTATTGTGGCAAAAAATTG-AG
6309 AAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAA
190 AAAAAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGG-TTTTGGCTAAAA
* *
6373 ACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCAGAAAGACTCCTTGAATTATCCA
254 ACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCA
6438 TAT
319 TAT
* * *
6441 TCATCTAACCAAATCTCAGCCAAATTTGATTTAAGGATTTTTTTTACGACCATCTGAATCTTCTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * **
6506 CCGATTGTATTA-AATTTAAATTTAGGAAAAAAATGGAAAAGCAATATTA-AAGCGTGAAAAACC
66 TCGATTGTATTAGAA-TTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTC
* ** * * * * *
6569 CTTCAATT-TTTTTGGCGATAAAGATTATATATTTTTCTGAGTATTGAGGCAAAGAATTCAGGAA
130 CGTCAATTCTTTTTGGCG-TTGA-ATTATATATTTTTCAGAGTATTGTGGCAAAAAATTGAGAAA
* * * * * * *
6633 AAAAATTTCGAGTC-AGTTTTAGCCAAAATC--GT-TT-ACGCATTACAGTTTTTAGCTAAAAAT
193 AAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAAC-CATCAC-GGTTTTGGCTAAAAAC
** * * * * *
6693 GCGTTTCGGGGCCTTGATTCAGTTTTGCATGGTTTTTGGCATAAAGACTCTTTAAAATA-CCTAT
256 GCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC-AT
*
6757 AA
320 AT
* * * *
6759 TCACCTAACCAAATCTCAGCCACATTGGATTGAAGGATTTGTTTTTATGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGT
6824 TAT-GATT-TAATTAGAAATT-AATTT-GGAAAAAGATATGGAAAAAC-AGTATTAGAAGCGTGA
65 T-TCGATTGT-ATTAG-AATTAAATTTAGGAAAAA-A-ATGGAAAAACGA-TATTAGAAGCGTGA
* * * * * **
6884 AAGTTCCGTCAA-TCATTTTGGCGTGGAATTATATATTTTTTTAGAGTTTTAAGGCAAAAAATTG
124 AAATTCCGTCAATTCTTTTTGGCGTTGAATTATATA-TTTTTCAGAGTATTGTGGCAAAAAATTG
* * *
6948 AGAAAAAAAGTTTCCGGGTCAATTTTTAGCCGAAATCGTGTATGT-----T-ACGTTTTTTGCTA
188 AGAAAAAAAATTT-CGGGTCAATTTTTAGCCGAAATCGTGTAT-TAACCATCACGGTTTTGGCTA
**
7007 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGTTTCCTTGAAATAT
251 AAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT
7072 CCATAT
316 CCATAT
*
7078 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTCTTACGAGCATCTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * * **
7143 TCGGTTGTATTATAATTAAATTTAGGAAAAAAATGGAAAAACGATCTTAGAAGTGTGAAAAACCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * * * *
7208 TTCAA-TCTTTTTGGCATTGAAAATTATATATTTTT-ATGAGTATTGAGGCAAAGAATTGAG-GA
131 GTCAATTCTTTTTGGCGTTG--AATTATATATTTTTCA-GAGTATTGTGGCAAAAAATTGAGAAA
* * * * * *
7270 AAATATTTCGGGT-TAGTTTTAGCCAAAATCGTGTATTAACAATCACGGTTTTGACTAAAAACGC
193 AAAAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAAAACGC
* * * * * * *
7334 TTTTCGGGGTCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGACTCCTTTAAATAACCATAT
258 GTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
* *
7398 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTTTTTACGAGCATTTGAATCTTGTT
1 TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * *
7463 TTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGGAGAGTGAAAATTCC
66 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
* * *
7528 GT-AATTCTTTTTTGCGTTGAATTATATATTTTTCCAGAGTATTGTGGTAAGAAATTGAGAAAAA
131 GTCAATTCTTTTTGGCGTTGAATTATATATTTTT-CAGAGTATTGTGGCAAAAAATTGAGAAAAA
* * * *
7592 AAATTTTGGGTCAATTTTTAGCCG-AATCGTGTATAAACCATCATAGTTTTTGGCTAAAAACGCG
195 AAATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCA-CGGTTTTGGCTAAAAACGCG
* ** * * *
7656 TTTCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGTAGAAAGATTCCTTAAAATATCCATAT
259 TTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
7719 TCATCTAA
1 TCATCTAA
7727 AATGGAAAAT
Statistics
Matches: 4311, Mismatches: 607, Indels: 409
0.81 0.11 0.08
Matches are distributed among these distances:
308 77 0.02
309 136 0.03
310 10 0.00
311 82 0.02
312 73 0.02
313 125 0.03
314 26 0.01
315 62 0.01
316 41 0.01
317 186 0.04
318 550 0.13
319 499 0.12
320 572 0.13
321 420 0.10
322 394 0.09
323 387 0.09
324 281 0.07
325 67 0.02
326 72 0.02
327 223 0.05
328 20 0.00
329 3 0.00
330 5 0.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (321 bp):
TCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATTCC
GTCAATTCTTTTTGGCGTTGAATTATATATTTTTCAGAGTATTGTGGCAAAAAATTGAGAAAAAA
AATTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTGGCTAAAAACGCGTT
TCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATAT
Found at i:7817 original size:104 final size:104
Alignment explanation
Indices: 7637--7830 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 104
7627 AACCATCATA
* * * * *
7637 GTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGTAGAAAGATT
1 GTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAAGACT
7702 CCTTAAAATATCCATATTCATCTAAAATGGAAAATCACG
66 CCTTAAAATATCCATATTCATCTAAAATGGAAAATCACG
* * * * * *
7741 GTTTTTGGCTAAAAACGTGTTTCAGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATATAGACT
1 GTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAAGACT
*
7806 CCTTTAAATATCCATATTCATCTAA
66 CCTTAAAATATCCATATTCATCTAA
7831 CCAAATCTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 78 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (104 bp):
GTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAAGACT
CCTTAAAATATCCATATTCATCTAAAATGGAAAATCACG
Found at i:8032 original size:423 final size:424
Alignment explanation
Indices: 7310--8149 Score: 1371
Period size: 423 Copynumber: 2.0 Consensus size: 424
7300 GTGTATTAAC
* *
7310 AATCACGGTTTTGACTAAAAACGCTTTTCGGGGTCTCGACTCAGTTTTGCATGCTTTTTGGCATA
1 AATCACGGTTTTGACTAAAAACGCTTTTCAGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATA
*
7375 AAGACTCCTTTAAATAACCATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGAATTTTT
66 AAGACTCCTTTAAATAACCATATTCATCTAACCAAATCTCAGCCAAATTAGATTTAAGAATTTTT
*
7440 TTTACGAGCATTTGAATCTTGTTTTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAAC
131 TTTACGAGCATCTGAATCTTGTTTTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAAC
* * *
7505 GATATTAGGAGAGTGAAAATTCCGTAATTCTTTTTTGCGTTGAATTATATATTTTTCCAGAGTAT
196 GATATTAGAAGAGTGAAAATTCCGTAATTCTTTTTGGCATTGAATTATATATTTTTCCAGAGTAT
* * * *
7570 TGTGGTAAGAAATTGAGAAAAAAAATTTTGGGTCAATTTTTAGCCGAATCGTGTATAAACCATCA
261 TATGGCAAGAAAATGAGAAAAAAAATTTCGGGTCAATTTTTAGCCGAATCGTGTATAAACCATCA
* * * *
7635 TAGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGTAGAAAGA
326 CAGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAAGA
*
7700 TTCCTTAAAATATCCATATTCATCTAAAATGGAA
391 CTCCTTAAAATATCCATATTCATCTAAAATGGAA
*
7734 AATCACGGTTTTTGGCTAAAAACG-TGTTTCAGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCA
1 AATCACGG-TTTTGACTAAAAACGCT-TTTCAGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCA
* *
7798 TATAGACTCCTTTAAATATCCATATTCATCTAACCAAATCTCAGCCAAATTAGATTTAAGAA-TT
64 TAAAGACTCCTTTAAATAACCATATTCATCTAACCAAATCTCAGCCAAATTAGATTTAAGAATTT
7862 TTTTTACGAGCATCTGAATCTTGTTTTGATTGTATTAGAATTAAATTCAGG-AAAAAATGGAAAA
129 TTTTTACGAGCATCTGAATCTTGTTTTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAA
* * * *
7926 ACGATATTAGAAGCGTGAAAATTCTGTAATTCTTTTTGGCATTGAATTTTATATTTTTTCAGAGT
194 ACGATATTAGAAGAGTGAAAATTCCGTAATTCTTTTTGGCATTGAATTATATATTTTTCCAGAGT
*
7991 ATTATGGCAAGAAAATGAGAAAAAAAATTTCGGGTCAATTTTTAGTCGAATCGTGTATAAACCAT
259 ATTATGGCAAGAAAATGAGAAAAAAAATTTCGGGTCAATTTTTAGCCGAATCGTGTATAAACCAT
* * * *
8056 CACGGTTTTTGGCTAAAAACGCGTTTCGTGGTCCCGACTCAGTTTTGCATGATTTTTGGCAGAAA
324 CACAGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAA
* *
8121 GACTCCTTGAATTATCCATATTCATCTAA
389 GACTCCTTAAAATATCCATATTCATCTAA
8150 CCAAATCTCA
Statistics
Matches: 384, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
423 214 0.56
424 61 0.16
425 109 0.28
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (424 bp):
AATCACGGTTTTGACTAAAAACGCTTTTCAGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATA
AAGACTCCTTTAAATAACCATATTCATCTAACCAAATCTCAGCCAAATTAGATTTAAGAATTTTT
TTTACGAGCATCTGAATCTTGTTTTGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAAC
GATATTAGAAGAGTGAAAATTCCGTAATTCTTTTTGGCATTGAATTATATATTTTTCCAGAGTAT
TATGGCAAGAAAATGAGAAAAAAAATTTCGGGTCAATTTTTAGCCGAATCGTGTATAAACCATCA
CAGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAGAAAGA
CTCCTTAAAATATCCATATTCATCTAAAATGGAA
Found at i:9209 original size:321 final size:320
Alignment explanation
Indices: 8362--11251 Score: 3058
Period size: 321 Copynumber: 9.1 Consensus size: 320
8352 TTAGCCGAAA
* **
8362 TCGATTGTATTAGAATTAAATTTAGGAAAAAAATGGAAAAGTGATATTAGAAGCGTGAAAAACCC
1 TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
* *
8427 TTCAATTTTTTTGGCGATGAAGATTATATATTTTTCTGAGTATTGAGGCAAAGAATTGAGGAAAA
66 TTCAATTTTTTTGGCGTTGAAAATTATATATTTTT-TGAGTATTGAGGCAAAGAATTGA-GAAAA
* * * * * *
8492 AAATTTCGTGTCAGTTTTAACCAAAATCGTGTACTAACCATCACAGTTTTTAGCTAAAAATGCGT
129 AAGTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAAACGCGT
* * * * *
8557 TTCAGGGG-CTTGACTCGGTTTTGCATTG-TTTTTGGTATAAAGACTCCTTGAAATATCTATAAT
194 TTC-GGGGCCTCGACTCAGTTTTGCA-TGATTTTTGGCATAAAGACTCCTTGAAATATCCATATT
* * ** *
8620 CATCTAACCAAATCTCAGCCACATTGTATTTAAGGATTTGTTTTTAAAAGCGTCTGAATCTTGTT
257 CATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT
** * * * *
8685 AAGATT-TAATTAGAAATTAAA-TCA-GAAAAAAATGGAAAAACAATGTTAAAAGCGTG-AATA-
1 TCGATTGT-ATTAG-AATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAC
* * * ** *
8745 -TTTC-GTTTTTTT---GTTG--AATTATATATTTTTTCAAAGTATTTTGG-AAA-AAATGAGAA
64 CCTTCAATTTTTTTGGCGTTGAAAATTATATATTTTTT--GAGTATTGAGGCAAAGAATTGAG--
* * * *
8801 AAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTATAAACCATCACGGTTTTTGGCTAAAA
125 AAAAAAG-TTTCGGGTC-AGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAA
* * * *
8866 ACGCGTTTCGGTGACC-CGACTCAATCTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCC
188 ACGCGTTTCGG-GGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCC
* *
8930 ATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGA-TTTTTTTATGAGTATCTGAATCT
252 ATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCT
8994 TGTT
317 TGTT
* * *
8998 TCGATTGTATTAGAATTAAATTCATGAAAAAAATGGAAAAATGATATTAGAGGCGTGAAAAAACC
1 TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAACC
* * *
9063 CTTCAATTTTTTTGGCGTTGAAAATAATATATTTTTATGAGTACTGAGGCAAAGAATTGAGGAAA
65 CTTCAATTTTTTTGGCGTTGAAAATTATATATTTTT-TGAGTATTGAGGCAAAGAATTGAGAAAA
* *
9128 AAGTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTGGTTAAAAACGCGT
129 AAGTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAAACGCGT
* *
9193 TTCGGGGCCTCGACTCAGTTTTGCATGCTTTTTGGCATAAAGACTCCTTTAAATATCCATATTCA
194 TTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCATATTCA
* * * *
9258 TCTAACCAAATCTCAGCCAAATTGGATTTATGAATTTTTTTAACGAGCATCTGAATCTTGAT
259 TCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
* * * **
9320 TCGATTGTATTAGAATAAAATTTAGGAAAAAAATGGAAAAACGATATTAGAAGTGTGAAAATTCC
1 TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
** * *
9385 -GAAATTCTATTTGGCGTTG--AATTATATATTTTTTCAGAGTATTGTGGC-AAGCAATTGAGAA
66 TTCAATT-TTTTTGGCGTTGAAAATTATATATTTTTT--GAGTATTGAGGCAAAG-AATTGAG-A
* * * * *
9446 AAAAAGTTTTCGGGTCAATTTTTAG-CAGAAATCGTTTATAAACAATCACGGTTTTTGGCTAAAA
126 AAAAAG-TTTCGGGTC-AGTTTTAGCCA-AAATCGTGTATTAACCATCACGGTTTTTAGCTAAAA
* * * * *
9510 ACGCGTTTCAGGGCCCCGACTCAATTTTGCATAATTTTTGGCAGAAAGACTCCTTGAAATATCCA
188 ACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCA
9575 TATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTT
253 TATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTT
9640 GTT
318 GTT
* * *
9643 TCGATTGTATTACAAATAAATTCAGGAAAAAAAATGGAAAAACGATATTAGAGGCGTGAAAAACC
1 TCGATTGTATTAGAATTAAATTCAGG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACC
* * *
9708 CTTCAATTTTTTTTGGCGTTGAAAAATTATATATTTTATGATTATTGAGGCAAAGAATTGAG-GA
65 CTTCAA-TTTTTTTGGCGTTG-AAAATTATATATTTTTTGAGTATTGAGGCAAAGAATTGAGAAA
* * * * *
9772 AAA-TATTCGAGTCAGTTTTAGCCGAAATCGTGTA-T---CATCACAGTTATTAGCTAAAAATGC
128 AAAGT-TTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAAACGC
* * * * * * *
9832 GTTTCGGGGCCTTGACCCAGTTTTGCATGGTTTTTGGTATAAAGATTCCTTGAAATATCTATAAT
192 GTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCATATT
** *
9897 CATCTAACCAAATCTCATTCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
257 CATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT
** * *
9962 AAGATT-TAATTAGAAATT-AATTC-GG-AAAAAATGGAAAAA-AAGTATTAGAAGCGTGAAAAT
1 TCGATTGT-ATTAG-AATTAAATTCAGGAAAAAAATGGAAAAACGA-TATTAGAAGCGTGAAAAA
* * * *
10022 TCCATC-ATTCTTTTTGGCGTTG--AATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAG
63 CCCTTCAATT-TTTTTGGCGTTGAAAATTATATATTTTTT--GAGTATTGAGGCAAAGAATTGAG
* * * * * *
10084 AAAAAAAGTTTTTGGG-CAATTTTTAGCCGAAATTGTGTATAAACCATCACGGTTTTTGGCTAAA
125 -AAAAAAG-TTTCGGGTC-AGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAA
* * * * * *
10148 AACGCGTTTCGGGACCCCGACTTAGTTTTGCCTGATTTTTGGCAGAAAGACTCCTTGAATTATCC
187 AACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCC
* *
10213 ATATTCTTCTAACCAAATCTCAGCCAAATTGGATTAAAGGATTTTTTTTACGAGCATCTGAATCT
252 ATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCT
10278 TGTT
317 TGTT
* *
10282 TAGATTGTATTAGAATTAAATTCA-GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCC
1 TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
10346 TTCAATTTTTTTGGCGTTGAAAATTATATATTTTTCTGAGTATTGAGGCAAAGAATTGAGTAAAA
66 TTCAATTTTTTTGGCGTTGAAAATTATATATTTTT-TGAGTATTGAGGCAAAGAATTGAG-AAAA
* * * * **
10411 AA-TTTCGAGTCAGATTTAGCCAAAATCGTGTATTAACGATCAC-ATTTATTAGCTAAAAATACG
129 AAGTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTT-TTAGCTAAAAACGCG
* * * * *
10474 TTTCGGGGCCTTGACTCAGTTTTGCATGGTTTTTGACATAAAGACTCCTTGAAATATCTATAATC
193 TTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCATATTC
* * * * * *
10539 ATCTAAGCAAATCTTAGCTACATTGGATTTGAGGATTTATTTTTACGAGTATCTGAATCTTGTT
258 ATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT
** * ** *
10603 AAGATT-TAATTAGAAATT-AATTAACCATCAAAAAA-GGAAAAA-AAGTATTAGAAGCGTGAAA
1 TCGATTGT-ATTAG-AATTAAATTCAGGA--AAAAAATGGAAAAACGA-TATTAGAAGCGTGAAA
*** * * * * * *
10664 ATTACGTCAA-TTTTTTGGC-ATG-GAATTATATATTTTTTCAGAATATT-ATTGCAAAAAATTG
61 AACCCTTCAATTTTTTTGGCGTTGAAAATTATATATTTTTT--GAGTATTGA-GGCAAAGAATTG
* * *
10725 AGAAAAAAAAGTTTTCGAGTCAATTTTTAGCCGAAAT--TG---------T----G----T---T
123 AG--AAAAAAG-TTTCGGGTC-AGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCT
* * * * *
10768 AAAAACGCGTTTCGGGACCCCAACTCAGTTTTGC-TGAATTTTGGCAGAAAGACTCCTTGAAATA
184 AAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATA
* * *
10832 TTCATATTCATCTAACCAAATCTCAGCCAAAATGGATTTATGGA-TTTTTTTACGAGCATCTGAA
249 TCCATATTCATCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAA
10896 TCTTGTT
314 TCTTGTT
*
10903 TCGATTGTATTAGAATTAAATTCAGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
1 TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
* *
10968 TTAAATTTTTATGGCGTTGAAAATTATATATTTTTCTGAGTATTGAGGCAAAGAATTGAGGAAAA
66 TTCAATTTTTTTGGCGTTGAAAATTATATATTTTT-TGAGTATTGAGGCAAAGAATTGA-GAAAA
* * * *
11033 AA-TTTCGGGTCAGTTTTACCCAAAATCGTGTATTAACCATCACAGTTATTAGCTAAAAATGCGT
129 AAGTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAAACGCGT
* * * * *
11097 TTC-AGGCCTCGACTCAGTTTTGCATGCTTTTTGGTATAAAGACTCCTTGAAATATCTA-AATCA
194 TTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCATATTCA
* * * *
11160 TCTAACCAAATCTCAGCCACATTGGTTTTTAGGATTTGTTTTTACGAGCATCTAAATCTTGTT
259 TCTAACCAAATCTCAGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTGAATCTTGTT
**
11223 AGGATT-TAATTAGAAATT-AATTC-GGAAAA
1 TCGATTGT-ATTAG-AATTAAATTCAGGAAAA
11252 TTTCGTCAAT
Statistics
Matches: 2137, Mismatches: 306, Indels: 252
0.79 0.11 0.09
Matches are distributed among these distances:
297 12 0.01
298 14 0.01
299 34 0.02
300 53 0.02
301 22 0.01
302 76 0.04
303 30 0.01
306 1 0.00
308 1 0.00
311 1 0.00
312 28 0.01
313 55 0.03
314 73 0.03
315 142 0.07
316 44 0.02
317 23 0.01
318 173 0.08
319 121 0.06
320 250 0.12
321 382 0.18
322 195 0.09
323 261 0.12
324 78 0.04
325 32 0.01
326 19 0.01
327 3 0.00
328 14 0.01
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (320 bp):
TCGATTGTATTAGAATTAAATTCAGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC
TTCAATTTTTTTGGCGTTGAAAATTATATATTTTTTGAGTATTGAGGCAAAGAATTGAGAAAAAA
GTTTCGGGTCAGTTTTAGCCAAAATCGTGTATTAACCATCACGGTTTTTAGCTAAAAACGCGTTT
CGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCCATATTCATC
TAACCAAATCTCAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTGAATCTTGTT
Found at i:12050 original size:322 final size:316
Alignment explanation
Indices: 11257--12502 Score: 1255
Period size: 322 Copynumber: 3.9 Consensus size: 316
11247 GAAAATTTCG
* * * * * * *
11257 TCAATCTTTTTGGCGTG-GAATTATATATTTTTCCAAAGTGTTGTGGTAAAAAATTGACAAAAAT
1 TCAATTTTTTTGGCGTGAAAATTATATATTTTT-CAGAGTATTGAGG-CAAAAATTGAGAAAAA-
* *
11321 AGTTTCGGGTCAATTTTTAGCCGAAATCGTGAATTTA--ATCACGGTTTTTGGCTAAAAACGCGT
63 AGTTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGCTAAAAACGCGT
*
11384 TTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCA
128 TTCGGGACCTCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCA
* * * *
11449 TCTAACC-AATCT-GCCAAATTGGATGTAAGGACTTTTTTTACGAGCATATAAACCTTGTTTCGA
193 TCTAACCAAATCTAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTAAATCTTGTTTCGA
* * *
11512 TTTTATTAGAATTGAATTTAGGAAAAAAAAATGGAAAAACGATTTTAGAAGCGTGAAAACCCCT
258 -TTTATTAGAATT-AAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-CCCT
* * * *
11576 TCAATTTTTTTGGCGTTGAAAATTATATACTTTTCTGAGTATTAAGACAAAGAATTGAGGAAAAA
1 TCAATTTTTTTGGCG-TGAAAATTATATATTTTTCAGAGTATTGAGGCAAA-AATTGA-GAAAAA
* * * * * * * * *
11641 A-ATTCAGGTC-AGTTTTAGCCAAAATCGTGTATTAACCATCACAGTTATTAGCTAAAAATGCAT
63 AGTTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGCTAAAAACGCGT
* * * * * *
11704 TTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGTATAAAGACTCCTTGAAATATCTATAATCA
128 TTCGGGACCTCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCA
* * **
11769 TCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTAG
193 TCTAACCAAATCT-AGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTAAATCTTGTTTC
* * **
11834 GATTTAATTAGAAATCAATTCGGAAAAAAATGGAAAAAC-AGTATTAGAAGCGTGAAAATTCT
256 GATTT-ATTAGAATTAAATTCGGAAAAAAATGGAAAAACGA-TATTAGAAGCGTGAAAACCCT
* * *
11896 GTC-ATTCTTTTTGGCG-GAGAATTATATATTTTTTCAGAGTATTGTGGCAAAATTTTGAGAAAA
1 -TCAATT-TTTTTGGCGTGAAAATTATATA-TTTTTCAGAGTATTGAGGCAAAA-ATTGAGAAAA
* *
11959 AAGTTTTCGGGTCAATTTTTAGCCGAAATTGTGTATAAACCATCACGGTTTTTGGCTAAAAACGC
62 AAG-TTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGCTAAAAACGC
* * *
12024 GTTTCGGGATCTCGACTCGGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCCATATT
126 GTTTCGGGACCTCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATT
* * *
12089 CATCTAACCAAATCTTAGCCAAATTGGATTTACGGATTTTTTTTACAAGCATCTGAATCTTGTTT
191 CATCTAACCAAATC-TAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTAAATCTTGTTT
*
12154 CGATTGTATTAGAATTAAATTCAGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCT
255 CGATT-TATTAGAATTAAATTC-GGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAACCCT
*
12219 TCAATTTTTTTGGCGTTGAAAATTATATATTTTTCTGAGTATTGAGGCAAAGAATTGAGGAAAAA
1 TCAATTTTTTTGGCG-TGAAAATTATATATTTTTCAGAGTATTGAGGCAAA-AATTGA-GAAAAA
* * * *
12284 A-TTTCGGG-CTAGTTTTAGCCAAAATCGTG---T-A-CA-CA------------AAAAACGCAT
63 AGTTTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGCTAAAAACGCGT
* * * * ** * **
12329 TGCGGG-CCACGGCTCTGTTTTGCATGATTTTTGGC-GTCGAGACTCCTTGATATATCTTTATTC
128 TTCGGGACCTCGACTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCCATATTC
* * * * * * *
12392 ATCTAATCAAATCTCAGCTACATTCGATTTAAGGATTTGTTTTTACGTGCATCTGAATTTTGTTT
192 ATCTAACCAAATCT-AGCCAAATTGGATTTAAGGATTT-TTTTTACGAGCATCTAAATCTTGTTT
* *
12457 CGATTTAAGTAGAAATT-AATTCCGAAAAAAAT-GAAAAACGATATTA
255 CGATTT-ATTAG-AATTAAATTCGGAAAAAAATGGAAAAACGATATTA
12503 AAAGTGTTAA
Statistics
Matches: 779, Mismatches: 114, Indels: 86
0.80 0.12 0.09
Matches are distributed among these distances:
301 16 0.02
302 86 0.11
303 51 0.07
304 4 0.01
315 2 0.00
316 2 0.00
317 1 0.00
318 21 0.03
319 43 0.06
320 129 0.17
321 130 0.17
322 181 0.23
323 61 0.08
324 52 0.07
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (316 bp):
TCAATTTTTTTGGCGTGAAAATTATATATTTTTCAGAGTATTGAGGCAAAAATTGAGAAAAAAGT
TTCGGGTCAATTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGCTAAAAACGCGTTTC
GGGACCTCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCCATATTCATCT
AACCAAATCTAGCCAAATTGGATTTAAGGATTTTTTTTACGAGCATCTAAATCTTGTTTCGATTT
ATTAGAATTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACCCT
Found at i:13618 original size:30 final size:30
Alignment explanation
Indices: 13582--13653 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
13572 CATTAGCTAT
*
13582 TAATTCCTACTCCTAATTCTTTTTGAAATC
1 TAATTCCTACTCCTAATTCTTTTTGAAACC
*
13612 TAATTCCTACTCCTTATTCTTTTTGAAACC
1 TAATTCCTACTCCTAATTCTTTTTGAAACC
*
13642 TAATTCTTACTC
1 TAATTCCTACTC
13654 TTATCGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (30 bp):
TAATTCCTACTCCTAATTCTTTTTGAAACC
Done.