Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015160.1 Corchorus capsularis cultivar CVL-1 contig15181, 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: 60112
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:9691 original size:14 final size:14
Alignment explanation
Indices: 9665--9705 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
9655 TAATGGCTTA
9665 CAAGTTATTAATTC
1 CAAGTTATTAATTC
* *
9679 CAGGTTTTTAATTC
1 CAAGTTATTAATTC
9693 CAAGTTATTAATT
1 CAAGTTATTAATT
9706 AAAATAATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (14 bp):
CAAGTTATTAATTC
Found at i:13896 original size:2 final size:2
Alignment explanation
Indices: 13889--13919 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13879 TAACATTATA
13889 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13920 ATCTGACGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17972 original size:2 final size:2
Alignment explanation
Indices: 17967--17994 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17957 AAAAAAAAAA
17967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17995 GTAAAGAGAG
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):
AT
Found at i:19276 original size:51 final size:51
Alignment explanation
Indices: 19199--19297 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
19189 ACATTTCCAT
*
19199 CTAGTGGTTTTGGTTCGAGTAATAATGATTTTATGGGGTCGAATACAACAC
1 CTAGTGGTTTTGGTTCAAGTAATAATGATTTTATGGGGTCGAATACAACAC
*
19250 CTAGTGGTTTTGGTTCAAGTAGTAATGATTTTATGGGGTCGAATACAA
1 CTAGTGGTTTTGGTTCAAGTAATAATGATTTTATGGGGTCGAATACAA
19298 GTTCTGGTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.36
Consensus pattern (51 bp):
CTAGTGGTTTTGGTTCAAGTAATAATGATTTTATGGGGTCGAATACAACAC
Found at i:23219 original size:11 final size:11
Alignment explanation
Indices: 23203--23228 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23193 AGCCAGTGGG
23203 ATTAAAGTTAT
1 ATTAAAGTTAT
23214 ATTAAAGTTAT
1 ATTAAAGTTAT
23225 ATTA
1 ATTA
23229 GATGGGAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
ATTAAAGTTAT
Found at i:26776 original size:2 final size:2
Alignment explanation
Indices: 26771--26800 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26761 AAATATATGA
26771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26801 TGCTTATCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27125 original size:30 final size:29
Alignment explanation
Indices: 27081--27172 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
27071 ACGGTTTCCG
* *
27081 ACGTGGCATACCACGTGTACCAAAAGTGAC
1 ACGTGGCATGCCACGTGCA-CAAAAGTGAC
* * *
27111 ACGTGACATGCCACGTGGACAAAAATGAC
1 ACGTGGCATGCCACGTGCACAAAAGTGAC
*
27140 ACGTGGCATGCCACGTGCACAAAAG-GAT
1 ACGTGGCATGCCACGTGCACAAAAGTGAC
27168 ACGTG
1 ACGTG
27173 CCACGTGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 7 0.13
29 31 0.57
30 16 0.30
ACGTcount: A:0.34, C:0.25, G:0.26, T:0.15
Consensus pattern (29 bp):
ACGTGGCATGCCACGTGCACAAAAGTGAC
Found at i:29362 original size:338 final size:335
Alignment explanation
Indices: 28746--29411 Score: 932
Period size: 338 Copynumber: 2.0 Consensus size: 335
28736 AAATTTGTTA
*
28746 GTTGCGTTTGGTTCGTGGAATGTAATGGGAAAGTGTGGTATATTAGAAAGGGAAAATAATTTTCC
1 GTTGCGTTTGGTTCGTGGAATGTAATGGGAAAGTGTGCTATATTAGAAAGGG-AAATAATTTTCC
** *
28811 CATGTTTCGTTCAAGGAATCTAATTTTAAGTAGGAACGTCATTCCCATCACTTTATCACTCAAGT
65 CATGTTTCGTTCAAGGAATCTAATTTTAAGTAGGAACAACATTCCCACCACTTTATCACTCAAGT
*
28876 GGGAAAGTAGTAAGAATAACATTCCCACCTAAAATGGTGGGAAAGTTAACTTTCCCAGAAAAGTG
130 GGGAAAGTAGTAAGAATAACATTCCCACCTAAAAGGGTGGGAAAGTTAACTTTCCCAGAAAAGTG
28941 TTACTCATTTTCACTTATCTTTCTCTTATATTTTAAAAATTTAATAACTTTCCCATGTTAACCAA
195 TTACTCATTTTCACTTATCTTTCTCTTATATTTTAAAAATTTAATAACTTTCCCATGTTAACCAA
* *
29006 ACATGATAATCTTATTCCCACAAAAACAAAAAATTACACTTTCCCACTAAAATAACATTTCTAGG
260 ACATGATAATCTTATTCCCACAAAAA-AAAAAA-TACACTTTCCCACTAAAATAACATTCCTAGA
29071 AAAGAAGTGTAAG
323 AAAGAAGTGTAAG
* * *
29084 GTTGCGTTTGGTTCGTGGTATGTAGTGGGAAAGTGTGCTA-AGTTTGATAGAGGG-AATAACTTT
1 GTTGCGTTTGGTTCGTGGAATGTAATGGGAAAGTGTGCTATA-TTAGA-A-AGGGAAATAA-TTT
* ** * *
29147 T-CCATGTTTGGTTGGAGGAATCTAATTTT-AGATGGGAATAACATTCCCACCACTTT-TCCACT
62 TCCCATGTTTCGTTCAAGGAATCTAATTTTAAG-TAGGAACAACATTCCCACCACTTTAT-CACT
** * ** **
29209 TGAGTGGGAATA-TGGTGGGAATGTCATTCCCACCTAAAAGGGTGGGAAAGTTAACTTTCCCA-A
125 CAAGTGGGAA-AGTAGTAAGAATAACATTCCCACCTAAAAGGGTGGGAAAGTTAACTTTCCCAGA
* * * *
29272 GAAAGTGTTACTCCTTTTCACTTGTCTTTCTCTTATATTTTAAAATTTTAATAACTTTTCCATGT
189 -AAAGTGTTACTCATTTTCACTTATCTTTCTCTTATATTTTAAAAATTTAATAACTTTCCCATGT
* *
29337 TAACCAAACATGGTAATCTTATTCCCACAAAAAAAAAAATATACTTTCCCACTAAAATAACATTC
253 TAACCAAACATGATAATCTTATTCCCACAAAAAAAAAAATACACTTTCCCACTAAAATAACATTC
29402 CTAGAAAAGA
318 CTAGAAAAGA
29412 GATGTAAATG
Statistics
Matches: 292, Mismatches: 28, Indels: 18
0.86 0.08 0.05
Matches are distributed among these distances:
336 33 0.11
337 11 0.04
338 238 0.82
339 6 0.02
340 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (335 bp):
GTTGCGTTTGGTTCGTGGAATGTAATGGGAAAGTGTGCTATATTAGAAAGGGAAATAATTTTCCC
ATGTTTCGTTCAAGGAATCTAATTTTAAGTAGGAACAACATTCCCACCACTTTATCACTCAAGTG
GGAAAGTAGTAAGAATAACATTCCCACCTAAAAGGGTGGGAAAGTTAACTTTCCCAGAAAAGTGT
TACTCATTTTCACTTATCTTTCTCTTATATTTTAAAAATTTAATAACTTTCCCATGTTAACCAAA
CATGATAATCTTATTCCCACAAAAAAAAAAATACACTTTCCCACTAAAATAACATTCCTAGAAAA
GAAGTGTAAG
Found at i:32061 original size:34 final size:34
Alignment explanation
Indices: 32018--32085 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32008 TTGCCATTGC
32018 ATTCTTGAAATCAAATATACAACAGCAGTAATAA
1 ATTCTTGAAATCAAATATACAACAGCAGTAATAA
32052 ATTCTTGAAATCAAATATACAACAGCAGTAATAA
1 ATTCTTGAAATCAAATATACAACAGCAGTAATAA
32086 TTATAGCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (34 bp):
ATTCTTGAAATCAAATATACAACAGCAGTAATAA
Found at i:52489 original size:13 final size:14
Alignment explanation
Indices: 52460--52489 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52450 TTTGTTTCTT
52460 TTTGTGCTGGATTG
1 TTTGTGCTGGATTG
52474 TTTGTGCTGG-TTG
1 TTTGTGCTGGATTG
52487 TTT
1 TTT
52490 CTTGTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.03, C:0.07, G:0.33, T:0.57
Consensus pattern (14 bp):
TTTGTGCTGGATTG
Found at i:53599 original size:5 final size:5
Alignment explanation
Indices: 53589--53618 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
53579 TCAATCTGCC
53589 TTTAT TTTAT TTTAT TTTAT TTTAT CTTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTTA
53619 AGTATAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:56380 original size:327 final size:321
Alignment explanation
Indices: 55731--60106 Score: 5182
Period size: 327 Copynumber: 13.5 Consensus size: 321
55721 AACCGTGATG
* *
55731 GTACACGATTTCGGCTAAAAACTGACCCCAAAAGTTTTTTTCTCAAATTTTTGGCCACAATACTC
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAG-TTTTTTCTC-AATTTTT-GCGACAATACTC
* * * *
55796 AGAAAAAATATATAATTTAACGTCAAAAAGATTGACGTGCTTTTCAAGCTTCTAATATCGTTTTT
63 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCG-TTTT
* *
55861 TTCATTTTTTTCCGAACTAATTTCTAATTAAATCGAAACAAGATTGAGATACTCGAAAAAACAAA
127 TTCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAA
* * *
55926 TCTTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGCAGTCTTCCTGC
192 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGC
** * * * * * *
55991 CAAAAATCATGCGTAATTGAGCCGGGACTCCAGAACGCGTTTTTCGCAAAAAACCGTGATGGTTA
257 CAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
* * * * * * *
56056 ATACACGATTTCGACTAAAACCTGACCCGAAAGGTTTTTTCTCAATTATTTTCCACAATACTAAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATT-TTTGCGACAATACTCAG
* * * * *
56121 AAAAAATATATAATTTAACGCCAAAAAAATTGACGTGTTTTTCAAGCTTCTAATATCGTTTTTTT
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCG-TTTTTT
* * * ** *
56186 CATTTTCTTTTTTCCGAATTAACTTCTAATTAAATTGAAACAAGATTCAGATGGTCGTAAAAACA
129 CA---T-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACA
* * * * * *
56251 AATCCTTATATCCAATGTGCCTAACATTTGGTTCGATGAATATAGATATTTCAAGGAGTTTTTGT
190 AATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCT
* * *
56316 GTCAAAAATCATGAAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTATGATGGT
255 GCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGT
56381 TA
320 TA
* **
56383 GTACACGATTTCGGCTAAAAACTGACCCTAAAAGTTTTTTCTCAATTTTATGAAACAATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTT-TGCGACAATACTCAG
* * *
56448 AAAAAATATATAATTCAATGCCAAAAAGTTTGACGGGTTTTTCAATCTTCTAATATCGTTTTTTC
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTC
* *
56513 ATTTTTTTTCCCCGAATTAATTTCTGATTAAATCGAAACAAGACTAAGATACTCGAAAAAA-AAA
130 A-TTTTTTT--CCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAA
** * *
56577 TCCTTATATCCAATATGGCTCCGATTTGGTTCGATGAATATTGATATTTCAAGGAGTCTTCCTGC
192 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGC
* * *
56642 CAAAAATCATACAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCC-AAAACATGTGATGGT
257 CAAAAATCATGCAAAATTGAGTCGG-GGCTCCGGAACGCGTTTTTAGCCAAAAAC-TGTGATGGT
56706 TA
320 TA
* * * * *
56708 GTACACGATTTTGGCGAAAAACTAACTCGAAAAGTTTTTTCTCAACTTTTTGCTACAATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
**
56773 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTATTTTTTT
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATA-TCGTTTTTT
* * **
56838 CA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATC
129 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAATC
* * * * * *
56902 CTTATATCCAATGTGGCTGACATTTGGTTCGATAAATATAGTTATTTCAAGAAGTCTTTGTGCCA
194 CTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCCA
* * *
56967 AAAATCATGCAAAATTGAGTCGGGTCTCCGAAACGCGTTTTTAGCAAAAAACTGTGATGGTTA
259 AAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
* **
57030 GTACACGATTTCGGCTAATAACTGACACAC-AAAATGTTTTTTCTCAAATTTTTGAAACAATACT
1 GTACACGATTTCGGCTAAAAACTGAC-C-CGAAAA-GTTTTTTCTC-AATTTTTGCGACAATACT
* ***
57094 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGTTTTTCAAGCTTCATATATAAAATT
62 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTC-TA-ATATCGTT
* * *
57159 TTTTCATTTTTTT-CGAATTAATTTCTGATTGAATCGAAACAAAATTAAGATACTCGAAAAAAAA
125 TTTTCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCG---AAAAA
* *
57223 ACAAATCCTTATATCCAATATGGCTGAGATGTGATTCGATGAATATAGATATTTCAAGGAGTCTT
187 ACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * **
57288 TCTGCCATAAATCATGCAAAATTGAGCCGGTGAATCCGGAACGCGTTTTTAGCCAAAAACTGTGA
252 TCTGCCAAAAATCATGCAAAATTGAGTCGG-GGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGA
57353 TGGTTA
316 TGGTTA
* * * *
57359 GTACACGATTTTGGCGAAAAACTGAACCGAAAAGTTTTTTCTCAACTTTTTGCGACGATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
** *
57424 AAAAAATATATAATTCAATAACAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTTC
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTC
* * * ** *
57489 A--TTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCCTAAAAATAAATCC
130 ATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAATCC
** * * *
57552 TTAATTTCTGATTAAATCGAAACAAGATTAATTTCTGACATTTGGTTTGATGAATGTAGATATTT
195 ------T-T-A-T--ATC----C-A-A-T-ATGGCTGAGATTTGGTTCGATGAATATAGATATTT
* * * * * * *
57617 CAAGGAGCCTTTGTGCCAAAAATTATACAAAACTGAGTCGGGGCTTCGGAAAGCGTTTTTAGCCA
241 CAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCA
57682 AAAAC-----T-G-T-
306 AAAACTGTGATGGTTA
** ** *
57690 GTACACGATTTCGGCTAAAAACTGACCATAAAAGTTTTTTCTCAATTTTTTGAAACAATACTCAT
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
* * *
57755 AAAAAATATATAATTCAATGCCAAAAATATTGACGGGTTTTTCAAGCTTCTAATATCGTTTTTTT
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTC
* * * *
57820 TTTCATTTTTCCGAATTAATTTCTAATTTAAATCGAAACAAAATTAAGATATTCGAAAAAAAAAA
130 ATT--TTTTTCCGAATTAATTTCTAA-TTAAATCGAAACAAGATTAAGATACTCG-AAAAAACAA
* * *
57885 ACCCTTATATCCAATATGGCTTAGATTTGGTTC---GAATATAGATATTTCAAGGAGTCTTCCTG
191 ATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTG
* *
57947 CCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAAC-------G-
256 CCAAAAATCATGCAAAATTGAGTCGG-GGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGT
58004 TA
320 TA
* * *
58006 --A-ACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACACAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
*
58068 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTTC
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTC
* *
58133 ATTTTTTTTCGAGATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCGGAAAAAATCAAA
130 ATTTTTTTCCGA-ATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTC-GAAAAAA-CAAA
58198 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGC
192 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGC
* * * * *
58263 CAAAAATCATGCAAAACTGAGCCGGAGCTCCGGAAACACGTTTTTA-CCTCAAAACTCGTGATGG
257 CAAAAATCATGCAAAATTGAGTCGGGGCTCCGG-AACGCGTTTTTAGCC-AAAAACT-GTGATGG
58327 TTA
319 TTA
* * * * *
58330 GTACACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCTACTTTTTGCCAGAATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTC-AATTTTTGCGACAATACTCAG
* * * * *
58395 AAAAAATATATAATTTAACG-CAAAATAGATTGTCGTGCTTTTCAAGGTTCTAATATCGTTTTTT
65 AAAAAATATATAATTCAATGCCAAAA-AGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTT
* * **
58459 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACTAA-ATTCAGATGCTCGTCAAAACAAAT
129 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAAC-AAGATTAAGATACTCGAAAAAACAAAT
* * * * *
58523 CCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGTGCCTTTGTGCC
193 CCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCC
* * * *
58588 AAAAATTATGCAAAACTGAGTCGGGGCTCCGGAATGCG-TATTAGCCAAAAACTGTGATGGTTA
258 AAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
* * * *
58651 GTACACGATTTTGGCTAAAAACTGACCCGAAATGTTTTTTCTCAACTTTTTGCGACAATACTTAA
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
* * *
58716 AAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTT-AGAGTTTCTAATATTGTTTTTT
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCA-AGCTTCTAATATCGTTTTTT
* * *
58780 CATTTTTTCCCGAATTAATTTCTAACTAAATTGAAACAAGATTAAGATACTCGAAAAAA-AAATC
129 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAATC
*
58844 CTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAAGAGTCTTTCTGCCA
194 CTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCCA
* * * * ** * * * * *
58909 AAAATCATACAAAACTGGGTCGGGGCTCCCGATAAACATTTTTACCCCAAAACCCGTGA---TAA
259 AAAATCATGCAAAATTGAGTCGGGGCTCCGGA-ACGCGTTTTTA-GCCAAAAACTGTGATGGTTA
* * * * *
58971 CGTTCACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCAATTTTTTGCCAGAATACTCA
1 -GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCA
* * * ** * *
59036 GAAAAAATATATAATTTAATG-GAAAATAGATTGTCATGCTTTTCAAGGTTCTAATATTGTTTTT
64 GAAAAAATATATAATTCAATGCCAAAA-AGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTT
*
59100 TCATTTTTTTGCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGGAAAAAAAAAA
128 TCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTC-G--------AA
* *
59165 AAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCAATGAATATAGATATTTCAAGGAGT
184 AAAACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGT
* * * * * * *
59230 CTTCCTGTCAAAAATCATACAAAATTCAGCCGGTGACTCCAGAACGCGTTTTTAGCCAAAAACTG
249 CTTTCTGCCAAAAATCATGCAAAATTGAGTCGG-GGCTCCGGAACGCGTTTTTAGCCAAAAACTG
59295 TGATGGTTA
313 TGATGGTTA
* * * * * *
59304 GTACACGATTTTGGCGAAAAATTGACCCGAACAGTTTTTTCTCAACTTATTGTGACAATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTGCGACAATACTCAG
* *
59369 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGATTTTCAAGCTTCTAATATTGTTTTTTC
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTC
* *
59434 ATTTTTTTTCCGAATTAATTTCAAATTAAATTGAAACAAGATTAAGATACTCGAAAAAATACAAA
130 A-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCG-AAAAA-ACAAA
** *
59499 TCCTTATATCCAATAAAGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTAC
192 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGC
* * * * * * * * *
59564 CAAAAATCATGAAAAACTGA-TACTGGGCTCCCGAAACACGTTTCTACCCCAAAACCCGTGATGG
257 CAAAAATCATGCAAAATTGAGT-CGGGGCT-CCGGAACGCGTTTTTA-GCCAAAAACTGTGATGG
59628 TTA
319 TTA
* * * *
59631 GTACACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCTACTTTTTGCGACGATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTC-AATTTTTGCGACAATACTCAG
59696 AAAAAATTATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTC-TTTTT
65 AAAAAA-TATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATA-TCGTTTTT
* * * **
59760 TCATTTTTTTTCAGAATTAATTTCTAATTAAATCGAAACAATATTCAGATGA-TCCTAAAAACAA
128 TCA-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGAT-ACTCGAAAAAACAA
* * * * * *
59824 ATCTTTATATCCAATGTGGCAGACATTTGGTTCGATCAATATAGATATTTCAAGGAGTCTTTGTG
191 ATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTG
* * * *
59889 CCAAAAATCATGCAAAATTGAGTTGGGGCTCCGGAGCGCGTTTTTAGCCAAAAACTATGATGATT
256 CCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
*
59954 C
321 A
* ** * * * ** *
59955 GTACACGATTTCGGCTAAAAACTAACCATAGAAGTTTTTCCACAATTTATTGAAACAATACTTAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTT-TTGCGACAATACTCAG
*
60020 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGGTTTTCAAGCTTCTAATATCGTTTTTAT
65 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTT-T
60085 CATTTTTTTCCGAATTAATTTC
129 CATTTTTTTCCGAATTAATTTC
60107 GGATTA
Statistics
Matches: 3477, Mismatches: 457, Indels: 236
0.83 0.11 0.06
Matches are distributed among these distances:
311 38 0.01
312 46 0.01
313 115 0.03
314 9 0.00
315 118 0.03
316 26 0.01
318 13 0.00
319 1 0.00
320 103 0.03
321 329 0.09
322 121 0.03
323 275 0.08
324 384 0.11
325 295 0.08
326 256 0.07
327 543 0.16
328 198 0.06
329 62 0.02
330 19 0.01
331 207 0.06
332 120 0.03
333 54 0.02
334 1 0.00
335 21 0.01
336 23 0.01
337 11 0.00
338 1 0.00
339 26 0.01
340 62 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (321 bp):
GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTTGCGACAATACTCAGA
AAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATCGTTTTTTCA
TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGAAAAAACAAATCCT
TATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAA
AATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
Found at i:57470 original size:651 final size:645
Alignment explanation
Indices: 55731--60106 Score: 5383
Period size: 651 Copynumber: 6.7 Consensus size: 645
55721 AACCGTGATG
* *
55731 GTACACGATTTCGGCTAAAAACTGACCCCAAAAGTTTTTTTCTCAAATTTTTGGCCACAATACTC
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAG-TTTTTTCTCAAATTTTT-GCAACAATACTC
* * * * *
55796 AGAAAAAATATATAATTTAACGTCAAAAAGATTGACGTGCTTTTCAAGCTTCTAATATCGTTTTT
64 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTG-TTTT
* * *
55861 TTCATTTTTTTCCGAACTAATTTCTAATTAAATCGAAACAAGATTGAGATACTCGAAAAAACAAA
128 TTCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTCGAAAAAACAAA
* *
55926 TCTTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGCAGTCTTCCTGC
193 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTGC
** * * * *
55991 CAAAAATCATGCGTAATTGAGCCGG-GACTCCAGAACGCGTTTTTCGCAAAAAACCGTGATGGTT
258 CAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
* * * * * * * * *
56055 AATACACGATTTCGACTAAAACCTGACCCGAAAGGTTTTTTCTCAA-TTATTTTCCACAATACTA
323 AGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTT-TTTGCGACAATACTC
* * * * * *
56119 AGAAAAAATATATAATTTAACGCCAAAAAAATTGACGTGTTTTTCAAGCTTCTAATATCGTTTTT
387 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTG-TTTT
* * ** *
56184 TTCATTTTCTTTTTTCCGAATTAACTTCTAATTAAATTGAAACAAGATTCAGATGGTCGTAAAAA
451 TTCA---T-TTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCCTAAAAA
* * * *
56249 CAAATCCTTATATCCAATGTGCCTAACATTTGGTTCGATGAATATAGATATTTCAAGGAGTTTTT
512 CAAATCCTTATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTT
* * * * * * * *
56314 GTGTCAAAAATCATGAAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTATGATG
577 CTGCCAAAAATCATGCAAAACTGAGTCGGGGCTCCGAAACACGTTTTTACCCAAAAACTGTGATG
56379 GTTA
642 GTTA
* *
56383 GTACACGATTTCGGCTAAAAACTGACCCTAAAAGTTTTTTCTC-AATTTTATGAAACAATACTCA
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTT-TGCAACAATACTCA
* * * *
56447 GAAAAAATATATAATTCAATGCCAAAAAGTTTGACGGGTTTTTCAATCTTCTAATATCGTTTTTT
65 GAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTT
* * *
56512 CATTTTTTTTCCCCGAATTAATTTCTGATTAAATCGAAACAAGACTAAGATACTCGAAAAAA-AA
130 CA-TTTTTTT--CCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTCGAAAAAACAA
** *
56576 ATCCTTATATCCAATATGGCTCCGATTTGGTTCGATGAATATTGATATTTCAAGGAGTCTTCCTG
192 ATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTG
*
56641 CCAAAAATCATACAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCC-AAAACATGTGATGG
257 CCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAAC-TGTGATGG
* * *
56705 TTAGTACACGATTTTGGCGAAAAACTAACTCGAAAAGTTTTTTCTCAACTTTTTGCTACAATACT
321 TTAGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACT
*
56770 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTATTTT
386 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATT-GTTT
* * *
56835 TTTCA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAA
450 TTTCATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCCTAAAAACAA
* * * * *
56899 ATCCTTATATCCAATGTGGCTGACATTTGGTTCGATAAATATAGTTATTTCAAGAAGTCTTTGTG
515 ATCCTTATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTG
* * * * *
56964 CCAAAAATCATGCAAAATTGAGTCGGGTCTCCGAAACGCGTTTTTAGCAAAAAACTGTGATGGTT
580 CCAAAAATCATGCAAAACTGAGTCGGGGCTCCGAAACACGTTTTTACCCAAAAACTGTGATGGTT
57029 A
645 A
* *
57030 GTACACGATTTCGGCTAATAACTGACACAC-AAAATGTTTTTTCTCAAATTTTTGAAACAATACT
1 GTACACGATTTCGGCTAAAAACTGAC-C-CGAAAA-GTTTTTTCTCAAATTTTTGCAACAATACT
* ***
57094 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGTTTTTCAAGCTTCATATATAAAATT
63 CAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTC-TA-ATATTGTT
* *
57159 TTTTCATTTTTTT-CGAATTAATTTCTGATTGAATCGAAACAAAATTAAGATACTCGAAAAAAAA
126 TTTTCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTCG---AAAAA
* *
57223 ACAAATCCTTATATCCAATATGGCTGAGATGTGATTCGATGAATATAGATATTTCAAGGAGTCTT
188 ACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * *
57288 TCTGCCATAAATCATGCAAAATTGAGCCGGTGAATCCGGAACGCGTTTTTAGCCAAAAACTGTGA
253 CCTGCCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGA
* *
57353 TGGTTAGTACACGATTTTGGCGAAAAACTGAACCGAAAAGTTTTTTCTCAACTTTTTGCGACGAT
318 TGGTTAGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAAT
**
57418 ACTCAGAAAAAATATATAATTCAATAACAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGT
383 ACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGT
** * * *
57483 TTTTTCA--TTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCCTAAAAAT
448 TTTTTCATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCCTAAAAAC
** * *
57546 AAATCCTTAATTTCTGATTAAATCGAAACAAGATTAATTTCTGACATTTGGTTTGATGAATGTAG
513 AAATCC------T-T-A-T--ATC----C-A-A-T-ATGGCTGACATTTGGTTCGATGAATATAG
* * * * * *
57611 ATATTTCAAGGAGCCTTTGTGCCAAAAATTATACAAAACTGAGTCGGGGCTTCGGAAA-GCGTTT
559 ATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGC-TCCGAAACACGTTT
*
57675 TTAGCCAAAAAC-----T-G-T-
623 TTACCCAAAAACTGTGATGGTTA
** * * *
57690 GTACACGATTTCGGCTAAAAACTGACCATAAAAGTTTTTTCTCAATTTTTTGAAACAATACTCAT
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTTTGCAACAATACTCAG
* * * *
57755 AAAAAATATATAATTCAATGCCAAAAATATTGACGGGTTTTTCAAGCTTCTAATATCGTTTTTTT
66 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTTC
* * *
57820 TTTCATTTTTCCGAATTAATTTCTAATTTAAATCGAAACAAAATTAAGATATTCGAAAAAAAAAA
131 ATT--TTTTTCCGAATTAATTTCTAA-TTAAATCGAAACAAAATTAAGATACTCG-AAAAAACAA
* *
57885 ACCCTTATATCCAATATGGCTTAGATTTGGTTC---GAATATAGATATTTCAAGGAGTCTTCCTG
192 ATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTG
57947 CCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAAC-------G-
257 CCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGT
*
58004 TA--A-ACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACAC
322 TAGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACTC
58066 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTT
387 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTT
* **
58131 TCATTTTTTTTCGAGATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCGGAAAAAATCA
452 TCATTTTTTTCCGA-ATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTC-CTAAAAA-CA
*
58196 AATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCT
514 AATCCTTATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCT
* *
58261 GCCAAAAATCATGCAAAACTGAGCCGGAGCTCCGGAAACACGTTTTTACCTC-AAAACTCGTGAT
579 GCCAAAAATCATGCAAAACTGAGTCGGGGCTCC-GAAACACGTTTTTACC-CAAAAACT-GTGAT
58325 GGTTA
641 GGTTA
* * * * * *
58330 GTACACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCTACTTTTTGCCAGAATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTTTGCAACAATACTCAG
* * * * * *
58395 AAAAAATATATAATTTAACG-CAAAATAGATTGTCGTGCTTTTCAAGGTTCTAATATCGTTTTTT
66 AAAAAATATATAATTCAATGCCAAAA-AGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTT
* * * **
58459 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACTAAATTCAGATGCTCGTCAAAACAAATC
130 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTCGAAAAAACAAATC
* * * * **
58524 CTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGTGCCTTTGTGCCA
195 CTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTGCCA
* * * * * *
58589 AAAATTATGCAAAACTGAGTCGG-GGCTCCGGAATGCG-TATTAGCCAAAAACTGTGATGGTTAG
260 AAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAG
* * * *
58652 TACACGATTTTGGCTAAAAACTGACCCGAAATGTTTTTTCTCAACTTTTTGCGACAATACTTAAA
325 TACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACTCAGA
* *
58717 AAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTT-AGAGTTTCTAATATTGTTTTTTC
390 AAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCA-AGCTTCTAATATTGTTTTTTC
* * * *
58781 ATTTTTTCCCGAATTAATTTCTAACTAAATTGAAACAAGATTAAGATACT-CGAAAAAAAAATCC
454 ATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCCTAAAAACAAATCC
* *
58845 TTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAAGAGTCTTTCTGCCAA
519 TTATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAA
* * * * * *
58910 AAATCATACAAAACTGGGTCGGGGCTCCCGATAA-ACATTTTTACCCCAAAACCCGTGA---TAA
584 AAATCATGCAAAACTGAGTCGGGGCT-CCGA-AACACGTTTTTA-CCCAAAAACTGTGATGGTTA
* * * * * *
58971 CGTTCACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCAATTTTTTGCCAGAATACTCA
1 -GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTTTGCAACAATACTCA
* * * ** *
59036 GAAAAAATATATAATTTAATG-GAAAATAGATTGTCATGCTTTTCAAGGTTCTAATATTGTTTTT
65 GAAAAAATATATAATTCAATGCCAAAA-AGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTT
* *
59100 TCATTTTTTTGCGAATTAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGGAAAAAAAAAA
129 TCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTC-G--------AA
* *
59165 AAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCAATGAATATAGATATTTCAAGGAGT
185 AAAACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGT
* * * *
59230 CTTCCTGTCAAAAATCATACAAAATTCAGCCGGTGACTCCAGAACGCGTTTTTAGCCAAAAACTG
250 CTTCCTGCCAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTG
* * * *
59295 TGATGGTTAGTACACGATTTTGGCGAAAAATTGACCCGAACAGTTTTTTCTCAACTTATTGTGAC
315 TGATGGTTAGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGAC
*
59360 AATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGATTTTCAAGCTTCTAATAT
380 AATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATAT
* **
59425 TGTTTTTTCATTTTTTTTCCGAATTAATTTCAAATTAAATTGAAACAAGATTAAGATACTCGAAA
445 TGTTTTTTCA-TTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTC-CTA
** *
59490 AAATACAAATCCTTATATCCAATAAAGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAG
508 AAA-ACAAATCCTTATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAG
* * * * *
59555 TCTTTCTACCAAAAATCATGAAAAACTGA-TACTGGGCTCCCGAAACACGTTTCTACCCCAAAAC
572 TCTTTCTGCCAAAAATCATGCAAAACTGAGT-CGGGGCT-CCGAAACACGTTTTTA-CCCAAAAA
*
59619 CCGTGATGGTTA
634 CTGTGATGGTTA
* * * * * *
59631 GTACACGATTTCGGCCAAAAACTGACCCGAAAAGTTATTTCTCTACTTTTTGCGACGATACTCAG
1 GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTTTGCAACAATACTCAG
*
59696 AAAAAATTATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTCTTTTTT
66 AAAAAA-TATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTT
* * * **
59761 CATTTTTTTTCAGAATTAATTTCTAATTAAATCGAAACAATATTCAGATGA-TCCTAAAAACAAA
130 CA-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGAT-ACTCGAAAAAACAAA
* * * * * **
59825 TCTTTATATCCAATGTGGCAGACATTTGGTTCGATCAATATAGATATTTCAAGGAGTCTTTGTGC
193 TCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTGC
** * * * *
59890 CAAAAATCATGCAAAATTGAGTTGG-GGCTCCGGAGCGCGTTTTTAGCCAAAAACTATGATGATT
258 CAAAAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
* * * * ** * * * ** *
59954 CGTACACGATTTCGGCTAAAAACTAACCATAGAAGTTTTTCCACAA-TTTATTGAAACAATACTT
323 AGTACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTT-TTGCGACAATACTC
* *
60018 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGGTTTTCAAGCTTCTAATATCGTTTTT
387 AGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTT
60083 ATCATTTTTTTCCGAATTAATTTC
452 -TCATTTTTTTCCGAATTAATTTC
60107 GGATTA
Statistics
Matches: 3287, Mismatches: 328, Indels: 219
0.86 0.09 0.06
Matches are distributed among these distances:
629 2 0.00
630 72 0.02
631 15 0.00
632 2 0.00
633 1 0.00
634 1 0.00
636 35 0.01
637 38 0.01
638 37 0.01
639 54 0.02
640 109 0.03
641 3 0.00
642 170 0.05
643 2 0.00
644 230 0.07
645 18 0.01
646 8 0.00
647 315 0.10
648 138 0.04
649 148 0.05
650 107 0.03
651 592 0.18
652 323 0.10
653 144 0.04
654 47 0.01
655 83 0.03
656 19 0.01
657 118 0.04
658 123 0.04
659 84 0.03
660 104 0.03
661 49 0.01
662 2 0.00
663 1 0.00
664 1 0.00
665 1 0.00
666 1 0.00
667 1 0.00
668 83 0.03
669 6 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (645 bp):
GTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAAATTTTTGCAACAATACTCAG
AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTTC
ATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTAAGATACTCGAAAAAACAAATCC
TTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCCTGCCAA
AAATCATGCAAAATTGAGCCGGTGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGT
ACACGATTTTGGCGAAAAACTGACCCGAAAAGTTTTTTCTCAACTTTTTGCGACAATACTCAGAA
AAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAAGCTTCTAATATTGTTTTTTCAT
TTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTAAGATACTCCTAAAAACAAATCCTT
ATATCCAATATGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAA
ATCATGCAAAACTGAGTCGGGGCTCCGAAACACGTTTTTACCCAAAAACTGTGATGGTTA
Done.