Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014243.1 Corchorus capsularis cultivar CVL-1 contig14264, 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: 76200
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:850 original size:85 final size:85
Alignment explanation
Indices: 707--941 Score: 434
Period size: 85 Copynumber: 2.8 Consensus size: 85
697 CCCAAGTATA
707 AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
1 AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
*
772 TGGTCTGTAAAGTTATCATG
66 TGGTCTGCAAAGTTATCATG
792 AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
1 AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
857 TGGTCTGCAAAGTTATCATG
66 TGGTCTGCAAAGTTATCATG
* * *
877 AAGAATCTCTGCAGAAATTGTCTCCAATAATGCAAAGCTGACTCATTGGATGAAGACAAAGCCAA
1 AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
942 ATTATGAAGG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 146 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (85 bp):
AAGAATCTCTGCAAAAATTGTCTCCAATAATGCAAAGCTGACTCATTAGATGAAGAGAAAGCCAA
TGGTCTGCAAAGTTATCATG
Found at i:8374 original size:17 final size:16
Alignment explanation
Indices: 8329--8393 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
8319 ATTTATTTTC
8329 TTATCTATTT-GTA-A
1 TTATCTATTTAGTATA
8343 TTAT-TATTTA-T-TA
1 TTATCTATTTAGTATA
8356 TTATCTATTTAGTACTA
1 TTATCTATTTAGTA-TA
*
8373 TTATCTATTTAATACTA
1 TTATCTATTTAGTA-TA
8390 TTAT
1 TTAT
8394 TTATCTATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.25
14 10 0.23
15 1 0.02
17 22 0.50
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATCTATTTAGTATA
Found at i:8451 original size:4 final size:4
Alignment explanation
Indices: 8442--8595 Score: 66
Period size: 4 Copynumber: 38.5 Consensus size: 4
8432 TATTAAGCTA
* * * *
8442 TTAT TTAT TTAT TTAT TTA- -TAT TTAT ATAT ATAT ATAT ATT-T TTAC
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT
* * * * * *
8488 ATAC TTAT TTAT CTAT TTGT TTAT ATAT CTAT TTAT CTT-T TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT
* * * * * * * *
8536 CTAT TATTT TTAT TTTT TTAT AGTTAT CTA- TTAC TTAA TTAT ATAT ATAT
1 TTAT T-TAT TTAT TTAT TTAT --TTAT TTAT TTAT TTAT TTAT TTAT TTAT
8586 TTAT TTAT TT
1 TTAT TTAT TT
8596 TAATCTTAAT
Statistics
Matches: 115, Mismatches: 25, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
2 2 0.02
3 6 0.05
4 97 0.84
5 6 0.05
6 4 0.03
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (4 bp):
TTAT
Found at i:8466 original size:18 final size:18
Alignment explanation
Indices: 8443--8483 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8433 ATTAAGCTAT
* * *
8443 TATTTATTTATTTATTTA
1 TATTTATATATATATATA
8461 TATTTATATATATATATA
1 TATTTATATATATATATA
8479 TATTT
1 TATTT
8484 TTACATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATATATATATATA
Found at i:8520 original size:24 final size:24
Alignment explanation
Indices: 8443--8593 Score: 87
Period size: 24 Copynumber: 6.3 Consensus size: 24
8433 ATTAAGCTAT
* * *
8443 TATTTATTTATTTATTTATATTTA
1 TATTTATCTATTTATTTATATATC
* * * * *
8467 TATATATATATATATTTTTACATAC
1 TATTTATCTATTTATTTATATAT-C
*
8492 TTATTTATCTATTTGTTTATATATC
1 -TATTTATCTATTTATTTATATATC
* *
8517 TATTTATCTTTTTATTTATCTAT-
1 TATTTATCTATTTATTTATATATC
*
8540 TATTT-T-TATTTTTTTATAGTTATC
1 TATTTATCTATTTATTTATA--TATC
* * *
8564 TA-TTA-CTTAATTATATATATATT
1 TATTTATC-TATTTATTTATATATC
8587 TATTTAT
1 TATTTAT
8594 TTTAATCTTA
Statistics
Matches: 94, Mismatches: 23, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
21 9 0.10
22 1 0.01
23 15 0.16
24 42 0.45
25 10 0.11
26 17 0.18
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (24 bp):
TATTTATCTATTTATTTATATATC
Found at i:8553 original size:25 final size:26
Alignment explanation
Indices: 8519--8568 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
8509 TATATATCTA
8519 TTTATCTTTTTAT-TTATCTATTATT
1 TTTATCTTTTTATATTATCTATTATT
*
8544 TTTATTTTTTTATAGTTATCTATTA
1 TTTATCTTTTTATA-TTATCTATTA
8569 CTTAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
27 10 0.45
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTATCTTTTTATATTATCTATTATT
Found at i:10819 original size:17 final size:17
Alignment explanation
Indices: 10787--10820 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10777 TCTGGTCGAA
* *
10787 ATTTTTTTTATTTTTTT
1 ATTTTTTTGATATTTTT
10804 ATTTTTTTGATATTTTT
1 ATTTTTTTGATATTTTT
10821 CAATATAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTTTTGATATTTTT
Found at i:15426 original size:70 final size:70
Alignment explanation
Indices: 15328--15470 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 70
15318 CTCAAGTGGC
15328 TTTATTATATTTATATCTCATTTACAAAACTTGAGGACTCAGAAATATCAGAATCTTGTTATTTC
1 TTTATTATATTTATATCTCATTTACAAAACTTGAGGACTCAGAAATATCAGAATCTTGTTATTTC
15393 ATAAA
66 ATAAA
* *
15398 TTTATTATATTTATATCTCATTTACAAAACTTGAGGACTCAGAAATTTCAGAGTCTTGTTATTTC
1 TTTATTATATTTATATCTCATTTACAAAACTTGAGGACTCAGAAATATCAGAATCTTGTTATTTC
15463 ATAAA
66 ATAAA
15468 TTT
1 TTT
15471 TCTAACATAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (70 bp):
TTTATTATATTTATATCTCATTTACAAAACTTGAGGACTCAGAAATATCAGAATCTTGTTATTTC
ATAAA
Found at i:19427 original size:2 final size:2
Alignment explanation
Indices: 19381--19414 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19371 TCCCTATAAT
*
19381 TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19415 TCATTTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:22477 original size:28 final size:28
Alignment explanation
Indices: 22445--22499 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
22435 AGATTTTAGT
* *
22445 CGTAAAATA-GAGATTGGGTCCAATGGGC
1 CGTAAAATAGGA-AATGGGTCAAATGGGC
22473 CGTAAAATAGGAAATGGGTCAAATGGG
1 CGTAAAATAGGAAATGGGTCAAATGGG
22500 TCGACCGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.20
Consensus pattern (28 bp):
CGTAAAATAGGAAATGGGTCAAATGGGC
Found at i:28424 original size:18 final size:18
Alignment explanation
Indices: 28401--28435 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
28391 TTCACTTCAC
28401 ATATTATAACTCCAAAGA
1 ATATTATAACTCCAAAGA
28419 ATATTATAACTCCAAAG
1 ATATTATAACTCCAAAG
28436 GGTTCACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (18 bp):
ATATTATAACTCCAAAGA
Found at i:33408 original size:3 final size:3
Alignment explanation
Indices: 33400--33433 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
33390 ATATGAACAT
33400 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
33434 TGGTATGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:41558 original size:2 final size:2
Alignment explanation
Indices: 41551--41592 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
41541 TATATCTCCC
*
41551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41593 CTTTATTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46327 original size:9 final size:10
Alignment explanation
Indices: 46312--46353 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
46302 ACCATCTTTG
46312 CTTTTTCTCT
1 CTTTTTCTCT
*
46322 -TTTTTCTTT
1 CTTTTTCTCT
46331 CTTTTTC-CT
1 CTTTTTCTCT
46340 CTTTTTCTCT
1 CTTTTTCTCT
46350 -TTTT
1 CTTTT
46354 CATTTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
CTTTTTCTCT
Found at i:46329 original size:20 final size:21
Alignment explanation
Indices: 46306--46351 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
46296 TTGAAAACCA
46306 TCTTTGCTTTTT-CTCTTTTT-
1 TCTTT-CTTTTTCCTCTTTTTC
46326 TCTTTCTTTTTCCTCTTTTTC
1 TCTTTCTTTTTCCTCTTTTTC
46347 TCTTT
1 TCTTT
46352 TTCATTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.25
20 13 0.54
21 5 0.21
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (21 bp):
TCTTTCTTTTTCCTCTTTTTC
Found at i:46385 original size:6 final size:6
Alignment explanation
Indices: 46312--46395 Score: 52
Period size: 6 Copynumber: 14.0 Consensus size: 6
46302 ACCATCTTTG
* * *
46312 CTTTTT CTCTTTT -TTCTTT CTTTTT CCTCTT -TTTCT CTTTTT CATTTTT
1 CTTTTT CT-TTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT
*
46361 CATTTTT CATTTAT C--TTT CTTTTT CTTTTT -TTTTT
1 C-TTTTT C-TTTTT CTTTTT CTTTTT CTTTTT CTTTTT
46396 GGGAAATTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 27 0.43
7 25 0.40
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:46891 original size:74 final size:75
Alignment explanation
Indices: 46773--46917 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 75
46763 CAATCACCTT
* * *
46773 GAAATCATTCCTTTGACTAAAACTGATTTTGAAACCAGTTTTGATTAAAACTCATCATTCTTTTG
1 GAAACCATTCCTTTGACTAAAACTGATTTTGAAACCAGTTTTGATTAAAACCCATCATTCCTTTG
46838 CCCACATCTC
66 CCCACATCTC
* * * **
46848 GAAACCATTGCTTTGATTGAAACTGA-TTTGAAACTTGTTTTGATTAAAACCCATCATTCCTTTG
1 GAAACCATTCCTTTGACTAAAACTGATTTTGAAACCAGTTTTGATTAAAACCCATCATTCCTTTG
*
46912 CTCACA
66 CCCACA
46918 GTCTAGATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 39 0.64
75 22 0.36
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (75 bp):
GAAACCATTCCTTTGACTAAAACTGATTTTGAAACCAGTTTTGATTAAAACCCATCATTCCTTTG
CCCACATCTC
Found at i:47060 original size:3 final size:3
Alignment explanation
Indices: 47052--47101 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
47042 TTTTATCCAT
47052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47100 TT
1 TT
47102 TAATGCAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51803 original size:26 final size:28
Alignment explanation
Indices: 51774--51894 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 28
51764 TATTTTACCC
*
51774 CTTTTTTTTTACTGATTACC-CTTTTT-
1 CTTTTTTTTTACTGAATACCACTTTTTA
51800 CTTTCTATTTTTACTGAATACCACTTTTTA
1 CTTT-T-TTTTTACTGAATACCACTTTTTA
* * *
51830 C--TCTTTTTACTTAATTACCATTTTTTA
1 CTTTTTTTTTACTGAA-TACCACTTTTTA
*
51857 CTCTTCTTTTTTACTTAATACCA-TTTTTA
1 CT-TT-TTTTTTACTGAATACCACTTTTTA
*
51886 CTCTTTTTT
1 CTTTTTTTT
51895 ACCATTTTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
26 14 0.17
27 18 0.22
28 16 0.20
29 14 0.17
30 7 0.09
31 11 0.14
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (28 bp):
CTTTTTTTTTACTGAATACCACTTTTTA
Found at i:51848 original size:27 final size:25
Alignment explanation
Indices: 51807--51992 Score: 122
Period size: 26 Copynumber: 7.2 Consensus size: 25
51797 TTTCTTTCTA
*
51807 TTTTTACTGAATACCACTTTTTACTC
1 TTTTTACTTAATACCA-TTTTTACTC
51833 TTTTTACTTAATTACCATTTTTTACTCTTC
1 TTTTTACTTAA-TACCA-TTTTTA--C-TC
51863 TTTTTTACTTAATACCATTTTTACTC
1 -TTTTTACTTAATACCATTTTTACTC
*
51889 --TTT--TT--TACCATTTTTATCCC
1 TTTTTACTTAATACCATTTTTA-CTC
*
51909 TTTTTACTGAATACCACTTTTTACAT-
1 TTTTTACTTAATACCA-TTTTTAC-TC
*
51935 TTTTTAC-TGATCACCATTTCTTACTC
1 TTTTTACTTAAT-ACCATTT-TTACTC
51961 TTTATTAC-TAATTACTC-TCTTTTACTC
1 TTT-TTACTTAA-TAC-CAT-TTTTACTC
51988 TTTTT
1 TTTTT
51993 TTATCTTACT
Statistics
Matches: 131, Mismatches: 8, Indels: 42
0.72 0.04 0.23
Matches are distributed among these distances:
19 11 0.08
20 2 0.02
21 2 0.02
22 3 0.02
23 3 0.02
24 1 0.01
25 6 0.05
26 38 0.29
27 36 0.27
28 4 0.03
29 7 0.05
30 7 0.05
31 11 0.08
ACGTcount: A:0.21, C:0.22, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTTTACTTAATACCATTTTTACTC
Found at i:51895 original size:57 final size:55
Alignment explanation
Indices: 51778--51896 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 55
51768 TTACCCCTTT
*
51778 TTTTTTACTGATTACCCTTTTTCTTTCTATTTTTACTGAATACCACTTTTTACTC
1 TTTTTTACTAATTACCCTTTTTCTTTCTATTTTTACTGAATACCACTTTTTACTC
* *
51833 -TTTTTACTTAATTACCATTTTTTACTCTTCT-TTTTTACTTAATACCA-TTTTTACTC
1 TTTTTTAC-TAATTACC-CTTTTT-CT-TTCTATTTTTACTGAATACCACTTTTTACTC
51889 TTTTTTAC
1 TTTTTTAC
51897 CATTTTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
54 7 0.12
55 7 0.12
56 14 0.25
57 24 0.43
58 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.02, T:0.59
Consensus pattern (55 bp):
TTTTTTACTAATTACCCTTTTTCTTTCTATTTTTACTGAATACCACTTTTTACTC
Found at i:51912 original size:19 final size:19
Alignment explanation
Indices: 51875--51915 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51865 TTTTACTTAA
*
51875 TACCATTTTTACTCTTTTT
1 TACCATTTTTACTCCTTTT
51894 TACCATTTTTA-TCCCTTTT
1 TACCATTTTTACT-CCTTTT
51913 TAC
1 TAC
51916 TGAATACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (19 bp):
TACCATTTTTACTCCTTTT
Found at i:52250 original size:32 final size:34
Alignment explanation
Indices: 52183--52250 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 34
52173 TATCAATCTC
* ** *
52183 TTCTTAATTTACTTATTAGTCCCTTTTACTTCCT
1 TTCTTAATTTACTTATTACTCAATTTTACTCCCT
52217 TTCTTAA-TTACTTATTACT-AATTTTACTCCCT
1 TTCTTAATTTACTTATTACTCAATTTTACTCCCT
52249 TT
1 TT
52251 TTTTTCATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 12 0.40
33 11 0.37
34 7 0.23
ACGTcount: A:0.21, C:0.22, G:0.01, T:0.56
Consensus pattern (34 bp):
TTCTTAATTTACTTATTACTCAATTTTACTCCCT
Found at i:52431 original size:34 final size:34
Alignment explanation
Indices: 52393--52513 Score: 120
Period size: 34 Copynumber: 3.5 Consensus size: 34
52383 TTAATTATCA
52393 ATTTACTGATTACTATCTTTTTACTTAATTACTG
1 ATTTACTGATTACTATCTTTTTACTTAATTACTG
* * * * *
52427 ATTTACTGGTTACCAT-TACCTTGACTCTTAATTA-TCA
1 ATTTACTGATTACTATCT--TTTTA--CTTAATTACT-G
* *
52464 ATTTACTAATTACTATCTTTTTACTTGATTACTG
1 ATTTACTGATTACTATCTTTTTACTTAATTACTG
52498 ATTTACTGATTACTAT
1 ATTTACTGATTACTAT
52514 TACCTTGACT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
33 1 0.01
34 36 0.54
35 4 0.06
36 4 0.06
37 21 0.31
38 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (34 bp):
ATTTACTGATTACTATCTTTTTACTTAATTACTG
Found at i:52464 original size:71 final size:71
Alignment explanation
Indices: 52301--52525 Score: 296
Period size: 71 Copynumber: 3.2 Consensus size: 71
52291 ATTACTGATC
* * * * *
52301 ACCTTGACTCTTAATTATCGATTTACTGATTACTA--TTTTTACCTAGACT-CTTTAATTACTGA
1 ACCTTGACTCTTAATTATCAATTTACTGATTACTATCTTTTTACTTA-ATTAC-TGATTTACTGA
52363 TTAATCTC-TT
64 TT-A-C-CATT
*
52373 ACCTTGACTCTTAATTATCAATTTACTGATTACTATCTTTTTACTTAATTACTGATTTACTGGTT
1 ACCTTGACTCTTAATTATCAATTTACTGATTACTATCTTTTTACTTAATTACTGATTTACTGATT
52438 ACCATT
66 ACCATT
* *
52444 ACCTTGACTCTTAATTATCAATTTACTAATTACTATCTTTTTACTTGATTACTGATTTACTGATT
1 ACCTTGACTCTTAATTATCAATTTACTGATTACTATCTTTTTACTTAATTACTGATTTACTGATT
*
52509 ACTATT
66 ACCATT
52515 ACCTTGACTCT
1 ACCTTGACTCT
52526 GATTAATCTC
Statistics
Matches: 139, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
70 1 0.01
71 81 0.58
72 35 0.25
73 12 0.09
74 10 0.07
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.48
Consensus pattern (71 bp):
ACCTTGACTCTTAATTATCAATTTACTGATTACTATCTTTTTACTTAATTACTGATTTACTGATT
ACCATT
Found at i:52539 original size:55 final size:57
Alignment explanation
Indices: 52470--52590 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 57
52460 ATCAATTTAC
* * *
52470 TAATTACTATCTTTTTACTTGATTACTGATTTACTGATTACTATT-ACCTTGACTC-
1 TAATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTGACCTTGACTCT
* * *
52525 TGATTAATCTCTTTTTACTTAATTACTGATTTACTGATTATTATTGACTTTGACTCT
1 TAATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTGACCTTGACTCT
52582 TAATTAATC
1 TAATTAATC
52591 AATTTACTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 40 0.70
56 9 0.16
57 8 0.14
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.50
Consensus pattern (57 bp):
TAATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTGACCTTGACTCT
Found at i:56204 original size:12 final size:12
Alignment explanation
Indices: 56187--56211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56177 CTAACTAATC
56187 GCTAAATTGAGA
1 GCTAAATTGAGA
56199 GCTAAATTGAGA
1 GCTAAATTGAGA
56211 G
1 G
56212 TTAGTTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (12 bp):
GCTAAATTGAGA
Found at i:57113 original size:25 final size:25
Alignment explanation
Indices: 57065--57122 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
57055 AGCAGAGGAG
* * * *
57065 CTCGCTGCCAGGAAGTTTGTTGAAA
1 CTCGCTGCCAAGAAGCTCGCTGAAA
*
57090 CTCGCTGCCAAGAAGCTCGCTGAAG
1 CTCGCTGCCAAGAAGCTCGCTGAAA
*
57115 CCCGCTGC
1 CTCGCTGC
57123 TAGAAAGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (25 bp):
CTCGCTGCCAAGAAGCTCGCTGAAA
Found at i:60261 original size:13 final size:13
Alignment explanation
Indices: 60243--60269 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60233 GTTATAATTT
60243 GAGGTTCTACTCA
1 GAGGTTCTACTCA
60256 GAGGTTCTACTCA
1 GAGGTTCTACTCA
60269 G
1 G
60270 TTGGATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (13 bp):
GAGGTTCTACTCA
Found at i:68261 original size:19 final size:19
Alignment explanation
Indices: 68237--68273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68227 AACTAACAGA
*
68237 TTGCCAAAAAGCCAAAAAC
1 TTGCCAAAAAGACAAAAAC
*
68256 TTGCCAAAGAGACAAAAA
1 TTGCCAAAAAGACAAAAA
68274 TTTTATCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.22, G:0.14, T:0.11
Consensus pattern (19 bp):
TTGCCAAAAAGACAAAAAC
Found at i:69386 original size:999 final size:995
Alignment explanation
Indices: 67260--69555 Score: 3333
Period size: 999 Copynumber: 2.3 Consensus size: 995
67250 CTAGAACTTA
* * *
67260 TTGCCAAAAAGCCAAAAGCTTTTATCTAGATTTAGTTCCAATCACATCATCCTTCCTACCCCCAT
1 TTGCCAAAGAGACAAAA-CTTTTATCTAGATTCAGTTCCAATCACATCATCCTTCCTACCCCCAT
* * * * *
67325 TTGATCCACGATGGATTATGTTTCATCATTTTTTATCTCCTCATCATCAGCTGATGAATATACTC
65 TCGATCCACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTC
* * * * *
67390 TAACCTTATTAGTTGATTTTTATACATTTGCTATGTTGCCTCTAAACAAAGAAAAACGATTCGAA
130 CAACCTCATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGAA
* * * * * * *
67455 AGGACCTGGATTAGTATTATATATTTTATCGTAATGGCGACGATTTACATGGTTTGGTA-CAGAT
195 AGGACCTGAATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTGCTTGATTTGGTATAAGAT
* * *
67519 GCTGCACGGAGACTTATCAGTACAATGAACTGATCATGGTATACAAATATATGGCTAATGGTGTA
260 GCTGCAGGGAGACTTATCAGTACAATGAACTGATCATGGTATACAAATATATGGCAAAGGGTGTA
* * * *
67584 TATGAAAGACTTGCGACCAATATCATGGAAGTAGAGAGGAGACCATTTGCTTGATTTGATTTAAG
325 TAGGAAAGACTTGCGACCAATATCATGGAAGCAGAGAGGAGACCATTTACTTGATTTCATTTAAG
* *
67649 CAGTTGCAAGGAGGCTTTGACGATGACATCCTAGAGAAATATTAAATAAGATTTAATTTTGTCGA
390 CAGCTACAAGGAGGCTTTGACGATGACATCCTAGAGAAATATTAAATAAGATTTAATTTTGTCGA
** * * * *
67714 TTTTAATCAAATAGATTATCTAGAATTCTGATTAAATTTAAATAGTATCATTAACTGATATTTAA
455 TGGTAATCAAATAGATTATCTAGAATTATAATTAAATTTAAATAATATCATTAACTGATATGTAA
* * *
67779 GTTTAAGAGATTAAATAACTTTAAATTTTCGAATATATGCTTATGAAAACAAATTGAAAAGTGAA
520 GTTTAAGACATTAAATAACTTTAAATTTTCAAATATATGATTATGAAAACAAATTGAAAAGTGAA
* *
67844 AATATTTTTATTTTGACTTATAAATTGCAAATCGATTTAGAAATATATAAAGACAATAAGATAGG
585 AATATTTTCATTTTGACTTATAAATTGCAAATCGATTTAGAAATATATAAAGACAATAAGATAGA
67909 TAGAATAAATAAAAAAATGCATTTTGGCTCTGATATCATATAAGATAAAAATTAGAAAATAATTT
650 TAGAATAAATAAAAAAAT-CATTTTGGCTCTGATATCATATAAGATAAAAATTAGAAAATAATTT
*
67974 TATTTTTGGTAGGAAATCTTGTTATCTTATATTTCGAAATTCTTTGCATACTTGCCATTTTGTTA
714 TATTTTGGGTAGGAAATCTTGTTATCTTATATTTCGAAATTCTTTGCATACTTGCCATTTTGTTA
* *
68039 AAATAATACTTTGAAAGTTGATAAAAAAAAAGCTCAACCAAACCGACACTTTCTTGACAAAAACA
779 AAATAATACTTTGAAAGTTGATAAAAAAAAAGCTCAACCAAACCGACACTTTCCTAACAAAAACA
* *
68104 GAGCCAACTGAGAGAAGAACAGGTTGGAGGTTACCAAGTTAGTTTTGAACTGAGACATTTTTTTT
844 GAGCCAACTGAGAGAAGAACAGGTTGGAGGTTACCAAGTTAGTCTAGAACTGAGACATTTTTTTT
* * * * *
68169 CGGCGTAGGAAATCTTGTTATTTTATATTTTGAAATGCTTTGCATACTTACCACTCTAAACTAAC
909 CGGCGTAAGAAATCCTGCTATTTTATATTTCGAAATACTTTGCATACTTACCACTCTAAACTAAC
*
68234 AGATTGCCAAAAAGCCAAAAAC
974 AGATTGACAAAAAGCCAAAAAC
*
68256 TTGCCAAAGAGACAAAAATTTTATCTAGATTCAGTTCCAATCACATCATCCTTCCTA--CCCATA
1 TTGCCAAAGAGACAAAACTTTTATCTAGATTCAGTTCCAATCACATCATCCTTCCTACCCCCAT-
*
68319 TCTGATCCACGATAGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACT
65 TC-GATCCACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACT
* *
68384 CCAACCTCATCAATTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGA
129 CCAACCTCATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGA
*** * *
68449 AAGGACCTGAATTAGTCTTATATATTTTGTCGTAATGAAAACGATTTGGTTGATTTGGTATAAGC
194 AAGGACCTGAATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTGCTTGATTTGGTATAAGA
* * * ** *
68514 TGCTGTAGGGAGACTTATTAGTACAATGAACTGATCATGTTATACGTATTTATGGCAAAGGGTGT
259 TGCTGCAGGGAGACTTATCAGTACAATGAACTGATCATGGTATACAAATATATGGCAAAGGGTGT
* * *
68579 ATGGGAAATACTTGGGACCAATATCATGGAAGCAGAGAGGCA-ACCATTTACTTGATTTCATTTA
324 ATAGGAAAGACTTGCGACCAATATCATGGAAGCAGAGAGG-AGACCATTTACTTGATTTCATTTA
* * * * *
68643 AGCAGCTATAGGGAGGCTTTGACGATGACATTCTCGATAAATATTAAATAAGATTTAATTTTGTC
388 AGCAGCTACAAGGAGGCTTTGACGATGACATCCTAGAGAAATATTAAATAAGATTTAATTTTGTC
* *
68708 GATGGTAATCAAATATTTAAGATTATCTCA-AATTATAATTAAA-TTAAGATAATATTATTAATT
453 GATGGTAATC-AA-A--T-AGATTATCT-AGAATTATAATTAAATTTAA-ATAATATCATTAACT
* * * * *
68771 GATATGTAAGTTTAAGACATTAAATAACTTTCAATTTTTAAATATATTATTATGTAAACTAATTG
511 GATATGTAAGTTTAAGACATTAAATAACTTTAAATTTTCAAATATATGATTATGAAAACAAATTG
* *
68836 AAAAGTGAAAAT-TTTTCCATTTTGACTTATTAATTGCAAATCGATTTA-AAGATATATAAAGGC
576 AAAAGTGAAAATATTTT-CATTTTGACTTATAAATTGCAAATCGATTTAGAA-ATATATAAAGAC
* *
68899 AATAAAGATAGATGGAATAAA-AAAAATAT-ATTTTGGCTCTGATATCATATAAGATAAAAATTA
639 AAT-AAGATAGATAGAATAAATAAAAAAATCATTTTGGCTCTGATATCATATAAGATAAAAATTA
68962 GAAAATAATTTTATTTTGGGTAGGAAATCTTGTTATCTTATATTTCGAAATTCTTTGCATACTTG
703 GAAAATAATTTTATTTTGGGTAGGAAATCTTGTTATCTTATATTTCGAAATTCTTTGCATACTTG
* * *
69027 CCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAAACAGTTCAACCAAATCGACACTTTCC
768 CCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAAAAAGCTCAACCAAACCGACACTTTCC
* *
69092 TAACCAAAATAGAGCCAACTGAGAGAAGAACAGGTTGGAGGTTACCAAGTTAGTCTAGAACTGAG
833 TAACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGAGGTTACCAAGTTAGTCTAGAACTGAG
* *
69157 TCACTTTTTTTTCGGTGTAAGAAATCCTGCTATTTTATATTTCGAAATACTTTGCATACTTACCA
898 ACA-TTTTTTTTCGGCGTAAGAAATCCTGCTATTTTATATTTCGAAATACTTTGCATACTTACCA
* * *
69222 CTCTAAACTAACTGATTGAGAAAAAGCCAAAAGC
962 CTCTAAACTAACAGATTGACAAAAAGCCAAAAAC
* * *
69256 TTGCCAAAGAGGCAATAACTTTTATCTAGATTCAGCTCCAATAACATCATCCTTCCTACCCCCAT
1 TTGCCAAAGAGACAA-AACTTTTATCTAGATTCAGTTCCAATCACATCATCCTTCCTACCCCCAT
* * * *
69321 TCAATCCACAATGGACTATGTTTCCTCATTCTTTA-CCCCTCACCATCAGCTAATGAATA-ACTC
65 TCGATCCACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTC
* *
69384 CAACCTCATTAGTTGA-TTTTATACCTTTGCTATGTTGCCTCAAAACAAAGAAAGACGGTTTGAA
130 CAACCTCATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGAA
* * * *
69448 AGGATCT-AGATTAGTCTTATATATTTTGTCGTAGTGGCGACGATTTGCTTAATTTGGTATAAGT
195 AGGACCTGA-ATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTGCTTGATTTGGTATAAGA
* * *
69512 TGCTGCAGGGAGGCTTATGAGTACAATGAATTGATCATGGTATA
259 TGCTGCAGGGAGACTTATCAGTACAATGAACTGATCATGGTATA
69556 TGAATTAATG
Statistics
Matches: 1160, Mismatches: 121, Indels: 36
0.88 0.09 0.03
Matches are distributed among these distances:
993 5 0.00
994 1 0.00
995 203 0.17
996 194 0.17
997 4 0.00
998 140 0.12
999 239 0.21
1000 132 0.11
1001 219 0.19
1002 18 0.02
1003 5 0.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (995 bp):
TTGCCAAAGAGACAAAACTTTTATCTAGATTCAGTTCCAATCACATCATCCTTCCTACCCCCATT
CGATCCACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCC
AACCTCATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGAAA
GGACCTGAATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTGCTTGATTTGGTATAAGATG
CTGCAGGGAGACTTATCAGTACAATGAACTGATCATGGTATACAAATATATGGCAAAGGGTGTAT
AGGAAAGACTTGCGACCAATATCATGGAAGCAGAGAGGAGACCATTTACTTGATTTCATTTAAGC
AGCTACAAGGAGGCTTTGACGATGACATCCTAGAGAAATATTAAATAAGATTTAATTTTGTCGAT
GGTAATCAAATAGATTATCTAGAATTATAATTAAATTTAAATAATATCATTAACTGATATGTAAG
TTTAAGACATTAAATAACTTTAAATTTTCAAATATATGATTATGAAAACAAATTGAAAAGTGAAA
ATATTTTCATTTTGACTTATAAATTGCAAATCGATTTAGAAATATATAAAGACAATAAGATAGAT
AGAATAAATAAAAAAATCATTTTGGCTCTGATATCATATAAGATAAAAATTAGAAAATAATTTTA
TTTTGGGTAGGAAATCTTGTTATCTTATATTTCGAAATTCTTTGCATACTTGCCATTTTGTTAAA
ATAATACTTTGAAAGTTGATAAAAAAAAAGCTCAACCAAACCGACACTTTCCTAACAAAAACAGA
GCCAACTGAGAGAAGAACAGGTTGGAGGTTACCAAGTTAGTCTAGAACTGAGACATTTTTTTTCG
GCGTAAGAAATCCTGCTATTTTATATTTCGAAATACTTTGCATACTTACCACTCTAAACTAACAG
ATTGACAAAAAGCCAAAAAC
Found at i:71182 original size:11 final size:10
Alignment explanation
Indices: 71164--71197 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
71154 AATTGTCTTC
71164 AAATCTTCAA
1 AAATCTTCAA
71174 AATATCTTCAA
1 AA-ATCTTCAA
71185 GAAATCTTCAA
1 -AAATCTTCAA
71196 AA
1 AA
71198 CACGAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 16 0.73
12 2 0.09
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (10 bp):
AAATCTTCAA
Found at i:74488 original size:989 final size:987
Alignment explanation
Indices: 71425--74599 Score: 4565
Period size: 995 Copynumber: 3.2 Consensus size: 987
71415 AGCTCGATCA
* * *
71425 GAAGTAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCATGGAGGCTTCGACAACGTC
1 GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCAGGGAGGCTTCGACGACGTC
*
71490 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCAATGGTAACCAAGTATTTAAGATTATCTC
66 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
* * * *
71555 GAGTTCTGGTTAAATTAAGATAATATTTTTAATTGATATGTAGGTTTAAGAAATTAAATAACTTT
131 GAATTCTGATTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
*
71620 AAAATTTCAAATATATGAACACTAATTGAAAAGTGAAATTTTTTTCATTTTGACTTATAAATTGC
196 AAAATTTCAAATATATGAACACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTAT-AATTGC
71685 AAATTGATTTAAAGATATATAAAGCCAATAAGATAGATGGAATAAATAAAAATATGTATTGTAGC
260 AAATTGATTTAAAGATATATAAAGCCAATAAGATAGATGGAATAAATAAAAATATGTATTGTAGC
71750 TCTGATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATCTTTTTATATT
325 TCTGATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATCTTTTTATATT
71815 ATATTTCGAAATTCTCTGTATACTTGCCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAA
390 ATATTTCGAAATTCTCTGTATACTTGCCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAA
*
71880 AAAGCTCAAACAAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGA
455 AAAGCTCAACCAAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGA
* * *
71945 GGTTACCAAGTTAGTTCTGAACTGAGATATTTTTTTTTGGCGTAGAAAATCTTGTTATTTTATAT
520 GGTTACCAAG-T--TTCTGAACTGAGACATTTTTTTTCGGCGTAGGAAATCTTGTTATTTTATAT
*
72010 TTTGAAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCAAAAACTAGCCA
582 TTTGAAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCAAAAACTTGCCA
***
72075 AAGAGAAAATTTTTTTATCTAGATTCAGTACCAATCACATCATCCATCCTACCCCCATCCGATCC
647 AAGAGAAAAAAATTTTATCTAGATTCAGTACCAATCACATCATCCATCCTACCCCCATCCGATCC
*
72140 ATGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCCAACCTC
712 ACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCCAACCTC
* * *
72205 ATCAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAACAAAGAAAGACGGTTCGAAAGGACCT
777 ATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAAAAAAGAAAGACGGTTCAAAAGGA-CT
* * * * * ** * *
72270 GGATTAGCCTTATATATTTCGTCATAATGACAACGATTTGGTTGATTTCGTATAAGTTACTG-TA
841 GGATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTACTTGATTTGGTATAAGTTGCTGCT-
* * * * * * *
72334 CGGAGACTTATCAATACAATAAACTGATCATGTTATACGAATTTATAGCAAAGGGTGTATGCGAA
905 GGGAGACTTATGAATACAATAAATTGATCATGGTATACGAA-TTATGGCTAA-GGTGTATGTG-A
*
72399 AGACTTGAGACCAATATCATG
967 AGACTTGCGACCAATATCATG
* * * ** * ** *
72420 GAAGCAGAGAGACAACCATTTACTTGATTTGATTTAAGTAGCTGTTGGGAGGCTTCGACGACGGC
1 GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCAGGGAGGCTTCGACGACGTC
* * *
72485 ATCCTAGATAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAATATTTAAGATTATCTC
66 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
* *
72550 GAATTCTGTTTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGACATTAAATAACTTT
131 GAATTCTGATTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
* *
72615 CAATTTTCAAATATATTATTATGTAA-ACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTAT
196 AAAATTTC--A-A-A-TA-TATG-AACACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTA-
* * * *
72679 TAATTGCAAATCGATTTAAAGATATATAAGGGCAATAAGATAGATGGAATAAATAAAAAAAATGT
253 TAATTGCAAATTGATTTAAAGATATATAAAGCCAATAAGATAGATGGAATAAAT-AAAAATATGT
* * * * *
72744 CTTTTGGCTCTGATATCATATAAGATAAAAATTAGAAAATATTTTTATTTTTGGTAGGAAATCTT
317 ATTGTAGCTCTGATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATCTT
* * * ** *
72809 GTTATCTTATATTTCGAAATTCTTTACATACTTGTCATTTTGTTAAAATAATACTTTGAAAGTTG
382 TTTATATTATATTTCGAAATTCTCTGTATACTTGCCATTTTGTTAAAATAATACTTTGAAAGTTG
* * * * * * *
72874 ATAAAAAAAAAGTTCAACCAAAATCGACACTTTCCTAACCAAAATAAAGCCAACTGAGAGAAGAA
447 ATAAAAAAAAAGCTCAACC-AAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAA
* * * * *
72939 CAGGTTGGAGGTTACCAAGTTAGTCTAGAATTGAGTCACTTTTTTTTTCGGTGTAAGAAATCCTG
511 CAGGTTGGAGGTTACCAAGTT--TCT-GAACTGAG--ACATTTTTTTTCGGCGTAGGAAATCTTG
* ** * * **
73004 CTATTTTATATTTCAAAATACTTTGCATACTTACCACTCTAAACTAACCGATTGAGAAAAAGCCA
571 TTATTTTATATTTTGAAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCA
* * * * * * *
73069 AAAGCTTGCCAAAGAGGCAATAACTTTTATCTAGATTTAGCT-CCAATAACATCATCCTTCCTAC
636 AAAACTTGCCAAAGA-GAAAAAAATTTTATCTAGATTCAG-TACCAATCACATCATCCATCCTAC
* * * * * *
73133 CCCCATTCAATCCACAATGGACTATGTTTCCTCTTTCTTTACCTCCTCACCATCAGCTAATGAAT
699 CCCCATCCGATCCACGATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAAT
* *
73198 A-ACTCCAACCTCATTAGTTG-CTTTTATACCTTTGCTATGTTGCCTCTAAATAAAGAAAGACGG
764 ATACTCCAACCTCATTAGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAAAAAAGAAAGACGG
* *
73261 TTCAAAAGGATCTAGATTAGTCTTATATATTTTGTCGTAGTGGCGACGATTTACTTGATTTGGTA
829 TTCAAAAGGA-CTGGATTAGTCTTATATATTTTGTCGTAATGGCGACGATTTACTTGATTTGGTA
* * * * * *
73326 TAAGTTGCTGCAGGGAGGCTTATGAGTACAATGAATTGATCATGGTATATGAATTAATGGCTAAC
893 TAAGTTGCTGCTGGGAGACTTATGAATACAATAAATTGATCATGGTATACGAATT-ATGGCTAAG
* * *
73391 G-G--TGT---G-CTTGCTACCAGTATAATG
957 GTGTATGTGAAGACTTGCGACCAATATCATG
*
73415 GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCATGGAGGCTTCGACGACGTC
1 GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCAGGGAGGCTTCGACGACGTC
73480 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
66 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
* *
73545 GAGTTCTGATTAAATTAAGATAATATTTTTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
131 GAATTCTGATTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
*
73610 AAACTTTCAAATATATGAACACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTATAATTTGC
196 AAAATTTCAAATATATGAACACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTATAA-TTGC
73675 AAATTGATTTAAAGATATATAAAGCCAAT-AGATAGATGGAATAAAT-AAAATATGTATTGTAGC
260 AAATTGATTTAAAGATATATAAAGCCAATAAGATAGATGGAATAAATAAAAATATGTATTGTAGC
* *
73738 TCTCATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATATTTTTATATT
325 TCTGATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATCTTTTTATATT
*
73803 ATATTTCGAAATTCTCTGTATAGTTGCCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAA
390 ATATTTCGAAATTCTCTGTATACTTGCCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAA
73868 AAAGCTCAACCAAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGA
455 AAAGCTCAACCAAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGA
*
73933 GGTTACTAAGTTT-TGAACTGAGACATTTTTTTTCGGCGTAGGAAATCTTGTTATTTTATATTTT
520 GGTTACCAAGTTTCTGAACTGAGACATTTTTTTTCGGCGTAGGAAATCTTGTTATTTTATATTTT
73997 GAAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCAAAAACTTGCCAAAG
585 GAAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCAAAAACTTGCCAAAG
*
74062 AGAAAAAAATTTTATCTAGATTCAGTACCAATCACATCATCCGTCCTACCCCCATCCGATCCACG
650 AGAAAAAAATTTTATCTAGATTCAGTACCAATCACATCATCCATCCTACCCCCATCCGATCCACG
*
74127 ATGGACTATGTTTCCGCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCCAACCTCATT
715 ATGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCCAACCTCATT
*
74192 AGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAAAAAAGAAAGGCGGTTCAAAAGGACGTGGA
780 AGTTGATTTTTATACCTTTGCTATGTTGCCTCTAAAAAAAGAAAGACGGTTCAAAAGGAC-TGGA
* * * *
74257 TTAGTCTTATACATTTTGTCGTAACGGCGATGATTTACTTGATTTGGTATAAGCTGCTGCTGGGA
844 TTAGTCTTATATATTTTGTCGTAATGGCGACGATTTACTTGATTTGGTATAAGTTGCTGCTGGGA
* * * *
74322 GACTTATGACTACAATTAATTGATTATGGTATACGAATATATGGTTAATGGTGTATGTGAACGAC
909 GACTTATGAATACAATAAATTGATCATGGTATACGAAT-TATGGCTAA-GGTGTATGTGAA-GAC
*
74387 TTGCGACCAATATCATT
971 TTGCGACCAATATCATG
* * * * **
74404 GAAGCAGAGAGGTGACCATTTTCTTGATTTGATTTAAGCAGCTGCAGGGAGGCTTCGACGACAAC
1 GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCAGGGAGGCTTCGACGACGTC
* * * * *
74469 ATCCTAAAGAAATATTAAATAAGATTTAAATTTATCGACGGTAACCAA--A-TT--GATTATCTC
66 ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
* * * *
74529 GAATTTTGATTAAATTTAGATAATATTATTAATTGATAT-TACGTTTAAGACATTAAATAACTTT
131 GAATTCTGATTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
74593 AAAATTT
196 AAAATTT
74600 TTAATATTTA
Statistics
Matches: 1922, Mismatches: 223, Indels: 82
0.86 0.10 0.04
Matches are distributed among these distances:
977 1 0.00
978 99 0.05
979 116 0.06
980 152 0.08
981 9 0.00
982 2 0.00
983 30 0.02
984 47 0.02
985 59 0.03
986 144 0.07
987 1 0.00
988 23 0.01
989 186 0.10
990 2 0.00
991 1 0.00
992 1 0.00
993 1 0.00
995 378 0.20
996 1 0.00
997 1 0.00
998 1 0.00
999 1 0.00
1000 5 0.00
1001 90 0.05
1002 153 0.08
1003 68 0.04
1004 142 0.07
1005 110 0.06
1006 97 0.05
1007 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (987 bp):
GAAGCAGAGAGGCGACCATTTGCTTGATTTGATTTAAACAACTGCAGGGAGGCTTCGACGACGTC
ATCATAGAGAAATATTAAATAAGATTTAATTTTGTCGATGGTAACCAAGTATTTAAGATTATCTC
GAATTCTGATTAAATTAAGATAATATTATTAATTGATATGTAAGTTTAAGAAATTAAATAACTTT
AAAATTTCAAATATATGAACACTAATTGAAAAGTGAAAATTTTTTCATTTTGACTTATAATTGCA
AATTGATTTAAAGATATATAAAGCCAATAAGATAGATGGAATAAATAAAAATATGTATTGTAGCT
CTGATATCATATAAGATAAAAATTAGAAAATAATTTTATTTTTGGTAGAAAATCTTTTTATATTA
TATTTCGAAATTCTCTGTATACTTGCCATTTTGTTAAAATAATACTTTGAAAGTTGATAAAAAAA
AAGCTCAACCAAACCGACACTTTCTTGACAAAAACAGAGCCAACTGAGAGAAGAACAGGTTGGAG
GTTACCAAGTTTCTGAACTGAGACATTTTTTTTCGGCGTAGGAAATCTTGTTATTTTATATTTTG
AAATACTTTGCATACTAACCACTCTAAACTAACTGATTGCCAAAAAGCCAAAAACTTGCCAAAGA
GAAAAAAATTTTATCTAGATTCAGTACCAATCACATCATCCATCCTACCCCCATCCGATCCACGA
TGGACTATGTTTCCTCATTCTTTATCTCCTCACCATCAGCTGATGAATATACTCCAACCTCATTA
GTTGATTTTTATACCTTTGCTATGTTGCCTCTAAAAAAAGAAAGACGGTTCAAAAGGACTGGATT
AGTCTTATATATTTTGTCGTAATGGCGACGATTTACTTGATTTGGTATAAGTTGCTGCTGGGAGA
CTTATGAATACAATAAATTGATCATGGTATACGAATTATGGCTAAGGTGTATGTGAAGACTTGCG
ACCAATATCATG
Found at i:75367 original size:2 final size:2
Alignment explanation
Indices: 75360--75399 Score: 53
Period size: 2 Copynumber: 18.5 Consensus size: 2
75350 CCTTCTTAAA
75360 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AGT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT A-T AT A
75400 AATTATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 29 0.83
3 6 0.17
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:75557 original size:36 final size:36
Alignment explanation
Indices: 75510--75582 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
75500 GATACGAATC
*
75510 TAGTTGTGTTAGATTCAAATCCACCTTTGAGACCCG
1 TAGTTCTGTTAGATTCAAATCCACCTTTGAGACCCG
75546 TAGTTCTGTTAGATTCAAATCCACCTTTGAGACCCG
1 TAGTTCTGTTAGATTCAAATCCACCTTTGAGACCCG
75582 T
1 T
75583 CAAAGATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (36 bp):
TAGTTCTGTTAGATTCAAATCCACCTTTGAGACCCG
Done.