Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003534.1 Hibiscus syriacus cultivar Beakdansim tig00007459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 87251
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1991 original size:33 final size:33
Alignment explanation
Indices: 1931--1994 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1921 ATGTGGCAAG
** **
1931 GTAACAATTTGAAATGCTATGGAAAATTAAAAT
1 GTAACAATTCAAAATGCTAAAGAAAATTAAAAT
*
1964 GTAACAATTCAAAATGCTAAAGCAAATTAAA
1 GTAACAATTCAAAATGCTAAAGAAAATTAAA
1995 TTGAGAATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (33 bp):
GTAACAATTCAAAATGCTAAAGAAAATTAAAAT
Found at i:3615 original size:17 final size:17
Alignment explanation
Indices: 3593--3626 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3583 CAGTTATTTT
3593 CCGCTCTCAAATTCTTA
1 CCGCTCTCAAATTCTTA
3610 CCGCTCTCAAATTCTTA
1 CCGCTCTCAAATTCTTA
3627 ATGCAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (17 bp):
CCGCTCTCAAATTCTTA
Found at i:8929 original size:18 final size:18
Alignment explanation
Indices: 8889--8928 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8879 CACCTCCAGC
*
8889 AAAAAGAACAAAACAACG
1 AAAAAGAACAAAACAACA
*
8907 CAAAAGAACAAAAC-ACA
1 AAAAAGAACAAAACAACA
8924 AAAAA
1 AAAAA
8929 AAACTAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.75, C:0.17, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAGAACAAAACAACA
Found at i:10421 original size:29 final size:28
Alignment explanation
Indices: 10374--10458 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
10364 GCTCAGAACT
* *
10374 GAATACTGTAGTCGGGAATAGT-ATCCGA
1 GAATACTGTAGCCGAGAATAGTAAT-CGA
10402 GAATCACTGTAGCCGAGAATAGTAATCGA
1 GAAT-ACTGTAGCCGAGAATAGTAATCGA
* * * *
10431 GAATTATTGTAGACAAAAATAGTAATCG
1 GAA-TACTGTAGCCGAGAATAGTAATCG
10459 TCGACGGCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
28 4 0.08
29 41 0.85
30 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (28 bp):
GAATACTGTAGCCGAGAATAGTAATCGA
Found at i:22066 original size:77 final size:77
Alignment explanation
Indices: 21936--22085 Score: 255
Period size: 77 Copynumber: 1.9 Consensus size: 77
21926 CTCTCGTCAG
* * *
21936 ATTAACATGAAACCGAATATTGGTGCACAATCAACAATAAAGAATTTGCATATATAAATACATAT
1 ATTAACATGAAACCGAATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
22001 AACAATTAAAGT
66 AACAATTAAAGT
* *
22013 ATTAACATGAGATCGAATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
1 ATTAACATGAAACCGAATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
22078 AACAATTA
66 AACAATTA
22086 CTGGAGAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (77 bp):
ATTAACATGAAACCGAATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
AACAATTAAAGT
Found at i:29274 original size:14 final size:14
Alignment explanation
Indices: 29257--29283 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29247 AAAAACATTC
29257 AAACCAAAAGGAAG
1 AAACCAAAAGGAAG
29271 AAACCAAAAGGAA
1 AAACCAAAAGGAA
29284 AAAGAGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.15, G:0.19, T:0.00
Consensus pattern (14 bp):
AAACCAAAAGGAAG
Found at i:43567 original size:23 final size:23
Alignment explanation
Indices: 43535--43595 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
43525 TCTTATATGG
43535 TACTTCGGTGCATTTCTACGCGA
1 TACTTCGGTGCATTTCTACGCGA
* * * *
43558 TACTTAGGTGCAATTCTACGTGG
1 TACTTCGGTGCATTTCTACGCGA
*
43581 CACTTCGGTGCATTT
1 TACTTCGGTGCATTT
43596 ATATGAGCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
TACTTCGGTGCATTTCTACGCGA
Found at i:44756 original size:24 final size:24
Alignment explanation
Indices: 44729--44778 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
44719 TGGTGGTTGA
*
44729 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
44753 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
44777 TT
1 TT
44779 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:45670 original size:2 final size:2
Alignment explanation
Indices: 45665--45730 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
45655 TTGTGAAACA
45665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45707 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
45731 GTGTGTGTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45735 original size:2 final size:2
Alignment explanation
Indices: 45730--45754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45720 TATATATATA
45730 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 T
45755 TTATGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:46922 original size:331 final size:328
Alignment explanation
Indices: 46323--47052 Score: 1008
Period size: 331 Copynumber: 2.2 Consensus size: 328
46313 AATCCTAACA
* * * *
46323 AAAACTTACAA-TCGATAGTATCTTTTCACTTTTTAACCTGAAAAATTGTCTAATCTACATGATT
1 AAAACTTACAACT-GATAGCATCTTTTCACATTTTAACCTGAAAAATTATATAATCTACATGATT
* **
46387 TAGTATGGACACTGATATTTTTAGTTTTAACAAAAATATTACCATGTTCTTTCTAAAAAGTTACA
65 TAGTATGGACAATGATATTTTTAGTTTTAACAAAAATATTACCATGTTCACTCTAAAAAGTTACA
*
46452 TAATTGGTAATAATTCTAATTACAACGTATAATATTACATGGTTTTATCAATTGAATAAAACTTG
130 TAATTGGTAATAATTCTAATTACAACGTATAATATTACATGGTTTTATCAATTGAATAAAACTTA
* *
46517 CAATTAATGATATATTTTTACGTTTTAACCTAAAAATTATTTGATCTGCATGATTTAGCTCTACT
195 CAACTAATGATATATTTTTACGTTTTAACCTAAAAATTATTTGATCTGCATGATTTAGCTCCACT
*
46582 ATAAAAAGTTACAAAATT-GATAATTATTTT-GTTACAATCTATAATGTTATA-CTAGTTTACAA
260 AAAAAAAGTTACAAAATTAG-TAA-TATTTTCGTTACAATCTATAATGTTATATC-AGTTTACAA
46644 ATTGAAT
322 ATTGAAT
* * * *
46651 AAAACTTACAACTGGTAGCATCTTTTTACATTTTAACCTGAAAAATTATATGATTTACATGATTT
1 AAAACTTACAACTGATAGCATCTTTTCACATTTTAACCTGAAAAATTATATAATCTACATGATTT
* *
46716 AGTATGGACAAT-ATAATATTTTCTGTTTTAACCAAAAATGTTACCATGTTCACTCTAAAAAGTT
66 AGTATGGACAATGAT-AT-TTTT-AGTTTTAA-CAAAAATATTACCATGTTCACTCTAAAAAGTT
** *
46780 ACATAATTGGTAATAATT-TATATTACATTGTATAATATTACATGGTTTTATCGATTGAATAAAA
127 ACATAATTGGTAATAATTCTA-ATTACAACGTATAATATTACATGGTTTTATCAATTGAATAAAA
*
46844 CTTACAACTAATGATATATTTTTACGTTTTAACCTAAAAATTATTTGATC-GACATGATTTAGTT
191 CTTACAACTAATGATATATTTTTACGTTTTAACCTAAAAATTATTTGATCTG-CATGATTTAGCT
* *
46908 CCACTAAAAAAAGTTACAAAATTAGTAATATTTTCGTTACAATCTATAATGTTATATCATTTTAT
255 CCACTAAAAAAAGTTACAAAATTAGTAATATTTTCGTTACAATCTATAATGTTATATCAGTTTAC
*
46973 TAATTGAAT
320 AAATTGAAT
* * * * ** * * *
46982 AAAACTTACAACTGAT-GATATTTTTTTATATTTTAATTTGAAAAATGATCTAATCCACATGATT
1 AAAACTTACAACTGATAG-CATCTTTTCACATTTTAACCTGAAAAATTATATAATCTACATGATT
47046 TAGTATG
65 TAGTATG
47053 ATTTCAACCA
Statistics
Matches: 356, Mismatches: 35, Indels: 19
0.87 0.09 0.05
Matches are distributed among these distances:
327 2 0.01
328 68 0.19
329 5 0.01
330 17 0.05
331 262 0.74
332 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (328 bp):
AAAACTTACAACTGATAGCATCTTTTCACATTTTAACCTGAAAAATTATATAATCTACATGATTT
AGTATGGACAATGATATTTTTAGTTTTAACAAAAATATTACCATGTTCACTCTAAAAAGTTACAT
AATTGGTAATAATTCTAATTACAACGTATAATATTACATGGTTTTATCAATTGAATAAAACTTAC
AACTAATGATATATTTTTACGTTTTAACCTAAAAATTATTTGATCTGCATGATTTAGCTCCACTA
AAAAAAGTTACAAAATTAGTAATATTTTCGTTACAATCTATAATGTTATATCAGTTTACAAATTG
AAT
Found at i:47913 original size:3 final size:3
Alignment explanation
Indices: 47905--47976 Score: 81
Period size: 3 Copynumber: 23.0 Consensus size: 3
47895 TTTACCCATT
* * * *
47905 TTA TTA TTA TTA TAA TTA TTA TCA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47953 TATA TATA TTAA TTA TTA TTA TTA
1 T-TA T-TA TT-A TTA TTA TTA TTA
47977 AAAAAATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
3 50 0.83
4 10 0.17
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47942 original size:27 final size:29
Alignment explanation
Indices: 47905--47974 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 29
47895 TTTACCCATT
47905 TTATTATTATTATAATTATTAT-CATA-A
1 TTATTATTATTATAATTATTATACATATA
*
47932 TTATTATTATTATAATTATTATATATATA
1 TTATTATTATTATAATTATTATACATATA
47961 TTAATTATTATTAT
1 TT-ATTATTATTAT
47975 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 22 0.56
28 3 0.08
29 3 0.08
30 11 0.28
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATTATTATTATAATTATTATACATATA
Found at i:47965 original size:18 final size:15
Alignment explanation
Indices: 47905--47976 Score: 90
Period size: 15 Copynumber: 4.6 Consensus size: 15
47895 TTTACCCATT
* *
47905 TTATTATTATTATAA
1 TTATTATTATAATTA
*
47920 TTATTATCATAATTA
1 TTATTATTATAATTA
47935 TTATTATTATAATTA
1 TTATTATTATAATTA
47950 TTATATATATATTAATTA
1 TTAT-TAT-TA-TAATTA
47968 TTATTATTA
1 TTATTATTA
47977 AAAAAATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
15 30 0.60
16 5 0.10
17 5 0.10
18 10 0.20
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTATTATAATTA
Found at i:47985 original size:24 final size:23
Alignment explanation
Indices: 47909--47994 Score: 55
Period size: 24 Copynumber: 3.5 Consensus size: 23
47899 CCCATTTTAT
* *
47909 TATTATTATAATTATTATCATAATTAT
1 TATTATTATAATTATTA--A-AA-AAA
* * *
47936 TATTATTATAATTATTATATATA
1 TATTATTATAATTATTAAAAAAA
*
47959 TATTAATTATTATTATTAAAAAAA
1 TATT-ATTATAATTATTAAAAAAA
* *
47983 TATAATAATAAT
1 TATTATTATAAT
47995 AATAATTACA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
23 10 0.22
24 19 0.41
27 17 0.37
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATTATAATTATTAAAAAAA
Found at i:48443 original size:18 final size:18
Alignment explanation
Indices: 48422--48456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48412 GACCAGCAAA
*
48422 AACAGAGAAGAAAAAAAG
1 AACAGAGAACAAAAAAAG
*
48440 AACATAGAACAAAAAAA
1 AACAGAGAACAAAAAAA
48457 AGAAAACCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.14, T:0.03
Consensus pattern (18 bp):
AACAGAGAACAAAAAAAG
Found at i:49320 original size:9 final size:9
Alignment explanation
Indices: 49306--49335 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
49296 TCTAATTGTA
49306 TTTTTATTG
1 TTTTTATTG
49315 TTTTTATTG
1 TTTTTATTG
*
49324 TTTTAATTG
1 TTTTTATTG
49333 TTT
1 TTT
49336 ATATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (9 bp):
TTTTTATTG
Found at i:60797 original size:6 final size:6
Alignment explanation
Indices: 60786--60837 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
60776 ATGCTTGAAG
*
60786 AGAAAA AGAAAA AG-AAA A-AAAA AGAAAG AGAAAA A-AGAAA A-AAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGA-AAA AGAAAA
60831 AGAAAA A
1 AGAAAA A
60838 AGGGGGTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:60809 original size:10 final size:10
Alignment explanation
Indices: 60789--60838 Score: 64
Period size: 10 Copynumber: 4.6 Consensus size: 10
60779 CTTGAAGAGA
60789 AAAAGAAAAAG
1 AAAA-AAAAAG
60800 AAAAAAAAAG
1 AAAAAAAAAG
60810 AAAGAGAAAAAAG
1 -AA-A-AAAAAAG
60823 AAAAAAAAAG
1 AAAAAAAAAG
60833 AAAAAA
1 AAAAAA
60839 GGGGGTCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 19 0.53
11 7 0.19
12 3 0.08
13 7 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:60816 original size:28 final size:30
Alignment explanation
Indices: 60783--60839 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
60773 ATTATGCTTG
*
60783 AAGAG-AAAAAGAAAAAGAAA-AAAAAAGA
1 AAGAGAAAAAAGAAAAAAAAAGAAAAAAGA
60811 AAGAGAAAAAAGAAAAAAAAAGAAAAAAG
1 AAGAGAAAAAAGAAAAAAAAAGAAAAAAG
60840 GGGGTCAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 14 0.54
30 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (30 bp):
AAGAGAAAAAAGAAAAAAAAAGAAAAAAGA
Found at i:60817 original size:22 final size:23
Alignment explanation
Indices: 60786--60837 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
60776 ATGCTTGAAG
60786 AGAAAAAG-AAAAAGAAAAAAAA
1 AGAAAAAGAAAAAAGAAAAAAAA
*
60808 AGAAAGAGAAAAAAGAAAAAAAA
1 AGAAAAAGAAAAAAGAAAAAAAA
60831 AGAAAAA
1 AGAAAAA
60838 AGGGGGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AGAAAAAGAAAAAAGAAAAAAAA
Found at i:62111 original size:83 final size:83
Alignment explanation
Indices: 61972--62415 Score: 577
Period size: 83 Copynumber: 5.2 Consensus size: 83
61962 GAACAAATGC
61972 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
62037 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
62055 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
62120 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
62138 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* *
62203 TATTGAATTTGGAAGATG
66 CATTGAATTTGAAAGATG
* * * *
62221 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTAGAGTTATCTGATATGGCTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-
* * * *
62286 AGAACCAGTTATTGAATTTGGAAGAGG
58 A-AACCAATCATTGAATTTGAAAGATG
* * *
62313 AATGTGCTCATAGCATCTTCT--AAGTGCTCTTTGAGTTATCTGATCTGGTATGATATAAAACCC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG--GT---A---
62376 AGAACCAATCATTGAATTTGAAAGATG
58 A-AACCAATCATTGAATTTGAAAGATG
*
62403 AATTTGCTCATAG
1 AATGTGCTCATAG
62416 TAGAAATAAG
Statistics
Matches: 326, Mismatches: 22, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
83 214 0.66
85 1 0.00
88 2 0.01
90 64 0.20
91 1 0.00
92 44 0.13
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:62411 original size:90 final size:91
Alignment explanation
Indices: 62204--62415 Score: 277
Period size: 90 Copynumber: 2.3 Consensus size: 91
62194 AAAACCAGTT
* *
62204 ATTGAATTTGGAAGATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTAGAGTTATCTGATAT
1 ATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCT-GAAGTGCTCTTAGAGTTATCTGATAT
* * * *
62269 GGCTTGGTATGAACCACAGAACCAGTT
65 GGCTTGATATAAACCACAGAACCAATC
* * *
62296 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCT-AAGTGCTCTTTGAGTTATCTGATCTG
1 ATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGAAGTGCTCTTAGAGTTATCTGATATG
62360 G-TATGATATAAAACC-CAGAACCAATC
66 GCT-TGATAT-AAACCACAGAACCAATC
* *
62386 ATTGAATTTGAAAGATGAATTTGCTCATAG
1 ATTGAATTTGGAAGATGAATGTGCTCATAG
62416 TAGAAATAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
89 1 0.01
90 65 0.61
91 4 0.04
92 36 0.34
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (91 bp):
ATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGAAGTGCTCTTAGAGTTATCTGATATG
GCTTGATATAAACCACAGAACCAATC
Found at i:62612 original size:93 final size:93
Alignment explanation
Indices: 62433--62613 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 93
62423 AAGAAGACCC
* * * *
62433 AATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAATCA
1 AATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATGATATAAACCCCAAAAATCA
* *
62498 ATCATTAAATTTGAAATATGAATGTGCT
66 ATCATTAAATTTAAAAGATGAATGTGCT
* *
62526 AATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATGATATAAAACCCCAGAACT-
1 AATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATGATAT-AAACCCCAAAAATC
*
62590 AATCATTCGAA-TTAAAAGATGAAT
65 AATCATT-AAATTTAAAAGATGAAT
62614 TGCATGATCG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 66 0.86
94 11 0.14
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (93 bp):
AATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATGATATAAACCCCAAAAATCA
ATCATTAAATTTAAAAGATGAATGTGCT
Found at i:63561 original size:114 final size:114
Alignment explanation
Indices: 63400--63950 Score: 879
Period size: 114 Copynumber: 4.8 Consensus size: 114
63390 TTCAACTTTT
*
63400 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGT
1 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
63465 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
66 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
* * * *
63514 TGGATCATCTTTTCCAGAAAAGAGTTCATAATTAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
63579 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
66 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
* *
63628 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTTAGCTGAAGAAGGAAGAAGAAGT
1 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
63693 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGA
66 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
* * * *
63742 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGATAAGAATTCATCTGAAGGAGAAAGAAGAAGT
1 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
63807 TCATAATGAGAAGAACTTGTTTAACCTTTTGTTCAAATTCATCACTTGA
66 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
* * * * * *
63856 TGGATCAACCTTTACAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGT
1 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
** *
63920 TCATAATGAGAAGAGCTTATTTAACCTTTTG
66 TCATAATGAGAAGAATTTGTTTAACCTTTTG
63951 AATGACTCTT
Statistics
Matches: 407, Mismatches: 30, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
113 73 0.18
114 334 0.82
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (114 bp):
TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGA
Found at i:64182 original size:3 final size:3
Alignment explanation
Indices: 64174--64241 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
64164 TTTACCCATT
* * * * *
64174 TTA TTA TTA TTA TAA TTA TTA TCA TAA TAA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64222 TATA TATA TTA TTA TTA TTA
1 T-TA T-TA TTA TTA TTA TTA
64242 AAAAAATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 50 0.88
4 7 0.12
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:64193 original size:12 final size:12
Alignment explanation
Indices: 64176--64239 Score: 83
Period size: 12 Copynumber: 4.9 Consensus size: 12
64166 TACCCATTTT
64176 ATTATTATTATA
1 ATTATTATTATA
64188 ATTATTATCATAATA
1 ATTATTAT--T-ATA
64203 ATTATTATTATA
1 ATTATTATTATA
64215 ATTATTATATATA
1 ATTATTAT-TATA
64228 TATTATTATTAT
1 -ATTATTATTAT
64240 TAAAAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
12 19 0.40
13 8 0.17
14 9 0.19
15 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:64250 original size:20 final size:20
Alignment explanation
Indices: 64208--64256 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
64198 TAATAATTAT
* * *
64208 TATTATAATTATTATATATA
1 TATTATAATTATTAAAAAAA
*
64228 TATTATTATTATTAAAAAAA
1 TATTATAATTATTAAAAAAA
*
64248 TATAATAAT
1 TATTATAAT
64257 AATAATAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTATAATTATTAAAAAAA
Found at i:65593 original size:20 final size:21
Alignment explanation
Indices: 65547--65593 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
65537 CTGCTTTTAA
*
65547 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
65568 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
65587 ATATATT
1 ATATATT
65594 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:66571 original size:14 final size:14
Alignment explanation
Indices: 66554--66603 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
66544 TTCATTTACG
66554 TTCGTTTATGTTCA
1 TTCGTTTATGTTCA
*
66568 TTCGATTATG----
1 TTCGTTTATGTTCA
66578 TTCGTTTATGTTCA
1 TTCGTTTATGTTCA
*
66592 TTCATTTATGTT
1 TTCGTTTATGTT
66604 TAACCCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
10 9 0.31
14 20 0.69
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.58
Consensus pattern (14 bp):
TTCGTTTATGTTCA
Found at i:66580 original size:24 final size:24
Alignment explanation
Indices: 66539--66603 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
66529 CATATGCCTC
* *
66539 GTTCGTTCATTTACGTTCGTTTAT
1 GTTCATTCATTTATGTTCGTTTAT
66563 GTTCATTCGA-TTATGTTCGTTTAT
1 GTTCATTC-ATTTATGTTCGTTTAT
66587 GTTCATTCATTTATGTT
1 GTTCATTCATTTATGTT
66604 TAACCCAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.55
Consensus pattern (24 bp):
GTTCATTCATTTATGTTCGTTTAT
Found at i:67100 original size:16 final size:16
Alignment explanation
Indices: 67053--67101 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
67043 GGGTGTCCAA
*
67053 CGTTTATGTTCGTATT
1 CGTTTATGTTCGTGTT
67069 -GATTTATGTTCGTGTT
1 CG-TTTATGTTCGTGTT
*
67085 CGTTTATGTTCATGTT
1 CGTTTATGTTCGTGTT
67101 C
1 C
67102 ATGTTCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.55
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:70189 original size:15 final size:15
Alignment explanation
Indices: 70169--70200 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
70159 GGATTAAAAC
*
70169 ATAAGAAATAATTCA
1 ATAAGAAACAATTCA
70184 ATAAGAAACAATTCA
1 ATAAGAAACAATTCA
70199 AT
1 AT
70201 GAAAATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (15 bp):
ATAAGAAACAATTCA
Found at i:72641 original size:18 final size:18
Alignment explanation
Indices: 72615--72649 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72605 ACTGAATATT
* *
72615 TGTCTCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
72633 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
72650 GATAATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:73289 original size:63 final size:65
Alignment explanation
Indices: 73218--73380 Score: 165
Period size: 64 Copynumber: 2.6 Consensus size: 65
73208 CATCCCTTGA
* *
73218 CGGGTGCATCGATGCAC-A-TCTATGCATCGGTACA-TAAATCTCATTCGATGTTTGTATTTT-A
1 CGGGTGCATCGATGCACTACT-TATGCATCGATACACT-AATCGCATTCGATGTTTGTATTTTAA
73279 AG
64 AG
* * * *
73281 CGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAAAG
1 CGGGTGCATCGATGCACTACTTATGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAG
* ** * * *
73346 -GAGTGCATCGATATACTTCATGTGCATCGATACAC
1 CGGGTGCATCGATGCACTACTTATGCATCGATACAC
73381 CTTGAACAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
63 17 0.20
64 63 0.74
65 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (65 bp):
CGGGTGCATCGATGCACTACTTATGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAG
Found at i:73332 original size:64 final size:64
Alignment explanation
Indices: 73259--73380 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
73249 ACATAAATCT
* * *
73259 CATTCGATGTTTGTATTTT-AAGCGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAAG-GAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
* * *
73323 CATTCGATGTTTTTATTTTAAAGGAGTGCATCGATATACTTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACAC
73381 CTTGAACAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 48 0.94
65 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
Found at i:76962 original size:2 final size:2
Alignment explanation
Indices: 76955--77000 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
76945 TACATGTAAA
*
76955 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76996 AT AT A
1 AT AT A
77001 ATGATTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:77197 original size:28 final size:28
Alignment explanation
Indices: 77158--77213 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
77148 TTGGAACTTT
77158 AAAAATCATGAGACATGGATTAAATGCA
1 AAAAATCATGAGACATGGATTAAATGCA
77186 AAAAATCATGAGACATGGATTAAATGCA
1 AAAAATCATGAGACATGGATTAAATGCA
77214 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAATCATGAGACATGGATTAAATGCA
Found at i:78776 original size:165 final size:165
Alignment explanation
Indices: 78503--78932 Score: 562
Period size: 165 Copynumber: 2.6 Consensus size: 165
78493 AGAGTTGAAA
* * *
78503 AATCTTCA-AATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCGATCAATCTTC
1 AATCTTCATAA-AACGGGTCTGCTCTCTATTCCTTTAGA-GAGTATAGA-ACTCGAACAATCTTC
** * * *
78565 GGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCA-ATAAACGG
63 AACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATA-AAACGG
* *
78629 GTCTGATCCCTATCCGTTCAGGGAGTATAGAACTCGAAC
127 GTCCGATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
*
78668 AATCTTCATAAAACGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
1 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
* * * * *
78733 AAACGGGTCCGCTCTCTATTCCTTCAAAGAGTATAAAACTCGAACAATCTTCATAAAATGGGTCC
66 AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATAAAACGGGTCC
* * * *
78798 GCTCTCTATTCTTTCAGAGAGTATAGAACTCGAAC
131 GATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
* * *
78833 AATCTTAATAAAATGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAC
1 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
* * *
78898 GAACTTGTCCGCTCCCTATTCGTTCAGAGAGTATA
66 AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATA
78933 TGACTCAATC
Statistics
Matches: 231, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
165 226 0.98
166 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (165 bp):
AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATAAAACGGGTCC
GATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
Found at i:78917 original size:55 final size:55
Alignment explanation
Indices: 78503--78932 Score: 462
Period size: 55 Copynumber: 7.8 Consensus size: 55
78493 AGAGTTGAAA
* * * *
78503 AATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCGATC
1 AATCTTCAACA-AACGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAGA-ACTCGAAC
** * * * *
78558 AATCTTCGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAAC
* * * *
78613 AATCTTCAATAAACGGGTCTGATCCCTA-TCCGTTCAGGGAGTATAGAACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAAC
* *
78668 AATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAAC
1 AATCTTCA-ACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* * *
78723 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAAAGAGTATAAAACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* * *
78778 AATCTTCATA-AAATGGGTCCGCTCTCTATTCTTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-ACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* * * *
78833 AATCTT-AATAAAATGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCAA-CAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* ** *
78888 AATCTTCAACGAACTTGTCCGCTCCCTATTCGTTCAGAGAGTATA
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
78933 TGACTCAATC
Statistics
Matches: 329, Mismatches: 35, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
53 1 0.00
54 4 0.01
55 315 0.96
56 9 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
Found at i:80337 original size:15 final size:14
Alignment explanation
Indices: 80319--80424 Score: 69
Period size: 14 Copynumber: 7.4 Consensus size: 14
80309 CATTTTTCTT
*
80319 TTTTTTTCGTTCTCA
1 TTTTTTTC-TTTTCA
80334 -TTTTTTCTATTTCA
1 TTTTTTTCT-TTTCA
80348 TTTTTTTCTTTTCA
1 TTTTTTTCTTTTCA
**
80362 -TTTTTTC-CATCA
1 TTTTTTTCTTTTCA
80374 TTTTTTTCATTATTTTCA
1 TTTTTTTC----TTTTCA
*
80392 TTTTTCAT-TTTTC-
1 TTTTT-TTCTTTTCA
*
80405 TTTTCTTCTTTTCA
1 TTTTTTTCTTTTCA
80419 TTTTTT
1 TTTTTT
80425 CATTATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
12 4 0.06
13 24 0.34
14 26 0.37
15 8 0.11
18 8 0.11
19 1 0.01
ACGTcount: A:0.10, C:0.16, G:0.01, T:0.73
Consensus pattern (14 bp):
TTTTTTTCTTTTCA
Found at i:80362 original size:28 final size:29
Alignment explanation
Indices: 80319--80425 Score: 91
Period size: 28 Copynumber: 3.8 Consensus size: 29
80309 CATTTTTCTT
* *
80319 TTTTTTTCGTTCTCATTTTTTCTATTTCA
1 TTTTTTTCATTTTCATTTTTTCTATTTCA
*
80348 TTTTTTTC-TTTTCATTTTTTCCA--TCA
1 TTTTTTTCATTTTCATTTTTTCTATTTCA
*
80374 TTTTTTTCATTATTTTCA-TTTTTCATTTTTC-
1 TTTTTTTC---ATTTTCATTTTTTC-TATTTCA
*
80405 TTTTCTTC-TTTTCATTTTTTC
1 TTTTTTTCATTTTCATTTTTTC
80426 ATTATTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
26 11 0.17
27 6 0.09
28 19 0.29
29 14 0.22
30 6 0.09
31 7 0.11
32 2 0.03
ACGTcount: A:0.10, C:0.17, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTTTTTCATTTTCATTTTTTCTATTTCA
Found at i:80404 original size:44 final size:44
Alignment explanation
Indices: 80302--80433 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 44
80292 TTTCTTTTCT
* *
80302 TTTTCATCATTTT-TCTTTTTTTTTCGT-TC-TCATTTTTTC--TA
1 TTTTCAT--TTTTATCTTTTCTTTTCTTCTCATCATTTTTTCATTA
*
80343 -TTTCATTTTTTTCTTTTCATTTT-TTC-CATCATTTTTTTCATTA
1 TTTTCATTTTTATCTTTTC-TTTTCTTCTCATCA-TTTTTTCATTA
**
80386 TTTTCATTTTTCAT-TTTTCTTTTCTTCTTTTCATTTTTTCATTA
1 TTTTCATTTTT-ATCTTTTCTTTTCTTCTCATCATTTTTTCATTA
80430 TTTT
1 TTTT
80434 TTCCCCTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
38 4 0.05
39 8 0.11
40 13 0.17
41 7 0.09
43 6 0.08
44 33 0.44
45 4 0.05
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.72
Consensus pattern (44 bp):
TTTTCATTTTTATCTTTTCTTTTCTTCTCATCATTTTTTCATTA
Found at i:80442 original size:27 final size:27
Alignment explanation
Indices: 80386--80443 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
80376 TTTTTCATTA
* **
80386 TTTTCATTTTTCATTTTTCTTTTCTTC
1 TTTTCATTTTTCATTATTCTTTTCCCC
80413 TTTTCATTTTTTCATTATT-TTTTCCCC
1 TTTTCA-TTTTTCATTATTCTTTTCCCC
80440 TTTT
1 TTTT
80444 TTATTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTCATTTTTCATTATTCTTTTCCCC
Found at i:80444 original size:28 final size:28
Alignment explanation
Indices: 80356--80449 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 28
80346 CATTTTTTTC
* * *
80356 TTTTCATTTTTTCCATCATTTTTTTCATT
1 TTTTCATTTTTT-CATTATTTTTTCCACT
* **
80385 ATTTTCA-TTTTTCATTTTTCTTTTCTTC-
1 -TTTTCATTTTTTCATTATT-TTTTCCACT
*
80413 TTTTCATTTTTTCATTATTTTTTCCCCT
1 TTTTCATTTTTTCATTATTTTTTCCACT
*
80441 TTTTTATTT
1 TTTTCATTT
80450 CTTCTTCAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
27 12 0.24
28 24 0.47
29 9 0.18
30 6 0.12
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTCATTTTTTCATTATTTTTTCCACT
Done.