Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003072.1 Hibiscus syriacus cultivar Beakdansim tig00006405_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: 215542
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3879 original size:21 final size:21
Alignment explanation
Indices: 3850--3906 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
3840 TTGTGCTTAA
3850 TGCATCGATACACCTTGAAGG
1 TGCATCGATACACCTTGAAGG
* * *
3871 TGCACCGATGCACTCCTTGAATG
1 TGCATCGAT--ACACCTTGAAGG
3894 TGCATCGATACAC
1 TGCATCGATACAC
3907 TCATCGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.38
23 18 0.62
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAGG
Found at i:6151 original size:14 final size:14
Alignment explanation
Indices: 6132--6160 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6122 AGTTGTTAAA
6132 GTTGTTATAGTAAG
1 GTTGTTATAGTAAG
6146 GTTGTTATAGTAAG
1 GTTGTTATAGTAAG
6160 G
1 G
6161 GGGTAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
GTTGTTATAGTAAG
Found at i:6447 original size:9 final size:9
Alignment explanation
Indices: 6428--6459 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
6418 ACAATTTTCA
6428 CAAAGTATTT
1 CAAAGT-TTT
6438 CAAAGTTTT
1 CAAAGTTTT
6447 CAAAGTTTT
1 CAAAGTTTT
6456 CAAA
1 CAAA
6460 AATAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (9 bp):
CAAAGTTTT
Found at i:6470 original size:29 final size:30
Alignment explanation
Indices: 6422--6480 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
6412 TTTGAAACAA
* *
6422 TTTTCACAAAGTATTTCAAAGT-TTTCAAAG
1 TTTTCACAAAATAATTCAAAGTCTTT-AAAG
6452 TTTTCA-AAAATAATTCAAAGTCTTTAAAG
1 TTTTCACAAAATAATTCAAAGTCTTTAAAG
6481 CTTGGAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (30 bp):
TTTTCACAAAATAATTCAAAGTCTTTAAAG
Found at i:8627 original size:3 final size:3
Alignment explanation
Indices: 8619--8649 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8609 GAATTGAAAT
8619 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8650 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8660 original size:18 final size:17
Alignment explanation
Indices: 8615--8675 Score: 81
Period size: 18 Copynumber: 3.6 Consensus size: 17
8605 GGAAGAATTG
8615 AAATATAATAATAATAAT
1 AAATA-AATAATAATAAT
8633 -AAT-AATAATAATAAT
1 AAATAAATAATAATAAT
*
8648 AAATAAATAAATAAAAAT
1 AAATAAAT-AATAATAAT
8666 AAATAAATAA
1 AAATAAATAA
8676 GAGAGAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 12 0.31
16 3 0.08
17 8 0.21
18 16 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAAATAATAATAAT
Found at i:26558 original size:15 final size:15
Alignment explanation
Indices: 26538--26568 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26528 CCAAAGCATT
26538 AGGATTAGATAATGA
1 AGGATTAGATAATGA
26553 AGGATTAGATAATGA
1 AGGATTAGATAATGA
26568 A
1 A
26569 AAACTTACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
AGGATTAGATAATGA
Found at i:30452 original size:14 final size:14
Alignment explanation
Indices: 30427--30464 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
30417 TAATTTATTC
30427 AATATTAGTTATGTAA
1 AATATTA-TTAT-TAA
30443 AA-ATTATTATTAA
1 AATATTATTATTAA
30456 AATATTATT
1 AATATTATT
30465 TATATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 4 0.19
16 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:30531 original size:34 final size:35
Alignment explanation
Indices: 30464--30563 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 35
30454 AAAATATTAT
30464 TTATA-TAATT-TTA-TAAATAAAAAATATTA-AAA
1 TTATATTAATTATTATTAAAT-AAAAATATTATAAA
*
30496 TTA-ATTTATTA-TATTGAAATAAAAATATTATAAA
1 TTATATTAATTATTATT-AAATAAAAATATTATAAA
30530 TTATATTAATTATTTATTAAATAAAAATATTATA
1 TTATATTAATTA-TTATTAAATAAAAATATTATA
30564 TTATAAAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
31 1 0.02
32 9 0.16
33 11 0.19
34 10 0.17
35 7 0.12
36 16 0.28
37 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
TTATATTAATTATTATTAAATAAAAATATTATAAA
Found at i:30562 original size:16 final size:16
Alignment explanation
Indices: 30507--30584 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 16
30497 TAATTTATTA
30507 TATTGAAATAAAAATAT
1 TATT-AAATAAAAATAT
*
30524 TA-TAAATTATATTAATTATT
1 TATTAAA-TA-A--AAATA-T
30544 TATTAAATAAAAATAT
1 TATTAAATAAAAATAT
*
30560 TA-TATTATAAAAATAT
1 TATTA-AATAAAAATAT
*
30576 TATAAAATA
1 TATTAAATA
30585 TATTTTATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
15 5 0.10
16 21 0.44
17 8 0.17
19 5 0.10
20 5 0.10
21 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (16 bp):
TATTAAATAAAAATAT
Found at i:30577 original size:11 final size:12
Alignment explanation
Indices: 30560--30588 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
30550 ATAAAAATAT
30560 TATATTATAAAA
1 TATATTATAAAA
30572 -ATATTATAAAA
1 TATATTATAAAA
30583 TATATT
1 TATATT
30589 TTATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATTATAAAA
Found at i:30578 original size:36 final size:37
Alignment explanation
Indices: 30501--30579 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
30491 TAAAATTAAT
**
30501 TTATTATATTGAAATAAAAATATTATAAATTATATTAA
1 TTATTATATTGAAATAAAAATATTAT-AATTATAAAAA
30539 TTATT-TATT-AAATAAAAATATTAT-ATTATAAAAA
1 TTATTATATTGAAATAAAAATATTATAATTATAAAAA
30573 -TATTATA
1 TTATTATA
30580 AAATATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 4 0.11
34 10 0.26
36 15 0.39
37 4 0.11
38 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (37 bp):
TTATTATATTGAAATAAAAATATTATAATTATAAAAA
Found at i:30730 original size:59 final size:60
Alignment explanation
Indices: 30664--30778 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
30654 TAAAGAACGT
30664 AAATAGTC-CCCGACTATAGGGTACTACTTTATTAAGTCCCTTGACTATTAAAAGTAACA
1 AAATAGTCACCCGACTATAGGGTACTACTTTATTAAGTCCCTTGACTATTAAAAGTAACA
** * ** * * * *
30723 AAATAGTCATTCGACTATGGGGTGTTGCTTTGTTGAGTCCGTTGACTATTAAAAGT
1 AAATAGTCACCCGACTATAGGGTACTACTTTATTAAGTCCCTTGACTATTAAAAGT
30779 TATAAAATGA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 8 0.17
60 38 0.83
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (60 bp):
AAATAGTCACCCGACTATAGGGTACTACTTTATTAAGTCCCTTGACTATTAAAAGTAACA
Found at i:32458 original size:64 final size:64
Alignment explanation
Indices: 32352--32473 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
32342 ATATCTTCGG
* *
32352 GAGTGTATCGATACCCCCTTGAAATGGAAAACACCAAGTGTAATTTGGGTATCGATACCTTCAT
1 GAGTGTATCGATACCCCCTTGAAATGGAAAACACCAAGTGTAATTTGGGCACCGATACCTTCAT
* * *
32416 GAGTGTATCGATACCCCCTTTAAGAT-GAAAACTTCGAA-TGTAATTTGGGCACCGATAC
1 GAGTGTATCGATACCCCCTTGAA-ATGGAAAAC-ACCAAGTGTAATTTGGGCACCGATAC
32474 ATAGGTAGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 46 0.90
65 5 0.10
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GAGTGTATCGATACCCCCTTGAAATGGAAAACACCAAGTGTAATTTGGGCACCGATACCTTCAT
Found at i:33076 original size:18 final size:18
Alignment explanation
Indices: 33053--33087 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33043 AGGGATTAAC
*
33053 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
33071 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
33088 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:37027 original size:31 final size:29
Alignment explanation
Indices: 36963--37046 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
36953 TAAAATTTAT
* * *
36963 AACTTTTAAAA-TTACATTTTTGGTCCCTA
1 AACTTTTAAAACTTATA-TTTTAGTCACTA
*
36992 AACTTTTACAAAGTTTATATTTTAGTCACTA
1 AACTTTTA-AAA-CTTATATTTTAGTCACTA
*
37023 AACTTTTAGAACTTATATTTTAGT
1 AACTTTTAAAACTTATATTTTAGT
37047 TGCTAGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 20 0.43
30 5 0.11
31 18 0.38
32 4 0.09
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.46
Consensus pattern (29 bp):
AACTTTTAAAACTTATATTTTAGTCACTA
Found at i:39361 original size:20 final size:20
Alignment explanation
Indices: 39332--39384 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
39322 GCAGCCTTCG
*
39332 TGCATGGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
* *
39352 TGCATCGATGCATAGCAGGA
1 TGCATCGATGCACAACAGGA
39372 TGCATCGATGCAC
1 TGCATCGATGCAC
39385 TAAGTGCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:40071 original size:20 final size:20
Alignment explanation
Indices: 40046--40083 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
40036 ACTTTATGCA
*
40046 ATACCAATTGTTTAAATTTG
1 ATACCAATTGTTAAAATTTG
40066 ATACCAATTGTTAAAATT
1 ATACCAATTGTTAAAATT
40084 AAGTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
ATACCAATTGTTAAAATTTG
Found at i:40901 original size:19 final size:20
Alignment explanation
Indices: 40858--40905 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
40848 TCTAAATCCT
*
40858 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
40878 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
40897 TTTTCAAAA
1 TTTTCAAAA
40906 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:42318 original size:21 final size:21
Alignment explanation
Indices: 42292--42347 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
42282 CACTAGTGCA
42292 GGTGCATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
42313 GGTGCATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
42334 GGTGCATGGATGCA
1 GGTGCATGGATGCA
42348 ATTTGACACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.43, T:0.20
Consensus pattern (21 bp):
GGTGCATGGATGCACTGCAGG
Found at i:44980 original size:16 final size:17
Alignment explanation
Indices: 44959--44992 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44949 TTAAATAATT
44959 AAAAATA-ATTTTATAA
1 AAAAATATATTTTATAA
44975 AAAAATATTATTTTATAA
1 AAAAATA-TATTTTATAA
44993 TCATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAATATATTTTATAA
Found at i:45782 original size:2 final size:2
Alignment explanation
Indices: 45775--45809 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
45765 ACACCTAAAT
45775 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45810 GAATTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:51460 original size:139 final size:135
Alignment explanation
Indices: 51252--51526 Score: 514
Period size: 139 Copynumber: 2.0 Consensus size: 135
51242 ACTTCTGCCA
51252 TTCACATAGTGCGTGTCGTGCACATGTGACGCTTCTTGCAGGGTGAGGGTGGAGGTCCAGGTTTC
1 TTCACATAGTGCGTGTCGTGCACATGTGACGCTTCTTGCAGGGTGAGGGTGGAGGTCCAGGTTTC
51317 TGCAGAATCAGTTTGCAAATGGTTCAGAACTGGAGGAACTTGGAGACTGAGATAAGGCAGGACCT
66 TGCAGAATCAGTTTGCAAATGGTTCAGAACTGGAGGAACTTGGAGACTGAGATAAGGCAGGACCT
51382 GAACC
131 GAACC
51387 TTCACATAGTGCGTGTCGTGCACATGTGACACTTGCTTCTTGCAGGGTGAGGGTGGAGGTCCAGG
1 TTCACATAGTGCGTGTCGTGCACATGTG--AC--GCTTCTTGCAGGGTGAGGGTGGAGGTCCAGG
51452 TTTCTGCAGAATCAGTTTGCAAATGGTTCAGAACTGGAGGAACTTGGAGACTGAGATAAGGCAGG
62 TTTCTGCAGAATCAGTTTGCAAATGGTTCAGAACTGGAGGAACTTGGAGACTGAGATAAGGCAGG
51517 ACCTGAACC
127 ACCTGAACC
51526 T
1 T
51527 GACCCTTTTG
Statistics
Matches: 136, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
135 28 0.21
137 2 0.01
139 106 0.78
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (135 bp):
TTCACATAGTGCGTGTCGTGCACATGTGACGCTTCTTGCAGGGTGAGGGTGGAGGTCCAGGTTTC
TGCAGAATCAGTTTGCAAATGGTTCAGAACTGGAGGAACTTGGAGACTGAGATAAGGCAGGACCT
GAACC
Found at i:59882 original size:4 final size:4
Alignment explanation
Indices: 59875--59922 Score: 78
Period size: 4 Copynumber: 11.5 Consensus size: 4
59865 ACATCAACAT
59875 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACTTAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A--TAC ATAC AT
59923 GTTACATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 38 0.90
6 4 0.10
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:60424 original size:36 final size:35
Alignment explanation
Indices: 60336--60434 Score: 128
Period size: 36 Copynumber: 2.8 Consensus size: 35
60326 AGTTTCCTTC
*
60336 GAAAACAAATTTTGTCTCGCTTGAGAC-AGTTCTT
1 GAAAACAAATTTTGTCTCGCTTGAGACAAGTTATT
* * *
60370 GAAAAACAAATTTTGTCTCACTTAAGACAATTTATCT
1 G-AAAACAAATTTTGTCTCGCTTGAGACAAGTTAT-T
*
60407 GAAAACAAATTTCGTCTCGCTTGAGACA
1 GAAAACAAATTTTGTCTCGCTTGAGACA
60435 TTTTTCCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.02
35 24 0.44
36 28 0.51
37 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (35 bp):
GAAAACAAATTTTGTCTCGCTTGAGACAAGTTATT
Found at i:60527 original size:105 final size:105
Alignment explanation
Indices: 60408--60693 Score: 443
Period size: 106 Copynumber: 2.7 Consensus size: 105
60398 AATTTATCTG
60408 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACT
*
60473 TGAAACAAAATTAATCTCACTTGAGATTGTTGTTTTTTTA
66 TGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
* *
60513 AAAACAAATTTCGTCTCGCTTGGGACATTTTTTTCCTTTGA-AAACAAATTTTGAATTTGCTTCA
1 AAAACAAATTTCGTCTCGCTTGAGACA--TTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCA
*
60577 CTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
64 CTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
* * * * *
60619 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCTATGAGATACAAA-TTTAAATTTG-TTGTAT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTT-CAC
60682 TTGAAACAAAAT
65 TTGAAACAAAAT
60694 AAACACCTTT
Statistics
Matches: 166, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
103 2 0.01
104 32 0.19
105 32 0.19
106 88 0.53
107 12 0.07
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (105 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACT
TGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
Found at i:61364 original size:64 final size:62
Alignment explanation
Indices: 61289--61440 Score: 180
Period size: 64 Copynumber: 2.4 Consensus size: 62
61279 AAGATCATCG
* * *
61289 TTGAGCTTGTTTCTCTGGAAACAATGTTT-TATCCCTTAAAACAATTTCTTTTGAAGAAAAATCT
1 TTGAGTTTGTTTCTTTGGAAACAAT-TTTCTATCCCTCAAAACAATTTC-TTTG-AGAAAAATCT
* * * * *
61353 TTGAGTTTGTTTCTTTGGAAACAAAATTTTCTGTCTCTCGAGACAGTTTCTTTGAGAAAAATCT
1 TTGAGTTTGTTTCTTTGGAAAC--AATTTTCTATCCCTCAAAACAATTTCTTTGAGAAAAATCT
61417 TTGAGTTTGTTTCTTTGGAAACAA
1 TTGAGTTTGTTTCTTTGGAAACAA
61441 AATTTACCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
62 2 0.03
64 52 0.68
65 7 0.09
66 16 0.21
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (62 bp):
TTGAGTTTGTTTCTTTGGAAACAATTTTCTATCCCTCAAAACAATTTCTTTGAGAAAAATCT
Found at i:61464 original size:36 final size:34
Alignment explanation
Indices: 61413--61508 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
61403 TTTGAGAAAA
* * * *
61413 ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTACC
1 ATCTTTGAATCTGTTTCTTT-GAAACAAAA-TAAAC
*
61449 ATCTTTGAATCTGTTTCCCTTGAAACAAAATAAAC
1 ATCTTTGAATCTGTTT-CTTTGAAACAAAATAAAC
61484 ATCTTTGAGATC-GTTTCTCTTGAAA
1 ATCTTTGA-ATCTGTTTCT-TTGAAA
61509 TGAATTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.02
35 21 0.41
36 26 0.51
37 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (34 bp):
ATCTTTGAATCTGTTTCTTTGAAACAAAATAAAC
Found at i:61500 original size:35 final size:36
Alignment explanation
Indices: 61434--61508 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
61424 TGTTTCTTTG
* *
61434 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
61470 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
61505 GAAA
1 GAAA
61509 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:61750 original size:28 final size:28
Alignment explanation
Indices: 61679--61760 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
61669 TAAAAATATC
* * *
61679 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
61707 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
61735 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
61761 CATAACTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:61850 original size:46 final size:42
Alignment explanation
Indices: 61778--62069 Score: 177
Period size: 40 Copynumber: 6.7 Consensus size: 42
61768 CCATAGATAA
* *
61778 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGG
1 CCAGACGTCCTCATCACGTAGGAACCGTGTCATC-CCT--AGAT-G
* * *
61824 CTAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGA--
1 CCAGACGTCCTCATCACGTAGGAACCGTGTCATCCCTAGATG
* * *
61864 CCAGACCTCCCCATCACGTAGGAGCCGTGTCA-CCCTTAGATAG
1 CCAGACGTCCTCATCACGTAGGAACCGTGTCATCCC-TAGAT-G
* *
61907 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCGCCCTACCTAAAGATG
1 CCAGACGTCCTCATCACGTAGGAACCGTGTCAT----C--CCT--AGATG
* * * *
61957 TCCAGAAC-TCTTCATCACGTATGAGCAGTGTCATCCCCT-GA--
1 -CCAG-ACGTCCTCATCACGTAGGAACCGTGTCAT-CCCTAGATG
* * * * *
61998 CCAGACCTCCTCATCACGTAGGAGCCGCGTCAT-CTTAGATAA
1 CCAGACGTCCTCATCACGTAGGAACCGTGTCATCCCTAGAT-G
* *
62040 CCAGCCGTCCTCATCACGTAGGAATCGTGT
1 CCAGACGTCCTCATCACGTAGGAACCGTGT
62070 TATCACTCCT
Statistics
Matches: 195, Mismatches: 31, Indels: 44
0.72 0.11 0.16
Matches are distributed among these distances:
38 2 0.01
39 7 0.04
40 56 0.29
42 25 0.13
43 31 0.16
45 3 0.02
46 34 0.17
48 3 0.02
49 1 0.01
50 3 0.02
51 29 0.15
52 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.23
Consensus pattern (42 bp):
CCAGACGTCCTCATCACGTAGGAACCGTGTCATCCCTAGATG
Found at i:62095 original size:133 final size:133
Alignment explanation
Indices: 61771--62153 Score: 501
Period size: 133 Copynumber: 2.9 Consensus size: 133
61761 CATAACTCCA
* * *
61771 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA----CCTAAAGATGGCTAG-TCG
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCTAAAGATGACCAGAAC-
* * * * * *
61831 TCCTCATCACGTAGGAACCGTGTCAT-CCCTCGACCAGACCTCCCCATCACGTAGGAGCCGTGTC
65 TCTTCATCACGTATGAGCAGTGTCATCCCCT-GACCAGACCTCCTCATCACGTAGGAGCCGCGTC
61895 ACCCT
129 ACCCT
* * *
61900 TAGATAGCCAGCCGTCCTCATCACGTAGGAACCGTGTTATCGCCCTACCTAAAGATGTCCAGAAC
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCT-CCTAAAGATGACCAGAAC
61965 TCTTCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGCGTCA
65 TCTTCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGCGTCA
*
62030 -TCT
130 CCCT
*
62033 TAGATAACCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACTCCTCCTAAAGATGACCAGAAC
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCAC-CCTCCTAAAGATGACCAGAAC
* * * ** *
62098 TCTTCATCATGTATGAGCAGTGTCATCCCTTGATCAGATTTCCTCATCATGTAGGA
65 TCTTCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGA
62154 ACATTGTCAC
Statistics
Matches: 224, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
129 40 0.18
133 109 0.49
134 70 0.31
135 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (133 bp):
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCTAAAGATGACCAGAACT
CTTCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGCGTCAC
CCT
Found at i:73914 original size:20 final size:21
Alignment explanation
Indices: 73889--73934 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
73879 GTTGTGGTCG
73889 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
* *
73909 TTTCTAGTCGTTTGGGGATGT
1 TTTCTAGCCGTTTGGGGATGA
73930 TTTCT
1 TTTCT
73935 CTGCAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATGA
Found at i:75754 original size:22 final size:23
Alignment explanation
Indices: 75728--75776 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
75718 GTGTTATGTA
75728 ATAT-AGTTCT-AAATATATATAT
1 ATATAAGTTCTAAAATATAT-TAT
* *
75750 ATATAATTTTTAAAATATATTAT
1 ATATAAGTTCTAAAATATATTAT
75773 ATAT
1 ATAT
75777 TTGTGGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 8 0.35
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATAAGTTCTAAAATATATTAT
Found at i:81624 original size:93 final size:92
Alignment explanation
Indices: 81516--81690 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 92
81506 TTCAAAAAGC
* * * ** * * *
81516 GTTTTCAAAATTATATATTATGTGTTTTTTTAAAATATTTTTTAAAAAAAACTATATATTATATA
1 GTTTTCAAAACTATATATTATATATAGTTTCAAAAAATATTTT--AAAAAACTATATATTATATA
**
81581 TGTTTTC-AAAAATGTTTTTAAAAACAAT
64 CATTTTCAAAAAATGTTTTTAAAAACAAT
**
81609 GTTTTCAAAACTATATATTATATATAGTTTCAAAAAATATTTTCCAAAACTATATATTATATACA
1 GTTTTCAAAACTATATATTATATATAGTTTCAAAAAATATTTTAAAAAACTATATATTATATACA
81674 TTTTCAAAAAATGTTTT
66 TTTTCAAAAAATGTTTT
81691 CCAAAACTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
91 23 0.33
92 11 0.16
93 35 0.51
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (92 bp):
GTTTTCAAAACTATATATTATATATAGTTTCAAAAAATATTTTAAAAAACTATATATTATATACA
TTTTCAAAAAATGTTTTTAAAAACAAT
Found at i:81657 original size:39 final size:38
Alignment explanation
Indices: 81596--81780 Score: 256
Period size: 39 Copynumber: 4.9 Consensus size: 38
81586 TCAAAAATGT
* *
81596 TTTTAAAAACAATGTTTTCAAAACTATATATTATATATA
1 TTTTCAAAA-AATGTTTTCAAAACTATATATTATATACA
* *
81635 GTTTCAAAAAATATTTTCCAAAACTATATATTATATACA
1 TTTTCAAAAAATGTTTT-CAAAACTATATATTATATACA
*
81674 TTTTCAAAAAATGTTTTCCAAAACTATATATTATATATA
1 TTTTCAAAAAATGTTTT-CAAAACTATATATTATATACA
81713 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
81751 TTTTC----AA-G-TTTCAAAACTATATATTATATA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATA
81781 TGTTATATAT
Statistics
Matches: 137, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
32 22 0.16
33 1 0.01
34 2 0.01
38 32 0.23
39 80 0.58
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (38 bp):
TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
Found at i:82544 original size:17 final size:17
Alignment explanation
Indices: 82501--82551 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
82491 ATATCGAGGG
* *
82501 AAAAATTAATTAAATAA
1 AAAAATAAATAAAATAA
*
82518 AAAGGA-AAATAAAATAA
1 AAA-AATAAATAAAATAA
*
82535 AAAAATAAATCAAATAA
1 AAAAATAAATAAAATAA
82552 GGGGGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAATAAATAAAATAA
Found at i:82550 original size:34 final size:35
Alignment explanation
Indices: 82501--82573 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
82491 ATATCGAGGG
* *
82501 AAAAATTAATTAAATAAAAAGGAAAAT-AAAATAA
1 AAAAATAAATCAAATAAAAAGGAAAATAAAAATAA
***
82535 AAAAATAAATCAAATAAGGGGGAAAATAAAAATAA
1 AAAAATAAATCAAATAAAAAGGAAAATAAAAATAA
82570 AAAA
1 AAAA
82574 GTTATCTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.73, C:0.01, G:0.10, T:0.16
Consensus pattern (35 bp):
AAAAATAAATCAAATAAAAAGGAAAATAAAAATAA
Found at i:82723 original size:21 final size:20
Alignment explanation
Indices: 82677--82734 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
82667 AGAGAAAAAA
*
82677 TAAAAACAAAATAAAAAAGTG
1 TAAAAATAAAAT-AAAAAGTG
*
82698 AAAAAATAAAATAAAAAGTG
1 TAAAAATAAAATAAAAAGTG
*
82718 TTAAAATTAAAAATAAA
1 -TAAAAAT-AAAATAAA
82735 TAAATATGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 8 0.26
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
TAAAAATAAAATAAAAAGTG
Found at i:83932 original size:24 final size:23
Alignment explanation
Indices: 83888--83932 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
83878 AATAAAATAA
***
83888 TAAATATATATATATTTATATGT
1 TAAATATATATATAAAAATATGT
83911 TAAATATACTATATAAAAATAT
1 TAAATATA-TATATAAAAATAT
83933 TATAAATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATATATATATAAAAATATGT
Found at i:84594 original size:84 final size:84
Alignment explanation
Indices: 84481--84879 Score: 437
Period size: 84 Copynumber: 4.8 Consensus size: 84
84471 AACTCGATAA
* * * * *
84481 TTTTATTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGT
1 TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
84546 GTAATCGAACTCGCAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * * * * * * **
84565 TTTTATTGGTAGATAGCCTTTCTTTCCTTGAGCTAAGTTGTAAATGACGTGCCTTTGAGCTGAAT
1 TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
84630 TTAATCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * * * *
84649 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATAATGTGCCATGGAGTTGAGC
1 TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
84714 GTAGT-GAACT--AAGATA
66 GTAATCGAACTCGAAGGTC
** * * * *
84730 TTTGGTTAGCAGATAACCCTTTTTGCCTTGAGCTATACTGCAAGTGATGTGCCTTGGAGCTGAGC
1 TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
84795 GTAGTCGAACTCGAA-GTC
66 GTAATCGAACTCGAAGGTC
* *
84813 TTTTATTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
84878 GT
66 GT
84880 TTTGTTGAAA
Statistics
Matches: 257, Mismatches: 55, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
81 63 0.25
82 5 0.02
83 65 0.25
84 124 0.48
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (84 bp):
TTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAATCGAACTCGAAGGTC
Found at i:85008 original size:146 final size:147
Alignment explanation
Indices: 84742--85025 Score: 387
Period size: 146 Copynumber: 1.9 Consensus size: 147
84732 TGGTTAGCAG
* * * *
84742 ATAACCCTTTTTGCCTTGAGCTATACTGCAAGTGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTTTTGCCTTGAGCTATACTACAAATGA-GTGCCTTGGAGCTGAGCGTAATCAAACTC
* *
84807 GAAGTCTTTTATTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAG
65 GAAGTCTTTTATTGACAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAG
84872 CTGAGCGTTTTGTTGAAA
130 CTGAGCGTTTTGTTGAAA
* * *
84890 ATAACCCTTATTT-CCTTGAGCTATATTACAAATGA-TGCCTTTGAGCTGAGTGTAATCAAACTC
1 ATAACCCTT-TTTGCCTTGAGCTATACTACAAATGAGTGCCTTGGAGCTGAGCGTAATCAAACTC
* * * *
84953 GAAGGTC-TTTATTGACAGATAACCCTT-TTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTG
65 GAA-GTCTTTTATTGACAAATAACCCTTCTT-GCCTTGAGCTATGCTGCAAATGATGTGCCTTGG
85016 AGCTGAGCGT
128 AGCTGAGCGT
85026 AGTCGAACTC
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
145 2 0.02
146 84 0.70
147 3 0.03
148 28 0.23
149 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (147 bp):
ATAACCCTTTTTGCCTTGAGCTATACTACAAATGAGTGCCTTGGAGCTGAGCGTAATCAAACTCG
AAGTCTTTTATTGACAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGC
TGAGCGTTTTGTTGAAA
Found at i:85088 original size:84 final size:84
Alignment explanation
Indices: 84890--85341 Score: 493
Period size: 84 Copynumber: 5.4 Consensus size: 84
84880 TTTGTTGAAA
* * * * * * *
84890 ATAACCCTTATT-TCCTTGAGCTATATTACAAATG--ATGCCTTTGAGCTGAGTGTAATCAAACT
1 ATAACCCTT-TTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACT
* *
84952 CGAAGGTC-TTTATTGACAG
65 CGAAGGTCTTTTGTTGGCAG
* * *
84971 ATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTTTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTC
85036 GAAGGTCTTTTGTTGGCAG
66 GAAGGTCTTTTGTTGGCAG
* * * * * *
85055 ATAACCCTTTTCGCCTTGAGTTATACTGCAAATGTTATTCCTTTGAGTTGAGCATAGTCGAACTT
1 ATAACCCTTTTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
85120 TAAGGTCTTTGGTTGGTAG
66 GAAGGTCTTTTGTTGGCAG
* * * *
85139 ATAACCCTTCTAGTCTTGAGTTATACTGTAAATGATATGCCTTTCAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTTTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
85204 GAATGTCTTTTGTTTGCAA
66 GAAGGTCTTTTGTTGGCAG
* * ** ** * * *
85223 ATAGCCCTTCTT-GCCTTGAGCTATGTTATAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACT
1 ATAACCCTT-TTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACT
85287 CGAAGGTCTTTT-TTGGCAG
65 CGAAGGTCTTTTGTTGGCAG
* *
85306 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
1 ATAACCCTTTTAGCCTTGAGTTATACTGCAAATGAT
85342 TTCTTTAAAA
Statistics
Matches: 305, Mismatches: 60, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.01
81 25 0.08
82 1 0.00
83 65 0.21
84 211 0.69
85 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (84 bp):
ATAACCCTTTTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGTTGGCAG
Found at i:85159 original size:168 final size:167
Alignment explanation
Indices: 84879--85341 Score: 556
Period size: 168 Copynumber: 2.8 Consensus size: 167
84869 GAGCTGAGCG
* * * * * *
84879 TTTTGTT-GAAAATAACCCTTATTTCCTTGAGCTATATTACAAATG--ATGCCTTTGAGCTGAGT
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATACTACAAATGATATGCCTTGGAGCTGAGC
* * * * *
84941 GTAATCAAACTCGAAGGTCTTTATTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGA
66 ATAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
* *
85006 TGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC
131 TATGCCTTTCAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * * * *
85043 TTTTGTTGGCAGATAACCCTT-TTCGCCTTGAGTTATACTGCAAATGTTATTCCTTTGAGTTGAG
1 TTTTGTTGGCAAATAACCCTTCTT-GCCTTGAGCTATACTACAAATGATATGCCTTGGAGCTGAG
* ** * * *
85107 CATAGTCGAACTTTAAGGTCTTTGGTTGGTAGATAACCCTTCTAGTCTTGAGTTATACTGTAAAT
65 CATAGTCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
*
85172 GATATGCCTTTCAGCTGAGCGTAGTCGAACTCGAATGTC
129 GATATGCCTTTCAGCTGAGCGTAGTCGAACTCGAAGGTC
* * ** * *
85211 TTTTGTTTGCAAATAGCCCTTCTTGCCTTGAGCTATGTTATAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATACTACAAATGATATGCCTTGGAGCTGAGC
* * *
85276 GTAGTCAAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
66 ATAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
85341 T
131 T
85342 TTCTTTAAAA
Statistics
Matches: 248, Mismatches: 45, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
164 9 0.04
165 29 0.12
167 70 0.28
168 138 0.56
169 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (167 bp):
TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATACTACAAATGATATGCCTTGGAGCTGAGC
ATAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
TATGCCTTTCAGCTGAGCGTAGTCGAACTCGAAGGTC
Found at i:86651 original size:95 final size:94
Alignment explanation
Indices: 86460--86712 Score: 282
Period size: 95 Copynumber: 2.7 Consensus size: 94
86450 AGCTGAATCT
* * * * *
86460 ATAAAGCCGGGGTGTTTAACCAATTGCA-CTAGAGGGACAGCTTAATATCATTGTATAG-ATATT
1 ATAAAGCC-GGGCGTTTAACCAATTG-ATCTAGAGGGACAAC-TCA-AGC-TT-TATTGTATATT
* * *
86523 ATATTCTCCTTTATCAGGCTAGCTGAATATTATCC
60 ATAATCACCTTTATCAGGCTAACTGAATATTATCC
86558 ATAAAGCCGAGGCGTTTAACCAATTGATCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
1 ATAAAGCCG-GGCGTTTAACCAATTGATCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
*
86623 CACCTTTATCAGGCTAACTGAATTTTATCC
65 CACCTTTATCAGGCTAACTGAATATTATCC
* * * *
86653 ATAAAG-TGGGCGTTTAACCAATTGCTTTAGAGGGA-TA-TCAAGCTTTATTGTATATATATA
1 ATAAAGCCGGGCGTTTAACCAATTGATCTAGAGGGACAACTCAAGCTTTATTGTATAT-TATA
86713 TATTATTATA
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
91 18 0.13
92 5 0.04
93 25 0.18
94 5 0.04
95 44 0.32
96 2 0.01
97 4 0.03
98 35 0.25
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (94 bp):
ATAAAGCCGGGCGTTTAACCAATTGATCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATC
ACCTTTATCAGGCTAACTGAATATTATCC
Found at i:89481 original size:16 final size:17
Alignment explanation
Indices: 89460--89495 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
89450 TTATATTTTA
89460 AAATAAATAATAA-AAT
1 AAATAAATAATAATAAT
89476 AAATAAATAATAATAAT
1 AAATAAATAATAATAAT
89493 AAA
1 AAA
89496 AATGTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAATAATAAT
Found at i:89537 original size:25 final size:25
Alignment explanation
Indices: 89509--89557 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
89499 GTTAAGAGAG
*
89509 AAAAAAAAATGAAATAAAAAAGTGA
1 AAAAAAAAATAAAATAAAAAAGTGA
*
89534 AAAATAAAATAAAATAAAAAAGTG
1 AAAAAAAAATAAAATAAAAAAGTG
89558 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (25 bp):
AAAAAAAAATAAAATAAAAAAGTGA
Found at i:91965 original size:14 final size:14
Alignment explanation
Indices: 91946--91978 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
91936 TCACAGGCTA
91946 GACTCTTTCCATCC
1 GACTCTTTCCATCC
91960 GACTCTTTCCATCC
1 GACTCTTTCCATCC
*
91974 AACTC
1 GACTC
91979 ATTATTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.42, G:0.06, T:0.33
Consensus pattern (14 bp):
GACTCTTTCCATCC
Found at i:98929 original size:39 final size:38
Alignment explanation
Indices: 98836--99094 Score: 323
Period size: 39 Copynumber: 6.8 Consensus size: 38
98826 AGAAAACAAG
98836 GTTT-CAAAACTATATATTATATATATTTTCAAAAAAAAT
1 GTTTCCAAAACTATATATTATATATATTTTC--AAAAAAT
*
98875 GTTTTCAAAACTATATATTGA-ATATA-TTTCAAAAAAT
1 GTTTCCAAAACTATATATT-ATATATATTTTCAAAAAAT
98912 GTTTCCAAAACTATATATTATATATATTTTCAAAAAAT
1 GTTTCCAAAACTATATATTATATATATTTTCAAAAAAT
* ** *
98950 ATTTTCCAAAACTATATATTATATACGTTTTCGAAAAAT
1 -GTTTCCAAAACTATATATTATATATATTTTCAAAAAAT
98989 GTTTTCCAAAACTATATATTATAT-T-TTTTCAAAAAAT
1 G-TTTCCAAAACTATATATTATATATATTTTCAAAAAAT
* * *
99026 GTTTTCAAAATTATATATTATATATATATATTC-AATAAT
1 GTTTCCAAAACTATATATTATATATAT-T-TTCAAAAAAT
* *
99065 GTTTCAAAAAGTATATATTATATATATTTT
1 GTTTCCAAAACTATATATTATATATATTTT
99095 TGAAATGAGT
Statistics
Matches: 196, Mismatches: 14, Indels: 22
0.84 0.06 0.09
Matches are distributed among these distances:
36 21 0.11
37 45 0.23
38 13 0.07
39 94 0.48
40 22 0.11
41 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
GTTTCCAAAACTATATATTATATATATTTTCAAAAAAT
Found at i:99932 original size:27 final size:28
Alignment explanation
Indices: 99876--99947 Score: 128
Period size: 27 Copynumber: 2.6 Consensus size: 28
99866 AATTTATAAT
*
99876 AATATTAGTATCATTTGTTTTTTTATTA
1 AATATTAATATCATTTGTTTTTTTATTA
99904 AATATTAATATCATTTG-TTTTTTATTA
1 AATATTAATATCATTTGTTTTTTTATTA
99931 AATATTAATATCATTTG
1 AATATTAATATCATTTG
99948 AATTAATACT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 27 0.63
28 16 0.37
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (28 bp):
AATATTAATATCATTTGTTTTTTTATTA
Found at i:101160 original size:23 final size:21
Alignment explanation
Indices: 101114--101166 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
101104 AAAGAATCGA
101114 AAAACATGTCAAAAGCATAAG
1 AAAACATGTCAAAAGCATAAG
* *
101135 AAAACATGTCATACATGCATATG
1 AAAACATGTCA-A-AAGCATAAG
101158 AAAACATGT
1 AAAACATGT
101167 AACACATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.39
22 1 0.04
23 16 0.57
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (21 bp):
AAAACATGTCAAAAGCATAAG
Found at i:101173 original size:23 final size:23
Alignment explanation
Indices: 101128--101173 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
101118 CATGTCAAAA
* *
101128 GCATAAGAAAACATGTCATACAT
1 GCATAAGAAAACATGTAACACAT
*
101151 GCATATGAAAACATGTAACACAT
1 GCATAAGAAAACATGTAACACAT
101174 AGACTTATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (23 bp):
GCATAAGAAAACATGTAACACAT
Found at i:103849 original size:36 final size:36
Alignment explanation
Indices: 103794--103863 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
103784 CGAATCGCCA
* * * *
103794 CCACCTCCATATCTATACAAGTCGCCACCTCCACCT
1 CCACCTCCATATCAATACAACTCACCACCACCACCT
103830 CCACCTCCATA-CAAGTACAACTCACCACCACCAC
1 CCACCTCCATATCAA-TACAACTCACCACCACCAC
103864 ATCCGTACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.30, C:0.49, G:0.04, T:0.17
Consensus pattern (36 bp):
CCACCTCCATATCAATACAACTCACCACCACCACCT
Found at i:103888 original size:60 final size:60
Alignment explanation
Indices: 103824--105161 Score: 986
Period size: 60 Copynumber: 22.3 Consensus size: 60
103814 GTCGCCACCT
* * * * * * *
103824 CCACCTCCACCTCCATACAAGTACAACTCACCACCACCACATCCGTACAAGTACGACTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * *
103884 CCACCACCACCTCCTTACAAGTATGAGTCTCCACCTCCACCTCCATACAAGTACAAGTCCCCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGT---CA
* * * * * * * **
103947 CCACCACCACCACCGTACAAGTATGAGTCTCCACCTCCACCTCTATATAAATATAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * * *
104007 CCACCACCTCCTCCGTATATGTATGAGTCACAACCTCCACCTCCATACAAGTACAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * *
104067 CCACCACCTCCTCCATACAAGTACGAGTCACCACCTCCA---CCATACAAATACAAGGCG
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * *
104124 CCACCACCACCTCCGTACAAGTATGAGTCTCCACCTCCACCTCCATACAAATACAAGTCT
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * *
104184 CCACCACCACCTCCATACAAATATGAGTCTCCACCTCCACCTCCATACAAATACAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * *
104244 CCACCACCTCCTCCTCCATACAAGTATGAGTCTCCACCTCCACCACCATACAAGTACAAGTCA
1 CCACCA---CCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * *
104307 CCACCACCTCCTCCATACAAGTACGAGTCTCC-CCTTCCGCCTCCATACAAATACAAGTCT
1 CCACCACCACCTCCATACAAGTACGAGTCACCACC-TCCACCTCCATACAAGTACGAGTCA
* * * *** *
104367 CCACTACCTTCC-CCATACAAGTATGAGTCACCACCTCCACC-CTCATATTTGTACAAGTCA
1 CCACCACC-ACCTCCATACAAGTACGAGTCACCACCTCCACCTC-CATACAAGTACGAGTCA
* * * * *
104427 CCCCCACCTCCTCCATACAAGTATGAATCACCACCTCCACCTCCATACAAGTACGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * *
104487 CCACCTCCACCTCCATACAAGTACGAATCACCACCACCACCTCCATACAAATATGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * **** ** * * * * *
104547 CCACCTCCTCCTCCATATGTCTATAAGTCACCACCACCTCCACCATACAAGTATGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * *** * * * * * *
104607 CCACCTCCGCCTCCATATGTGTACAAGTCACCTCCACCTCCACCATACAAGTACGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * *** * * * * * * * *
104667 CCACCTCCACCGCCATATGTGTACAAGTCACCCCCACCTCCACCATACAAATATGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * *** *
104727 CCACCTCCTCCTCCATACAAGTACGAGTCACCACCTCCACCCCCATATTCGTACAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * * * *
104787 CCCCCACCTCCTCCATACAAATATGAATCACCACCTCCACCACCATACAAATACGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * *
104847 CCACCACCACCTCCATATAAGTACGAGTCACCACCACCACCTCCATACAAGTACGAATCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * * **** **
104907 ACACCACCACCTCCATACAAATATGAATCACCACCACCTCCTCCATATGTCTATAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * * *** *
104967 CCAACACCTCCACCATACAAGTATGAATCACCACCTCCGCCTCCATATGTGTACAAGTCA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* * * * * * * * *
105027 CCCCCGCCTCCACCATACAAATACGA---ATCACCTCCTCCTCCATACAAGTACGAATTA
1 CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* ** * * * *** *
105084 CCACCACCTCCTCCATATGTA-TACAAGTCACCGCCGCCACCTCCATATGTGTACAAGTCA
1 CCACCACCACCTCCATA-CAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
* *
105144 CCCCCACCTCCTCCATAC
1 CCACCACCACCTCCATAC
105162 GTTTACAAGT
Statistics
Matches: 1070, Mismatches: 189, Indels: 39
0.82 0.15 0.03
Matches are distributed among these distances:
57 91 0.09
58 1 0.00
59 6 0.01
60 856 0.80
61 6 0.01
63 110 0.10
ACGTcount: A:0.31, C:0.42, G:0.08, T:0.19
Consensus pattern (60 bp):
CCACCACCACCTCCATACAAGTACGAGTCACCACCTCCACCTCCATACAAGTACGAGTCA
Found at i:103932 original size:90 final size:90
Alignment explanation
Indices: 103824--105161 Score: 951
Period size: 90 Copynumber: 14.9 Consensus size: 90
103814 GTCGCCACCT
* * * *
103824 CCACCTCCACCTCCATACAAGTACAACTCACCACCACCACATCCGTACAAGTACGACTCACCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * *
103889 ACCACCTCCTTACAAGTATGAGTCT
66 ACCACCTCCATACAAATATGAGTCA
* * * *
103914 CCACCTCCACCTCCATACAAGTACAAGTCCCCACCACCACCACCACCGTACAAGTATGAGTCTCC
1 CCACCTCCACCTCCATACAAGTACAAGT---CACCACCACCACCTCCATACAAGTACGAGTCACC
* * * *
103979 ACCTCCACCTCTATATAAATATAAGTCA
63 ACCACCACCTCCATACAAATATGAGTCA
* * * * * ** * * *
104007 CCACCACCTCCTCCGTATATGTATGAGTCACAACCTCCACCTCCATACAAGTACAAGTCACCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * *
104072 ACCTCCTCCATACAAGTACGAGTCA
66 ACCACCTCCATACAAATATGAGTCA
* * * * * *
104097 CCACCTCCA---CCATACAAATACAAGGCGCCACCACCACCTCCGTACAAGTATGAGTCTCCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* ** *
104159 TCCACCTCCATACAAATACAAGTCT
66 ACCACCTCCATACAAATATGAGTCA
* * ** * * * *
104184 CCACCACCACCTCCATACAAATATGAGTCTCCACCTCCACCTCCATACAAATACAAGTCACCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * *
104249 ACCTCCTCCTCCATACAAGTATGAGTCT
66 A---CCACCTCCATACAAATATGAGTCA
* * *
104277 CCACCTCCACCACCATACAAGTACAAGTCACCACCACCTCCTCCATACAAGTACGAGTCTCC-CC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * ** *
104341 TTCCGCCTCCATACAAATACAAGTCT
66 -ACCACCTCCATACAAATATGAGTCA
* ** * *** *
104367 CCA-CTACCTTCC-CCATACAAGTATGAGTCACCACCTCCACC-CTCATATTTGTACAAGTCACC
1 CCACCT-CC-ACCTCCATACAAGTACAAGTCACCACCACCACCTC-CATACAAGTACGAGTCACC
* * * *
104429 CCCACCTCCTCCATACAAGTATGAATCA
63 ACCACCACCTCCATACAAATATGAGTCA
* *
104457 CCACCTCCACCTCCATACAAGTACGAA-TCACCACCTCCACCTCCATACAAGTACGAATCACCAC
1 CCACCTCCACCTCCATACAAGTAC-AAGTCACCACCACCACCTCCATACAAGTACGAGTCACCAC
*
104521 CACCACCTCCATACAAATATGAATCA
65 CACCACCTCCATACAAATATGAGTCA
* **** * * * * *
104547 CCACCTCCTCCTCCATATGTCTATAAGTCACCACCACCTCCACCATACAAGTATGAATCACCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * **** **
104612 TCCGCCTCCATATGTGTACAAGTCA
66 ACCACCTCCATACAAATATGAGTCA
* * * * * * *** * *
104637 CCTCCACCTCCACCATACAAGTACGAA-TCACCACCTCCACCGCCATATGTGTACAAGTCACCCC
1 CCACCTCCACCTCCATACAAGTAC-AAGTCACCACCACCACCTCCATACAAGTACGAGTCACCAC
* * *
104701 CACCTCCACCATACAAATATGAATCA
65 CACCACCTCCATACAAATATGAGTCA
* * * * *** * *
104727 CCACCTCCTCCTCCATACAAGTACGAGTCACCACCTCCACCCCCATATTCGTACAAGTCACCCCC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* *
104792 ACCTCCTCCATACAAATATGAATCA
66 ACCACCTCCATACAAATATGAGTCA
* * *
104817 CCACCTCCACCACCATACAAATACGAA-TCACCACCACCACCTCCATATAAGTACGAGTCACCAC
1 CCACCTCCACCTCCATACAAGTAC-AAGTCACCACCACCACCTCCATACAAGTACGAGTCACCAC
* * *
104881 CACCACCTCCATACAAGTACGAATCA
65 CACCACCTCCATACAAATATGAGTCA
* * * * * **** ** *
104907 ACACCACCACCTCCATACAAATATGAA-TCACCACCACCTCCTCCATATGTCTATAAGTCACCAA
1 CCACCTCCACCTCCATACAAGTA-CAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCAC
* * * *
104971 CACCTCCACCATACAAGTATGAATCA
65 CACCACCTCCATACAAATATGAGTCA
* *** * * * * * *
104997 CCACCTCCGCCTCCATATGTGTACAAGTCACCCCCGCCTCCACCATACAAATACGA---ATCACC
1 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
* * * * * *
105059 TCCTCCTCCATACAAGTACGAATTA
66 ACCACCTCCATACAAATATGAGTCA
* * ** * * *** * *
105084 CCACCACCTCCTCCATATGTA-TACAAGTCACCGCCGCCACCTCCATATGTGTACAAGTCACCCC
1 CCACCTCCACCTCCATA-CAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCAC
*
105148 CACCTCCTCCATAC
65 CACCACCTCCATAC
105162 GTTTACAAGT
Statistics
Matches: 984, Mismatches: 236, Indels: 56
0.77 0.18 0.04
Matches are distributed among these distances:
87 134 0.14
89 10 0.01
90 685 0.70
91 11 0.01
92 2 0.00
93 142 0.14
ACGTcount: A:0.31, C:0.42, G:0.08, T:0.19
Consensus pattern (90 bp):
CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCATACAAGTACGAGTCACCACC
ACCACCTCCATACAAATATGAGTCA
Found at i:104525 original size:36 final size:30
Alignment explanation
Indices: 103771--105100 Score: 842
Period size: 30 Copynumber: 44.2 Consensus size: 30
103761 GGCGAGCCGA
*
103771 CTCCATACAAGTACGAATCGCCACCACCTCCAT
1 CTCCATACAAGTACGAAT---CACCACCTCCAC
* * * * *
103804 ATCTATACAAGT-CGCCACCTCCACCTCCAC
1 CTCCATACAAGTACG-AATCACCACCTCCAC
*
103834 CTCCATACAAGTAC-AACTCACCACCACCAC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * * *
103864 ATCCGTACAAGTACGACTCACCACCACCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * * *
103894 CTCCTTACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*
103924 CTCCATACAAGTAC-AAGTCCCCACCACCACCAC
1 CTCCATACAAGTACGAA-T---CACCACCTCCAC
* * * * *
103957 CACCGTACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * * * * *
103987 CTCTATATAAATA-TAAGTCACCACCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * * * * *
104017 CTCCGTATATGTATGAGTCACAACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* *
104047 CTCCATACAAGTAC-AAGTCACCACCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
*
104077 CTCCATACAAGTACGAGTCACCACCTCCA-
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * * *
104106 --CCATACAAATAC-AAGGCGCCACCACCAC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * * *
104134 CTCCGTACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
104164 CTCCATACAAATAC-AAGTCTCCACCACCAC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * * *
104194 CTCCATACAAATATGAGTCTCCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* *
104224 CTCCATACAAATAC-AAGTCACCACCACCTCCTC
1 CTCCATACAAGTACGAA-T---CACCACCTCCAC
* * *
104257 CTCCATACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
104287 CACCATACAAGTAC-AAGTCACCACCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * *
104317 CTCCATACAAGTACGAGTCTCC-CCTTCCGC
1 CTCCATACAAGTACGAATCACCACC-TCCAC
* * *
104347 CTCCATACAAATAC-AAGTCTCCA-CTACCTTC
1 CTCCATACAAGTACGAA-TCACCACCT-CC-AC
* *
104378 C-CCATACAAGTATGAGTCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*** * * *
104407 C-CTCATATTTGTAC-AAGTCACCCCCACCTC
1 CTC-CATACAAGTACGAA-TCACCACCTCCAC
*
104437 CTCCATACAAGTATGAATCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
104467 CTCCATACAAGTACGAATCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*
104497 CTCCATACAAGTACGAATCACCACCACCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
104527 CTCCATACAAATATGAATCACCACCTCCTC
1 CTCCATACAAGTACGAATCACCACCTCCAC
**** * * *
104557 CTCCATATGTCTA-TAAGTCACCACCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * *
104587 CACCATACAAGTATGAATCACCACCTCCGC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*** * * *
104617 CTCCATATGTGTAC-AAGTCACCTCCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
*
104647 CACCATACAAGTACGAATCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* *** * * *
104677 CGCCATATGTGTAC-AAGTCACCCCCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * * *
104707 CACCATACAAATATGAATCACCACCTCCTC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*
104737 CTCCATACAAGTACGAGTCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* *** * * *
104767 CCCCATATTCGTAC-AAGTCACCCCCACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* *
104797 CTCCATACAAATATGAATCACCACCTCCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
104827 CACCATACAAATACGAATCACCACCACCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
104857 CTCCATATAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* *
104887 CTCCATACAAGTACGAATCAACACCACCAC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * * *
104917 CTCCATACAAATATGAATCACCACCACCTC
1 CTCCATACAAGTACGAATCACCACCTCCAC
**** * * * *
104947 CTCCATATGTCTA-TAAGTCACCAACACCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * *
104977 CACCATACAAGTATGAATCACCACCTCCGC
1 CTCCATACAAGTACGAATCACCACCTCCAC
*** * * *
105007 CTCCATATGTGTAC-AAGTCACCCCCGCCTC
1 CTCCATACAAGTACGAA-TCACCACCTCCAC
* * *
105037 CACCATACAAATACGAAT---CACCTCCTC
1 CTCCATACAAGTACGAATCACCACCTCCAC
* * *
105064 CTCCATACAAGTACGAATTACCACCACCTC
1 CTCCATACAAGTACGAATCACCACCTCCAC
105094 CTCCATA
1 CTCCATA
105101 TGTATACAAG
Statistics
Matches: 1000, Mismatches: 244, Indels: 109
0.74 0.18 0.08
Matches are distributed among these distances:
26 1 0.00
27 43 0.04
29 26 0.03
30 843 0.84
31 27 0.03
32 2 0.00
33 56 0.06
34 2 0.00
ACGTcount: A:0.31, C:0.42, G:0.08, T:0.19
Consensus pattern (30 bp):
CTCCATACAAGTACGAATCACCACCTCCAC
Found at i:105169 original size:60 final size:57
Alignment explanation
Indices: 105006--105184 Score: 164
Period size: 57 Copynumber: 3.1 Consensus size: 57
104996 ACCACCTCCG
* * ** * *
105006 CCTCCATATGTGTACAAGTCACCCCCGCCTCCACCATACAAATACGAA-TCACCTCCT
1 CCTCCATATGTGTACAAGTCACCCCCACCTCCTCCATACGTATAC-AAGTCACCGCCA
*** * * *
105063 CCTCCATACAAGTACGAA-TTACCACCACCTCCTCCATATGTATACAAGTCACCGCCGCCA
1 CCTCCATATGTGTAC-AAGTCACCCCCACCTCCTCCATACGTATACAAGTCA---CCGCCA
* * *
105123 CCTCCATATGTGTACAAGTCACCCCCACCTCCTCCATACGTTTACAAGTCGCCTCCA
1 CCTCCATATGTGTACAAGTCACCCCCACCTCCTCCATACGTATACAAGTCACCGCCA
105180 CCTCC
1 CCTCC
105185 CACATATTAC
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
56 2 0.02
57 45 0.47
58 2 0.02
59 2 0.02
60 44 0.46
ACGTcount: A:0.26, C:0.42, G:0.09, T:0.22
Consensus pattern (57 bp):
CCTCCATATGTGTACAAGTCACCCCCACCTCCTCCATACGTATACAAGTCACCGCCA
Found at i:105182 original size:30 final size:30
Alignment explanation
Indices: 104544--105184 Score: 145
Period size: 30 Copynumber: 21.5 Consensus size: 30
104534 CAAATATGAA
* * * *
104544 TCACCACCTCCTCCTCCATATGTCTATAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* * * *
104574 TCACCACCACCTCCACCATACAAGTAT-GAA-
1 TCACCCCCACCTCCTCCAT--ATGTATACAAG
* * * *
104604 TCACCACCTCCGCCTCCATATGTGTACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* * **
104634 TCACCTCCACCTCCACCATA-CAAGTACGAA-
1 TCACCCCCACCTCCTCCATATGTA-TAC-AAG
* * * * *
104664 TCACCACCTCCACCGCCATATGTGTACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* *** *
104694 TCACCCCCACCTCCACCATACAAATATGAA-
1 TCACCCCCACCTCCTCCATATGTATA-CAAG
* * ** *
104724 TCACCACCTCCTCCTCCATA-CAAGTACGAG
1 TCACCCCCACCTCCTCCATATGTA-TACAAG
* * * * *
104754 TCACCACCTCCACCCCCATAT-TCGTACAAG
1 TCACCCCCACCTCCTCCATATGT-ATACAAG
*** *
104784 TCACCCCCACCTCCTCCATACAAATATGAA-
1 TCACCCCCACCTCCTCCATATGTATA-CAAG
* * * * ***
104814 TCACCACCTCCACCACCATACAAATACGAA-
1 TCACCCCCACCTCCTCCATATGTATAC-AAG
* * * *
104844 TCACCACCACCACCTCCATAT-AAGTACGAG
1 TCACCCCCACCTCCTCCATATGTA-TACAAG
* * **
104874 TCACCACCACCACCTCCATA-CAAGTACGAA-
1 TCACCCCCACCTCCTCCATATGTA-TAC-AAG
* * * *** *
104904 TCAACACCACCACCTCCATACAAATATGAA-
1 TCACCCCCACCTCCTCCATATGTATA-CAAG
* * *
104934 TCACCACCACCTCCTCCATATGTCTATAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
** * * *
104964 TCACCAACACCTCCACCATACAAGTAT-GAA-
1 TCACCCCCACCTCCTCCAT--ATGTATACAAG
* * * *
104994 TCACCACCTCCGCCTCCATATGTGTACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* * ***
105024 TCACCCCCGCCTCCACCATACAAATACGAA-
1 TCACCCCCACCTCCTCCATATGTATAC-AAG
* **
105054 TCA---CCTCCTCCTCCATA-CAAGTACGAA-
1 TCACCCCCACCTCCTCCATATGTA-TAC-AAG
* *
105081 TTACCACCACCTCCTCCATATGTATACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* * * *
105111 TCACCGCCGCCACCTCCATATGTGTACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* *
105141 TCACCCCCACCTCCTCCATACGTTTACAAG
1 TCACCCCCACCTCCTCCATATGTATACAAG
* *
105171 TCGCCTCCACCTCC
1 TCACCCCCACCTCC
105185 CACATATTAC
Statistics
Matches: 465, Mismatches: 112, Indels: 68
0.72 0.17 0.11
Matches are distributed among these distances:
26 2 0.00
27 20 0.04
28 8 0.02
29 16 0.03
30 395 0.85
31 16 0.03
32 8 0.02
ACGTcount: A:0.30, C:0.42, G:0.08, T:0.20
Consensus pattern (30 bp):
TCACCCCCACCTCCTCCATATGTATACAAG
Found at i:106042 original size:29 final size:30
Alignment explanation
Indices: 105988--106047 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
105978 ATAAAAATAG
* *
105988 TTAAAATATTTAATTGATTTGATTTT-AAT
1 TTAAAATACTTAACTGATTTGATTTTCAAT
106017 TTAAAA-ACTTAACTGATTTGATTTTTCAAT
1 TTAAAATACTTAACTGATTTGA-TTTTCAAT
106047 T
1 T
106048 AAAGAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 13 0.48
29 10 0.37
30 4 0.15
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.52
Consensus pattern (30 bp):
TTAAAATACTTAACTGATTTGATTTTCAAT
Found at i:106423 original size:203 final size:202
Alignment explanation
Indices: 106073--106480 Score: 773
Period size: 203 Copynumber: 2.0 Consensus size: 202
106063 ATATAATAAA
*
106073 ATCAATAACATTTTCTTTTTCCAAAAATTAAAAGCATCATGCACCGTCAAGCAAAAAAAAAAAAA
1 ATCAATAACATTTTCTTTTTCAAAAAATTAAAAGCATCATGCACCGTCAAGCAAAAAAAAAAAAA
106138 AGTAAGAACGCAAATAGTCCCCTGACTATAGGTACTACTTTATTAAGTCCCTTGACCATTAGAAG
66 AGTAAGAACGCAAATAGTCCCCTGACTATAGGTACTACTTTATTAAGTCCCTTGACCATTAGAAG
106203 TTACAAAATGGTCCTTCAATTATGGGGTGTTGCTTTG-TGAGTCCCTCAACTATTAAAAGTTACA
131 TTACAAAATGGTCCTTCAATTATGGGGTGTTGCTTTGTTGAGTCCCTCAACTATTAAAAGTTACA
106267 AAATGTC
196 AAATGTC
*
106274 ATCAATAACATTTTCTTTTTCAAAAAATTAAAAGCATCATGCACCGTCAAGCAAAAAAAAAAAGA
1 ATCAATAACATTTTCTTTTTCAAAAAATTAAAAGCATCATGCACCGTCAAGCAAAAAAAAAAAAA
106339 AGTAAAGAACGCAAATAGTCCCCTGACTATAGGGTACTACTTTATTAAGTCCCTTGACCATTAGA
66 AGT-AAGAACGCAAATAGTCCCCTGACTATA-GGTACTACTTTATTAAGTCCCTTGACCATTAGA
106404 AGTTACAAAATGGTCCTTCAATTATGGGGTGTTGCTTTGTTGAGTCCCTCAACTATTAAAAGTTA
129 AGTTACAAAATGGTCCTTCAATTATGGGGTGTTGCTTTGTTGAGTCCCTCAACTATTAAAAGTTA
106469 CAAAATGTC
194 CAAAATGTC
106478 ATC
1 ATC
106481 CGACTATTCA
Statistics
Matches: 202, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
201 66 0.33
202 27 0.13
203 72 0.36
204 37 0.18
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (202 bp):
ATCAATAACATTTTCTTTTTCAAAAAATTAAAAGCATCATGCACCGTCAAGCAAAAAAAAAAAAA
AGTAAGAACGCAAATAGTCCCCTGACTATAGGTACTACTTTATTAAGTCCCTTGACCATTAGAAG
TTACAAAATGGTCCTTCAATTATGGGGTGTTGCTTTGTTGAGTCCCTCAACTATTAAAAGTTACA
AAATGTC
Found at i:106817 original size:60 final size:60
Alignment explanation
Indices: 106690--106819 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
106680 ACGGATAGTT
** *
106690 GGGACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACACTCCATAGTTGA
1 GGGACCATTTTGTAACTTTTAATAATCGAAAGACTCAACAAAGCAACACTCCATAGTCGA
* * * * * * *
106750 AGAACCATTTTGTAACTTTTAATAGTCGAAAGACTTAATAAAGTAATA-TCACATAGTCGA
1 GGGACCATTTTGTAACTTTTAATAATCGAAAGACTCAACAAAGCAACACTC-CATAGTCGA
106810 GGGACCATTT
1 GGGACCATTT
106820 GCATTCTCTT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 2 0.04
60 55 0.96
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (60 bp):
GGGACCATTTTGTAACTTTTAATAATCGAAAGACTCAACAAAGCAACACTCCATAGTCGA
Found at i:109156 original size:4 final size:4
Alignment explanation
Indices: 109147--109197 Score: 57
Period size: 4 Copynumber: 12.0 Consensus size: 4
109137 TTGTTAGATT
* *
109147 AATA AATA AATA AATA AATA AATA TGAAAA AATTG AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA --AATA AA-TA AATA AATA AATA AATA
109198 TGAAAAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 35 0.88
5 2 0.05
6 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:109337 original size:21 final size:23
Alignment explanation
Indices: 109291--109337 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 23
109281 AAACATAAAT
*
109291 AAAAATAATAATAAAACAAACTA
1 AAAAATAATAATAAAACAAACCA
109314 AAAAAT-A-AATAAAA-AGAACCA
1 AAAAATAATAATAAAACA-AACCA
109335 AAA
1 AAA
109338 TGAATGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.05
21 14 0.64
22 1 0.05
23 6 0.27
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAAATAATAATAAAACAAACCA
Found at i:109439 original size:20 final size:19
Alignment explanation
Indices: 109399--109435 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
109389 ATTTACACAA
109399 ACAAATTTAAATGGGAAAC
1 ACAAATTTAAATGGGAAAC
109418 ACAATATTTAAA-GGGAAA
1 ACAA-ATTTAAATGGGAAA
109436 ACACGTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.22
Consensus pattern (19 bp):
ACAAATTTAAATGGGAAAC
Found at i:111638 original size:83 final size:84
Alignment explanation
Indices: 111410--112516 Score: 1377
Period size: 84 Copynumber: 13.2 Consensus size: 84
111400 AACTGAACGA
* * * ** * * * *
111410 AATCGAACTAGTAGGTC-TTTATTGATAGATAACCCTTATAGCCTTGAGTTATGTTGTAAATTAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* *
111474 ATGCCTTTAAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * *
111493 AATCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAAGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
** *
111558 GTGTATTTCAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* *
111577 AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
111641 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * *
111660 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTAAGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
111725 GTGCCTTTGAGCTGAGTTT
66 GTGCCTTTGAGCTGAGTGT
** * * * *
111744 AATCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTCTAGCCTTGACTTATGTTGTAAATGAC
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
111808 GTGCCTTTGAGCTGAG-GT
66 GTGCCTTTGAGCTGAGTGT
* * * *
111826 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAAGCTGCAAATGTT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* *
111891 GTGCCTTTGAGTTTAGTGT
66 GTGCCTTTGAGCTGAGTGT
* ** * *
111910 AATCAAACTCGAAGGT-TTTTGTTGGCAGATAACCCTTCTTTCCTCGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* *
111974 GCGTCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * * * *
111993 AATCAAACTTGAAAGTCTTGTGTTGGCAGATAACCC-TCATTGCCTTGAGTTAAGCTACAAAT-A
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATGA
112056 TTGTGCCTTTGAGCTGAGTGT
65 -TGTGCCTTTGAGCTGAGTGT
* * *
112077 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAACCTTGAGTTATGTTGCAAATGTT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
112142 GTGCCTTGGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * *
112161 AGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCATTCTCA-CCTTGAGCTATACTGCAAATGT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT-AGCCTTGAGTTATGCTGCAAATGA
* * *
112225 TGTGCCTTTAAACTAAGTGT
65 TGTGCCTTTGAGCTGAGTGT
* * * * *
112245 AATCGAACTCGAAGGTCTTTTTTTGGAAGATAACCCTTATAGTCTTGAGTTATACTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* * *
112310 GTGCCTTGGAGTTGAGCGT
66 GTGCCTTTGAGCTGAGTGT
* * * * **
112329 AGTCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTAAACTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
112394 ATGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
** *
112413 AATCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
112477 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
112496 AATCGAACTCGAAGGTCTTTT
1 AATCGAACTCGAAGGTCTTTT
112517 TGCCGGGATT
Statistics
Matches: 877, Mismatches: 135, Indels: 23
0.85 0.13 0.02
Matches are distributed among these distances:
82 18 0.02
83 343 0.39
84 513 0.58
85 3 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
GTGCCTTTGAGCTGAGTGT
Found at i:111686 original size:167 final size:167
Alignment explanation
Indices: 111410--112516 Score: 1522
Period size: 167 Copynumber: 6.6 Consensus size: 167
111400 AACTGAACGA
* * * * * * * *
111410 AATCGAACTAGTAGGTCTTTATTGATAGATAACCCTTATAGCCTTGAGTTATGTTGTAAATTATA
1 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
* *
111475 TGCCTTTAAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
** *
111540 AGCTAAGCTACAAATGATGTGTATTTCAGCTGAGTGT
131 AGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTGT
111577 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
*
111642 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTG
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
*
111707 AGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTTT
131 AGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTGT
* * * *
111744 AATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGACTTATGTTGTAAATGACG
1 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
111809 TGCCTTTGAGCTGAG-GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
* * * *
111873 AGCTAAGCTGCAAATGTTGTGCCTTTGAGTTTAGTGT
131 AGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTGT
* * * ** * * *
111910 AATCAAACTCGAAGGTTTTTGTTGGCAGATAACCCTTCTTTCCTCGAGCTATGCTGCAAATGATG
1 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
* * * * * *
111975 CGTCTTTGAGCTGAGTGTAATCAAACTTGAAAGTCTTGTGTTGGCAGATAACCC-TCATTGCCTT
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC-TTGCCTT
*
112039 GAGTTAAGCTACAAAT-ATTGTGCCTTTGAGCTGAGTGT
130 GAGCTAAGCTACAAATGA-TGTGCCTTTGAGCTGAGTGT
* * * * *
112077 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAACCTTGAGTTATGTTGCAAATGTT
1 AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* * * **
112142 GTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCATTCTCACCTT
65 GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTT
* * * * *
112207 GAGCTATA-CTGCAAATGTTGTGCCTTTAAACTAAGTGT
130 GAGCTA-AGCTACAAATGATGTGCCTTTGAGCTGAGTGT
* * * * *
112245 AATCGAACTCGAAGGTCTTTTTTTGGA-AGATAACCCTTATAGTCTTGAGTTATACTGCAAATGA
1 AATCGAACTCGAAGGTC-TTTGTT-GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
* * * * *
112309 TGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCT
64 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCT
* * *
112374 TGAGCTAAACTGCAAATGATATGCCTTTGAGCTGAGTGT
129 TGAGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTGT
*
112413 AATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
112478 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT
112517 TGCCGGGATT
Statistics
Matches: 829, Mismatches: 101, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
166 150 0.18
167 392 0.47
168 283 0.34
169 4 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (167 bp):
AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTG
AGCTAAGCTACAAATGATGTGCCTTTGAGCTGAGTGT
Found at i:113128 original size:22 final size:21
Alignment explanation
Indices: 113101--113163 Score: 101
Period size: 20 Copynumber: 3.0 Consensus size: 21
113091 CTTGGAGCGT
113101 GGGGGAATCGGTACCCCCTGAG
1 GGGGGAATCGGTACCCCCTG-G
113123 GGGGGAATCGGTA-CCCCTGG
1 GGGGGAATCGGTACCCCCTGG
*
113143 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
113164 ACATTCTGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 13 0.33
21 13 0.33
22 13 0.33
ACGTcount: A:0.16, C:0.27, G:0.41, T:0.16
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:113617 original size:83 final size:83
Alignment explanation
Indices: 113530--113744 Score: 229
Period size: 83 Copynumber: 2.6 Consensus size: 83
113520 AGTGTAATCG
* *
113530 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTTTATCCTTGAGTTATGCTATAAATGATGTGCT
1 AACTCGAAGGTCTTTTGTTGACAGATAACCCTTTTATCCTTGAGTTATGCTACAAATGATGTGCC
* *
113594 TTGGAGCTAAGCGTAGTCC
66 TTGGAGCT-AGCATAGTCA
* * * * * *
113613 AACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTT-TCCTTGAGCTATGTTGCAAATGATGTGC
1 AACTCGAAGGTCTTTTGTTGACAGATAACCCTT-TTATCCTTGAGTTATGCTACAAATGATGTGC
** *
113677 CTTGTTGCTGGCATAGTCA
65 CTTGGAGCTAGCATAGTCA
** * *
113696 AACTCGAAGGTCTTTTGTT-AGCAGATAACTATTCTAGCCTTGAGTTATG
1 AACTCGAAGGTCTTTTGTTGA-CAGATAACCCTTTTATCCTTGAGTTATG
113745 ATGCGAATAG
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
82 1 0.01
83 57 0.53
84 47 0.44
85 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (83 bp):
AACTCGAAGGTCTTTTGTTGACAGATAACCCTTTTATCCTTGAGTTATGCTACAAATGATGTGCC
TTGGAGCTAGCATAGTCA
Found at i:113670 original size:84 final size:83
Alignment explanation
Indices: 113458--113722 Score: 266
Period size: 83 Copynumber: 3.2 Consensus size: 83
113448 TTTTCAACAT
* * * * *
113458 TTTTGTTGGCAGATTGCCCTTCTTGCCTTGAGCTAAGCTGCAAGTGATGTGTCTTT-AAGTTGAG
1 TTTTGTTGGCAGATAGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTG-CTTTGAAGCT-AG
* * *
113522 TGTAATCGAACTCGAAGGTC
64 CGTAGTCAAACTCGAAGGTC
* * * ** *
113542 -TTTGTTGACAGATAACCCTT-TTATCCTTGAGTTATGCTATAAATGATGTGCTTTGGAGCTAAG
1 TTTTGTTGGCAGATAGCCCTTCTT-TCCTTGAGCTATGCTGCAAATGATGTGCTTTGAAGCT-AG
*
113605 CGTAGTCCAACTCGAAGGTC
64 CGTAGTCAAACTCGAAGGTC
* * * ** * *
113625 TTTTGTTGGCAAATAGCCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTGTTGCTGGCA
1 TTTTGTTGGCAGATAGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTGCTTTGAAGCTAGCG
113690 TAGTCAAACTCGAAGGTC
66 TAGTCAAACTCGAAGGTC
*
113708 TTTTGTTAGCAGATA
1 TTTTGTTGGCAGATA
113723 ACTATTCTAG
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
82 6 0.04
83 92 0.63
84 47 0.32
85 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (83 bp):
TTTTGTTGGCAGATAGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTGCTTTGAAGCTAGCG
TAGTCAAACTCGAAGGTC
Found at i:115036 original size:95 final size:95
Alignment explanation
Indices: 114873--115127 Score: 367
Period size: 95 Copynumber: 2.7 Consensus size: 95
114863 GGCTAGCTGG
* * *
114873 ATCCATAAAGCCGGGGCGTTTAACCAATTGGTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAACCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
*
114938 TAATCACCTTTATCAGGCTAGTTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTGAATCTT
* * *
114968 ATCCATAAAACCGGGGCGTTTAACCAATTACTTTAGAGGGACAACTTAAGTTTTATTGTATATTA
1 ATCCATAAAACCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
* *
115033 TAATTACCTTTGTCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTGAATCTT
* *
115063 ATCCAT-AAA----GGTGTTTAACCAATTGCTTTAGAGGGACATCTCAAGCTTTATTGTATATAT
1 ATCCATAAAACCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAT-T
115123 ATAAT
65 ATAAT
115128 ACTATAATCT
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
90 44 0.30
91 6 0.04
94 3 0.02
95 92 0.63
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (95 bp):
ATCCATAAAACCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGCTGAATCTT
Found at i:117888 original size:30 final size:30
Alignment explanation
Indices: 117841--117910 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
117831 ATATTGTTAG
*
117841 ATTGAATAAATAAATAAATAAATATGAAAAA
1 ATTGAA-AAAAAAATAAATAAATATGAAAAA
117872 ATTGAAAAAAAAATAAATAAATATGAAAAA
1 ATTGAAAAAAAAATAAATAAATATGAAAAA
117902 A--GAAAAAAA
1 ATTGAAAAAAA
117911 GAGAAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 8 0.21
30 24 0.63
31 6 0.16
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (30 bp):
ATTGAAAAAAAAATAAATAAATATGAAAAA
Found at i:117920 original size:30 final size:29
Alignment explanation
Indices: 117856--117920 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
117846 ATAAATAAAT
*
117856 AAATAAATATGAAAAAATTGAAAAAAAAAT
1 AAATAAATATGAAAAAA-TGAAAAAAAAAA
117886 AAATAAATATGAAAAAA-GAAAAAAAGAGAA
1 AAATAAATATGAAAAAATGAAAAAAA-A-AA
117916 AAATA
1 AAATA
117921 TTAATAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.25
29 1 0.03
30 23 0.72
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (29 bp):
AAATAAATATGAAAAAATGAAAAAAAAAA
Found at i:117969 original size:22 final size:20
Alignment explanation
Indices: 117941--117990 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
117931 AATAATAATA
117941 AAATAAAA-TAGATAAAAAGGAT
1 AAATAAAAGTA-ATAAAAA--AT
117963 AAATAAAAGTTAATAAAAAAT
1 AAATAAAAG-TAATAAAAAAT
117984 AAATAAA
1 AAATAAA
117991 TAAAAAGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 7 0.27
24 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (20 bp):
AAATAAAAGTAATAAAAAAT
Found at i:118094 original size:20 final size:20
Alignment explanation
Indices: 118069--118108 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
118059 TTACACAAAC
118069 ATATTTAAAGGGA-AAACACA
1 ATATTTAAA-GGACAAACACA
118089 ATATTTAAAGGACAAACACA
1 ATATTTAAAGGACAAACACA
118109 TCAAATTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (20 bp):
ATATTTAAAGGACAAACACA
Found at i:120996 original size:31 final size:31
Alignment explanation
Indices: 120961--121025 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
120951 CTTTCATTTG
120961 TTTCAAAATAACACTCAACGTTTATTTTATA
1 TTTCAAAATAACACTCAACGTTTATTTTATA
120992 TTTCAAAATAACACTCAACGTTTATTTTATA
1 TTTCAAAATAACACTCAACGTTTATTTTATA
121023 TTT
1 TTT
121026 TATTTTTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTCAAAATAACACTCAACGTTTATTTTATA
Found at i:123041 original size:14 final size:14
Alignment explanation
Indices: 123019--123053 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
123009 TCGTTGGCAC
123019 GTTTATGTATACAT
1 GTTTATGTATACAT
*
123033 GTTTGTGTATACAT
1 GTTTATGTATACAT
*
123047 GTGTATG
1 GTTTATG
123054 CGAGCAAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.49
Consensus pattern (14 bp):
GTTTATGTATACAT
Found at i:125108 original size:3 final size:3
Alignment explanation
Indices: 125100--125129 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
125090 TTCAAATAAC
125100 TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
125130 AATAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:137634 original size:13 final size:13
Alignment explanation
Indices: 137616--137663 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
137606 TATCAATTTT
137616 TTATTTTTTAAAA
1 TTATTTTTTAAAA
137629 TTATTTTTCTTAAAA
1 TTA-TTTT-TTAAAA
*
137644 TTA-TTTTAAAAA
1 TTATTTTTTAAAA
*
137656 GTATTTTT
1 TTATTTTT
137664 AGGTATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 10 0.33
14 4 0.13
15 9 0.30
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:137643 original size:15 final size:14
Alignment explanation
Indices: 137619--137650 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
137609 CAATTTTTTA
137619 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
137633 TTTTCTTAAAATTAT
1 TTTT-TTAAAATTAT
137648 TTT
1 TTT
137651 AAAAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:144470 original size:94 final size:95
Alignment explanation
Indices: 144347--144532 Score: 248
Period size: 94 Copynumber: 2.0 Consensus size: 95
144337 ATACTAACGA
* * * * *
144347 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGA
1 GGTAGTATAGATACCATAGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATGAGTATCGA
* ** *
144412 TACCGGAAGG-GGTATCGGTACCATAGTAT
66 CACCAAAAGGAGGTATCGATACCATAGTAT
* * *
144441 GGTAGTATAGATACCATAGTAAGGGTATCGATACCAAGCAACATTGAACCTAAAATGGGTATCGA
1 GGTAGTATAGATACCATAGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATGAGTATCGA
*
144506 CACCAAAAGGAGGTATCGATAGCATAG
66 CACCAAAAGGAGGTATCGATACCATAG
144533 AATAGAAGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 64 0.82
95 14 0.18
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (95 bp):
GGTAGTATAGATACCATAGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATGAGTATCGA
CACCAAAAGGAGGTATCGATACCATAGTAT
Found at i:144473 original size:20 final size:20
Alignment explanation
Indices: 144421--144476 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
144411 ATACCGGAAG
* *
144421 GGGTATCGGTACCATAGTAT
1 GGGTATCGATACCATAGTAA
*
144441 GGTAGTATAGATACCATAGTAA
1 GG--GTATCGATACCATAGTAA
144463 GGGTATCGATACCA
1 GGGTATCGATACCA
144477 AGCAACATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:145081 original size:109 final size:109
Alignment explanation
Indices: 144889--145451 Score: 743
Period size: 109 Copynumber: 5.2 Consensus size: 109
144879 ATTACCAAAT
* * * * *
144889 AGGCACTAAGTGTTCATTTTACGGAATTCATCATGAGTTGATGAATAACTGTACAGGCAGTATGT
1 AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* *
144954 GTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
144998 AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGATGATGAATAACCATACATGCACTATGT
1 AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
145063 GTACAAATCCACAGAATTCATCATGAGTTGATGAATAACTGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
145107 AGGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGTACTATGT
1 AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
145172 GTACAAATCCACGGAATTCATCATGAGTTGTTGAATAATCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * ** * * *
145216 AGGCAATATGTGTGCAAATC-CACGAAATTCATCATGAGTTGATGAATAATCGCACGGGCACTAT
1 AGGCACTAAGTGTGCATTTCACA-G-AATTCATCATGAGTTGATGAATAACCGTACAGGCACTAT
* * *
145280 GTGTGCAAATTCACGGAATTCATCATGAGTTGAAGAATAATCGTAC
64 GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
145326 ATGCACTAAGTGTGCATTTCACAGAATTCATAATTAGTTGATGAATAACCGTACAGGTACTATGT
1 AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
145391 GTGCAAATCCATGGAATTCAACATGAGTTGATGAACT-ACCGTAT
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
* **
145435 ATGCACTACTTGTGCAT
1 AGGCACTAAGTGTGCAT
145452 CTTAATAAAT
Statistics
Matches: 396, Mismatches: 54, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
108 1 0.00
109 299 0.76
110 94 0.24
111 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (109 bp):
AGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:145191 original size:164 final size:163
Alignment explanation
Indices: 144912--145425 Score: 708
Period size: 164 Copynumber: 3.1 Consensus size: 163
144902 TCATTTTACG
* * * *
144912 GAATTCATCATGAGTTGATGAATAACTGTACAGGCAGTATGTGTGCAAATCCATGAAATTCATCA
1 GAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATTCACGGAATTCATCA
*
144977 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGATGATGA
66 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGA
* * *
145042 ATAACCATACATGCACTATGTGTACAAATCCAC
131 ATAACCGTACAGGCACTATGTGTGCAAATCCAC
* *
145075 AGAATTCATCATGAGTTGATGAATAACTGTACAGGCACTAAGTGTGC-ATTTCACGGAATTCATC
1 -GAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATTCACGGAATTCATC
* * * * * * *
145139 ATGAGTTGATGAATAACCGTACAGGTACTATGTGTACAAATCCACGGAATTCATCATGAGTTGTT
65 ATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC-ATTTCACAGAATTCATCATGAGTTGAT
* *
145204 GAATAATCGTACAGGCAATATGTGTGCAAATCCAC
129 GAATAACCGTACAGGCACTATGTGTGCAAATCCAC
* *
145239 GAAATTCATCATGAGTTGATGAATAA-TCGCACGGGCACTATGTGTGCAAATTCACGGAATTCAT
1 G-AATTCATCATGAGTTGATGAATAACT-GTACAGGCACTATGTGTGCAAATTCACGGAATTCAT
* * * * *
145303 CATGAGTTGAAGAATAATCGTACATGCACTAAGTGTGCATTTCACAGAATTCATAATTAGTTGAT
64 CATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGAT
* *
145368 GAATAACCGTACAGGTACTATGTGTGCAAATCCATG
129 GAATAACCGTACAGGCACTATGTGTGCAAATCCA-C
*
145404 GAATTCAACATGAGTTGATGAA
1 GAATTCATCATGAGTTGATGAA
145426 CTACCGTATA
Statistics
Matches: 305, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
163 49 0.16
164 208 0.68
165 48 0.16
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (163 bp):
GAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATTCACGGAATTCATCA
TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTTCACAGAATTCATCATGAGTTGATGA
ATAACCGTACAGGCACTATGTGTGCAAATCCAC
Found at i:145433 original size:55 final size:55
Alignment explanation
Indices: 144909--145450 Score: 662
Period size: 55 Copynumber: 9.9 Consensus size: 55
144899 TGTTCATTTT
* *
144909 ACGGAATTCATCATGAGTTGATGAATAACTGTACAGGCAGTATGTGTGCAAATCC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * * *
144964 ATGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC-ATTTC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * * *
145018 ACAGAATTCATCATGAGATGATGAATAACCATACATGCACTATGTGTACAAATCC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * * *
145073 ACAGAATTCATCATGAGTTGATGAATAACTGTACAGGCACTAAGTGTGC-ATTTC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* *
145127 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGTACTATGTGTACAAATCC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * *
145182 ACGGAATTCATCATGAGTTGTTGAATAATCGTACAGGCAATATGTGTGCAAATCC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * * *
145237 ACGAAATTCATCATGAGTTGATGAATAATCGCACGGGCACTATGTGTGCAAATTC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * * * *
145292 ACGGAATTCATCATGAGTTGAAGAATAATCGTACATGCACTAAGTGTGC-ATTTC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * *
145346 ACAGAATTCATAATTAGTTGATGAATAACCGTACAGGTACTATGTGTGCAAATCC
1 ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
* * * *
145401 ATGGAATTCAACATGAGTTGATGAACT-ACCGTATATGCACTACT-TGTGCA
1 ACGGAATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTA-TGTGTGCA
145451 TCTTAATAAA
Statistics
Matches: 414, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
54 136 0.33
55 276 0.67
56 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (55 bp):
ACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCC
Found at i:145682 original size:81 final size:80
Alignment explanation
Indices: 145589--145835 Score: 341
Period size: 81 Copynumber: 3.1 Consensus size: 80
145579 AAGTCCAAAA
*
145589 TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACG
1 TAAAA-AATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
145654 GTTAAAGACCGTTGAG
65 GTTAAAGACCGTTGAG
* * *
145670 TAAAATAATAATGGCATAACTGTGTAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAA-AATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * *
145735 TTTAAAGATCATTGAG
65 GTTAAAGACCGTTGAG
* * * * * *
145751 TAAAAAACAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTTATTTTTTCCAGTTAGATGAACAG
1 TAAAAAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGG
* *
145816 TTAAATACTGTTGAG
66 TTAAAGACCGTTGAG
145831 TAAAA
1 TAAAA
145836 GATGAAAAGT
Statistics
Matches: 144, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 66 0.46
81 78 0.54
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (80 bp):
TAAAAAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGG
TTAAAGACCGTTGAG
Found at i:145854 original size:29 final size:29
Alignment explanation
Indices: 145806--145866 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
145796 TTTTCCAGTT
* * * *
145806 AGATGAACAGTTAAATACTGTTGAGTAAA
1 AGATGAAAAGTCAAACACTGTTGAATAAA
145835 AGATGAAAAGTCAAACACTGTTGAATAAA
1 AGATGAAAAGTCAAACACTGTTGAATAAA
145864 AGA
1 AGA
145867 ATAATAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.23
Consensus pattern (29 bp):
AGATGAAAAGTCAAACACTGTTGAATAAA
Found at i:146982 original size:2 final size:2
Alignment explanation
Indices: 146975--147013 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
146965 GGTCAGAAAG
146975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
147014 ACTTTTCTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:149299 original size:94 final size:94
Alignment explanation
Indices: 149102--149304 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 94
149092 TGAATTAGCT
* * * * *
149102 TAGTAGTATCGATACAAGGAAACATTGAATCTAAAATTGGTATCGATACCAGAAGGGGTATCGGT
1 TAGTAGTATCGATACAAGGAAACATCGAACCTAAAATGGGTATCGATACCAAAAGGGGTATCAGT
* * *
149167 ACCATAGTATGGTAGTATTGATACCATGA
66 ACCATAATATGGAAGTATCGATACCATGA
* * *
149196 TAAG-GGTATCGATACCAGGCAACATCGAACCTAAAATGGGTATCGATACCAAAAGGGGGTATCA
1 T-AGTAGTATCGATACAAGGAAACATCGAACCTAAAATGGGTATCGATACCAAAA-GGGGTATCA
* *
149260 GTACCATAATATGGAAGT-TCGGTACCATGG
64 GTACCATAATATGGAAGTATCGATACCATGA
149290 TAGTAGTATCGATAC
1 TAGTAGTATCGATAC
149305 TATTGAGCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
93 2 0.02
94 64 0.70
95 26 0.28
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (94 bp):
TAGTAGTATCGATACAAGGAAACATCGAACCTAAAATGGGTATCGATACCAAAAGGGGTATCAGT
ACCATAATATGGAAGTATCGATACCATGA
Found at i:149829 original size:109 final size:109
Alignment explanation
Indices: 149624--150184 Score: 707
Period size: 109 Copynumber: 5.2 Consensus size: 109
149614 ATTACCAAAT
* ** *
149624 AGGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAA-TAAACATGCACTATGT
1 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGT
* *
149688 GTACAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
149732 AGGGACTAAGCGTGCATTTCACGAAATTAATCATGAGTTGATGAATAACCGTACAGGCACTATGA
1 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGT
* *
149797 GTGCAAATCCACAGAATTCATCATGAGTTGATGAGTAATCGTAC
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
149841 AGGCACTAAGTGTGCATTTCACGTAATTCATCATCAG-TGATGAATAACTATACATGCACTATGT
1 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGT
* * * *
149905 GTACAAATCCACGGTATTCATCATGAGTTGATGAATAACCGTAG
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * **
149949 AGGCACTATGTGTGCAAATCCAC-AGAATTCATCATGAGTTGATGAATAACCGTACAAACACTAT
1 AGGCACTAAGTGTGC-ATTTCACGA-AATTCATCATGAGTTGATGAATAACTGTACAGGCACTAT
* * *
150013 GTGTGCAATTCCACAGAATTCATAATGAGTTGATGAATAACCTTAC
64 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
150059 ATGCACTAAGTGTGCATTTCAAGGAATTCATCATGAGTTGATGAATAATTGTACAGGAACTATGT
1 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGT
* * *
150124 GTGCAAATCCACAGAATTCAGCATGAGTTGATGAACT-ACTGTAT
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTAC
**
150168 AGGCACTACTTGTGCAT
1 AGGCACTAAGTGTGCAT
150185 CTTAATAAAT
Statistics
Matches: 383, Mismatches: 64, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
108 119 0.31
109 190 0.50
110 74 0.19
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (109 bp):
AGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATGT
GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:149842 original size:55 final size:55
Alignment explanation
Indices: 149624--150183 Score: 593
Period size: 55 Copynumber: 10.3 Consensus size: 55
149614 ATTACCAAAT
* * * * ***
149624 AGGCACTAAGTGTGC-ATTTCACGGAATTCATCATGAGTTGATGAATAA-TAAAC
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
149677 ATGCACTATGTGTACAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
149732 AGGGACTAAGCGTGC-ATTTCAC-GAAATTAATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTAC
* * *
149786 AGGCACTATGAGTGCAAATCCACAGAATTCATCATGAGTTGATGAGTAATCGTAC
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * **
149841 AGGCACTAAGTGTGC-ATTTCAC-GTAATTCATCATCAG-TGATGAATAACTATAC
1 AGGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
149894 ATGCACTATGTGTACAAATCCACGGTATTCATCATGAGTTGATGAATAACCGTAG
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
149949 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
** * * *
150004 AAACACTATGTGTGCAATTCCACAGAATTCATAATGAGTTGATGAATAACCTTAC
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * **
150059 ATGCACTAAGTGTGC-ATTTCA-AGGAATTCATCATGAGTTGATGAATAATTGTAC
1 AGGCACTATGTGTGCAAATCCACA-GAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
150113 AGGAACTATGTGTGCAAATCCACAGAATTCAGCATGAGTTGATGAACT-ACTGTAT
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTAC
150168 AGGCACTACT-TGTGCA
1 AGGCACTA-TGTGTGCA
150184 TCTTAATAAA
Statistics
Matches: 423, Mismatches: 70, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
53 39 0.09
54 154 0.36
55 226 0.53
56 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:149930 original size:163 final size:164
Alignment explanation
Indices: 149624--150158 Score: 596
Period size: 163 Copynumber: 3.3 Consensus size: 164
149614 ATTACCAAAT
* * * * *** ** *
149624 AGGCACTAAGTGTGC-ATTTCACGGAATTCATCATGAGTTGATGAATAA-TAAACATGCACTATG
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAAACACTAAG
* * * * * * * * * * * *
149687 TGTACAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGGACTAAGCGTGCATTTC
66 TGTGCAATTCCACAGAATTCATAATCAGTTGATGAATAACCTTACATGCACTAAGTGTACAATCC
* * *
149752 ACGAAATTAATCATGAGTTGATGAATAACCGTAC
131 AAGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * **
149786 AGGCACTATGAGTGCAAATCCACAGAATTCATCATGAGTTGATGAGTAATCGTACAGGCACTAAG
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAAACACTAAG
* * *
149851 TGTGC-ATTTCAC-GTAATTCATCATCAG-TGATGAATAA-CTATACATGCACTATGTGTACAAA
66 TGTGCAATTCCACAG-AATTCATAATCAGTTGATGAATAACCT-TACATGCACTAAGTGTAC-AA
* * *
149912 TCCACGGTATTCATCATGAGTTGATGAATAACCGTAG
128 TCCAAGGAATTCATCATGAGTTGATGAATAACCGTAC
*
149949 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAAACACTATG
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAAACACTAAG
* * * *
150014 TGTGCAATTCCACAGAATTCATAATGAGTTGATGAATAACCTTACATGCACTAAGTGTGCATTTC
66 TGTGCAATTCCACAGAATTCATAATCAGTTGATGAATAACCTTACATGCACTAAGTGTACAATCC
**
150079 AAGGAATTCATCATGAGTTGATGAATAATTGTAC
131 AAGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
150113 AGGAACTATGTGTGCAAATCCACAGAATTCAGCATGAGTTGATGAA
1 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA
150159 CTACTGTATA
Statistics
Matches: 317, Mismatches: 47, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
161 1 0.00
162 37 0.12
163 143 0.45
164 107 0.34
165 27 0.09
166 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (164 bp):
AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAAACACTAAG
TGTGCAATTCCACAGAATTCATAATCAGTTGATGAATAACCTTACATGCACTAAGTGTACAATCC
AAGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:150431 original size:81 final size:80
Alignment explanation
Indices: 150322--150567 Score: 298
Period size: 81 Copynumber: 3.1 Consensus size: 80
150312 TAGTCCAAAA
* * * * * *
150322 TAAAAGAATAATGGCCTAATTGTTCAATTGGCAGAAATGTATCAATTATGCTAGCTAGATAAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGC-AGTTAGATGAACG
*
150387 GTTAAAAACTGTTGAG
65 ATTAAAAACTGTTGAG
* * * *
150403 TAAAAGAATAATGTCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTA-CCAGTTAGATGAATGT
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCAGTTAGATGAACGA
* *
150467 TTAAAGA-TCGTTAAG
66 TTAAAAACT-GTTGAG
* * *
150482 TAAAAGAATAATGGCATAACTGTGCAATTGGCAGAAAGGTGTTAATTTTGGCAGTTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTAT-GCAGTTAGATGAACG
*
150547 ATTAAATACTGTTGAG
65 ATTAAAAACTGTTGAG
150563 TAAAA
1 TAAAA
150568 TATGAAAAGT
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 65 0.46
80 1 0.01
81 72 0.51
82 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (80 bp):
TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCAGTTAGATGAACGA
TTAAAAACTGTTGAG
Found at i:164897 original size:29 final size:30
Alignment explanation
Indices: 164809--164897 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 30
164799 TAAAATATAT
* * *
164809 AACTTTT-AAAAATTACAATTTTAGTCCCTA
1 AACTTTTCAAAACTTA-TATTTTAGTCACTA
* ** *
164839 AACTTTTTAAAGTTTATACTTTAG-CTACTA
1 AACTTTTCAAAACTTATATTTTAGTC-ACTA
164869 AAC-TTTCAAAACTTATATTTTAGTCACTA
1 AACTTTTCAAAACTTATATTTTAGTCACTA
164898 GACAAAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 21 0.45
30 20 0.43
31 6 0.13
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (30 bp):
AACTTTTCAAAACTTATATTTTAGTCACTA
Found at i:167634 original size:26 final size:26
Alignment explanation
Indices: 167584--167636 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
167574 GGTCTGATGT
* *
167584 GGCAGTTTCTAGAAGGTCCAGTCAGC
1 GGCAGTTTCTAGAAGATCCACTCAGC
*
167610 GGCAGTTTCTAGAAGATCTACTCAGC
1 GGCAGTTTCTAGAAGATCCACTCAGC
167636 G
1 G
167637 CGCCTACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (26 bp):
GGCAGTTTCTAGAAGATCCACTCAGC
Found at i:168072 original size:18 final size:19
Alignment explanation
Indices: 168051--168087 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
168041 CTGCGCTTAT
168051 TTTTCAAAATCAAA-ATAG
1 TTTTCAAAATCAAAGATAG
168069 TTTTCAAAATCAAAGATAG
1 TTTTCAAAATCAAAGATAG
168088 ACTTTGGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTTCAAAATCAAAGATAG
Found at i:176474 original size:11 final size:11
Alignment explanation
Indices: 176437--176506 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
176427 ATAAAGAGAT
176437 AAAAAAGAAGA
1 AAAAAAGAAGA
* *
176448 ACAAGA-AAG-
1 AAAAAAGAAGA
*
176457 AAGAAAGAAGA
1 AAAAAAGAAGA
*
176468 AAAAAAGGAGA
1 AAAAAAGAAGA
*
176479 AAAAATG-AGA
1 AAAAAAGAAGA
*
176489 AAAAAAGGAGA
1 AAAAAAGAAGA
176500 AATAAAA
1 AA-AAAA
176507 TAAATCAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 3 0.07
10 15 0.33
11 24 0.52
12 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:176491 original size:9 final size:10
Alignment explanation
Indices: 176468--176501 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
176458 AGAAAGAAGA
176468 AAAAAAGGAG
1 AAAAAAGGAG
*
176478 AAAAAATGAG
1 AAAAAAGGAG
176488 AAAAAAAGGAG
1 -AAAAAAGGAG
176499 AAA
1 AAA
176502 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (10 bp):
AAAAAAGGAG
Found at i:178760 original size:41 final size:42
Alignment explanation
Indices: 178654--178760 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
178644 CTAAAATTTG
* * *
178654 TAAGTCCTTCGGGTCATCATTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGTCATCAGTAAGTCTTTCGAACAAGATGAT
* * * * *
178696 TAAATCCTTCGGGTCTTCTGTAAGTCTTTTGAACAAGGTGA-
1 TAAGTCCTTCGGGTCATCAGTAAGTCTTTCGAACAAGATGAT
* *
178737 TAAGTCCTTCGGGCCATCCGTAAG
1 TAAGTCCTTCGGGTCATCAGTAAG
178761 ACCTTCGAGT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 20 0.38
42 33 0.62
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCAGTAAGTCTTTCGAACAAGATGAT
Found at i:179343 original size:249 final size:248
Alignment explanation
Indices: 178902--179731 Score: 1163
Period size: 248 Copynumber: 3.4 Consensus size: 248
178892 CCAAAATTTG
* * *
178902 TAAATCCTTCGGGTCATCTGTAAGTTTTTCGAGCAAGATGATAAGTCATTCGGGACATCCGTAAG
1 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCCGTAAA
* * * *
178967 ACCTTTGGGTATGATGTTTTCACATGAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATG
66 ACCTTCGGGTAGGATGTTTTCACATG--AATGAGAAAACGATTTTCAAAGTTTCTCATTTAAAT-
* *
179032 TTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAACT
128 ATTTCTGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAACT
*
179097 ATTTCCCAAATTAGTAAGTCCTTCGAGCCATCAATAAGTCTTTTGAGCATGATGAT
193 ATTTCCCAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTTGAGCATGATGAT
* * *
179153 TAAATCCTTTGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCTTAAA
1 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCCGTAAA
* * *
179218 ACCTTCGGGTAGGATGTTTTCACATGAATGAGAAATCAATTTTCAAAATTTCTCATTTAAATCAT
66 ACCTTCGGGTAGGATGTTTTCACATGAATGAGAAAACGATTTTCAAAGTTTCTCATTTAAAT-AT
* * * *
179283 TTCTGAAAATGAAAGTTTTGAAAAATAAGAAAGCGATTACCAAACTTTCTTACACAGTAAACTAT
130 TTCTGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAACTAT
* *
179348 TTCCCAAATTGGTAAGTCCTTCG-GCCATCAGTAAGTCTTTCGAGCATGATGAT
195 TTCCCAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTTGAGCATGATGAT
* * * ** *
179401 TAAATCATTTGGGTCATTTGTAAGTCTTTCGAATAAGATGATAAGTCCTTCGGGTCATCCGTAAA
1 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCCGTAAA
* * *
179466 ACCTTCGGGTATGATGTTTTCACATGAATGAGAAAACGATTTTCAAAGTTTCTCGTTT-AATGTT
66 ACCTTCGGGTAGGATGTTTTCACATGAATGAGAAAACGATTTTCAAAGTTTCTCATTTAAATATT
*
179530 T-TG---A-GAAATTTTTTGAAAAGTAAGAAAGCGATTACCAATGTTTCTTACCCAGTAAACTAT
131 TCTGAAAATGAAA-TTTTTGAAAAGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAACTAT
* **
179590 TTCCTAAATTGGTAAGTAATTCTGA-CCATCAATAAGTCTTTTGAGCATGATGAT
195 TTCCCAAATTGGTAAGTCCTTC-GAGCCATCAATAAGTCTTTTGAGCATGATGAT
* * * * * * * *
179644 TAAATCCTTCGGGTGATCTGTCAGTCTTTTGAGCAAGAAGATAAGTCCTTTGGGCCAACCGTAAG
1 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCCGTAAA
179709 ACCTTCGGGTAGGATGTTTTCAC
66 ACCTTCGGGTAGGATGTTTTCAC
179732 TTTTTATTAT
Statistics
Matches: 517, Mismatches: 59, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
241 4 0.01
242 66 0.13
243 102 0.20
245 2 0.00
246 3 0.01
247 3 0.01
248 139 0.27
249 115 0.22
251 83 0.16
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (248 bp):
TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCCGTAAA
ACCTTCGGGTAGGATGTTTTCACATGAATGAGAAAACGATTTTCAAAGTTTCTCATTTAAATATT
TCTGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAACTATT
TCCCAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTTGAGCATGATGAT
Found at i:180079 original size:134 final size:134
Alignment explanation
Indices: 179839--180362 Score: 730
Period size: 134 Copynumber: 3.9 Consensus size: 134
179829 GAAGTCAATT
* * * *
179839 TTTCAGATTTGGTCTTCTTGAAGAACATCGAAGCAAATCAAGATCGATTCAATCTTCCTTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGA
* ** *
179904 ACAGCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGTTTATTTTT
66 ACATCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCATATTCTT
*
179969 GTTC
131 CTTC
* * *
179973 TTTCAGATTTGGTCTTCTTGAAGAACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCTTAAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGA
* *
180038 ACATCGAAGTGGATAAAAGATTTCTCCAGTCTGATCTCCCCTAAAGAGTAGTGGAGCATATTCTT
66 ACATCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCATATTCTT
180103 CTTC
131 CTTC
*
180107 TTTCAGATTTGGTCTTCCTGAAGAGA-AGCGAAGCAAATCAAGTTCGATTCAATTTTCCCTGAAG
1 TTTCAGATTTGGTCTTCCTGAAGA-ACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAG
* * * * * *
180171 AACAACGAAGTGGATCAAAGATTTTTCGAGTCTAATCTCCCTTAGAGAGTAGTGGAGCAGATTCT
65 AACATCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCATATTCT
180236 TCTTC
130 TCTTC
** * * *
180241 TTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAACCTCGGTTCAATTTTCCCTGGAGA
1 TTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGA
* * * * *
180306 ACAGT-GAAAT-GAGCAAATATTTCTCGAGTCTGATCTCCCTTAAAGAATAGTGGAGCA
66 ACA-TCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCA
180363 AACTTGTCTT
Statistics
Matches: 353, Mismatches: 34, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
133 42 0.12
134 310 0.88
135 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (134 bp):
TTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGA
ACATCGAAGTGGATCAAAGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCATATTCTT
CTTC
Found at i:183975 original size:17 final size:18
Alignment explanation
Indices: 183938--183978 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
183928 ATATTATGTA
*
183938 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
183956 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
183973 TTTACT
1 TTTACT
183979 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:185689 original size:18 final size:18
Alignment explanation
Indices: 185663--185714 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
185653 GCCATTGCAG
*
185663 CCATTTATGATGCCACAA
1 CCATATATGATGCCACAA
*
185681 CCATATATGATGCCGCAA
1 CCATATATGATGCCACAA
185699 CCATATATGATGCCAC
1 CCATATATGATGCCAC
185715 TATCGCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (18 bp):
CCATATATGATGCCACAA
Found at i:186331 original size:35 final size:33
Alignment explanation
Indices: 186292--186376 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
186282 ATATTTCAGT
186292 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
186327 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
186362 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
186377 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:190033 original size:41 final size:41
Alignment explanation
Indices: 189955--190038 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
189945 AATATAATTC
* ** *
189955 ACCCCTACGTGGCGTATAGCGCGGCCCCTGATCCGCGCTAT
1 ACCCCTACGTGGCGTATAGCGCGGACCAGGAGCCGCGCTAT
* * *
189996 ACCCCTACGTGGCGTATAGCGCGGATCAGGGGGCGCGCTAT
1 ACCCCTACGTGGCGTATAGCGCGGACCAGGAGCCGCGCTAT
190037 AC
1 AC
190039 ACACGTGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.18
Consensus pattern (41 bp):
ACCCCTACGTGGCGTATAGCGCGGACCAGGAGCCGCGCTAT
Found at i:194317 original size:24 final size:24
Alignment explanation
Indices: 194284--194369 Score: 145
Period size: 24 Copynumber: 3.6 Consensus size: 24
194274 TTCGATAATC
* *
194284 CGTTCTTTTATGTTCATTTACATT
1 CGTTCGTTTATATTCATTTACATT
*
194308 CATTCGTTTATATTCATTTACATT
1 CGTTCGTTTATATTCATTTACATT
194332 CGTTCGTTTATATTCATTTACATT
1 CGTTCGTTTATATTCATTTACATT
194356 CGTTCGTTTATATT
1 CGTTCGTTTATATT
194370 TTGTTTAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (24 bp):
CGTTCGTTTATATTCATTTACATT
Found at i:197063 original size:54 final size:54
Alignment explanation
Indices: 196978--197564 Score: 797
Period size: 54 Copynumber: 10.9 Consensus size: 54
196968 GCATTTTTAT
* * *
196978 GTATCAACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTCTGAATGACC
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
** * * * *
197032 GTATCGGTACTAAGTGTACAACCCACATAATTCATGATAAGTTTATGAACGACT
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
* *
197086 GTATCGACACTAAGTGTGTAACCCACGA-AATTCATAATAAGTTTATGAATGATC
1 GTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAATGACC
* * * * * *
197140 GTAGCGGCACTAAGTGTGCAACCCACGTAATTCATAATAAATTTATGAACGACT
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
*
197194 GTATC-AGCACTAAGTGTGCAACCCACATAAATCATAATAAGTTTATGAATGACC
1 GTATCGA-CACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
* * * * *
197248 GTATTGACAATAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACC
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
*
197302 GTATCGACACTAAGTGCGCAACCCACGA-AATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAATGACC
***
197356 GTATCGGTTCTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAATGACC
* *
197410 GTATCGACACTAAGTGTGTAACCCACAAAATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
* *
197464 GTATC-AGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGCCC
1 GTATCGA-CACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
*
197518 GTATCGACAGTAAGTGTGCAACCCACATAATTCATAATAAGGTTTAT
1 GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAA-GTTTAT
197565 AAAGGATAGT
Statistics
Matches: 468, Mismatches: 56, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.00
54 456 0.97
55 10 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (54 bp):
GTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACC
Found at i:203239 original size:54 final size:54
Alignment explanation
Indices: 203155--203767 Score: 774
Period size: 54 Copynumber: 11.4 Consensus size: 54
203145 GCATTTTTAT
203155 GTATCGACAC-AA-TGTGCAACCCAC-GTAATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAATGACC
* * * * * *
203207 GTATCGGCACTAAGTGTGCAACCCATAGAATTCATGATAAGTTTATAAAAGACT
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* * *
203261 GTATCGACACTAATTATGCAACCCAC-GAAATTCATAATAAGTTTATGAATAACC
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAATGACC
* * *
203315 GTATCGACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACG
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* * * * *
203369 GTATCGGCACTAATTGTACAAACCACAAAATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* * *
203423 GTATCGACAATAAGTGTGTAACCCACAGAATTCATAATAAGTTTATGAACGACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* *
203477 GTATCGACACTAAGTGTGCAACCTACGGAATTCATAATAAGTTTATGAATGACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* * **
203531 GTATCAACACTAAGTGTGCAACCCA-GGAAATTCATAATAAGTTTATGAATGGTC
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAATGACC
*
203585 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGAGC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
* * *
203639 GTATCGACACTAAGTGTGCAACCTAC-GTAATTCATAATAAGTTTATGAACGACA
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAATGACC
* * * * * *
203693 GTATTGACACTAAGTTTAG-AACTCACAAAATTCATAATAAGGTTTATAAATGATC
1 GTATCGACACTAAGTGT-GCAACCCACAGAATTCATAATAA-GTTTATGAATGACC
*
203748 GTATC-AGCACTATGTGTGCA
1 GTATCGA-CACTAAGTGTGCA
203768 CACCACGAAA
Statistics
Matches: 484, Mismatches: 64, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
52 9 0.02
53 6 0.01
54 442 0.91
55 27 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACC
Found at i:203733 original size:27 final size:27
Alignment explanation
Indices: 203667--203739 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
203657 CAACCTACGT
* *
203667 AATTCATAATAAGTTTATGAACGACAG
1 AATTCATAATAAGTTTATGAACCACAA
* * * *
203694 TATTGACACTAAGTTTA-GAACTCACAA
1 AATTCATAATAAGTTTATGAAC-CACAA
203721 AATTCATAATAAGGTTTAT
1 AATTCATAATAA-GTTTAT
203740 AAATGATCGT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
26 4 0.12
27 24 0.73
28 5 0.15
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
AATTCATAATAAGTTTATGAACCACAA
Found at i:209110 original size:14 final size:14
Alignment explanation
Indices: 209091--209117 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
209081 ACATATTATT
209091 TTATGTTAGATGAC
1 TTATGTTAGATGAC
209105 TTATGTTAGATGA
1 TTATGTTAGATGA
209118 TGAACTTATA
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:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
TTATGTTAGATGAC
Found at i:211975 original size:20 final size:21
Alignment explanation
Indices: 211943--212001 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
211933 TTAGACAGAG
211943 GGAATCGGTACCCCCTGGGGA
1 GGAATCGGTACCCCCTGGGGA
*
211964 GGAATC-GTACCCCCTGGGGG
1 GGAATCGGTACCCCCTGGGGA
**
211984 GGAATCTATACCCCCTGG
1 GGAATCGGTACCCCCTGG
212002 ACATTCTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.17
Consensus pattern (21 bp):
GGAATCGGTACCCCCTGGGGA
Found at i:214794 original size:20 final size:20
Alignment explanation
Indices: 214771--214810 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
214761 CCATTAGACA
214771 GGGGAATCGATACCCCCTGG
1 GGGGAATCGATACCCCCTGG
*
214791 GGGGAATCTATACCCCCTGG
1 GGGGAATCGATACCCCCTGG
214811 ACATTCTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (20 bp):
GGGGAATCGATACCCCCTGG
Done.