Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014839.1 Kokia drynarioides strain JFW-HI SEQ_129882, 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: 392975
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 312 characters in sequence are not A, C, G, or T
Found at i:478 original size:16 final size:16
Alignment explanation
Indices: 459--501 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
449 TTCTTCCTTG
* * *
459 TTTTGTTTCTTTTTTT
1 TTTTATTTCTTTATTC
*
475 TTTTCTTTCTTTATTC
1 TTTTATTTCTTTATTC
491 TTTTATTTCTT
1 TTTTATTTCTT
502 ATATATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTATTTCTTTATTC
Found at i:3281 original size:3 final size:3
Alignment explanation
Indices: 3273--3305 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3263 TAGATATCAA
*
3273 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3306 GTTGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5158 original size:31 final size:32
Alignment explanation
Indices: 5120--5180 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
5110 TATGTTTTAA
5120 TATATAATTGTATACAT-AAATTTTAATTTTG
1 TATATAATTGTATACATGAAATTTTAATTTTG
* *
5151 TATATAATTTTATACATGAAATTTTGATTT
1 TATATAATTGTATACATGAAATTTTAATTT
5181 AGTCAAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (32 bp):
TATATAATTGTATACATGAAATTTTAATTTTG
Found at i:7679 original size:15 final size:15
Alignment explanation
Indices: 7661--7701 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
7651 ATATTAAACA
*
7661 TAAAATAATTATATT
1 TAAAATAATTATATG
*
7676 TAAAAT-ATGATATG
1 TAAAATAATTATATG
7690 TAAAATAATTAT
1 TAAAATAATTAT
7702 TCTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
TAAAATAATTATATG
Found at i:9136 original size:14 final size:14
Alignment explanation
Indices: 9117--9176 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
9107 TAAATAAAAT
*
9117 TAAAATTTCATATA
1 TAAAATTACATATA
* *
9131 TAAAATTACACAAAA
1 TAAAATTACA-TATA
*
9146 TTAAAATT-TATATA
1 -TAAAATTACATATA
9160 TAAAATTACATAT-
1 TAAAATTACATATA
9173 TAAA
1 TAAA
9177 CTAAAATCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
13 11 0.31
14 15 0.42
15 3 0.08
16 7 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATTACATATA
Found at i:9168 original size:29 final size:30
Alignment explanation
Indices: 9102--9169 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
9092 ATAATTTGAA
* *
9102 AAAATTAAATAAAATTAAAATTTCATATAT
1 AAAATTACACAAAATTAAAATTTCATATAT
9132 AAAATTACACAAAATTAAAATTT-ATATAT
1 AAAATTACACAAAATTAAAATTTCATATAT
9161 AAAATTACA
1 AAAATTACA
9170 TATTAAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATTACACAAAATTAAAATTTCATATAT
Found at i:9182 original size:31 final size:30
Alignment explanation
Indices: 9102--9183 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
9092 ATAATTTGAA
* * *
9102 AAAATTAAATAAAATTAAAATTTCATATAT
1 AAAATTACACAAAACTAAAATTTCATATAT
*
9132 AAAATTACACAAAATTAAAATTT-ATATAT
1 AAAATTACACAAAACTAAAATTTCATATAT
*
9161 AAAATTACATATTAAACTAAAAT
1 AAAATTACACA--AAACTAAAAT
9184 CTATGAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 21 0.46
31 9 0.20
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATTACACAAAACTAAAATTTCATATAT
Found at i:29552 original size:17 final size:19
Alignment explanation
Indices: 29522--29565 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
29512 TCAAATGAAC
29522 AAAAATGGATAGAAAT-GGA
1 AAAAATGGA-AGAAATGGGA
29541 AAAAATGG-AGAAATGGGA
1 AAAAATGGAAGAAATGGGA
29559 AAAAATG
1 AAAAATG
29566 AACTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 10 0.42
19 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (19 bp):
AAAAATGGAAGAAATGGGA
Found at i:30525 original size:18 final size:18
Alignment explanation
Indices: 30482--30529 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
30472 AATTCAGTTT
30482 GAAATAAAGTAATTAACC
1 GAAATAAAGTAATTAACC
30500 -AAATTAAACG-AATTAACC
1 GAAA-TAAA-GTAATTAACC
30518 GAAATAAA-TAAT
1 GAAATAAAGTAAT
30530 ATATATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 6 0.23
18 16 0.62
19 4 0.15
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.23
Consensus pattern (18 bp):
GAAATAAAGTAATTAACC
Found at i:33310 original size:22 final size:22
Alignment explanation
Indices: 33284--33352 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 22
33274 TAAAAGTAAA
33284 TAAAATTTGACATACCAAATAT
1 TAAAATTTGACATACCAAATAT
* * * *
33306 TAAAA-AT-ACTTTCCAACTA-
1 TAAAATTTGACATACCAAATAT
* * *
33325 TAAAACTTGACATATCAAACAT
1 TAAAATTTGACATACCAAATAT
33347 TAAAAT
1 TAAAAT
33353 ACTTTCAAAA
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 5 0.15
20 10 0.30
21 8 0.24
22 10 0.30
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (22 bp):
TAAAATTTGACATACCAAATAT
Found at i:33328 original size:41 final size:41
Alignment explanation
Indices: 33283--33405 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
33273 ATAAAAGTAA
*
33283 ATAAAATTTGACATACCAAATATTAAAAATACTTTCCAACT
1 ATAAAATTTGACATATCAAATATTAAAAATACTTTCCAACT
* * * *
33324 ATAAAACTTGACATATCAAACATT-AAAATACTTTCAAAAT
1 ATAAAATTTGACATATCAAATATTAAAAATACTTTCCAACT
* * * * *
33364 AT-AAATCTTGATATATTAAATGTTAGAATTACTTTCCAACT
1 ATAAAAT-TTGACATATCAAATATTAAAAATACTTTCCAACT
33405 A
1 A
33406 ATTAAATATT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
39 3 0.05
40 29 0.44
41 34 0.52
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (41 bp):
ATAAAATTTGACATATCAAATATTAAAAATACTTTCCAACT
Found at i:33367 original size:40 final size:41
Alignment explanation
Indices: 33283--33379 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
33273 ATAAAAGTAA
* * * * *
33283 ATAAAATTTGACATACCAAATATTAAAAATACTTTCCAACT
1 ATAAAACTTGACATATCAAACATTAAAAATACTTTCAAAAT
33324 ATAAAACTTGACATATCAAACATT-AAAATACTTTCAAAAT
1 ATAAAACTTGACATATCAAACATTAAAAATACTTTCAAAAT
* *
33364 ATAAATCTTGATATAT
1 ATAAAACTTGACATAT
33380 TAAATGTTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 28 0.57
41 21 0.43
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (41 bp):
ATAAAACTTGACATATCAAACATTAAAAATACTTTCAAAAT
Found at i:51860 original size:12 final size:12
Alignment explanation
Indices: 51845--51875 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51835 CAAAAATGAT
51845 ACAAAAATAACA
1 ACAAAAATAACA
51857 ACAAAAATAACA
1 ACAAAAATAACA
*
51869 ATAAAAA
1 ACAAAAA
51876 CAGCACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (12 bp):
ACAAAAATAACA
Found at i:51984 original size:21 final size:22
Alignment explanation
Indices: 51940--51989 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
51930 AACACAATAT
51940 CAAAACAGCAAAAAATAGCAAC
1 CAAAACAGCAAAAAATAGCAAC
51962 CAAAACAGCAAAAAATAGC-AC
1 CAAAACAGCAAAAAATAGCAAC
51983 CAAAACA
1 CAAAACA
51990 ATAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.64, C:0.24, G:0.08, T:0.04
Consensus pattern (22 bp):
CAAAACAGCAAAAAATAGCAAC
Found at i:53327 original size:25 final size:25
Alignment explanation
Indices: 53293--53343 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53283 TGTTTGAGAG
53293 TATGTCAAAGACTTTAGTGAATTAA
1 TATGTCAAAGACTTTAGTGAATTAA
53318 TATGTCAAAGACTTTAGTGAATTAA
1 TATGTCAAAGACTTTAGTGAATTAA
53343 T
1 T
53344 GCACTTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (25 bp):
TATGTCAAAGACTTTAGTGAATTAA
Found at i:54777 original size:23 final size:23
Alignment explanation
Indices: 54732--54780 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
54722 TCATTAACAT
*
54732 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTAGTTTAA
* *
54755 TGTTCGTGAACATGTTAAGTTAAA
1 TGTTCATGAACATGTT-AGTTTAA
54779 TG
1 TG
54781 AACATATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTAGTTTAA
Found at i:60761 original size:18 final size:18
Alignment explanation
Indices: 60740--60775 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60730 TTAAATTTTA
60740 TTTTAACTCTTTATTTCC
1 TTTTAACTCTTTATTTCC
**
60758 TTTTATTTCTTTATTTCC
1 TTTTAACTCTTTATTTCC
60776 CTCCTCCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAACTCTTTATTTCC
Found at i:63998 original size:10 final size:11
Alignment explanation
Indices: 63971--64003 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63961 TGTTCTGATT
63971 TAGAAAAATCA
1 TAGAAAAATCA
*
63982 TAAAAAAAT-A
1 TAGAAAAATCA
63992 TAGAAAAATCA
1 TAGAAAAATCA
64003 T
1 T
64004 TAGAGACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (11 bp):
TAGAAAAATCA
Found at i:64475 original size:23 final size:22
Alignment explanation
Indices: 64434--64506 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
64424 CTAGCGCGCT
* *
64434 TACTGTTTCGCACTTTGTGTGCC
1 TACTGATT-GCACTATGTGTGCC
* * *
64457 TACTGATTTGCGCTATGTGCGTC
1 TACTGA-TTGCACTATGTGTGCC
* *
64480 TACTGATTGCACTGTGTGTGCT
1 TACTGATTGCACTATGTGTGCC
64502 TACTG
1 TACTG
64507 TTTCCCCAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
22 16 0.41
23 21 0.54
24 2 0.05
ACGTcount: A:0.12, C:0.22, G:0.25, T:0.41
Consensus pattern (22 bp):
TACTGATTGCACTATGTGTGCC
Found at i:64497 original size:22 final size:21
Alignment explanation
Indices: 64449--64497 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
64439 TTTCGCACTT
*
64449 TGTGTGCCTACTGATTTGCGC
1 TGTGTGCCTACTGATTTGCAC
*
64470 TATGTGCGTCTACTGA-TTGCAC
1 TGTGTGC--CTACTGATTTGCAC
64492 TGTGTG
1 TGTGTG
64498 TGCTTACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 10 0.43
23 7 0.30
ACGTcount: A:0.12, C:0.20, G:0.29, T:0.39
Consensus pattern (21 bp):
TGTGTGCCTACTGATTTGCAC
Found at i:65132 original size:6 final size:6
Alignment explanation
Indices: 65123--65190 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
65113 TAGATTTATC
* ** *
65123 TTAAGT TTAAAT TTATTT TTAAAT TTAAAT TT-AAT TTAAGT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
65170 TT--AT TCTCAAAT TTAAAT TTA
1 TTAAAT T-T-AAAT TTAAAT TTA
65191 TTCTACATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 37 0.74
7 1 0.02
8 3 0.06
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:65144 original size:18 final size:18
Alignment explanation
Indices: 65123--65192 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
65113 TAGATTTATC
*
65123 TTAAGTTTAAATTTATTT
1 TTAAATTTAAATTTATTT
*
65141 TTAAATTTAAATTTA-AT
1 TTAAATTTAAATTTATTT
* *
65158 TTAAGTTTAAATTTATTC
1 TTAAATTTAAATTTATTT
*
65176 TCAAATTTAAATTTATT
1 TTAAATTTAAATTTATT
65193 CTACATATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 15 0.34
18 29 0.66
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTAAATTTAAATTTATTT
Found at i:65162 original size:35 final size:35
Alignment explanation
Indices: 65123--65190 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
65113 TAGATTTATC
* *
65123 TTAAGTTTAAATTTATTTTTAAATTTAAATTTAAT
1 TTAAGTTTAAATTTATTCTCAAATTTAAATTTAAT
65158 TTAAGTTTAAATTTATTCTCAAATTTAAATTTA
1 TTAAGTTTAAATTTATTCTCAAATTTAAATTTA
65191 TTCTACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (35 bp):
TTAAGTTTAAATTTATTCTCAAATTTAAATTTAAT
Found at i:65193 original size:18 final size:17
Alignment explanation
Indices: 65128--65205 Score: 86
Period size: 18 Copynumber: 4.5 Consensus size: 17
65118 TTATCTTAAG
*
65128 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTCTAAA
*
65146 TTTAAATTTAATT-TAAG
1 TTTAAATTT-ATTCTAAA
65163 TTTAAATTTATTCTCAAA
1 TTTAAATTTATTCT-AAA
*
65181 TTTAAATTTATTCTACA
1 TTTAAATTTATTCTAAA
*
65198 TATAAATT
1 TTTAAATT
65206 AATAGAGTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
16 3 0.06
17 22 0.42
18 27 0.51
19 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:68598 original size:23 final size:21
Alignment explanation
Indices: 68560--68706 Score: 100
Period size: 23 Copynumber: 6.5 Consensus size: 21
68550 GAACGCTAGC
* *
68560 GCTTACTGTTCAGCACTATGTAT
1 GCTTACTGTT-TGCACT-TGTGT
68583 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTT-GCACTT-GTGT
* * *
68606 GCCTACTAATTTGCACTATGTGC
1 GCTTACT-GTTTGCACT-TGTGT
*
68629 GCTTACTGATTGCAC-TGTGT
1 GCTTACTGTTTGCACTTGTGT
*
68649 G-TCTACTAGATTGCACTGTGTGT
1 GCT-TACT-GTTTGCACT-TGTGT
68672 GCTTACTGTTTCCCAGCACTTGTGT
1 GCTTACTGTTT----GCACTTGTGT
68697 GCTTACTGTT
1 GCTTACTGTT
68707 AAGTACTTTG
Statistics
Matches: 101, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
19 1 0.01
20 9 0.09
21 8 0.08
22 10 0.10
23 48 0.48
24 5 0.05
25 15 0.15
26 5 0.05
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (21 bp):
GCTTACTGTTTGCACTTGTGT
Found at i:68662 original size:21 final size:20
Alignment explanation
Indices: 68632--68671 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
68622 TATGTGCGCT
68632 TACTGATTGCACTGTGTGTC
1 TACTGATTGCACTGTGTGTC
68652 TACTAGATTGCACTGTGTGT
1 TACT-GATTGCACTGTGTGT
68672 GCTTACTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
TACTGATTGCACTGTGTGTC
Found at i:68663 original size:43 final size:46
Alignment explanation
Indices: 68572--68679 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 46
68562 TTACTGTTCA
* *
68572 GCACTATGTATGCTTACTGTTTCGCACTTCGTGTGCCTACTAATTT
1 GCACTATGTGTGCTTACTGATTCGCACTTCGTGTGCCTACTAATTT
* *
68618 GCACTATGTGCGCTTACTGATT-GCAC-T-GTGTGTCTACTAGA-TT
1 GCACTATGTGTGCTTACTGATTCGCACTTCGTGTGCCTACTA-ATTT
*
68661 GCACTGTGTGTGCTTACTG
1 GCACTATGTGTGCTTACTG
68680 TTTCCCAGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 30 0.55
44 2 0.04
45 4 0.07
46 19 0.35
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (46 bp):
GCACTATGTGTGCTTACTGATTCGCACTTCGTGTGCCTACTAATTT
Found at i:70542 original size:29 final size:29
Alignment explanation
Indices: 70499--70555 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
70489 TATTGACTTT
70499 TTATAAAAATAACTCGA-ATTTTTTATTAA
1 TTATAAAAATAACTC-ACATTTTTTATTAA
* *
70528 TTATAAAAATGACTCACTTTTTTTATTA
1 TTATAAAAATAACTCACATTTTTTATTA
70556 TGTAAGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (29 bp):
TTATAAAAATAACTCACATTTTTTATTAA
Found at i:72739 original size:18 final size:20
Alignment explanation
Indices: 72708--72744 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
72698 TTAAAATTGT
72708 TAATATTTGATTTT-TTTTG
1 TAATATTTGATTTTATTTTG
*
72727 TAAT-TTTGTTTTTATTTT
1 TAATATTTGATTTTATTTT
72745 TATTTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (20 bp):
TAATATTTGATTTTATTTTG
Found at i:78008 original size:3 final size:3
Alignment explanation
Indices: 78002--78040 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
77992 ATACTACCTC
78002 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
78041 GGATTGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:79537 original size:29 final size:27
Alignment explanation
Indices: 79475--79540 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
79465 CTCTTTTCTA
*
79475 TTTTGGTCACTCAACTATCAATTTTTT
1 TTTTGGTCACTCAACTATCAATGTTTT
79502 TAATTTGGTCAC-CAACTAATCGATATGTTTT
1 T--TTTGGTCACTCAACT-ATC-A-ATGTTTT
79533 TTTTGGTC
1 TTTTGGTC
79541 CATTTCCGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 19 0.58
30 1 0.03
31 7 0.21
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (27 bp):
TTTTGGTCACTCAACTATCAATGTTTT
Found at i:85988 original size:13 final size:14
Alignment explanation
Indices: 85947--85982 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
85937 AAAACGGATA
* *
85947 TTTTTCTCCGTACT
1 TTTTTTTCCATACT
85961 TTTTTTTCCATACT
1 TTTTTTTCCATACT
85975 TTTTTTTC
1 TTTTTTTC
85983 GAACTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTTTTTCCATACT
Found at i:99466 original size:22 final size:22
Alignment explanation
Indices: 99439--99488 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
99429 ATTAATTGAG
*
99439 GAAAAAAC-TCAAGTATCAAATT
1 GAAAAAACTTCAA-TACCAAATT
99461 GAAAAAACTTCAATACCAAATT
1 GAAAAAACTTCAATACCAAATT
99483 -AAAAAA
1 GAAAAAA
99489 GATTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.23
22 16 0.62
23 4 0.15
ACGTcount: A:0.60, C:0.14, G:0.06, T:0.20
Consensus pattern (22 bp):
GAAAAAACTTCAATACCAAATT
Found at i:99963 original size:31 final size:31
Alignment explanation
Indices: 99890--99970 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 31
99880 ATTTTAGTTT
99890 AATTTGT--AATT-TTATATA-TAAATTTTG
1 AATTTGTACAATTCTTATATATTAAATTTTG
*
99917 ATTTTGTACAA-TCTTATATATTAAATTTT-
1 AATTTGTACAATTCTTATATATTAAATTTTG
*
99946 AATTTG-ATCAAATTCTTATAAATTA
1 AATTTGTA-C-AATTCTTATATATTA
99971 TTAATATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 6 0.14
28 2 0.05
29 15 0.34
30 10 0.23
31 11 0.25
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (31 bp):
AATTTGTACAATTCTTATATATTAAATTTTG
Found at i:101755 original size:25 final size:26
Alignment explanation
Indices: 101704--101756 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
101694 TAAAGGTAAT
**
101704 AAAGTATGCATAATAATTTTACCAAAAA
1 AAAGTATGCATAATAAAATT--CAAAAA
101732 AAAGTATGCATAATAAAATT-AAAAA
1 AAAGTATGCATAATAAAATTCAAAAA
101757 TGTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
28 18 0.78
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (26 bp):
AAAGTATGCATAATAAAATTCAAAAA
Found at i:102229 original size:12 final size:13
Alignment explanation
Indices: 102214--102246 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
102204 TTTTAATTTA
*
102214 AAATTTGAAA-CT
1 AAATTTAAAATCT
102226 AAATTTAAAATCT
1 AAATTTAAAATCT
102239 AAATTTAA
1 AAATTTAA
102247 GTTTCTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (13 bp):
AAATTTAAAATCT
Found at i:110614 original size:2 final size:2
Alignment explanation
Indices: 110607--110638 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
110597 TGCATAGAAT
110607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110639 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117773 original size:27 final size:30
Alignment explanation
Indices: 117720--117774 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
117710 GAAGCTAGAA
* *
117720 AATTCTTTAAGAGAGCTGAAATTAAATTAT
1 AATTCTTTAAAAGAGCTGAAATCAAATTAT
117750 AATT-TTTAAAAGA-CT-AAATCAAATT
1 AATTCTTTAAAAGAGCTGAAATCAAATT
117775 TTTATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 2 0.09
29 8 0.35
30 4 0.17
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTCTTTAAAAGAGCTGAAATCAAATTAT
Found at i:118777 original size:32 final size:32
Alignment explanation
Indices: 118736--118797 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
118726 ACCACTCCAC
118736 TTATTGAATCAATTTTAAAAGA-AAATATTTCA
1 TTATTGAATCAATTTTAAAA-ATAAATATTTCA
118768 TTATTGAATCAATTTTAAAAATAAATATTT
1 TTATTGAATCAATTTTAAAAATAAATATTT
118798 TTTAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 28 0.97
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (32 bp):
TTATTGAATCAATTTTAAAAATAAATATTTCA
Found at i:119518 original size:12 final size:12
Alignment explanation
Indices: 119494--119530 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
119484 AATTATCTTT
119494 AATTTTG-ATTA
1 AATTTTGAATTA
119505 AATTTTGAATTA
1 AATTTTGAATTA
*
119517 AATTTTGAAATA
1 AATTTTGAATTA
119529 AA
1 AA
119531 AGCAAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
AATTTTGAATTA
Found at i:134513 original size:252 final size:255
Alignment explanation
Indices: 134077--134563 Score: 768
Period size: 252 Copynumber: 1.9 Consensus size: 255
134067 TAGTATTTCA
* * * *
134077 AATTTGATTCAATTGCTTTGGGTCTGAACTGAACAAGTTGGGTAGGATGAATTTTGCAATGTAGC
1 AATTTGAATCAATTGCTTTGGGTCTAAACCGAACAAGTTGGGTAGGATGAATTTTGCAAAGTAGC
* *
134142 AGCAGCTAGATTGTGGGATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGTAGAAGGCCTTT
66 A-CAGCTAGAATGCGGGATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGTAGAAGGCCTTT
*
134207 GGAAGTTGAGTGAAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTTTAAAGGAATAG
130 GGAAGTTGAGTGAAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTTTAAAGGAAAAG
*
134272 TAACTTAAAACTGGGGTGCTGTGACT-AGAACAAAACTCTCGAATTTGTTTTTATGATTTTG
195 TAACTTAAAACTGGGGTGCTGTGA-TGAGAACAAAAATCTCGAATTTGTTTTTATGATTTTG
*
134333 AATTTGAATCAATTGCTTTGGGTCTAAACCGAACCAGTTGGGTAGGATGAATTTTGCAAAGT-GC
1 AATTTGAATCAATTGCTTTGGGTCTAAACCGAACAAGTTGGGTAGGATGAATTTTGCAAAGTAGC
* * *
134397 -CGGCTAGAATGCGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGTA-AAGGCTTTTG
66 ACAGCTAGAATGCGGGATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGTAGAAGGCCTTTG
134460 GAAGTTGAGT-AGAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTTTAAAGGAAAAG
131 GAAGTTGAGTGA-AAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTTTAAAGGAAAAG
*** *
134524 TAACTTAGGCCTGGGGTTCTGTGATGAGAACAAAAATCTC
195 TAACTTAAAACTGGGGTGCTGTGATGAGAACAAAAATCTC
134564 TCATTCTATA
Statistics
Matches: 213, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
251 2 0.01
252 103 0.48
253 49 0.23
255 2 0.01
256 57 0.27
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (255 bp):
AATTTGAATCAATTGCTTTGGGTCTAAACCGAACAAGTTGGGTAGGATGAATTTTGCAAAGTAGC
ACAGCTAGAATGCGGGATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGTAGAAGGCCTTTG
GAAGTTGAGTGAAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTTTAAAGGAAAAGT
AACTTAAAACTGGGGTGCTGTGATGAGAACAAAAATCTCGAATTTGTTTTTATGATTTTG
Found at i:162014 original size:7 final size:7
Alignment explanation
Indices: 161993--162026 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
161983 AATTATTTAT
161993 AAAA-AA
1 AAAAGAA
161999 AAAAG-A
1 AAAAGAA
162005 AAAAGAA
1 AAAAGAA
162012 AAAAGAA
1 AAAAGAA
162019 AAAAGAA
1 AAAAGAA
162026 A
1 A
162027 CAACCAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 10 0.38
7 16 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:163111 original size:216 final size:216
Alignment explanation
Indices: 162735--163140 Score: 776
Period size: 216 Copynumber: 1.9 Consensus size: 216
162725 AAAAATCCTG
162735 CAATCATGCTAAATAATTTTTGAAATTTTATGAAAAAAGTTTATATAAAAAAACAAATGCATGAA
1 CAATCATGCTAAATAATTTTTGAAATTTTATGAAAAAAGTTTATATAAAAAAACAAATGCATGAA
162800 ACGTGCGAAAGTGACTAAGGAGGTAAAACTGGGTGCATAATAGAAGAGATAAAGATAGAGTGAGT
66 ACGTGCGAAAGTGACTAAGGAGGTAAAACTGGGTGCATAATAGAAGAGATAAAGATAGAGTGAGT
* *
162865 GTGAAATGTTGGTGGAAAGTTAAAAGCAAATGTAGAGTCAAAAATTGTGAGCCATTAATTTCATT
131 GTGAAATGTTGGTGGAAAGTTAAAAGCAAATGTAGAGTCAAAAACTGTGAGCCAATAATTTCATT
162930 TCGAATAATTTTATGTTACAT
196 TCGAATAATTTTATGTTACAT
162951 CAATCATGCTAAATAATTTTTGAAATTTTATGAAAAAAGTTTATATAAAAAAACAAATGCATGAA
1 CAATCATGCTAAATAATTTTTGAAATTTTATGAAAAAAGTTTATATAAAAAAACAAATGCATGAA
163016 ACGTGCGAAAGTGACTAAGGAGGTAAAACTGGGTGCATAATAGAAGAGATAAAGATAGAGTGAGT
66 ACGTGCGAAAGTGACTAAGGAGGTAAAACTGGGTGCATAATAGAAGAGATAAAGATAGAGTGAGT
* *
163081 GTGAAATGTTGGTGGAAAGTTAACAGCAAATGTAGAGTCAGAAACTGTGAGCCAATAATT
131 GTGAAATGTTGGTGGAAAGTTAAAAGCAAATGTAGAGTCAAAAACTGTGAGCCAATAATT
163141 CTTCTCCTAC
Statistics
Matches: 186, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
216 186 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.27
Consensus pattern (216 bp):
CAATCATGCTAAATAATTTTTGAAATTTTATGAAAAAAGTTTATATAAAAAAACAAATGCATGAA
ACGTGCGAAAGTGACTAAGGAGGTAAAACTGGGTGCATAATAGAAGAGATAAAGATAGAGTGAGT
GTGAAATGTTGGTGGAAAGTTAAAAGCAAATGTAGAGTCAAAAACTGTGAGCCAATAATTTCATT
TCGAATAATTTTATGTTACAT
Found at i:164556 original size:17 final size:17
Alignment explanation
Indices: 164536--164568 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
164526 TTTTCATTAC
164536 TTTTA-AAATATATTTTT
1 TTTTATAAAT-TATTTTT
164553 TTTTATAAATTATTTT
1 TTTTATAAATTATTTT
164569 AAAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATAAATTATTTTT
Found at i:164623 original size:17 final size:19
Alignment explanation
Indices: 164591--164628 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
164581 AAATCCTCAT
164591 TTAAATAGAAAAAAT-ATA
1 TTAAATAGAAAAAATAATA
*
164609 TTAAAT-GATAAAATAATA
1 TTAAATAGAAAAAATAATA
164627 TT
1 TT
164629 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TTAAATAGAAAAAATAATA
Found at i:178437 original size:7 final size:7
Alignment explanation
Indices: 178425--178461 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
178415 TCTTTTTATT
178425 AAAAAGA
1 AAAAAGA
178432 AAAAAGA
1 AAAAAGA
178439 AAAAAGA
1 AAAAAGA
178446 AAAAAGA
1 AAAAAGA
178453 AAAGAAGA
1 AAA-AAGA
178461 A
1 A
178462 GACGAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:181093 original size:13 final size:13
Alignment explanation
Indices: 181077--181101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
181067 TTATTTGCCC
181077 AATTTTTTTTTTA
1 AATTTTTTTTTTA
181090 AATTTTTTTTTT
1 AATTTTTTTTTT
181102 TTTTAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
AATTTTTTTTTTA
Found at i:181101 original size:17 final size:17
Alignment explanation
Indices: 181079--181111 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
181069 ATTTGCCCAA
181079 TTTTTTTTTTAAATTTT
1 TTTTTTTTTTAAATTTT
181096 TTTTTTTTTTAAATTT
1 TTTTTTTTTTAAATTT
181112 CAAATGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTAAATTTT
Found at i:183198 original size:10 final size:10
Alignment explanation
Indices: 183185--183209 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
183175 TAATTCGAAA
183185 TTTAAATTTT
1 TTTAAATTTT
183195 TTTAAATTTT
1 TTTAAATTTT
183205 TTTAA
1 TTTAA
183210 TTCGAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:183362 original size:19 final size:19
Alignment explanation
Indices: 183338--183377 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
183328 CTCATATTAA
183338 TCTTTTATTGAGTTTAGTT
1 TCTTTTATTGAGTTTAGTT
183357 TCTTTTATTGAGTTTAGTT
1 TCTTTTATTGAGTTTAGTT
183376 TC
1 TC
183378 CGAATCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (19 bp):
TCTTTTATTGAGTTTAGTT
Found at i:186628 original size:19 final size:19
Alignment explanation
Indices: 186604--186641 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
186594 TGTAGATTAT
186604 TAAACCTATGTATGTTGTC
1 TAAACCTATGTATGTTGTC
186623 TAAACCTATGTATGTTGTC
1 TAAACCTATGTATGTTGTC
186642 AGTTCAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
TAAACCTATGTATGTTGTC
Found at i:197869 original size:22 final size:23
Alignment explanation
Indices: 197844--197893 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
197834 TAAAATTATT
*
197844 TTAAATTAATAAAT-TGATATA-A
1 TTAAATGAATAAATAT-ATATATA
*
197866 TTAAATGAATATATATATATATA
1 TTAAATGAATAAATATATATATA
197889 TTAAA
1 TTAAA
197894 CAACTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAATGAATAAATATATATATA
Found at i:208505 original size:32 final size:32
Alignment explanation
Indices: 208469--208534 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
208459 TGATCGAGAC
208469 TAGTAACCCGAAAAACTCTGATACTAATTTGA
1 TAGTAACCCGAAAAACTCTGATACTAATTTGA
*
208501 TAGTAACCCGAAAAGCTCTGATACTAATTTGA
1 TAGTAACCCGAAAAACTCTGATACTAATTTGA
208533 TA
1 TA
208535 AATTAAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (32 bp):
TAGTAACCCGAAAAACTCTGATACTAATTTGA
Found at i:208877 original size:17 final size:18
Alignment explanation
Indices: 208839--208879 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
208829 CTTTACTTTT
* *
208839 ATTTTATTTTATCACTGA
1 ATTTTATTTTAACACAGA
208857 ATTTTATTTTAACA-AGA
1 ATTTTATTTTAACACAGA
208874 ATTTTA
1 ATTTTA
208880 GTCACCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTTTATTTTAACACAGA
Found at i:212821 original size:3 final size:3
Alignment explanation
Indices: 212815--212873 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
212805 CTGTCTTATT
* *
212815 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
212863 ATA ATA ATA AT
1 ATA ATA ATA AT
212874 GATGATGATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:213817 original size:11 final size:11
Alignment explanation
Indices: 213778--213818 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
213768 GTTGCATGGT
213778 GATGGTGGATG
1 GATGGTGGATG
213789 G-TGGATGG-TG
1 GATGG-TGGATG
213799 GATGGTGGATG
1 GATGGTGGATG
*
213810 GATTGTGGA
1 GATGGTGGA
213819 GGGTTGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.29
Consensus pattern (11 bp):
GATGGTGGATG
Found at i:213817 original size:25 final size:25
Alignment explanation
Indices: 213783--213837 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
213773 ATGGTGATGG
*
213783 TGGATGGTGGATGG-TGGATGGTGGA
1 TGGATGGTGGAGGGTTGGATGG-GGA
*
213808 TGGATTGTGGAGGGTTGGATGGGGA
1 TGGATGGTGGAGGGTTGGATGGGGA
213833 TGGAT
1 TGGAT
213838 CTATTCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (25 bp):
TGGATGGTGGAGGGTTGGATGGGGA
Found at i:213818 original size:7 final size:7
Alignment explanation
Indices: 213773--213810 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
213763 ATTATGTTGC
213773 ATGGT-G
1 ATGGTGG
213779 ATGGTGG
1 ATGGTGG
213786 ATGGTGG
1 ATGGTGG
213793 ATGGTGG
1 ATGGTGG
213800 ATGGTGG
1 ATGGTGG
213807 ATGG
1 ATGG
213811 ATTGTGGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (7 bp):
ATGGTGG
Found at i:214304 original size:3 final size:3
Alignment explanation
Indices: 214298--214327 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
214288 TTTTTTTAAA
214298 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
214328 GAAATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:221977 original size:5 final size:5
Alignment explanation
Indices: 221967--221991 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
221957 AAGCATATGT
221967 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
221992 CACTCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:222177 original size:13 final size:13
Alignment explanation
Indices: 222156--222187 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
222146 AACTTTACTC
*
222156 TTTTATCTTTTTT
1 TTTTTTCTTTTTT
222169 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
222182 TTTTTT
1 TTTTTT
222188 GTGAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:222622 original size:6 final size:6
Alignment explanation
Indices: 222611--222640 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
222601 AGTCTTAGGC
222611 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
222641 GACAATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:223157 original size:20 final size:20
Alignment explanation
Indices: 223125--223162 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
223115 CTCACGCAAA
223125 TATTTTTTATTTAATAAATGT
1 TATTTTTTATTTAA-AAATGT
223146 TATTTTTT-TTTAAAAAT
1 TATTTTTTATTTAAAAAT
223163 CTTGAACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TATTTTTTATTTAAAAATGT
Found at i:225256 original size:17 final size:17
Alignment explanation
Indices: 225198--225257 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
225188 TTATTAAATG
*
225198 ATTAAATAATT-CTTCC
1 ATTAAATAATTACTTCA
* * *
225214 A-TAATTCATTACTTAA
1 ATTAAATAATTACTTCA
* *
225230 AATAATTAATTACTTCA
1 ATTAAATAATTACTTCA
225247 ATTAAATAATT
1 ATTAAATAATT
225258 TAAACAACTC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 22 0.65
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAATAATTACTTCA
Found at i:237481 original size:3 final size:3
Alignment explanation
Indices: 237473--237501 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
237463 TTATTCTTTA
237473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
237502 AGAGTACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:241419 original size:13 final size:13
Alignment explanation
Indices: 241401--241447 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
241391 CAACCCGGAA
241401 TATTTATCTAATT
1 TATTTATCTAATT
*
241414 TATTTATTTAATT
1 TATTTATCTAATT
241427 AAGTATTTATCTAATT
1 ---TATTTATCTAATT
241443 TATTT
1 TATTT
241448 TAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 17 0.59
16 12 0.41
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTATCTAATT
Found at i:249639 original size:31 final size:32
Alignment explanation
Indices: 249604--249666 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
249594 TAAACGTAAG
249604 AGAGTATCTCGAT-AACTAAAATTTAGATCTT
1 AGAGTATCTCGATGAACTAAAATTTAGATCTT
** *
249635 AGAGTATCTCGATGATTTAAATTTTAGATCTT
1 AGAGTATCTCGATGAACTAAAATTTAGATCTT
249667 CATAATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (32 bp):
AGAGTATCTCGATGAACTAAAATTTAGATCTT
Found at i:250298 original size:24 final size:23
Alignment explanation
Indices: 250278--250322 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
250268 AAGATTTAGT
*
250278 ATTTATTAGTATAATATATTTTAC
1 ATTTATTAGCATAATATA-TTTAC
*
250302 ATTTATTAGCATAATTTATTT
1 ATTTATTAGCATAATATATTT
250323 GGCTTACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTATTAGCATAATATATTTAC
Found at i:253775 original size:17 final size:17
Alignment explanation
Indices: 253753--253804 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
253743 AAGCTTCACA
253753 AACGAAAAGATAAAAAG
1 AACGAAAAGATAAAAAG
253770 AACGAAAAGATAAAAAG
1 AACGAAAAGATAAAAAG
*
253787 -AGGAAAA-ATAACAAAG
1 AACGAAAAGATAA-AAAG
253803 AA
1 AA
253805 AGACTCACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.12
16 10 0.31
17 18 0.56
ACGTcount: A:0.71, C:0.06, G:0.17, T:0.06
Consensus pattern (17 bp):
AACGAAAAGATAAAAAG
Found at i:256349 original size:10 final size:11
Alignment explanation
Indices: 256332--256363 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
256322 TTTTAAATAT
256332 TAAAAATAAAA
1 TAAAAATAAAA
256343 T-AAAATAAAA
1 TAAAAATAAAA
256353 TAAAAATAAAA
1 TAAAAATAAAA
256364 AATAATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:256364 original size:6 final size:5
Alignment explanation
Indices: 256334--256363 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
256324 TTAAATATTA
256334 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
256364 AATAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:256370 original size:16 final size:16
Alignment explanation
Indices: 256334--256363 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
256324 TTAAATATTA
256334 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAT
256349 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
256364 AATAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:259222 original size:29 final size:30
Alignment explanation
Indices: 259177--259235 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
259167 GAATTGGATC
259177 AAATCAAAATTTCATGTATA-AAGTTACACA
1 AAATCAAAATTTCATGTATACAA-TTACACA
* *
259207 AAATCAAAGTTT-ATGTGTACAATTACACA
1 AAATCAAAATTTCATGTATACAATTACACA
259236 TTAAACCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATACAATTACACA
Found at i:264917 original size:44 final size:44
Alignment explanation
Indices: 264854--264941 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
264844 TTTTATCGCA
*
264854 GGCCCTAGCCTCCTAAGCTGCATGGCATCACTTAAGGACTAAAT
1 GGCCCTAGCCTCCTAAGCTGCATGGCATCACTTAAGAACTAAAT
264898 GGCCCTAGCCTCCTAAGCTGCATGGCATCACTTAAGAACTAAAT
1 GGCCCTAGCCTCCTAAGCTGCATGGCATCACTTAAGAACTAAAT
264942 ATTTAAAGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (44 bp):
GGCCCTAGCCTCCTAAGCTGCATGGCATCACTTAAGAACTAAAT
Found at i:285147 original size:244 final size:241
Alignment explanation
Indices: 284722--285440 Score: 934
Period size: 243 Copynumber: 3.0 Consensus size: 241
284712 AAAAAATAAT
* *
284722 ATATCGGATCAAGTTAGGTATAGATTTAATTTTTTTTATTAGATTCAATACAAATAAATT--A--
1 ATATCGGATTAAGTTAGGTATAGATTTAA--TTTTTTATTAGATTCAAAACAAATAAATTAAATT
* * * * *
284783 -ACATGAAAGTTC-GATCAAGATCAAAATAAACTAAGAATATATTAAATCAAATTCGA-CTAGCA
64 TAAATGAAAG-TCAGATCAAGATCGAAATAAATTAAGAATATATCAAATCAAAATCGATC-AGCA
* * *
284845 ATAACTGTTTGTTTCTTTACATTGCCATCTCTATTTGATCATTTAATTTGTATGTTCAATTAATT
127 ATAACTGTTCGTTTCGTTACATTGCCATCTCTAATTGATCATTTAATTTGTATGTTCAATTAATT
284910 ATCGAATGACCAAGTGTATACTTTTTTCACTTCTCAATCTAAAATTATGAC
192 ATCGAATGACCAAGTGTATA-TTTTTTCACTTCTCAATCTAAAATTATGAC
* *
284961 TTATCGGATTAAGTTAGGTATAAATTTAATTTTTTATTAGATTCAAAACAAATAAATTAAAATTT
1 ATATCGGATTAAGTTAGGTATAGATTTAATTTTTTATTAGATTCAAAACAAATAAATT-AAATTT
* *
285026 AAATCGAAAGTCAGATCAAGATCGAAATAAATTAAGACTATATCAAATCAAAATCGATCCGCAAT
65 AAAT-GAAAGTCAGATCAAGATCGAAATAAATTAAGAATATATCAAATCAAAATCGATCAGCAAT
285091 AACTGTTCGTTTCGTTACATTGCCATCTCTAATTGATCATTTAATTTGTATGTTCAATTAATTAT
129 AACTGTTCGTTTCGTTACATTGCCATCTCTAATTGATCATTTAATTTGTATGTTCAATTAATTAT
* *
285156 CGAATGACTAAGTGTATATTTTTTCACTTCTCAATCTAAATTTATGAC
194 CGAATGACCAAGTGTATATTTTTTCACTTCTCAATCTAAAATTATGAC
* * * * * **
285204 ATATCAGATTAAATTAAGTAGAGATTTAATTTGTTATTAGATTCAAAATGAATAAATTAACATTT
1 ATATCGGATTAAGTTAGGTATAGATTTAATTTTTTATTAGATTCAAAACAAATAAATTAA-ATTT
* * * * * **
285269 AAATTGAAAGTCAAATCAATATTGAAATAATTTAAGAATATATCAAATCAAAATTGATCAATAAT
65 AAA-TGAAAGTCAGATCAAGATCGAAATAAATTAAGAATATATCAAATCAAAATCGATCAGCAAT
** * * *
285334 AACTACTCGTTTCGTTACATTGTCATCTCTAATTGATAATTTAATTTATATGTTCAATTAATTAT
129 AACTGTTCGTTTCGTTACATTGCCATCTCTAATTGATCATTTAATTTGTATGTTCAATTAATTAT
* *
285399 C-AATTGGCCACACATGTATA-TTTTTCACTTCTCAATCTAAAA
194 CGAA-TGACCA-A-GTGTATATTTTTTCACTTCTCAATCTAAAA
285441 ATCAATCTTT
Statistics
Matches: 423, Mismatches: 43, Indels: 23
0.87 0.09 0.05
Matches are distributed among these distances:
237 28 0.07
239 26 0.06
240 1 0.00
242 4 0.01
243 206 0.49
244 151 0.36
245 7 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (241 bp):
ATATCGGATTAAGTTAGGTATAGATTTAATTTTTTATTAGATTCAAAACAAATAAATTAAATTTA
AATGAAAGTCAGATCAAGATCGAAATAAATTAAGAATATATCAAATCAAAATCGATCAGCAATAA
CTGTTCGTTTCGTTACATTGCCATCTCTAATTGATCATTTAATTTGTATGTTCAATTAATTATCG
AATGACCAAGTGTATATTTTTTCACTTCTCAATCTAAAATTATGAC
Found at i:290506 original size:10 final size:11
Alignment explanation
Indices: 290472--290503 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
290462 TAAATGGTAT
290472 TATATAAAAAA
1 TATATAAAAAA
290483 TATATAAAAAA
1 TATATAAAAAA
290494 TATATCAAAA
1 TATAT-AAAA
290504 TATTAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
TATATAAAAAA
Found at i:297600 original size:21 final size:22
Alignment explanation
Indices: 297567--297626 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
297557 TAGATGCATA
297567 ACTTGT-TTCGGTAGAAATT-GC
1 ACTTGTATT-GGTAGAAATTAGC
*
297588 ACTTGTATTGGTA-AGATTAGC
1 ACTTGTATTGGTAGAAATTAGC
** *
297609 ACAAGTATCGGTAGAAAT
1 ACTTGTATTGGTAGAAAT
297627 CTGTACAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (22 bp):
ACTTGTATTGGTAGAAATTAGC
Found at i:298679 original size:14 final size:15
Alignment explanation
Indices: 298660--298695 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
298650 AAATGGATCT
298660 AATATTTTTG-TTTA
1 AATATTTTTGATTTA
298674 AATATTTTTGAATTTA
1 AATATTTTTG-ATTTA
298690 AATATT
1 AATATT
298696 AGATTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
16 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
AATATTTTTGATTTA
Found at i:302577 original size:30 final size:32
Alignment explanation
Indices: 302539--302598 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
302529 TTTCATTACT
302539 AATAAATAA-TCAAT-TTAA-ATTATAATAAA
1 AATAAATAATTCAATGTTAATATTATAATAAA
*
302568 AATATAATAATTCATTGTTAATATTATAATA
1 AATA-AATAATTCAATGTTAATATTATAATA
302599 TGTGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 5 0.19
31 4 0.15
32 4 0.15
33 9 0.35
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (32 bp):
AATAAATAATTCAATGTTAATATTATAATAAA
Found at i:309317 original size:29 final size:33
Alignment explanation
Indices: 309246--309327 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 33
309236 GAGTTTTGAA
309246 AGAGT-AAATTTT-TGAGGAAAAGTAAATAAGG
1 AGAGTAAAATTTTGTGAGGAAAAGTAAATAAGG
309277 AGAGTAAAATTTTGTG-GGAAAA-TAAAT-A-G
1 AGAGTAAAATTTTGTGAGGAAAAGTAAATAAGG
309306 AGAGTAAAATTTTG-GAGGAAAA
1 AGAGTAAAATTTTGTGAGGAAAA
309328 ATATTAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.02
29 21 0.44
30 1 0.02
31 10 0.21
32 13 0.27
33 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (33 bp):
AGAGTAAAATTTTGTGAGGAAAAGTAAATAAGG
Found at i:310341 original size:18 final size:18
Alignment explanation
Indices: 310318--310352 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
310308 ATTCGAGTTG
310318 ACTCGAATAATTCAATTA
1 ACTCGAATAATTCAATTA
310336 ACTCGAATAATTCAATT
1 ACTCGAATAATTCAATT
310353 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
ACTCGAATAATTCAATTA
Found at i:310851 original size:21 final size:21
Alignment explanation
Indices: 310825--310889 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
310815 TTTATTTAAC
310825 TTAAAAATATATATTAATTTT
1 TTAAAAATATATATTAATTTT
* * *
310846 TTAAAAAT-TGTTTTATTTATT
1 TTAAAAATATATATTAATT-TT
** *
310867 TTAACTATATATAGTAATTTT
1 TTAAAAATATATATTAATTTT
310888 TT
1 TT
310890 TAGAATTGCT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
20 7 0.21
21 20 0.61
22 6 0.18
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (21 bp):
TTAAAAATATATATTAATTTT
Found at i:310877 original size:42 final size:44
Alignment explanation
Indices: 310811--310935 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 44
310801 AATTGCTTCA
*
310811 TTTATTTA-TTTAACTTAAAAATATATATTAATTTTTTAAAAATTGT
1 TTTATTTATTTTAACTT---AATATATATTAATTTTTTAAAAATTGC
* * *
310857 TTTATTTATTTTAAC-T-ATATATAGTAATTTTTTTAGAATTGC
1 TTTATTTATTTTAACTTAATATATATTAATTTTTTAAAAATTGC
*
310899 TTTATTTATTTTAACTTGAATATATATTTATTTTTTA
1 TTTATTTATTTTAACTT-AATATATATTAATTTTTTA
310936 TATCGGATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 37 0.54
43 1 0.01
45 15 0.22
46 9 0.13
47 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (44 bp):
TTTATTTATTTTAACTTAATATATATTAATTTTTTAAAAATTGC
Found at i:312704 original size:10 final size:9
Alignment explanation
Indices: 312678--312738 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 9
312668 GACATGTGGC
*
312678 AAAAATGAT
1 AAAAATAAT
312687 -AAAA-AAT
1 AAAAATAAT
312694 AAAAATCAAT
1 AAAAAT-AAT
*
312704 AAAAATTAT
1 AAAAATAAT
312713 AAAAATAATT
1 AAAAATAA-T
*
312723 AAATATTAAT
1 AAA-AATAAT
312733 AAAAAT
1 AAAAAT
312739 CTTAAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
7 2 0.05
8 8 0.19
9 11 0.26
10 17 0.40
11 4 0.10
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATAAT
Found at i:312714 original size:9 final size:9
Alignment explanation
Indices: 312678--312800 Score: 69
Period size: 9 Copynumber: 13.4 Consensus size: 9
312668 GACATGTGGC
*
312678 AAAAATGAT
1 AAAAATTAT
312687 AAAAA--AT
1 AAAAATTAT
*
312694 AAAAATCAAT
1 AAAAAT-TAT
312704 AAAAATTAT
1 AAAAATTAT
*
312713 AAAAATAATT
1 AAAAATTA-T
*
312723 AAATATTAAT
1 AAAAATT-AT
312733 AAAAATCT-T
1 AAAAAT-TAT
312742 AAAAATTTATT
1 AAAAA-TTA-T
*
312753 AAAAATTAG
1 AAAAATTAT
312762 AAAAA-TAT
1 AAAAATTAT
*
312770 -AGAA-TAT
1 AAAAATTAT
*
312777 AGAAAATATAG
1 A-AAAAT-TAT
312788 AAAAATTAT
1 AAAAATTAT
312797 AAAA
1 AAAA
312801 TTTTATAAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
7 13 0.14
8 2 0.02
9 35 0.39
10 29 0.32
11 11 0.12
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:312716 original size:19 final size:19
Alignment explanation
Indices: 312692--312758 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
312682 ATGATAAAAA
312692 ATAAAAATCAATAAAAATT
1 ATAAAAATCAATAAAAATT
*
312711 ATAAAAAT-AATTAAATATT
1 ATAAAAATCAA-TAAAAATT
*
312730 AATAAAAATC-TTAAAAATTT
1 -ATAAAAATCAATAAAAA-TT
312750 ATTAAAAAT
1 A-TAAAAAT
312759 TAGAAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 21 0.52
20 17 0.43
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATCAATAAAAATT
Found at i:313010 original size:19 final size:19
Alignment explanation
Indices: 312982--313018 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
312972 TTAAAGGATC
*
312982 TTTTTGATGATTTTTATAG
1 TTTTTGATGATATTTATAG
*
313001 TTTTTTATGATATTTATA
1 TTTTTGATGATATTTATA
313019 AAATTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
TTTTTGATGATATTTATAG
Found at i:313397 original size:104 final size:103
Alignment explanation
Indices: 313274--313471 Score: 240
Period size: 104 Copynumber: 1.9 Consensus size: 103
313264 AAAAAAGAGA
* * * * * * *
313274 CTTAATTGCTTTTTTTTG-AAAAAGTATAAGCACA-TTTTTTATATATTTTAAAAGTTTAAGTAT
1 CTTAATTACTTTTTTTTGAAAAAAAT-TAAGCA-AGTTTTTAATACATTTTAAAAGTTCAAATAC
*
313337 CCAATTAAGTGCAAAAAAAAAAAAATTTAAAAAAAGCATGGG
64 CCAATTAAATG-AAAAAAAAAAAAA-TTAAAAAAAGCATGGG
* *
313379 CTTAATTAC-TTTTTTTGAAAAAAATTGAGGAAGTTTTTAATACATTTTAAAAGTTCAAATACCC
1 CTTAATTACTTTTTTTTGAAAAAAATTAAGCAAGTTTTTAATACATTTTAAAAGTTCAAATACCC
*
313443 AATTAAATGAAAAAAAAAACAATTAAAAA
66 AATTAAATGAAAAAAAAAAAAATTAAAAA
313472 TATAAAAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
102 7 0.09
103 13 0.16
104 46 0.57
105 14 0.17
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (103 bp):
CTTAATTACTTTTTTTTGAAAAAAATTAAGCAAGTTTTTAATACATTTTAAAAGTTCAAATACCC
AATTAAATGAAAAAAAAAAAAATTAAAAAAAGCATGGG
Found at i:325665 original size:21 final size:23
Alignment explanation
Indices: 325627--325670 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
325617 ATCTATTTAA
325627 TTTTTTTATTTATAAATTAATTT
1 TTTTTTTATTTATAAATTAATTT
325650 TTTTTTTATTT-T-AATTAATTT
1 TTTTTTTATTTATAAATTAATTT
325671 ACATGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.43
22 1 0.05
23 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTTATAAATTAATTT
Found at i:326667 original size:18 final size:18
Alignment explanation
Indices: 326644--326686 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
326634 TAAAAGGTTT
326644 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
326662 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
326680 TTAATTA
1 TTAATTA
326687 CACATTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:329839 original size:21 final size:23
Alignment explanation
Indices: 329801--329844 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
329791 ATCTATTTAA
329801 TTTTTTTATTTATAAATTAATTT
1 TTTTTTTATTTATAAATTAATTT
329824 TTTTTTTATTT-T-AATTAATTT
1 TTTTTTTATTTATAAATTAATTT
329845 ACATGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.43
22 1 0.05
23 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTTATAAATTAATTT
Found at i:330841 original size:18 final size:18
Alignment explanation
Indices: 330818--330860 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
330808 TAAAAGGTTT
330818 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
330836 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
330854 TTAATTA
1 TTAATTA
330861 CACATTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:331794 original size:33 final size:36
Alignment explanation
Indices: 331752--331818 Score: 104
Period size: 33 Copynumber: 1.9 Consensus size: 36
331742 TGTTTATGTG
*
331752 AAATTGAAGAGAAA-GAGAAGAG-AG-GCAAAGATC
1 AAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGATC
331785 AAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGA
1 AAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGA
331819 GTGAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 14 0.47
34 7 0.23
35 2 0.07
36 7 0.23
ACGTcount: A:0.58, C:0.04, G:0.30, T:0.07
Consensus pattern (36 bp):
AAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGATC
Found at i:332730 original size:23 final size:23
Alignment explanation
Indices: 332712--332848 Score: 211
Period size: 23 Copynumber: 6.0 Consensus size: 23
332702 TCGTGCCCTC
*
332712 TGATCAGCACTTTGTGTGCTCTT
1 TGATTAGCACTTTGTGTGCTCTT
332735 TGATTAGCACTTTGTGTGCTCTT
1 TGATTAGCACTTTGTGTGCTCTT
332758 TGATTAGCACTTTGTGTGCTCTT
1 TGATTAGCACTTTGTGTGCTCTT
* *
332781 TGATTAGTACTTTGTGTGCTCTC
1 TGATTAGCACTTTGTGTGCTCTT
* *
332804 TGATTAGTACTTTGTGTACTCTT
1 TGATTAGCACTTTGTGTGCTCTT
* *
332827 TGTTTAGCACTGTGTGTGCTCT
1 TGATTAGCACTTTGTGTGCTCT
332849 CTGTTAGTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 105 1.00
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (23 bp):
TGATTAGCACTTTGTGTGCTCTT
Found at i:332853 original size:23 final size:23
Alignment explanation
Indices: 332684--332873 Score: 206
Period size: 23 Copynumber: 8.3 Consensus size: 23
332674 CACTAGCGCA
* *
332684 CTCTCTGTTTAGCACGTTT-CGTG
1 CTCTCTGATTAGCAC-TTTGTGTG
* *
332707 CCCTCTGATCAGCACTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTG
*
332730 CTCTTTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTG
*
332753 CTCTTTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTG
* *
332776 CTCTTTGATTAGTACTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTG
* *
332799 CTCTCTGATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTTTGTGTG
* * *
332822 CTCTTTGTTTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTTTGTGTG
* *
332845 CTCTCTG-TTAGTACTCTTG-GTA
1 CTCTCTGATTAGCACT-TTGTGTG
332867 CTCTCTG
1 CTCTCTG
332874 TTTGTTCCTT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.13
23 127 0.87
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (23 bp):
CTCTCTGATTAGCACTTTGTGTG
Found at i:334640 original size:29 final size:31
Alignment explanation
Indices: 334605--334664 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
334595 TCACAAATTT
*
334605 ATAATTTAGTCTA-TTTACTTTT-AT-TTTCA
1 ATAATTTAATC-ACTTTACTTTTCATATTTCA
334634 ATAATTTAATCACTTTACTTTTCATATTTCA
1 ATAATTTAATCACTTTACTTTTCATATTTCA
334665 TATTTCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 1 0.04
29 19 0.70
30 2 0.07
31 5 0.19
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.55
Consensus pattern (31 bp):
ATAATTTAATCACTTTACTTTTCATATTTCA
Found at i:335381 original size:54 final size:54
Alignment explanation
Indices: 335323--335429 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
335313 ATAAATCATT
*
335323 TTTTAATTGTGACTTAAATCAGTACATCAAAATAAAAAATTTACCGAAATCAAC
1 TTTTAATTGTGACTTAAATCAGTACATCAAAATAAAAAATTTACCAAAATCAAC
*
335377 TTTTAATTGTGACTTAAATCAGTGCATCAAAATAAAAAATTTACCAAAATCAA
1 TTTTAATTGTGACTTAAATCAGTACATCAAAATAAAAAATTTACCAAAATCAA
335430 GAATTTTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (54 bp):
TTTTAATTGTGACTTAAATCAGTACATCAAAATAAAAAATTTACCAAAATCAAC
Found at i:338475 original size:17 final size:17
Alignment explanation
Indices: 338453--338490 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
338443 CGCTGACACG
338453 ATTTCCTATACCCACTT
1 ATTTCCTATACCCACTT
338470 ATTTCCTATACCCACTT
1 ATTTCCTATACCCACTT
338487 ATTT
1 ATTT
338491 TTCGGGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTCCTATACCCACTT
Found at i:368279 original size:10 final size:9
Alignment explanation
Indices: 368259--368297 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
368249 ATAATTATAT
368259 AAATAATTAA
1 AAATAA-TAA
368269 AAATTAATAA
1 AAA-TAATAA
*
368279 AAATAAAAA
1 AAATAATAA
368288 AAATAATAA
1 AAATAATAA
368297 A
1 A
368298 CGGATTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 9 0.35
11 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATAATAA
Found at i:369788 original size:17 final size:17
Alignment explanation
Indices: 369752--369802 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
369742 AATTCAAACA
* *
369752 TTTTATTTAA-ATAATA
1 TTTTAATTAATATAATT
369768 TTTTAATTAATATAATT
1 TTTTAATTAATATAATT
*
369785 TTTTAATAAATTATAATT
1 TTTTAATTAA-TATAATT
369803 ATTATGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 9 0.30
17 14 0.47
18 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTAATTAATATAATT
Found at i:370336 original size:21 final size:21
Alignment explanation
Indices: 370311--370350 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
370301 TCTAAATTAC
370311 TATTTAATAATTAA-ATATATT
1 TATTTAA-AATTAATATATATT
370332 TATTTAAAATTAATATATA
1 TATTTAAAATTAATATATA
370351 AATATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTAAAATTAATATATATT
Found at i:370356 original size:21 final size:20
Alignment explanation
Indices: 370311--370356 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
370301 TCTAAATTAC
**
370311 TATTTAATAATTAAATATATT
1 TATTTAA-AATTAAATATAAA
370332 TATTTAAAATTAATATATAAA
1 TATTTAAAATTAA-ATATAAA
370353 TATT
1 TATT
370357 AATAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAAAATTAAATATAAA
Found at i:375551 original size:14 final size:14
Alignment explanation
Indices: 375532--375569 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
375522 TGTTCAAATG
*
375532 CCATGTGTTTTGTT
1 CCATGTGCTTTGTT
375546 CCATGTGCTTTGTT
1 CCATGTGCTTTGTT
375560 CCATGTGCTT
1 CCATGTGCTT
375570 GCAAAACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.50
Consensus pattern (14 bp):
CCATGTGCTTTGTT
Found at i:382342 original size:15 final size:15
Alignment explanation
Indices: 382322--382351 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
382312 AGATGAGTGA
382322 TTGTTTCTTAAATAT
1 TTGTTTCTTAAATAT
382337 TTGTTTCTTAAATAT
1 TTGTTTCTTAAATAT
382352 CCCACCGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
TTGTTTCTTAAATAT
Found at i:391634 original size:13 final size:14
Alignment explanation
Indices: 391610--391638 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
391600 CTAAAGATAA
391610 TTTAATTGTATTAT
1 TTTAATTGTATTAT
391624 TTTAATT-TATTAT
1 TTTAATTGTATTAT
391637 TT
1 TT
391639 AATATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTAATTGTATTAT
Found at i:391924 original size:14 final size:14
Alignment explanation
Indices: 391905--391949 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
391895 GACTTATATA
391905 TATAAATTATAGAT
1 TATAAATTATAGAT
*
391919 TATAAACTATAGATAT
1 TATAAATTATAG--AT
*
391935 TATAGATTATAGAT
1 TATAAATTATAGAT
391949 T
1 T
391950 TTCAAATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (14 bp):
TATAAATTATAGAT
Found at i:391936 original size:16 final size:16
Alignment explanation
Indices: 391900--391948 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
391890 CTCCTGACTT
391900 ATATATATAAATTATAG
1 ATAT-TATAAATTATAG
*
391917 --ATTATAAACTATAG
1 ATATTATAAATTATAG
*
391931 ATATTATAGATTATAG
1 ATATTATAAATTATAG
391947 AT
1 AT
391949 TTTCAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.41
15 2 0.07
16 14 0.52
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (16 bp):
ATATTATAAATTATAG
Done.