Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009756.1 Kokia drynarioides strain JFW-HI SEQ_124475, 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: 94719
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Warning! 7 characters in sequence are not A, C, G, or T
Found at i:2740 original size:102 final size:102
Alignment explanation
Indices: 2540--2996 Score: 596
Period size: 102 Copynumber: 4.5 Consensus size: 102
2530 CATGTGCATT
* * * * * * *
2540 ACCATGGTCTTACATTCATAATGCCATAACCCAGTTATGATCTTAACATCAGAATGCCATAGTCC
1 ACCATGGTCTTAC-GTCAGAATGTCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCC
* * *
2605 AGCTATGGTCTTACATTTATATACACTGTCATGGTCCA
65 AACTATGGTCTTACATCTATATACACTGCCATGGTCCA
* * * * *
2643 ATCATGGTCTTACGTCAAAATGCCATAGCCCAACAATGGTCTTAACATCAGAATGCCATAGCCCA
1 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
*
2708 ACTATGGTCTTACATTTATATACACTGCCATGGTCCA
66 ACTATGGTCTTACATCTATATACACTGCCATGGTCCA
*
2745 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATTAGAATGCCATAG-CCA
1 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
* **
2809 AGCTATGGTCTTACATCTATATACATTGTGATGGTCCA
66 A-CTATGGTCTTACATCTATATACACTGCCATGGTCCA
* ** *
2847 ACCATGATCTTACGTCAGAATGTCATAGCCCAAATATGGTCTTAACATCAGAATGTCATAGCCCA
1 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
* * * *
2912 GCTATGGAT-TTACATCTATATACGCTTCAATGGTCCA
66 ACTATGG-TCTTACATCTATATACACTGCCATGGTCCA
* *
2949 ACCATGGACTTATGTCAGAATGTCATAGCCCAGCTATGGTCTT-ACATC
1 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATC
2997 TATATATACT
Statistics
Matches: 314, Mismatches: 37, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
101 9 0.03
102 289 0.92
103 16 0.05
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (102 bp):
ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
ACTATGGTCTTACATCTATATACACTGCCATGGTCCA
Found at i:2746 original size:37 final size:35
Alignment explanation
Indices: 2592--2831 Score: 130
Period size: 33 Copynumber: 7.0 Consensus size: 35
2582 TTAACATCAG
*
2592 AATGCCATAGTCCAGCTATGGTCTTACATTTATAT
1 AATGCCATAGTCCAACTATGGTCTTACATTTATAT
* * * *
2627 ACACTGTCATGGTCCAA-TCATGGTCTTAC-GTCA-A-
1 A-A-TGCCATAGTCCAACT-ATGGTCTTACATTTATAT
* * * *
2661 AATGCCATAGCCCAACAATGGTCTTAACA--T-CAG
1 AATGCCATAGTCCAACTATGGTCTT-ACATTTATAT
*
2694 AATGCCATAGCCCAACTATGGTCTTACATTTATAT
1 AATGCCATAGTCCAACTATGGTCTTACATTTATAT
* * * * *
2729 ACACTGCCATGGTCCAACCATGGTCTTAC--GT-CAG
1 A-A-TGCCATAGTCCAACTATGGTCTTACATTTATAT
* * * *
2763 AATGTCATAGCCCAGCTATGGTCTTAACA--T-TAG
1 AATGCCATAGTCCAACTATGGTCTT-ACATTTATAT
*
2796 AATGCCATAG-CCAAGCTATGGTCTTACATCTATAT
1 AATGCCATAGTCCAA-CTATGGTCTTACATTTATAT
2831 A
1 A
2832 CATTGTGATG
Statistics
Matches: 158, Mismatches: 28, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
32 46 0.29
33 52 0.33
34 5 0.03
35 8 0.05
36 5 0.03
37 42 0.27
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (35 bp):
AATGCCATAGTCCAACTATGGTCTTACATTTATAT
Found at i:2782 original size:69 final size:68
Alignment explanation
Indices: 2663--3098 Score: 333
Period size: 69 Copynumber: 6.4 Consensus size: 68
2653 TACGTCAAAA
* * * * *
2663 TGCCATAGCCCAACAATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTACATTTATA
1 TGCCATAGTCCAACCATGGTCTT-ACATCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATA
2728 TACAC
65 TA-AC
* *
2733 TGCCATGGTCCAACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTA-A-C-AT-T
1 TGCCATAGTCCAACCATGGTCTTACATCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATAT
*
2794 AGAA
66 A-AC
* * * * * * * * *
2798 TGCCATAG-CCAAGCTATGGTCTTACATCTATATACATTGTGATGGTCCAACCATGATCTTACGT
1 TGCCATAGTCCAA-CCATGGTCTTACATC---AGA-A-TGTCATAGCCCAGCTATGGTCTTACAT
*
2862 C---AGAA-
60 CTATATAAC
* * **
2867 TGTCATAGCCCAAATATGGTCTTAACATCAGAATGTCATAGCCCAGCTATGGAT-TTACATCTAT
1 TGCCATAGTCCAACCATGGTCTT-ACATCAGAATGTCATAGCCCAGCTATGG-TCTTACATCTAT
*
2931 ATACGC
64 ATA-AC
* * * * **
2937 TTCAATGGTCCAACCATGGACTTATGTCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATAT
1 TGCCATAGTCCAACCATGGTCTTACATCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATAT
3002 ATAC
66 A-AC
* * *
3006 TGCCATGGTCCAACCATGGTCTTACGTCAGAATGCCATAGCCCAGCTATGGTCTTA-A-C-ATCA
1 TGCCATAGTCCAACCATGGTCTTACATCAGAATGTCATAGCCCAGCTATGGTCTTACATCTAT-A
*
3068 GAA-
65 TAAC
* *
3071 TGCCATAGCCCAACTATGGTCTTACATC
1 TGCCATAGTCCAACCATGGTCTTACATC
3099 TATATACACT
Statistics
Matches: 292, Mismatches: 55, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
64 4 0.01
65 66 0.23
66 7 0.02
67 5 0.02
68 7 0.02
69 138 0.47
70 63 0.22
71 1 0.00
72 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (68 bp):
TGCCATAGTCCAACCATGGTCTTACATCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATAT
AAC
Found at i:2986 original size:171 final size:171
Alignment explanation
Indices: 2794--3142 Score: 529
Period size: 171 Copynumber: 2.0 Consensus size: 171
2784 TCTTAACATT
* * **
2794 AGAATGCCATAGCCAAGCTATGGTCTTACATCTATATACATTGTGATGGTCCAACCATGATCTTA
1 AGAATGTCATAGCCAAGCTATGGTCTTACATCTATATACACTGCCATGGTCCAACCATGATCTTA
* * *
2859 CGTCAGAATGTCATAGCCCAAATATGGTCTTAACATCAGAATGTCATAGCCCAGCTATGGAT-TT
66 CGTCAGAATGCCATAGCCCAAATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGG-TCTT
* * *
2923 ACATCTATATACGCTTCAATGGTCCAACCATGGACTTATGTC
130 ACATCTATATACACTACAATGGTCCAACCATGGACTTACGTC
* * *
2965 AGAATGTCATAGCCCAGCTATGGTCTTACATCTATATATACTGCCATGGTCCAACCATGGTCTTA
1 AGAATGTCATAGCCAAGCTATGGTCTTACATCTATATACACTGCCATGGTCCAACCATGATCTTA
**
3030 CGTCAGAATGCCATAGCCCAGCTATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTA
66 CGTCAGAATGCCATAGCCCAAATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTA
* *
3095 CATCTATATACACTACCATGGTCCAACCATGGTCTTACGTC
131 CATCTATATACACTACAATGGTCCAACCATGGACTTACGTC
3136 AGAATGT
1 AGAATGT
3143 AGCCTGCCTC
Statistics
Matches: 160, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
170 1 0.01
171 159 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (171 bp):
AGAATGTCATAGCCAAGCTATGGTCTTACATCTATATACACTGCCATGGTCCAACCATGATCTTA
CGTCAGAATGCCATAGCCCAAATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTA
CATCTATATACACTACAATGGTCCAACCATGGACTTACGTC
Found at i:3071 original size:204 final size:202
Alignment explanation
Indices: 2540--3098 Score: 567
Period size: 204 Copynumber: 2.7 Consensus size: 202
2530 CATGTGCATT
* * * * * * * *
2540 ACCATGGTCTTACATTCATAATGCCATAACCCAGTTATGATCTTAACATCAGAATGCCATAGTCC
1 ACCATGGACTTAC-GTCAGAATGTCATAGCCCAGCTATGGTCTTAACATTAGAATGCCATAG-CC
* * * * * * * * *
2605 -AGCTATGGTCTTACATTTATATACACTGTCATGGTCCAATCATGGTCTTACGTCAAAATGCCAT
64 AAGCCATGGTCTTACA--TCTAGACATTGCCATAGCCCAACCATGGTCTTACGTCAGAATGCCAT
*
2669 AGCCCAACA-ATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTACATTTATATACAC
127 AGCCCAA-ATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTACATCTATATACAC
*
2733 TGCCATGGTCCA
191 TGCAATGGTCCA
*
2745 ACCATGGTCTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATTAGAATGCCATAGCCAA
1 ACCATGGACTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATTAGAATGCCATAGCCAA
* * ** * * * *
2810 GCTATGGTCTTACATCTATATACATTGTGATGGTCCAACCATGATCTTACGTCAGAATGTCATAG
66 GCCATGGTCTTACATC--TAGACATTGCCATAGCCCAACCATGGTCTTACGTCAGAATGCCATAG
* * * *
2875 CCCAAATATGGTCTTAACATCAGAATGTCATAGCCCAGCTATGGAT-TTACATCTATATACGCTT
129 CCCAAATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGG-TCTTACATCTATATACACTG
2939 CAATGGTCCA
193 CAATGGTCCA
* * * *
2949 ACCATGGACTTATGTCAGAATGTCATAGCCCAGCTATGGTCTTACATCTATATATACTGCCATGG
1 ACCATGGACTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTA-A-C-AT-TAGAATGCCATAG
* * * *
3014 TCCAA-CCATGGTCTTACGTC-AGA-A-TGCCATAGCCCAGCTATGGTCTTAACATCAGAATGCC
62 -CCAAGCCATGGTCTTACATCTAGACATTGCCATAGCCCAACCATGGTCTT-ACGTCAGAATGCC
*
3075 ATAGCCCAACTATGGTCTT-ACATC
125 ATAGCCCAAATATGGTCTTAACATC
3099 TATATACACT
Statistics
Matches: 305, Mismatches: 38, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
202 1 0.00
203 24 0.08
204 233 0.76
205 17 0.06
206 1 0.00
207 2 0.01
208 23 0.08
209 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (202 bp):
ACCATGGACTTACGTCAGAATGTCATAGCCCAGCTATGGTCTTAACATTAGAATGCCATAGCCAA
GCCATGGTCTTACATCTAGACATTGCCATAGCCCAACCATGGTCTTACGTCAGAATGCCATAGCC
CAAATATGGTCTTAACATCAGAATGCCATAGCCCAACTATGGTCTTACATCTATATACACTGCAA
TGGTCCA
Found at i:4952 original size:7 final size:7
Alignment explanation
Indices: 4928--4960 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4918 ACTAACTTTT
4928 AATTCAA
1 AATTCAA
4935 TAATT-AA
1 -AATTCAA
4942 AATTCAA
1 AATTCAA
4949 AATTCAA
1 AATTCAA
4956 AATTC
1 AATTC
4961 CATATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (7 bp):
AATTCAA
Found at i:6406 original size:2 final size:2
Alignment explanation
Indices: 6399--6429 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6389 TATGAAGTTC
6399 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 A
6430 CTTGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6916 original size:40 final size:40
Alignment explanation
Indices: 6857--6939 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
6847 AATTTATCTC
*
6857 TTCGAACTTTTCATTTATTATCCTTCCGGATAATATCCTT
1 TTCGAACTTTTCATCTATTATCCTTCCGGATAATATCCTT
* * *
6897 TTCGACCTTTTCATCTATTATCCTTTCGGATAATATCTTT
1 TTCGAACTTTTCATCTATTATCCTTCCGGATAATATCCTT
6937 TTC
1 TTC
6940 ATTTATTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.49
Consensus pattern (40 bp):
TTCGAACTTTTCATCTATTATCCTTCCGGATAATATCCTT
Found at i:9106 original size:15 final size:15
Alignment explanation
Indices: 9088--9141 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9078 CGCGTTGTGT
*
9088 GTGTTCACAACATGA
1 GTGTTCGCAACATGA
* *
9103 GTGTTCGCAGC-TCTA
1 GTGTTCGCAACAT-GA
9118 GTGTTCGCAACATGA
1 GTGTTCGCAACATGA
*
9133 GTGCTCGCA
1 GTGTTCGCA
9142 TCATCCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (15 bp):
GTGTTCGCAACATGA
Found at i:10316 original size:21 final size:21
Alignment explanation
Indices: 10292--10338 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10282 TCACTTACAC
* *
10292 TTTCATCACTCTCACTTTCTT
1 TTTCATCACGCTCACTTTCTG
* *
10313 TTTCCTCACGCTCTCTTTCTG
1 TTTCATCACGCTCACTTTCTG
10334 TTTCA
1 TTTCA
10339 ACTTCTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.34, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTCATCACGCTCACTTTCTG
Found at i:10458 original size:18 final size:19
Alignment explanation
Indices: 10435--10496 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
10425 AACAACTCTT
10435 TTTCTTT-TTTTTCTCTCA
1 TTTCTTTATTTTTCTCTCA
*
10453 TTTCTTTGTTTCTTCTCTCTA
1 TTTCTTTATTT-TTCTCTC-A
*
10474 TTTCTTTTATTTTTCGCTCA
1 TTTC-TTTATTTTTCTCTCA
10494 TTT
1 TTT
10497 TCTCTCATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 11 0.29
21 11 0.29
22 6 0.16
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTCTTTATTTTTCTCTCA
Found at i:10498 original size:21 final size:20
Alignment explanation
Indices: 10434--10499 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
10424 CAACAACTCT
10434 TTTTC-TTTTTTTTCTCTCA
1 TTTTCTTTTTTTTTCTCTCA
*
10453 -TTTCTTTGTTTCTTCTCTC-
1 TTTTCTTT-TTTTTTCTCTCA
*
10472 TATTTCTTTTATTTTTCGCTCA
1 T-TTTCTTTT-TTTTTCTCTCA
10494 TTTTCT
1 TTTTCT
10500 CTCATTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
18 4 0.11
19 2 0.05
20 11 0.29
21 20 0.53
22 1 0.03
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTTTTTTCTCTCA
Found at i:11813 original size:26 final size:26
Alignment explanation
Indices: 11783--11835 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
11773 AAGAAGAACC
*
11783 ATGACTCTCTATCTAGCAAGATAGGA
1 ATGACCCTCTATCTAGCAAGATAGGA
11809 ATGACCCTCTATCTAGCAAGATAGGA
1 ATGACCCTCTATCTAGCAAGATAGGA
11835 A
1 A
11836 CCAATCGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (26 bp):
ATGACCCTCTATCTAGCAAGATAGGA
Found at i:20276 original size:9 final size:9
Alignment explanation
Indices: 20262--20304 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
20252 CCTCGGCAGG
20262 TTCTTTTTC
1 TTCTTTTTC
20271 TTCTTTTTC
1 TTCTTTTTC
20280 TTCTTCCTTTCC
1 TTCTT--TTT-C
20292 TT-TTTTTC
1 TTCTTTTTC
20300 TTCTT
1 TTCTT
20305 CTTGATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.10
9 19 0.63
11 5 0.17
12 3 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:20314 original size:20 final size:19
Alignment explanation
Indices: 20267--20305 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
20257 GCAGGTTCTT
20267 TTTCTTCTTTTTCTTCTTCC
1 TTTCTT-TTTTTCTTCTTCC
20287 TTTCCTTTTTTTCTTCTTC
1 TTT-CTTTTTTTCTTCTTC
20306 TTGATCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTTTTCTTCTTCC
Found at i:21572 original size:9 final size:9
Alignment explanation
Indices: 21558--21608 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
21548 ACCTCGACAG
21558 CTTCTTTTT
1 CTTCTTTTT
*
21567 CTTCTTTCT
1 CTTCTTTTT
21576 CTTCTTCCTTT
1 CTTCTT--TTT
21587 C--CTTTTT
1 CTTCTTTTT
*
21594 CTTCTTCTT
1 CTTCTTTTT
21603 CTTCTT
1 CTTCTT
21609 GATCTTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
7 4 0.11
9 28 0.80
11 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
CTTCTTTTT
Found at i:36222 original size:26 final size:27
Alignment explanation
Indices: 36180--36230 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
36170 ATAATAAGGT
36180 ATTACATATAATATAATCG-ATAAATAA
1 ATTACATATAATATAAT-GTATAAATAA
36207 ATTAC-TATAA-ATTAATGTATAAAT
1 ATTACATATAATA-TAATGTATAAAT
36231 GTTATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 2 0.09
26 15 0.68
27 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
ATTACATATAATATAATGTATAAATAA
Found at i:36682 original size:25 final size:27
Alignment explanation
Indices: 36628--36686 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
36618 AATAGATTGG
*
36628 ACAAAATAAAAACCACAAAAAATATTA
1 ACAAAATAAAAACCACAAAAAATATGA
* *
36655 ACAAAAT-AAAACCA-TAAAACTATGA
1 ACAAAATAAAAACCACAAAAAATATGA
36680 ACAAAAT
1 ACAAAAT
36687 CACAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.52
26 7 0.24
27 7 0.24
ACGTcount: A:0.68, C:0.15, G:0.02, T:0.15
Consensus pattern (27 bp):
ACAAAATAAAAACCACAAAAAATATGA
Found at i:39155 original size:6 final size:6
Alignment explanation
Indices: 39144--39179 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
39134 AATAAAGTCA
*
39144 GGGAGG GGGAGG GGGAGA GGGAGG GGGAGG GGGAGG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG
39180 TGAGAGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (6 bp):
GGGAGG
Found at i:39166 original size:18 final size:18
Alignment explanation
Indices: 39143--39178 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39133 TAATAAAGTC
39143 AGGGAGGGGGAGGGGGAG
1 AGGGAGGGGGAGGGGGAG
39161 AGGGAGGGGGAGGGGGAG
1 AGGGAGGGGGAGGGGGAG
39179 GTGAGAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.78, T:0.00
Consensus pattern (18 bp):
AGGGAGGGGGAGGGGGAG
Found at i:39495 original size:29 final size:30
Alignment explanation
Indices: 39448--39506 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
39438 AATGCGATTA
* *
39448 CTTAAATTGCAAATTTTTTAT-TTTGAATT
1 CTTAAAATGCAAATTTTTTATAATTGAATT
39477 CTTAAAATG-AAATTTTTTTATAATTGAATT
1 CTTAAAATGCAAA-TTTTTTATAATTGAATT
39507 ACTATTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 7 0.27
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (30 bp):
CTTAAAATGCAAATTTTTTATAATTGAATT
Found at i:45773 original size:44 final size:43
Alignment explanation
Indices: 45724--45827 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 43
45714 TGATATGTAT
* *
45724 ATTTTATACGGTTCTTTCTCATTTTGTATGTATAT-TATGTGTGG
1 ATTTTATACAGTTCTTTCTCATCTTG--TGTATATCTATGTGTGG
* * * *
45768 GTTTTATCCAGTTCTTTTTTATCTTGTGTATATGCTATGTGTGG
1 ATTTTATACAGTTCTTTCTCATCTTGTGTATAT-CTATGTGTGG
* *
45812 ATTTTATCCAATTCTT
1 ATTTTATACAGTTCTT
45828 CTTTATATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 7 0.14
44 43 0.86
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (43 bp):
ATTTTATACAGTTCTTTCTCATCTTGTGTATATCTATGTGTGG
Found at i:45833 original size:44 final size:42
Alignment explanation
Indices: 45752--45833 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 42
45742 TCATTTTGTA
* * *
45752 TGTATATTATGTGTGGGTTTTATCCAGTTCTTTTTTATCTTG
1 TGTATATTATGTGTGGATTTTATCCAATTCTTCTTTATCTTG
45794 TGTATATGCTATGTGTGGATTTTATCCAATTCTTCTTTAT
1 TGTATAT--TATGTGTGGATTTTATCCAATTCTTCTTTAT
45834 ATTGAGTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 7 0.20
44 28 0.80
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.55
Consensus pattern (42 bp):
TGTATATTATGTGTGGATTTTATCCAATTCTTCTTTATCTTG
Found at i:46031 original size:17 final size:18
Alignment explanation
Indices: 46006--46043 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45996 TTTTTATACT
*
46006 TGTATTGTA-TATATTAA
1 TGTAATGTATTATATTAA
46023 TGTAATGTATTTATATTAA
1 TGTAATGTA-TTATATTAA
46042 TG
1 TG
46044 CTCCCTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (18 bp):
TGTAATGTATTATATTAA
Found at i:47703 original size:60 final size:60
Alignment explanation
Indices: 47636--48032 Score: 388
Period size: 60 Copynumber: 6.7 Consensus size: 60
47626 CATCTAATGG
* * *
47636 TCGACACCCCCTTTTTGTCAGATAAAAAATTCAAATTTTTTGGTGTTGACCATGCCATGA
1 TCGACACCCCCTTTTTATCTGATAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGA
* * * * *
47696 TCGACACCCCATTTTTATCTGATAAAAAA-TCAAATTTTTTGGTATTGGCAATGCTATGG
1 TCGACACCCCCTTTTTATCTGATAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGA
* * *
47755 TCGACATCCTCTTTTTATCTGAT-AAAAATATCAAATTTTTTGGTGTTGGCCATGCCATGG
1 TCGACACCCCCTTTTTATCTGATAAAAAAT-TCAAATTTTTTGGTGTTGGCCATGCCATGA
* * *
47815 CCGACACCCCCTTTTTATCTGACAAAAAATTCAAATTTTTTTTGTGTTGG--ATG--ATG-
1 TCGACACCCCCTTTTTATCTGATAAAAAATTCAAA-TTTTTTGGTGTTGGCCATGCCATGA
* * *
47871 --GACACCACCTTTTTATCTGATAAAAAAATT-AAA-TTTTTGGTGTTGGTCATGCTATG-
1 TCGACACCCCCTTTTTATCTGAT-AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGA
* * * *
47927 GCTGACACCACCTTTTTATATGATAAAAAATAATCAAATTTTTTAGTGTTGGCCATTG-CATGA
1 TC-GACACCCCCTTTTTATCTGATAAAAAAT--TCAAATTTTTTGGTGTTGGCCA-TGCCATGA
* ** * *
47990 CCGACACCATCTTATTATCTGATTAAAAAAAATCAAATTTTTT
1 TCGACACCCCCTTTTTATCTGA-T-AAAAAATTCAAATTTTTT
48033 TATGTTGATC
Statistics
Matches: 286, Mismatches: 31, Indels: 38
0.81 0.09 0.11
Matches are distributed among these distances:
52 12 0.04
54 25 0.09
55 8 0.03
56 3 0.01
57 3 0.01
58 12 0.04
59 68 0.24
60 78 0.27
61 22 0.08
62 45 0.16
63 4 0.01
64 6 0.02
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (60 bp):
TCGACACCCCCTTTTTATCTGATAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGA
Found at i:47779 original size:119 final size:117
Alignment explanation
Indices: 47632--48032 Score: 401
Period size: 119 Copynumber: 3.4 Consensus size: 117
47622 TAGTCATCTA
* * * *
47632 ATGGTCGACACCCCCTTTTTGTCAGAT-AAAAAATTCAAATTTTTTGGTGTTGACCATGCCATGA
1 ATGGTCGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATG-
* * *
47696 TCGACACCCCATTTTTATCTGATAAAAAATCAAATTTTTTGGTATTGGCAATGC
65 CCGACACCCC-TTTTTATCTGATAAAAAATCAAATTTTTTAGTGTTGGCAATGC
* *
47750 TATGGTCGACATCC-TCTTTTTATCTGATAAAAATA-TCAAATTTTTTGGTGTTGGCCATGCCAT
1 -ATGGTCGACA-CCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCAT
* *
47813 GGCCGACACCCCCTTTTTATCTGACAAAAAATTCAAATTTTTTTTGTGTTGG--ATG-
64 -GCCGACA-CCCCTTTTTATCTGATAAAAAA-TCAAA-TTTTTTAGTGTTGGCAATGC
* *
47868 AT-G--GACACCACCTTTTTATCTGATAAAAAAATT-AAA-TTTTTGGTGTTGGTCATGCTATGG
1 ATGGTCGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCAT-G
* * *
47928 CTGACACCACCTTTTTATATGATAAAAAATAATCAAATTTTTTAGTGTTGGCCATTGC
65 CCGACACC-CCTTTTTATCTGAT--AAAA-AATCAAATTTTTTAGTGTTGG-CAATGC
** * * *
47986 ATGACCGACACCATCTTATTATCTGATTAAAAAAAATCAAATTTTTT
1 ATGGTCGACACCACCTTTTTATCTGA-TAAAAAAATTCAAATTTTTT
48033 TATGTTGATC
Statistics
Matches: 238, Mismatches: 22, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
112 2 0.01
113 41 0.17
114 39 0.16
115 10 0.04
116 3 0.01
117 4 0.02
118 2 0.01
119 73 0.31
120 17 0.07
121 30 0.13
122 9 0.04
123 3 0.01
124 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (117 bp):
ATGGTCGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGC
CGACACCCCTTTTTATCTGATAAAAAATCAAATTTTTTAGTGTTGGCAATGC
Found at i:48018 original size:62 final size:59
Alignment explanation
Indices: 47632--48107 Score: 404
Period size: 59 Copynumber: 8.0 Consensus size: 59
47622 TAGTCATCTA
* * * * * *
47632 ATGGTCGACACCCCCTTTTTGTCAGATAAAAAATTCAAATTTTTTGGTGTTGACCATGCC
1 ATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATG-C
** * *
47692 ATGATCGACACC-CCATTTTTATCTGAT-AAAAAATCAAATTTTTTGGTATTGGCAATGC
1 ATGGCCGACACCACC-TTTTTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGC
* * *
47750 TATGGTCGACATCC-TCTTTTTATCTGATAAAAATATCAAATTTTTTGGTGTTGGCCATGCC
1 -ATGGCCGACA-CCACCTTTTTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATG-C
* * * *
47811 ATGGCCGACACCCCCTTTTTATCTGACAAAAAATTCAAATTTTTTTTGTGTTGG--ATG-
1 ATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAAA-TTTTTTGGTGTTGGCCATGC
* *
47868 AT-G--GACACCACCTTTTTATCTGATAAAAAAATTAAA-TTTTTGGTGTTGGTCATGC
1 ATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGC
* * *
47923 TATGGCTGACACCACCTTTTTATATGATAAAAAATAATCAAATTTTTTAGTGTTGGCCATTGC
1 -ATGGCCGACACCACCTTTTTATCTGAT-AAAAA-AATCAAATTTTTTGGTGTTGGCCA-TGC
* * * ** **
47986 ATGACCGACACCATCTTATTATCTGATTAAAAAAAATCAAATTTTTTTATGTTGATCATTGC
1 ATGGCCGACACCACCTTTTTATCTGA-T-AAAAAAATCAAATTTTTTGGTGTTGGCCA-TGC
* * ** *
48048 ATGGCTGACACCA-CTATTGATTATCAGAT-AAAAAA-C-AATTTTTTTTTATTGGCCATGC
1 ATGGCCGACACCACCT-TT--TTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGC
48106 AT
1 AT
48108 TAGCTAAAAC
Statistics
Matches: 350, Mismatches: 44, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
52 12 0.03
54 32 0.09
56 3 0.01
57 3 0.01
58 6 0.02
59 89 0.25
60 88 0.25
61 28 0.08
62 71 0.20
63 11 0.03
64 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (59 bp):
ATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGC
Found at i:48095 original size:124 final size:120
Alignment explanation
Indices: 47637--48086 Score: 290
Period size: 119 Copynumber: 3.8 Consensus size: 120
47627 ATCTAATGGT
* * * * * * * * *
47637 CGACACCCCCTTTTTGTCAGATAAAAAATTCAAATTTTTTGGTGTTGACCATGCCAT-GATCGAC
1 CGACACCACCTTATTATCTGATAAAAAAATCAAA-TTTTTGATGTTGATCATGCTATGGCT-GAC
* * * * **
47701 ACC-CCATTTTTATCTGAT--AAAA-AATCAAATTTTTTGGTATTGG-CAATGCTATGGT
64 ACCACC-TTTTTATATGATAAAAAACAAT-AAATTTTTTAGTGTTGGCCATTGC-ATGAC
* * * * ** * *
47756 CGACATCC-TCTTTTTATCTGATAAAAATATCAAATTTTTTGGTGTTGGCCATGCCATGGCCGAC
1 CGACA-CCACCTTATTATCTGATAAAAAAATCAAA-TTTTTGATGTTGATCATGCTATGGCTGAC
* * * * *
47820 ACCCCCTTTTTATCTGACAAAAAATTC-A-AATTTTTTTTGTGTTGG--A-TG-ATG--
64 ACCACCTTTTTATATGATAAAAAA--CAATAAATTTTTTAGTGTTGGCCATTGCATGAC
* * * *
47871 -GACACCACCTTTTTATCTGATAAAAAAATTAAATTTTTGGTGTTGGTCATGCTATGGCTGACAC
1 CGACACCACCTTATTATCTGATAAAAAAATCAAATTTTTGATGTTGATCATGCTATGGCTGACAC
*
47935 CACCTTTTTATATGATAAAAAATAATCAAATTTTTTAGTGTTGGCCATTGCATGAC
66 CACCTTTTTATATGATAAAAAACAAT-AAATTTTTTAGTGTTGGCCATTGCATGAC
* *
47991 CGACACCATCTTATTATCTGATTAAAAAAAATCAAATTTTTTTATGTTGATCATTGC-ATGGCTG
1 CGACACCACCTTATTATCTGA-T-AAAAAAATCAAA-TTTTTGATGTTGATCA-TGCTATGGCTG
48055 ACACCA-CTATTGATTATCA-GATAAAAAACAAT
62 ACACCACCT-TT--TTAT-ATGATAAAAAACAAT
48087 TTTTTTTTAT
Statistics
Matches: 273, Mismatches: 31, Indels: 47
0.78 0.09 0.13
Matches are distributed among these distances:
112 1 0.00
113 49 0.18
114 42 0.15
116 1 0.00
117 5 0.02
118 3 0.01
119 67 0.25
120 6 0.02
121 36 0.13
122 1 0.00
123 14 0.05
124 28 0.10
125 3 0.01
126 16 0.06
127 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (120 bp):
CGACACCACCTTATTATCTGATAAAAAAATCAAATTTTTGATGTTGATCATGCTATGGCTGACAC
CACCTTTTTATATGATAAAAAACAATAAATTTTTTAGTGTTGGCCATTGCATGAC
Found at i:52211 original size:84 final size:86
Alignment explanation
Indices: 52085--52395 Score: 477
Period size: 84 Copynumber: 3.7 Consensus size: 86
52075 AATTTAACAT
* * *
52085 TATTTAAATAAAAAAGATTATTATTATATTTCAATTTATATCAAATAATGTGTTGATTTGACAAT
1 TATTTAAATAAAAAAGACTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
52150 ACATTATTTATCAAATTTTAA
66 ACATTATTTATCAAATTTTAA
* * *
52171 TATTTAAAT-TAAAA-ACTATTATTATATTACAATTTTTATCAAATAATATGTTGATTTGATAAT
1 TATTTAAATAAAAAAGACTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
52234 ACATTATTTATCAAATTTTAA
66 ACATTATTTATCAAATTTTAA
*
52255 TATTTAAAT-TAAAA-ACTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
1 TATTTAAATAAAAAAGACTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
* *
52318 GCATTATTTACCAAATTTTAA
66 ACATTATTTATCAAATTTTAA
* * * *
52339 TATTTAAATAAAAAAGATTATTATTATATTATAGTTTTTATCAAATAATGTATTGAT
1 TATTTAAATAAAAAAGACTATTATTATATTACAATTTTTATCAAATAATGTGTTGAT
52396 AATATTTAAA
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
84 154 0.74
85 8 0.04
86 46 0.22
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (86 bp):
TATTTAAATAAAAAAGACTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
ACATTATTTATCAAATTTTAA
Found at i:52747 original size:30 final size:30
Alignment explanation
Indices: 52701--52815 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 30
52691 TTTGATTTTT
* *
52701 TTTCGTTTA-CTTTTAAATTTAATTTGTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
* *
52730 TTTCGTTTTTATTTTAAATTTAATTTTTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
* * *
52760 TTTCCTGTATATTTTAATTTTAATTTCTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
*
52790 TTTCGTTTATATTTTAAATTTCATTT
1 TTTCGTTTATATTTTAAATTTAATTT
52816 TGAATTATTA
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 8 0.11
30 65 0.89
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTCGTTTATATTTTAAATTTAATTTCTAA
Found at i:53865 original size:120 final size:120
Alignment explanation
Indices: 53638--54030 Score: 494
Period size: 120 Copynumber: 3.3 Consensus size: 120
53628 AAGGAAAGTT
* * * *
53638 CAAAAAATTTG-ATTTTTTTAATCAGATAATAAGGTGGTGTCGGTCATGCAGTGACCAACACAAA
1 CAAAAAATTTGAATTTTTTT-ATCAGATAAAAAGGTGATGTCGGCCATGCAATGACCAACACAAA
* *
53702 AAAA-TTGATTTTTTTATCATATAAAAAGGTGGTGTCGATCATGGCATAGCCAACAC
65 AAAATTTGATTTTTTTATCAAATAAAAAGGGGGTGTCGATCATGGCAT-GCCAACAC
*
53758 ACAAAAAA-TT-AATTTTTTTATCAGATAAAAAGGTGATGTCGGCCATGCAATGGCCAACACAAA
1 -CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGATGTCGGCCATGCAATGACCAACACAAA
* * *
53821 AAAATTTGAATTTTTTGTCAAATAAAAAGGGGGTGTCGATCATGGCATGGCTAACAC
65 AAAATTTGATTTTTTTATCAAATAAAAAGGGGGTGTCGATCATGGCAT-GCCAACAC
* * * ** *
53878 CAAAAAATTTGATTTTTTTTATCAGATAAAAAGG-AAGTGTCGGCAATGGGATGACCAACACCAA
1 CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGA-TGTCGGCCATGCAATGACCAACACAAA
** *
53942 AAAATTTGATTTTTTTATCAAAT-AAAAGGGGGTGTCGGCCATGACATGACCAACAC
65 AAAATTTGATTTTTTTATCAAATAAAAAGGGGGTGTCGATCATGGCATG-CCAACAC
* *
53998 CAAAAAATTTGAA-TTTTTTATCTGACAAAAAGG
1 CAAAAAATTTGAATTTTTTTATCAGATAAAAAGG
54031 GCATGGCCGA
Statistics
Matches: 239, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
119 69 0.29
120 98 0.41
121 72 0.30
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (120 bp):
CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGATGTCGGCCATGCAATGACCAACACAAAA
AAATTTGATTTTTTTATCAAATAAAAAGGGGGTGTCGATCATGGCATGCCAACAC
Found at i:54031 original size:60 final size:60
Alignment explanation
Indices: 53638--54031 Score: 431
Period size: 60 Copynumber: 6.6 Consensus size: 60
53628 AAGGAAAGTT
* * *
53638 CAAAAAATTTGATTTTTTTAATCAGATAATAAGGTGGTGTCGGTCAT-GCAGTGACCAACA-
1 CAAAAAATTTGATTTTTTT-ATCAGATAAAAAGGGGGTGTCGGCCATGGCA-TGACCAACAC
* * * **
53698 CAAAAAAATTGATTTTTTTATCATATAAAAAGGTGGTGTCGATCATGGCAT-AGCCAACAC
1 CAAAAAATTTGATTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGCATGA-CCAACAC
* * * *
53758 ACAAAAAA-TTAATTTTTTTATCAGATAAAAAGGTGATGTCGGCCAT-GCAATGGCCAACAC
1 -CAAAAAATTTGATTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGC-ATGACCAACAC
* * * * ** * *
53818 AAAAAAATTTGAATTTTTTGTCAAATAAAAAGGGGGTGTCGATCATGGCATGGCTAACAC
1 CAAAAAATTTGATTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGCATGACCAACAC
** * *
53878 CAAAAAATTTGATTTTTTTTATCAGATAAAAAGGAAGTGTCGGCAATGGGATGACCAACAC
1 CAAAAAATTTGA-TTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGCATGACCAACAC
* *
53939 CAAAAAATTTGATTTTTTTATCAAAT-AAAAGGGGGTGTCGGCCATGACATGACCAACAC
1 CAAAAAATTTGATTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGCATGACCAACAC
* * *
53998 CAAAAAATTTGAATTTTTTATCTGACAAAAAGGG
1 CAAAAAATTTGATTTTTTTATCAGATAAAAAGGG
54032 CATGGCCGAC
Statistics
Matches: 282, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
58 1 0.00
59 89 0.32
60 134 0.48
61 58 0.21
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (60 bp):
CAAAAAATTTGATTTTTTTATCAGATAAAAAGGGGGTGTCGGCCATGGCATGACCAACAC
Found at i:54200 original size:16 final size:18
Alignment explanation
Indices: 54168--54201 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
54158 CTCGTATTTT
54168 CGTATATAAAGAAAATAC
1 CGTATATAAAGAAAATAC
54186 CGTAT-TAAA-AAAATAC
1 CGTATATAAAGAAAATAC
54202 ATAAGTGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (18 bp):
CGTATATAAAGAAAATAC
Found at i:54753 original size:27 final size:28
Alignment explanation
Indices: 54685--54765 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 28
54675 AAATGACTCG
* *
54685 AAAATAGTAGCAAAATTAATAATAAAAC
1 AAAATAGTAGTAATATTAATAATAAAAC
54713 AAAAGTTA-TA-TAATATTAA-AA-AATAAC
1 AAAA--TAGTAGTAATATTAATAATAA-AAC
*
54740 AAAATAGTAGTAATA-TAATAGTAAAA
1 AAAATAGTAGTAATATTAATAATAAAA
54766 TAACAACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
25 2 0.05
26 7 0.16
27 17 0.40
28 13 0.30
29 2 0.05
30 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (28 bp):
AAAATAGTAGTAATATTAATAATAAAAC
Found at i:54805 original size:32 final size:32
Alignment explanation
Indices: 54767--54844 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
54757 ATAGTAAAAT
* *
54767 AACAACAAAACAACATCAAAATTGTAGCAAGC
1 AACAACAAAACAACATCAAAATGGCAGCAAGC
54799 AACAACAAAACAACATCAAAATGGCAGCAAGC
1 AACAACAAAACAACATCAAAATGGCAGCAAGC
54831 AACAACAAAACAAC
1 AACAACAAAACAAC
54845 TGTGAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.59, C:0.24, G:0.09, T:0.08
Consensus pattern (32 bp):
AACAACAAAACAACATCAAAATGGCAGCAAGC
Found at i:55361 original size:23 final size:23
Alignment explanation
Indices: 55335--55378 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
55325 AAATTTAAGC
55335 TTTATATATTTAATAAAAGAAAA
1 TTTATATATTTAATAAAAGAAAA
* *
55358 TTTATATATTTTATAAGAGAA
1 TTTATATATTTAATAAAAGAA
55379 TGTCATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TTTATATATTTAATAAAAGAAAA
Found at i:57034 original size:15 final size:15
Alignment explanation
Indices: 57007--57040 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56997 ATATATAAAC
57007 AAAAAAAACTAAAAT
1 AAAAAAAACTAAAAT
57022 AAAAATAAA-TAAAAT
1 AAAAA-AAACTAAAAT
57037 AAAA
1 AAAA
57041 TTATTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAAACTAAAAT
Found at i:57836 original size:19 final size:19
Alignment explanation
Indices: 57805--57850 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
57795 TCAAGCCTTC
57805 GAAAATA-TTGTAATTCAA
1 GAAAATATTTGTAATTCAA
57823 GAAAATATTTGTAATTCAA
1 GAAAATATTTGTAATTCAA
57842 GAAAATATT
1 GAAAATATT
57851 AAGAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (19 bp):
GAAAATATTTGTAATTCAA
Found at i:57955 original size:14 final size:14
Alignment explanation
Indices: 57929--57962 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
57919 ATAAAAACCC
57929 ATAAAAGAAATAAA
1 ATAAAAGAAATAAA
57943 ATGAAAA-AAATAAA
1 AT-AAAAGAAATAAA
57957 ATAAAA
1 ATAAAA
57963 CTAATGTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
ATAAAAGAAATAAA
Found at i:61173 original size:9 final size:9
Alignment explanation
Indices: 61149--61182 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
61139 GATAAATAGC
61149 ATTAATAATT
1 ATTAATAA-T
*
61159 AATAATAAT
1 ATTAATAAT
61168 ATTAATAAT
1 ATTAATAAT
61177 ATTAAT
1 ATTAAT
61183 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTAATAAT
Found at i:61173 original size:12 final size:13
Alignment explanation
Indices: 61151--61183 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
61141 TAAATAGCAT
61151 TAATAATTAATAA
1 TAATAATTAATAA
61164 TAAT-ATTAATAA
1 TAATAATTAATAA
*
61176 TATTAATT
1 TAATAATT
61184 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:61934 original size:5 final size:5
Alignment explanation
Indices: 61924--61953 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
61914 TGGCCCAATT
*
61924 CGACC CGACC CGACC CGACC TGACC CGACC
1 CGACC CGACC CGACC CGACC CGACC CGACC
61954 AGCCTCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.57, G:0.20, T:0.03
Consensus pattern (5 bp):
CGACC
Found at i:62376 original size:29 final size:29
Alignment explanation
Indices: 62335--62652 Score: 183
Period size: 29 Copynumber: 10.9 Consensus size: 29
62325 AAGGTCCCTA
* *
62335 AACTATCCAAAAATTATATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTTACCC-CG
* *
62365 AACTTTCC-AAAATTCCATTTTTTACCCCA
1 AACTTTCCAAAAATTACA-TTTTTACCCCG
*
62394 AAATTTCCAAAAATTACATTTTTACCCACG
1 AACTTTCCAAAAATTACATTTTTACCC-CG
* **
62424 AACTTTCC-AAAATTCCATTTTTACATCG
1 AACTTTCCAAAAATTACATTTTTACCCCG
* *
62452 -ATTTTCCAAAAATTACCA-TTTTACCCCA
1 AACTTTCCAAAAATTA-CATTTTTACCCCG
* ***
62480 AAC-TTCCAAAAATTCCATTTTTTATTTCG
1 AACTTTCCAAAAATTACA-TTTTTACCCCG
**
62509 ATTTTTCCAAAAATTACCA-TTTTACCCTCG
1 AACTTTCCAAAAATTA-CATTTTTACCC-CG
* *
62539 AAC--TCCTAAAAATTCCATTTTTAACCTCG
1 AACTTTCC-AAAAATTACATTTTT-ACCCCG
** *
62568 ATTTTTCC-AAAATTAC-TATTTTACTCCCT
1 AACTTTCCAAAAATTACAT-TTTTAC-CCCG
* * * * ***
62597 AA-TGTCTAAAAATTCCATTTTAAACCTTA
1 AACTTTCCAAAAATTACATTTT-TACCCCG
62626 AACTTTCCAAAAATTACCA-TTTTACCC
1 AACTTTCCAAAAATTA-CATTTTTACCC
62653 TCAGATGTTT
Statistics
Matches: 215, Mismatches: 50, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
27 8 0.04
28 37 0.17
29 98 0.46
30 65 0.30
31 7 0.03
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
AACTTTCCAAAAATTACATTTTTACCCCG
Found at i:62432 original size:59 final size:58
Alignment explanation
Indices: 62340--62654 Score: 272
Period size: 59 Copynumber: 5.4 Consensus size: 58
62330 CCCTAAACTA
* ** *
62340 TCCAAAAATTA-TATTTTTACCCTCGAACTTTCC-AAAATTCCATTTTTTACCCCAAAATT
1 TCCAAAAATTACCA-TTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTTACATC-AATTT
* *
62399 TCCAAAAATTA-CATTTTTACCCACGAACTTTCC-AAAATTCCA-TTTTTACATCGATTT
1 TCCAAAAATTACCA-TTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTTACATCAATTT
* ** *
62456 TCCAAAAATTACCATTTTACCC-CAAACTTCCAAAAATTCCATTTTTTATTTCGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTTACATC-AATTT
* * *
62514 TCCAAAAATTACCATTTTACCCTCGAAC-TCCTAAAAATTCCATTTTTAACCTCGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCC-AAAAATTCCATTTTTTACATC-AATTT
* * * ** * * *
62573 TCC-AAAATTACTATTTTACTCC-CTAA-TGTCTAAAAATTCCATTTTAAACCTTAAACTT
1 TCCAAAAATTACCATTTTAC-CCTCGAACT-TCCAAAAATTCCATTTTTTA-CATCAATTT
62631 TCCAAAAATTACCATTTTACCCTC
1 TCCAAAAATTACCATTTTACCCTC
62655 AGATGTTTAA
Statistics
Matches: 220, Mismatches: 24, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
55 4 0.02
56 13 0.06
57 30 0.14
58 80 0.36
59 93 0.42
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTTACATCAATTT
Found at i:62522 original size:58 final size:59
Alignment explanation
Indices: 62340--62714 Score: 314
Period size: 58 Copynumber: 6.4 Consensus size: 59
62330 CCCTAAACTA
* * * *
62340 TCCAAAAATTA-TATTTTTACCCTCGAACTTTCC-AAAATTCCATTTTTTACCCCAAAATT
1 TCCAAAAATTACCA-TTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTTACCTCGAATTT
* *
62399 TCCAAAAATTA-CATTTTTACCCACGAACTTTCC-AAAATTCCA-TTTTTACATCG-ATTT
1 TCCAAAAATTACCA-TTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTTACCTCGAATTT
* ** *
62456 TCCAAAAATTACCATTTTACCC-CAAACTTCCAAAAATTCCATTTTTTATTTCGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTTACCTCGAATTT
* *
62514 TCCAAAAATTACCATTTTACCCTCGAAC-TCCTAAAAATTCCATTTTTAACCTCGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCC-AAAAATTCCATTTTTTACCTCGAATTT
* * * ** ** *
62573 TCC-AAAATTACTATTTTACTCC-CTAA-TGTCTAAAAATTCCATTTTAAACCTTAAACTT
1 TCCAAAAATTACCATTTTAC-CCTCGAACT-TCCAAAAATTCCATTTTTTACCTCGAATTT
** * * *
62631 TCCAAAAATTACCATTTTACCCTCAGATGTT--TAAAATTTCATTTTTAACC-CTGAACTTT
1 TCCAAAAATTACCATTTTACCCTC-GAACTTCCAAAAATTCCATTTTTTACCTC-GAA-TTT
62690 T--ATAAAATTACCATTTTACCCTCGA
1 TCCA-AAAATTACCATTTTACCCTCGA
62715 GTGTATAAAA
Statistics
Matches: 269, Mismatches: 31, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.01
56 13 0.05
57 34 0.13
58 121 0.45
59 94 0.35
60 2 0.01
61 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTTACCTCGAATTT
Found at i:62724 original size:117 final size:117
Alignment explanation
Indices: 62512--62735 Score: 269
Period size: 117 Copynumber: 1.9 Consensus size: 117
62502 TATTTCGATT
* *
62512 TTTCCAAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATTTTTAACCTCGATTTTTCCA
1 TTTCCAAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATTTTTAACCTCGACTTTTACA
* * *
62577 AAATTACTATTTTACTCCCTAATGTCTAAAAATT-CCATTTTAAACCTTAAAC
66 AAATTACCATTTTACTCCCGAATGTAT-AAAATTACCATTTTAAACCTTAAAC
** * *
62629 TTTCCAAAAATTACCATTTTACCCTC-AGA-TGTTTAAAATTTCATTTTTAACC-CTGAACTTTT
1 TTTCCAAAAATTACCATTTTACCCTCGA-ACTCCTAAAAATTCCATTTTTAACCTC-G-ACTTTT
* *
62691 ATAAAATTACCATTTTAC-CCTCGAGTGTATAAAATTACCATTTTA
63 ACAAAATTACCATTTTACTCC-CGAATGTATAAAATTACCATTTTA
62736 CCCCTAGGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
115 1 0.01
116 29 0.32
117 61 0.67
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (117 bp):
TTTCCAAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATTTTTAACCTCGACTTTTACA
AAATTACCATTTTACTCCCGAATGTATAAAATTACCATTTTAAACCTTAAAC
Found at i:62754 original size:29 final size:28
Alignment explanation
Indices: 62635--62738 Score: 106
Period size: 28 Copynumber: 3.6 Consensus size: 28
62625 AAACTTTCCA
*
62635 AAAATTACCATTTTACCCTC-AGATGTTT
1 AAAATTACCATTTTACCCTCGAG-TGTAT
* * *
62663 AAAATT-TCATTTTTAACCCT-GAACTTTTAT
1 AAAATTACCA-TTTT-ACCCTCG-A-GTGTAT
62693 AAAATTACCATTTTACCCTCGAGTGTAT
1 AAAATTACCATTTTACCCTCGAGTGTAT
62721 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
62739 CTAGGTATCC
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
27 2 0.03
28 32 0.52
29 11 0.18
30 15 0.24
31 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTCGAGTGTAT
Found at i:74564 original size:49 final size:50
Alignment explanation
Indices: 74492--74765 Score: 278
Period size: 49 Copynumber: 5.6 Consensus size: 50
74482 CGAAACATGG
* * *
74492 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTATCTCAGAAG-CATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATAA
* * * *
74541 AGGGAGAGATTTAAGCCGCAACGGCGAATCC-AGTA-C-CATGAAGATATAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCTCA-GAAGACATAA
* *
74590 AGGGAAAGTTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-CATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATAA
* * * * *
74639 AGGGAAAGTTTTAAGTCGCAACGACGAATCC-AGTACCT-TGAAGACACAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCTCAGAAGACATAA
* * **
74688 GAGGGAAAGGTTTAAGTCGTAGTGGCGAACCTTGTACCTCAG-AGACATAA
1 -AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATAA
74738 AGGGAAAGATTTAAG-CTGCAACGGCGAA
1 AGGGAAAGATTTAAGTC-GCAACGGCGAA
74766 TCCAGTACCA
Statistics
Matches: 184, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
47 2 0.01
48 12 0.07
49 122 0.66
50 45 0.24
51 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (50 bp):
AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATAA
Found at i:74661 original size:98 final size:98
Alignment explanation
Indices: 74491--74775 Score: 412
Period size: 98 Copynumber: 2.9 Consensus size: 98
74481 GCGAAACATG
* *
74491 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTATCTCAGAAGCATGAAGGGAGAGATTTAAG
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAG
* *
74556 CCGCAACGGCGAATCCAGTACCATGAAGATATAA
66 -CGCAACGGCGAATCCAGTACCATGAAGACACAA
* *
74590 -AGGGAAAGTTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGTTTTAAG
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAG
* *
74654 TCGCAACGACGAATCCAGTACCTTGAAGACACAA
66 -CGCAACGGCGAATCCAGTACCATGAAGACACAA
* ** *
74688 GAGGGAAAGGTTTAAGTCGTAGTGGCGAACCTTGTACCTCAG-AGACATAAAGGGAAAGATTTAA
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAA
74752 GCTGCAACGGCGAATCCAGTACCA
65 GC-GCAACGGCGAATCCAGTACCA
74776 CGCAACGGCG
Statistics
Matches: 166, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
98 92 0.55
99 74 0.45
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (98 bp):
GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAG
CGCAACGGCGAATCCAGTACCATGAAGACACAA
Found at i:74783 original size:22 final size:22
Alignment explanation
Indices: 74755--74799 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
74745 GATTTAAGCT
74755 GCAACGGCGAATCCAGTACCAC
1 GCAACGGCGAATCCAGTACCAC
*
74777 GCAACGGCGACTCCAGTACCAC
1 GCAACGGCGAATCCAGTACCAC
74799 G
1 G
74800 AAGACACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.24, T:0.09
Consensus pattern (22 bp):
GCAACGGCGAATCCAGTACCAC
Found at i:75325 original size:17 final size:17
Alignment explanation
Indices: 75305--75366 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
75295 TTTAGATTTT
*
75305 AATTCATTTTAAGTTTA
1 AATTTATTTTAAGTTTA
* *
75322 AATTTATTGTAAATTTA
1 AATTTATTTTAAGTTTA
* **
75339 AGACTTATTTGGAGTTTA
1 A-ATTTATTTTAAGTTTA
75357 AATTTATTTT
1 AATTTATTTT
75367 GAAATAAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAGTTTA
Found at i:76128 original size:12 final size:12
Alignment explanation
Indices: 76103--76137 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
76093 TAAATAGCAT
76103 TAATAATTAATAA
1 TAAT-ATTAATAA
*
76116 TAATATTATTAA
1 TAATATTAATAA
76128 TAATATTAAT
1 TAATATTAAT
76138 TTTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:76128 original size:15 final size:16
Alignment explanation
Indices: 76103--76145 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
76093 TAAATAGCAT
*
76103 TAATAATTAATAATAA
1 TAATTATTAATAATAA
*
76119 T-ATTATTAATAATAT
1 TAATTATTAATAATAA
76134 TAATT-TTAATAA
1 TAATTATTAATAA
76146 AAAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTATTAATAATAA
Found at i:77258 original size:30 final size:29
Alignment explanation
Indices: 77216--77388 Score: 136
Period size: 29 Copynumber: 5.9 Consensus size: 29
77206 CTGAAGGTCT
* *
77216 CCAAA-TTGTCCAAGAATTATATTTTTATCC
1 CCAAACTT-TCCAA-AATTACATTTTTAACC
*
77246 CCAAACTTTCCAAAATTCCATTTTTAACC
1 CCAAACTTTCCAAAATTACATTTTTAACC
** * * * *
77275 TTAAATTTTCCAAAAAATACAATTTTACCC
1 CCAAACTTTCC-AAAATTACATTTTTAACC
*
77305 CCAAACTTTCCAAAATTCCATTTTTAACC
1 CCAAACTTTCCAAAATTACATTTTTAACC
* * *
77334 CAAAATTTTCCAAAAATTACCA-TTTTACCC
1 CCAAACTTTCC-AAAATTA-CATTTTTAACC
* *
77364 CCGAAC-TTCCTAAAATTCCATTTTT
1 CCAAACTTTCC-AAAATTACATTTTT
77389 GACCTTGATT
Statistics
Matches: 112, Mismatches: 26, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
28 2 0.02
29 58 0.52
30 48 0.43
31 4 0.04
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
CCAAACTTTCCAAAATTACATTTTTAACC
Found at i:77270 original size:29 final size:30
Alignment explanation
Indices: 77236--77535 Score: 181
Period size: 29 Copynumber: 10.2 Consensus size: 30
77226 CAAGAATTAT
*
77236 ATTTTTATCCCCAAACTTTCC-AAAATTCC
1 ATTTTTAACCCCAAACTTTCCAAAAATTCC
** * * *
77265 ATTTTTAACCTTAAATTTTCCAAAAAATAC
1 ATTTTTAACCCCAAACTTTCCAAAAATTCC
* *
77295 AATTTTACCCCCAAACTTTCC-AAAATTCC
1 ATTTTTAACCCCAAACTTTCCAAAAATTCC
* *
77324 ATTTTTAACCCAAAATTTTCCAAAAATTACC
1 ATTTTTAACCCCAAACTTTCCAAAAATT-CC
* * *
77355 A-TTTTACCCCCGAAC-TTCCTAAAATTCC
1 ATTTTTAACCCCAAACTTTCCAAAAATTCC
* *** **
77383 ATTTTTGACCTTGATTTTTCCAAAAATTGCC
1 ATTTTTAACCCCAAACTTTCCAAAAATT-CC
*
77414 A-TTTT-ACCCCTAAAC-TCCCAAAAATTCC
1 ATTTTTAACCCC-AAACTTTCCAAAAATTCC
* * * **
77442 ATTTTTGACCTCGATTTTTCC-AAAATTACC
1 ATTTTTAACCCCAAACTTTCCAAAAATT-CC
** * *
77472 A-TTTT-ACCCTTGAA-TGTCTAAAAATTCC
1 ATTTTTAACCC-CAAACTTTCCAAAAATTCC
* * *
77500 ATTTTAAACCTCGAACTTTCCAAAAATTACC
1 ATTTTTAACCCCAAACTTTCCAAAAATT-CC
77531 ATTTT
1 ATTTT
77536 ACCCTCGGGT
Statistics
Matches: 204, Mismatches: 50, Indels: 32
0.71 0.17 0.11
Matches are distributed among these distances:
28 15 0.07
29 100 0.49
30 76 0.37
31 13 0.06
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (30 bp):
ATTTTTAACCCCAAACTTTCCAAAAATTCC
Found at i:77310 original size:59 final size:59
Alignment explanation
Indices: 77238--77539 Score: 335
Period size: 59 Copynumber: 5.1 Consensus size: 59
77228 AGAATTATAT
* ** * *
77238 TTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCTTAAATTTTCCAAAAAATACAA
1 TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTACCA
*
77297 TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACC-CAAAATTTTCCAAAAATTACCA
1 TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTC-GAATTTTCCAAAAATTACCA
* * * * *
77356 TTTTACCCCCGAAC-TTCCTAAAATTCCATTTTTGACCTTGATTTTTCCAAAAATTGCCA
1 TTTTACCCCCAAACTTTCC-AAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTACCA
* * * *
77415 TTTTACCCCTAAAC-TCCCAAAAATTCCATTTTTGACCTCGATTTTTCC-AAAATTACCA
1 TTTTACCCCCAAACTTTCC-AAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTACCA
*** * * * *
77473 TTTTACCCTTGAA-TGTCTAAAAATTCCATTTTAAACCTCGAACTTTCCAAAAATTACCA
1 TTTTACCCCCAAACTTTC-CAAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTACCA
77532 TTTTACCC
1 TTTTACCC
77540 TCGGGTATCC
Statistics
Matches: 212, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
58 50 0.24
59 162 0.76
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTCCAAAAATTACCA
Found at i:77555 original size:117 final size:116
Alignment explanation
Indices: 77238--77539 Score: 312
Period size: 117 Copynumber: 2.6 Consensus size: 116
77228 AGAATTATAT
* * * * *
77238 TTTTATCCCCAAACTTTCC-AAAATTCCATTTTTAACCTTAAATTTTCCAAAAAATACAATTTTA
1 TTTTACCCCCGAAC-TTCCTAAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACCATTTTA
*
77302 CCCCCAAACTTTCC-AAAATTCCATTTTTAACCCAAAATTTTCCAAAAATTACCA
65 -CCCC-AA-TATCCAAAAATTCCATTTTTAACCCAAAATTTTCCAAAAATTACCA
* * *
77356 TTTTACCCCCGAACTTCCTAAAATTCCATTTTTGACCTTGATTTTTCCAAAAATTGCCATTTTAC
1 TTTTACCCCCGAACTTCCTAAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACCATTTTAC
* * *
77421 CCCTAA-ACTCCCAAAAATTCCATTTTTGACCTC-GATTTTTCC-AAAATTACCA
66 CCC-AATA-T-CCAAAAATTCCATTTTTAACC-CAAAATTTTCCAAAAATTACCA
** * * *
77473 TTTTACCCTTGAA-TGT-CTAAAAATTCCATTTTAAACCTCGAACTTTCCAAAAATTACCATTTT
1 TTTTACCCCCGAACT-TCCT-AAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACCATTTT
77536 ACCC
64 ACCC
77540 TCGGGTATCC
Statistics
Matches: 156, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
116 4 0.03
117 76 0.49
118 75 0.48
119 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (116 bp):
TTTTACCCCCGAACTTCCTAAAATTCCATTTTTAACCTTGAATTTTCCAAAAATTACCATTTTAC
CCCAATATCCAAAAATTCCATTTTTAACCCAAAATTTTCCAAAAATTACCA
Found at i:78872 original size:37 final size:37
Alignment explanation
Indices: 78812--78992 Score: 209
Period size: 37 Copynumber: 4.9 Consensus size: 37
78802 AATCTAATTA
* * * *
78812 ACACCGGCACAAAGCATGCTAGGCACATAACCCGAAC
1 ACACCGGCACGAAGCCTGCTAGGCACACAACCCGAAT
* * * *
78849 ACACCGGCATGAAGCCTGTTAGGCACACAGCCTGAAT
1 ACACCGGCACGAAGCCTGCTAGGCACACAACCCGAAT
* *
78886 ACACCGGCACGAAGCCTGATAGGCACACAGCCCGAAT
1 ACACCGGCACGAAGCCTGCTAGGCACACAACCCGAAT
* * * **
78923 ACACTGGCACGAAGCCTACTAGGCACAAAACTTGAAT
1 ACACCGGCACGAAGCCTGCTAGGCACACAACCCGAAT
* *
78960 ACACCGGCACGAAGCCTGTTAGGCACATAACCC
1 ACACCGGCACGAAGCCTGCTAGGCACACAACCC
78993 AATTACTTAA
Statistics
Matches: 120, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 120 1.00
ACGTcount: A:0.34, C:0.33, G:0.22, T:0.12
Consensus pattern (37 bp):
ACACCGGCACGAAGCCTGCTAGGCACACAACCCGAAT
Found at i:78895 original size:21 final size:20
Alignment explanation
Indices: 78870--78932 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
78860 AAGCCTGTTA
78870 GGCACACAGCCTGAATACACC
1 GGCACACAGCCTGAATACA-C
78891 GGCACGA-AGCCTG-AT--A-
1 GGCAC-ACAGCCTGAATACAC
*
78907 GGCACACAGCCCGAATACAC
1 GGCACACAGCCTGAATACAC
78927 TGGCAC
1 -GGCAC
78933 GAAGCCTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 16 0.47
22 1 0.03
ACGTcount: A:0.32, C:0.35, G:0.24, T:0.10
Consensus pattern (20 bp):
GGCACACAGCCTGAATACAC
Found at i:80118 original size:3 final size:3
Alignment explanation
Indices: 80110--80138 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
80100 CATTTAAATA
80110 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
80139 AATCAAACTA
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:84434 original size:20 final size:20
Alignment explanation
Indices: 84397--84444 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
84387 ATTCGACCTA
*
84397 TTGACCTTTGACCATTGAACG
1 TTGA-CTTTAACCATTGAACG
* *
84418 TTGACTTTAACCGTTGATCG
1 TTGACTTTAACCATTGAACG
84438 TTG-CTTT
1 TTGACTTT
84445 TTCAACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGACTTTAACCATTGAACG
Found at i:86877 original size:22 final size:22
Alignment explanation
Indices: 86852--86893 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
86842 AAAATCCAAT
86852 AAACCAACAACAATAACACAAC
1 AAACCAACAACAATAACACAAC
* *
86874 AAACTAAGAACAATAACACA
1 AAACCAACAACAATAACACA
86894 TCAGTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.26, G:0.02, T:0.07
Consensus pattern (22 bp):
AAACCAACAACAATAACACAAC
Found at i:90740 original size:40 final size:40
Alignment explanation
Indices: 90696--90801 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
90686 GGAAAGAAAA
**
90696 CGCCGCAAAAGGTAAAGCAATAGCGATGTTTTTTTATAAG
1 CGCCGCAAAAGGTAAAGCAATAGCGATGTTTTTCCATAAG
*
90736 CGCCGCAAAAGGTAAAGCAATAGTGATGTTTTTCCATAAG
1 CGCCGCAAAAGGTAAAGCAATAGCGATGTTTTTCCATAAG
*
90776 CGCCGTAAAAGGTAAAGCAATAGCGA
1 CGCCGCAAAAGGTAAAGCAATAGCGA
90802 CGTTCTTAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (40 bp):
CGCCGCAAAAGGTAAAGCAATAGCGATGTTTTTCCATAAG
Found at i:90905 original size:41 final size:41
Alignment explanation
Indices: 90859--91071 Score: 257
Period size: 41 Copynumber: 5.2 Consensus size: 41
90849 ATGACGAAGT
* *
90859 GCCGCTAAAGGTTAGGGCATTAGCGACGCTTTCCCATAAGC
1 GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCATAAGC
* * *
90900 CCCGCTAAAGGTCAGGGTATTAGCGATGCTTTCTCATAAGC
1 GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCATAAGC
* * * *
90941 GCCGCTAAAGGTTAGGGTATTAGTGGCG-TTTTCCAGTAAGC
1 GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCA-TAAGC
* *
90982 GCCGCTAAAGGTCAAGGTATTAGCGGCGCTTTCCCATAAGC
1 GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCATAAGC
* * * * **
91023 GTCACTAAATGTCAGAGTATTAGCGACGCTTTCTTATAAGC
1 GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCATAAGC
91064 GCCGCTAA
1 GCCGCTAA
91072 TTTATTTAAA
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 5 0.03
41 133 0.92
42 6 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (41 bp):
GCCGCTAAAGGTCAGGGTATTAGCGACGCTTTCCCATAAGC
Found at i:90947 original size:123 final size:123
Alignment explanation
Indices: 90818--91072 Score: 291
Period size: 123 Copynumber: 2.1 Consensus size: 123
90808 TAGAGAAAGT
* * *
90818 GCCGCTAATGCTCTAACAT-TTAGCGGCGTTTATGAC-G-AAGTGCCGCTAAAGGTTAGGGCATT
1 GCCGCTAATGCT-TAACATATTAGCGGCGTTT-T-ACAGTAAGCGCCGCTAAAGGTCAAGGCATT
* * *
90880 AGCGACGCTTTCCCATAAGCCCCGCTAAAGGTCAGGGTATTAGCGATGCTTTCTCATAAGC
63 AGCGACGCTTTCCCATAAGCCCCACTAAAGGTCAGAGTATTAGCGACGCTTTCTCATAAGC
* * *** * * *
90941 GCCGCTAAAGGTTAGGGTATTAGTGGCGTTTTCCAGTAAGCGCCGCTAAAGGTCAAGGTATTAGC
1 GCCGCTAATGCTTAACATATTAGCGGCGTTTTACAGTAAGCGCCGCTAAAGGTCAAGGCATTAGC
* ** * *
91006 GGCGCTTTCCCATAAGCGTCACTAAATGTCAGAGTATTAGCGACGCTTTCTTATAAGC
66 GACGCTTTCCCATAAGCCCCACTAAAGGTCAGAGTATTAGCGACGCTTTCTCATAAGC
91064 GCCGCTAAT
1 GCCGCTAAT
91073 TTATTTAAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
121 1 0.01
122 5 0.05
123 103 0.94
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (123 bp):
GCCGCTAATGCTTAACATATTAGCGGCGTTTTACAGTAAGCGCCGCTAAAGGTCAAGGCATTAGC
GACGCTTTCCCATAAGCCCCACTAAAGGTCAGAGTATTAGCGACGCTTTCTCATAAGC
Found at i:92061 original size:170 final size:169
Alignment explanation
Indices: 91684--92074 Score: 586
Period size: 169 Copynumber: 2.3 Consensus size: 169
91674 CGTGTACAAT
*
91684 TTCTTATAGTACTGTTCGGGGGGTCGATAAGCTAATTCTCGTGGATGTCTATACAGTAACAATGA
1 TTCTTATAGTACTGTTCGGGGGGTCGATAAGCTAATTCCCGTGGATGTCTATACAGTAACAATGA
* *
91749 AAATGGCATCCTCTTTAGTGAGATTATATATGAACAAATGCCGAACCTAAATATGTTATTACTAT
66 AAATGACACCCTCTTTAGTGAGATTATATATGAACAAATGCCGAACCTAAATATGTTATTACTAT
* **
91814 GAGCGCGTGTATAATTACAGGAGGAATGTTCAATACTAA
131 GAGCGCGTGTACAATTACAAAAGGAATGTTCAATACTAA
*
91853 TTCTTATAGTACTGTTCAGGGGGTCGATAAGCTAATTCCCGTGGATGTCTATACAGTAACAATGA
1 TTCTTATAGTACTGTTCGGGGGGTCGATAAGCTAATTCCCGTGGATGTCTATACAGTAACAATGA
* * * **
91918 GAATGACGCCCTCTTTAGTGAGATTATATATGAACAAATGTTCGAACCTAAATATGTTATTGTTA
66 AAATGACACCCTCTTTAGTGAGATTATATATGAACAAATG-CCGAACCTAAATATGTTATTACTA
* * * *
91983 TTG-GTGCGTGTACAATTACAAAAGGGATGTTCAGTACTGA
130 -TGAGCGCGTGTACAATTACAAAAGGAATGTTCAATACTAA
* * *
92023 TTCTTATAGTACTGTTTGGGGGGTGGATAAGTTAATTCCCGTGGATGTCTAT
1 TTCTTATAGTACTGTTCGGGGGGTCGATAAGCTAATTCCCGTGGATGTCTAT
92075 TTGCCGGGCT
Statistics
Matches: 200, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
169 99 0.50
170 99 0.50
171 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (169 bp):
TTCTTATAGTACTGTTCGGGGGGTCGATAAGCTAATTCCCGTGGATGTCTATACAGTAACAATGA
AAATGACACCCTCTTTAGTGAGATTATATATGAACAAATGCCGAACCTAAATATGTTATTACTAT
GAGCGCGTGTACAATTACAAAAGGAATGTTCAATACTAA
Found at i:92149 original size:17 final size:17
Alignment explanation
Indices: 92122--92161 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
92112 ATAAATTCTA
*
92122 AATAGACTAAATATAAAT
1 AATA-ACTAAATAAAAAT
92140 AATAACTAAATAAAAAT
1 AATAACTAAATAAAAAT
92157 AATAA
1 AATAA
92162 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (17 bp):
AATAACTAAATAAAAAT
Found at i:92152 original size:15 final size:14
Alignment explanation
Indices: 92134--92225 Score: 55
Period size: 15 Copynumber: 6.3 Consensus size: 14
92124 TAGACTAAAT
92134 ATAAATAATAACTAA
1 ATAAATAATAA-TAA
92149 ATAAA-AATAATAA
1 ATAAATAATAATAA
* * *
92162 TTTAAATAATATTTAT
1 -ATAAATAATA-ATAA
*
92178 ATAAAATAATAATAT
1 AT-AAATAATAATAA
*
92193 ATATAATAATAGATTGA
1 ATA-AATAATA-A-TAA
92210 AT-AATAA-AATAA
1 ATAAATAATAATAA
92222 ATAA
1 ATAA
92226 TATAGAAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
12 4 0.07
13 5 0.08
14 11 0.18
15 27 0.44
16 11 0.18
17 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (14 bp):
ATAAATAATAATAA
Found at i:92200 original size:12 final size:13
Alignment explanation
Indices: 92131--92229 Score: 53
Period size: 12 Copynumber: 7.5 Consensus size: 13
92121 AAATAGACTA
*
92131 AATATAAAT-AAT
1 AATATATATAAAT
* *
92143 AACTAAATAAAAAT
1 AA-TATATATAAAT
*
92157 AATA-ATTTAAAT
1 AATATATATAAAT
92169 AATATTTATATAAAAT
1 AATA--TATAT-AAAT
92185 AATAATATATATAAT
1 AAT-ATATATA-AAT
* *
92200 AATAGAT-TGAAT
1 AATATATATAAAT
*
92212 AATA-AAATAAAT
1 AATATATATAAAT
92224 AATATA
1 AATATA
92230 GAAATATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.01
12 27 0.40
13 8 0.12
14 9 0.13
15 14 0.21
16 7 0.10
17 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:92269 original size:6 final size:6
Alignment explanation
Indices: 92260--92322 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
92250 GAAATAATTT
* *
92260 AATATA AATATA AATATA AATAT- -ATATGA ATTATT AATATA AATAT-
1 AATATA AATATA AATATA AATATA AATAT-A AATATA AATATA AATATA
*
92306 AATATT AATATA AATAT
1 AATATA AATATA AATAT
92323 TATTAATTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.08
5 5 0.10
6 36 0.75
7 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (6 bp):
AATATA
Found at i:92300 original size:17 final size:16
Alignment explanation
Indices: 92267--92344 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
92257 TTTAATATAA
* *
92267 ATATAAATATAAATAT
1 ATATAATTATTAATAT
92283 ATATGAATTATTAATAT
1 ATAT-AATTATTAATAT
92300 AAATATAA-TATTAATAT
1 --ATATAATTATTAATAT
*
92317 AAAT-ATTATTAAT-T
1 ATATAATTATTAATAT
*
92331 ACATAA-TATTAATA
1 ATATAATTATTAATA
92345 ACAAATAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
14 12 0.23
15 11 0.21
16 4 0.08
17 19 0.37
18 2 0.04
19 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
ATATAATTATTAATAT
Found at i:92321 original size:23 final size:23
Alignment explanation
Indices: 92259--92322 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
92249 CGAAATAATT
92259 TAATATAAATATAAATATAAATA
1 TAATATAAATATAAATATAAATA
* *
92282 T-ATATGAATTATTAATATAAATA
1 TAATAT-AAATATAAATATAAATA
*
92305 TAATATTAATATAAATAT
1 TAATATAAATATAAATAT
92323 TATTAATTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.12
23 26 0.76
24 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TAATATAAATATAAATATAAATA
Found at i:92323 original size:29 final size:29
Alignment explanation
Indices: 92260--92369 Score: 83
Period size: 29 Copynumber: 3.9 Consensus size: 29
92250 GAAATAATTT
*
92260 AATATAAATATAAATATAA-A-TATATATGA
1 AATATTAATATAAATATAATATTA-ATAT-A
*
92289 ATTATTAATATAAATATAATATTAATATA
1 AATATTAATATAAATATAATATTAATATA
*
92318 AATATT-AT-TAATTACATAATATTAATA-A
1 AATATTAATATAA--ATATAATATTAATATA
*
92346 CAA-A-TAATATAAAT-TAATAATAAT
1 -AATATTAATATAAATATAATATTAAT
92370 TGATAATAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
26 9 0.13
27 5 0.07
28 6 0.09
29 41 0.60
30 5 0.07
31 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (29 bp):
AATATTAATATAAATATAATATTAATATA
Done.