Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010172.1 Corchorus capsularis cultivar CVL-1 contig10193, 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: 42744
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:546 original size:3 final size:3
Alignment explanation
Indices: 538--584 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
528 ACCAAAAAGT
538 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
585 GACCTAACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2826 original size:24 final size:24
Alignment explanation
Indices: 2747--2834 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
2737 TATATAATAC
**
2747 ACATGTTTGTGAACA-CTATATCGA
1 ACATGTTCATGAACATCTA-ATCGA
* *
2771 ACATGTTCA-GAAACATTTTATCGA
1 ACATGTTCATG-AACATCTAATCGA
2795 ACATGTTCATGAACATCTAATCGA
1 ACATGTTCATGAACATCTAATCGA
*
2819 ACATGTTCCTGAACAT
1 ACATGTTCATGAACAT
2835 AAACGAACCA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (24 bp):
ACATGTTCATGAACATCTAATCGA
Found at i:3491 original size:19 final size:18
Alignment explanation
Indices: 3463--3498 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3453 GAGAACCTTT
*
3463 TTATAAATTTTTTTAACC
1 TTATAAATTTTGTTAACC
3481 TTATGAAATTTTGTTAAC
1 TTAT-AAATTTTGTTAAC
3499 ATCCCTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (18 bp):
TTATAAATTTTGTTAACC
Found at i:3584 original size:45 final size:45
Alignment explanation
Indices: 3526--3611 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
3516 AAGACCTCAA
* *
3526 TATGAAATTTTGATAACCTCCCA-ATGAAATTTTGATAACCAACAC
1 TATGAAATGTTGATAACCT-CCATATGAAATATTGATAACCAACAC
* *
3571 TATGAGATGTTGATAACCTCCATATGATATATTGATAACCA
1 TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCA
3612 CGTTACGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 3 0.08
45 33 0.92
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (45 bp):
TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCAACAC
Found at i:3685 original size:22 final size:20
Alignment explanation
Indices: 3660--3763 Score: 73
Period size: 23 Copynumber: 4.7 Consensus size: 20
3650 AAGTACACTC
3660 TGAAATTTTGATAATCAGACTA
1 TGAAATTTTGATAATC-G-CTA
*
3682 TGAAATTGTGATAACCTCGCTA
1 TGAAATTTTGATAA--TCGCTA
*
3704 TGAAATTTTGATAAATCTTCCTA
1 TGAAATTTTGAT-AATC--GCTA
* *
3727 TAAAATTTTGATAAACCTCCCTA
1 TGAAATTTTGAT-AA--TCGCTA
*
3750 TAAAATTTTGATAA
1 TGAAATTTTGATAA
3764 CTTTCTTATG
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.03
22 29 0.41
23 36 0.51
24 2 0.03
25 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
TGAAATTTTGATAATCGCTA
Found at i:3732 original size:23 final size:23
Alignment explanation
Indices: 3701--3785 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
3691 GATAACCTCG
*
3701 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAATCTTC
* *
3724 CTATAAAATTTTGATAAACCTCC
1 CTATAAAATTTTGATAAATCTTC
*
3747 CTATAAAATTTTGATAACT-TTC
1 CTATAAAATTTTGATAAATCTTC
* * *
3769 TTATGAAATCTTGATAA
1 CTATAAAATTTTGATAA
3786 CTACAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.30
23 37 0.70
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
CTATAAAATTTTGATAAATCTTC
Found at i:3784 original size:45 final size:45
Alignment explanation
Indices: 3662--3785 Score: 128
Period size: 45 Copynumber: 2.8 Consensus size: 45
3652 GTACACTCTG
*** * *
3662 AAATTTTGAT-AATCAGACTATGAAATTGTGAT-AACCTCGCTATG
1 AAATTTTGATAAATCTTCCTATGAAATT-TGATAAACCTCCCTATA
*
3706 AAATTTTGATAAATCTTCCTATAAAATTTTGATAAACCTCCCTATA
1 AAATTTTGATAAATCTTCCTATGAAA-TTTGATAAACCTCCCTATA
* *
3752 AAATTTTGATAACT-TTCTTATGAAATCTTGATAA
1 AAATTTTGATAAATCTTCCTATGAAAT-TTGATAA
3786 CTACAAATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.16
45 31 0.46
46 25 0.37
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (45 bp):
AAATTTTGATAAATCTTCCTATGAAATTTGATAAACCTCCCTATA
Found at i:3840 original size:22 final size:22
Alignment explanation
Indices: 3398--3967 Score: 231
Period size: 22 Copynumber: 26.6 Consensus size: 22
3388 ATGATCCCAT
*
3398 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTCCC
* * ** *
3420 AATGAAATTTTAATAATGAT-AC
1 TATGAAATTTTGATAA-CCTCCC
* ***
3442 TATGAAATTTTGAGAACCTTTT
1 TATGAAATTTTGATAACCTCCC
**
3464 TAT-AAATTTTTTTAACCT---
1 TATGAAATTTTGATAACCTCCC
* *
3482 TATGAAATTTTGTTAACATCCC
1 TATGAAATTTTGATAACCTCCC
* **
3504 TAAGAAATTTTGA-AGACCTCAA
1 TATGAAATTTTGATA-ACCTCCC
3526 TATGAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCTCCC
* * *
3548 AATGAAATTTTGATAACCAACAC
1 TATGAAATTTTGATAACC-TCCC
* * *
3571 TATGAGATGTTGATAACCTCCA
1 TATGAAATTTTGATAACCTCCC
* * * **
3593 TATGATATATTGATAACCACGT
1 TATGAAATTTTGATAACCTCCC
* * * *
3615 TACGAAAATTT-AAAACCTCCA
1 TATGAAATTTTGATAACCTCCC
* * *
3636 TATG--ATTTGTTAGTAA-GTACAC
1 TATGAAATTT-TGA-TAACCT-CCC
* * ***
3658 TCTGAAATTTTGATAATCAGAC
1 TATGAAATTTTGATAACCTCCC
* *
3680 TATGAAATTGTGATAACCTCGC
1 TATGAAATTTTGATAACCTCCC
* *
3702 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AACCTCCC
*
3725 TATAAAATTTTGATAAACCTCCC
1 TATGAAATTTTGAT-AACCTCCC
* * * *
3748 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTCCC
*
3770 TATGAAATCTTGATAA-----C
1 TATGAAATTTTGATAACCTCCC
*
3787 TA-CAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCTCCC
* ** ***
3808 TAAGATTTTTTGATAACCTTAT
1 TATGAAATTTTGATAACCTCCC
*
3830 TATGAAATTTTG-T---TTCCC
1 TATGAAATTTTGATAACCTCCC
* * *
3848 TATGAAATTTTGATCTACAT-AC
1 TATGAAATTTTGAT-AACCTCCC
* *
3870 TATGAAATTTTGATAA-TTCTCT
1 TATGAAATTTTGATAACCTC-CC
* **
3892 TATGAAATTTTGACAA-CTAAAC
1 TATGAAATTTTGATAACCT-CCC
* *
3914 TATGAAATTGTGATATCCTCCC
1 TATGAAATTTTGATAACCTCCC
*
3936 --TGAAATTTTGATATCCT-CC
1 TATGAAATTTTGATAACCTCCC
3955 T-TGAAATTTTGAT
1 TATGAAATTTTGAT
3968 TACTCCATAA
Statistics
Matches: 406, Mismatches: 109, Indels: 68
0.70 0.19 0.12
Matches are distributed among these distances:
16 11 0.03
17 2 0.00
18 16 0.04
19 19 0.05
20 30 0.07
21 30 0.07
22 231 0.57
23 63 0.16
24 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTCCC
Found at i:3941 original size:20 final size:20
Alignment explanation
Indices: 3916--3967 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
3906 AACTAAACTA
*
3916 TGAAATTGTGATATCCTCCC
1 TGAAATTTTGATATCCTCCC
*
3936 TGAAATTTTGATATCCTCCT
1 TGAAATTTTGATATCCTCCC
3956 TGAAATTTTGAT
1 TGAAATTTTGAT
3968 TACTCCATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
TGAAATTTTGATATCCTCCC
Found at i:4465 original size:22 final size:22
Alignment explanation
Indices: 4046--4468 Score: 120
Period size: 22 Copynumber: 19.0 Consensus size: 22
4036 CCAGAAATAC
*
4046 CACTATGAAATTTTTG-TAATCA
1 CACTATGAAA-TTTTGATAATCT
* * * *
4068 CATTTTGAAAATTTGATAACCT
1 CACTATGAAATTTTGATAATCT
** * * *
4090 CTTTACGAAATTTTGCTAACCT
1 CACTATGAAATTTTGATAATCT
** * * * * *
4112 CTTTATAAAATTTTGTTGACCC
1 CACTATGAAATTTTGATAATCT
* * *
4134 CTCTATGAAATTCTGATAATCA
1 CACTATGAAATTTTGATAATCT
* * * *
4156 GATTATGTAATTTTGATAACCT
1 CACTATGAAATTTTGATAATCT
* * * **
4178 CGCTTTGAAATTTTGATACTAA
1 CACTATGAAATTTTGATAATCT
4200 CACTATGAAATTTTGATAATCTT
1 CACTATGAAATTTTGATAATC-T
4223 C-CTAT-AAATTTTGATAATCTGAT
1 CACTATGAAATTTTGATAATC---T
* *
4246 CTCTATGAAATTTCGATAAT-T
1 CACTATGAAATTTTGATAATCT
* *
4267 -ACTTTATGAGA-TTTGATAACCT
1 CAC--TATGAAATTTTGATAATCT
* * *
4289 -TCTATCAAATTTTGGT-A-CT
1 CACTATGAAATTTTGATAATCT
* *
4308 C-CTTATGAAATTGAGACTTTTATAACCTT
1 CAC-TATGAAA-T-----TTTGATAATC-T
* * *
4337 CA-TATGAAATTTTAATAACCA
1 CACTATGAAATTTTGATAATCT
* *
4358 CACTATAAAATTTTGATAACCCT
1 CACTATGAAATTTTGATAA-TCT
* * *
4381 C-CCATGAAATATT-AGTAACCT
1 CACTATGAAATTTTGA-TAATCT
* * *
4402 C-CTAATGAAATTTTGTTAACCA
1 CACT-ATGAAATTTTGATAATCT
4424 CACTATGAAATTCTT-ATAATCT
1 CACTATGAAATT-TTGATAATCT
*
4446 CACTATGACATTTTGATAATCT
1 CACTATGAAATTTTGATAATCT
4468 C
1 C
4469 TTTGATAACC
Statistics
Matches: 299, Mismatches: 72, Indels: 60
0.69 0.17 0.14
Matches are distributed among these distances:
19 3 0.01
20 13 0.04
21 42 0.14
22 199 0.67
23 10 0.03
24 4 0.01
25 12 0.04
26 4 0.01
27 2 0.01
28 8 0.03
29 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (22 bp):
CACTATGAAATTTTGATAATCT
Found at i:4545 original size:22 final size:22
Alignment explanation
Indices: 4520--4683 Score: 93
Period size: 22 Copynumber: 7.4 Consensus size: 22
4510 ATAAAGTTTC
*
4520 AATAACCAACCTAAGAAATTTT
1 AATAACCAACCTATGAAATTTT
*
4542 AATAACCTGATCCTATGAAATTTT
1 AATAACC--AACCTATGAAATTTT
**
4566 GGTAACCATA-CTATGAAATTTT
1 AATAACCA-ACCTATGAAATTTT
* **
4588 GATAA-CTTCCATATGAAATTTT
1 AATAACCAACC-TATGAAATTTT
** *
4610 GGTAACC-ACACTATGGAATTTT
1 AATAACCAAC-CTATGAAATTTT
* * *
4632 GATAACC-TCCTCATGAAATTAT
1 AATAACCAACCT-ATGAAATTTT
* * *
4654 AATAACCATCTTATTAAATTTT
1 AATAACCAACCTATGAAATTTT
*
4676 GATAACCA
1 AATAACCA
4684 CATAGAGACA
Statistics
Matches: 113, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
21 4 0.04
22 86 0.76
23 5 0.04
24 18 0.16
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (22 bp):
AATAACCAACCTATGAAATTTT
Found at i:4617 original size:44 final size:43
Alignment explanation
Indices: 4534--4682 Score: 165
Period size: 44 Copynumber: 3.3 Consensus size: 43
4524 ACCAACCTAA
*
4534 GAAATTTTAATAACCTGATCCTATGAAATTTTGGTAACCATACTAT
1 GAAATTTTGATAACC---TCCTATGAAATTTTGGTAACCATACTAT
* *
4580 GAAATTTTGATAACTTCCATATGAAATTTTGGTAACCACACTAT
1 GAAATTTTGATAACCTCC-TATGAAATTTTGGTAACCATACTAT
* * **
4624 GGAATTTTGATAACCTCCTCATGAAATTATAATAACCAT-CTTAT
1 GAAATTTTGATAACCTCCT-ATGAAATTTTGGTAACCATAC-TAT
*
4668 TAAATTTTGATAACC
1 GAAATTTTGATAACC
4683 ACATAGAGAC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
43 5 0.06
44 71 0.80
46 13 0.15
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (43 bp):
GAAATTTTGATAACCTCCTATGAAATTTTGGTAACCATACTAT
Found at i:4659 original size:66 final size:66
Alignment explanation
Indices: 4554--4685 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
4544 TAACCTGATC
* * * * *
4554 CTATGAAATTTTGGTAACCATACTATGAAATTTTGATAA-CTTCCATATGAAATTTTGGTAACCA
1 CTATGAAATTTTGATAACCATACTATGAAATTATAATAACCAT-CATATGAAATTTTGATAACCA
4618 CA
65 CA
* * * *
4620 CTATGGAATTTTGATAACC-TCCTCATGAAATTATAATAACCATCTTATTAAATTTTGATAACCA
1 CTATGAAATTTTGATAACCATACT-ATGAAATTATAATAACCATCATATGAAATTTTGATAACCA
4684 CA
65 CA
4686 TAGAGACAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 3 0.05
66 50 0.91
67 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (66 bp):
CTATGAAATTTTGATAACCATACTATGAAATTATAATAACCATCATATGAAATTTTGATAACCAC
A
Found at i:4880 original size:19 final size:20
Alignment explanation
Indices: 4849--4886 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4839 CATTGACAGT
4849 TAAAAATTGAAATT-AAAAG
1 TAAAAATTGAAATTCAAAAG
4868 TAAAATATT-AAATTCAAAA
1 TAAAA-ATTGAAATTCAAAA
4887 AATAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAAATTGAAATTCAAAAG
Found at i:8615 original size:39 final size:39
Alignment explanation
Indices: 8531--8621 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 39
8521 CTAACTCCAC
* *
8531 AACATGTGTCTAGCTTTCATTTTTCTTTCTCCACCATGAT
1 AACATGTGTCTAGCTTTCA-TTTTCTTACTCCACCAAGAT
*
8571 AACATGTGTCTAGCTTTTCA-TTTCTTACTCCACTAAGA-
1 AACATGTGTCTAGC-TTTCATTTTCTTACTCCACCAAGAT
8609 ATACATGTGTCTA
1 A-ACATGTGTCTA
8622 ATACTACACC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.02
39 26 0.57
40 14 0.30
41 5 0.11
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (39 bp):
AACATGTGTCTAGCTTTCATTTTCTTACTCCACCAAGAT
Found at i:9414 original size:1 final size:1
Alignment explanation
Indices: 9408--9437 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
9398 CTAGAACATG
9408 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9438 GTAAGTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9958 original size:74 final size:74
Alignment explanation
Indices: 9807--9946 Score: 253
Period size: 74 Copynumber: 1.9 Consensus size: 74
9797 ATTAAGGAAT
* * *
9807 GTGTAATTACGAAAAATGGTAGAAGGAAAAGGAATGGGGGAAACTCATAGAGGGGCTTTTTAGTC
1 GTGTAATTACAAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAGAGGGGCTTTTTAGTC
9872 ATCCAAAAA
66 ATCCAAAAA
9881 GTGTAATTACAAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAGAGGGGCTTTTTAGTC
1 GTGTAATTACAAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAGAGGGGCTTTTTAGTC
9946 A
66 A
9947 CCTGAAAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (74 bp):
GTGTAATTACAAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAGAGGGGCTTTTTAGTC
ATCCAAAAA
Found at i:15555 original size:20 final size:21
Alignment explanation
Indices: 15530--15588 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
15520 CTTGGTCTTG
*
15530 AGTCATTTG-CTCTTTAAGTA
1 AGTCATTTGACTCCTTAAGTA
15550 AGTCATTTGACTCCTTAAGT-
1 AGTCATTTGACTCCTTAAGTA
*
15570 TGATCATTTGACTTCCTTA
1 AG-TCATTTGAC-TCCTTA
15589 TTCGAGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.29
21 18 0.53
22 6 0.18
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (21 bp):
AGTCATTTGACTCCTTAAGTA
Found at i:24193 original size:39 final size:39
Alignment explanation
Indices: 24137--24323 Score: 225
Period size: 39 Copynumber: 4.7 Consensus size: 39
24127 TTACCCAATA
24137 ATCAAAGTCCTCAAACACATATAACACAGAGGCATCTCT
1 ATCAAAGTCCTCAAACACATATAACACAGAGGCATCTCT
* * * *
24176 ATCAAAGTCCCCGAACACATATAACACAGGGGCAACTCT
1 ATCAAAGTCCTCAAACACATATAACACAGAGGCATCTCT
* * *
24215 CTCTAAGTCCTCAAACACATATAACACAGGGGCAATTCTCT
1 ATCAAAGTCCTCAAACACATATAACACAGAGGC-A-TCTCT
* *
24256 TTCTAAAGTCCTCAAACACATATAACACAGAGGCATCTAT
1 ATC-AAAGTCCTCAAACACATATAACACAGAGGCATCTCT
*
24296 A-CTAAAATCCAT-AAACACATATAACACA
1 ATC-AAAGTCC-TCAAACACATATAACACA
24324 AGGGCAATTT
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 88 0.68
40 6 0.05
41 7 0.05
42 28 0.22
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (39 bp):
ATCAAAGTCCTCAAACACATATAACACAGAGGCATCTCT
Found at i:24312 original size:81 final size:81
Alignment explanation
Indices: 24144--24342 Score: 239
Period size: 81 Copynumber: 2.5 Consensus size: 81
24134 ATAATCAAAG
* * * *
24144 TCCTCAAACACATATAACACAGAGGC-A-TCTCTATC-AAAGTCCCCGAACACATATAACACAGG
1 TCCTCAAACACATATAACACAGGGGCAATTCTCTTTCTAAAGTCCCCAAACACATATAACACAGA
* *
24206 GGCAACTCTCTCTAAG
66 GGCAACTCTATCTAAA
*
24222 TCCTCAAACACATATAACACAGGGGCAATTCTCTTTCTAAAGTCCTCAAACACATATAACACAGA
1 TCCTCAAACACATATAACACAGGGGCAATTCTCTTTCTAAAGTCCCCAAACACATATAACACAGA
24287 GGC-A-TCTATACTAAAA
66 GGCAACTCTAT-CT-AAA
* *
24303 TCCAT-AAACACATATAACACAAGGGCAATTTTCTTCTCTA
1 TCC-TCAAACACATATAACACAGGGGCAATTCTCTT-TCTA
24343 TATGACAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
78 25 0.24
79 5 0.05
80 10 0.10
81 60 0.57
82 5 0.05
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.23
Consensus pattern (81 bp):
TCCTCAAACACATATAACACAGGGGCAATTCTCTTTCTAAAGTCCCCAAACACATATAACACAGA
GGCAACTCTATCTAAA
Found at i:33404 original size:14 final size:14
Alignment explanation
Indices: 33371--33397 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33361 GCAAACCCTA
33371 AATTTTTTTTTCAC
1 AATTTTTTTTTCAC
33385 AATTTTTTTTTCA
1 AATTTTTTTTTCA
33398 ATTTTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTTTTTTTCAC
Found at i:33454 original size:21 final size:20
Alignment explanation
Indices: 33419--33461 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33409 CGCAAACCCT
*
33419 AATTTTTTTTTGAAAAACGC
1 AATTTTTTTTAGAAAAACGC
*
33439 AATTTTTTTTAAGAAAAATGC
1 AATTTTTTTT-AGAAAAACGC
33460 AA
1 AA
33462 AAAGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (20 bp):
AATTTTTTTTAGAAAAACGC
Found at i:39567 original size:73 final size:69
Alignment explanation
Indices: 39319--39591 Score: 248
Period size: 71 Copynumber: 3.9 Consensus size: 69
39309 AATTCAGTGA
* * * ** *
39319 AATTT-AAGGAAATTAAGTAAAAATAGACTGACTTAATGTCAA-TTAAGTAAG-AACATTAGAAG
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTTAATTTCAAGGAAATTAAGTAA-A--A-AAG
* *
39381 ACTGACTT
62 AATGGCTT
* * ** * * * *
39389 AATTTGAAGGAAATTAAGTAAAGATTGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAAAGAC
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTTAATTTCAAGGAAATTAAGT-AA-AAAAGAA
39454 TGGCTT
64 TGGCTT
*
39460 AATTTCAAGGAAATTAAGT-AAAAAAGACTGGCTTAATTTCATGGAAATTAAGTAAAAAAGAATG
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTTAATTTCAAGGAAATTAAGTAAAAAAGAATG
39524 GCTT
66 GCTT
* * *
39528 AATTTCAAGAAAGGAAATTAGGTAAAAAAAGATTGGCTTAATTTCAAAGAAATTAAGTAAAAAA
1 AATTTC----AAGGAAATTAAGTAAAAAAAGACTGGCTTAATTTCAAGGAAATTAAGTAAAAAA
39592 AAGAGACTGG
Statistics
Matches: 170, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
68 18 0.11
69 2 0.01
70 32 0.19
71 60 0.35
72 18 0.11
73 37 0.22
74 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.27
Consensus pattern (69 bp):
AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTTAATTTCAAGGAAATTAAGTAAAAAAGAATG
GCTT
Found at i:39592 original size:35 final size:35
Alignment explanation
Indices: 39319--39592 Score: 261
Period size: 34 Copynumber: 7.7 Consensus size: 35
39309 AATTCAGTGA
* *
39319 AATTT-AAGGAAATTAAGTAAAAATAGACTGACTT
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTT
* ** * * *
39353 AATGTCAA-TTAAGTAAG-AACATTAGAAGACTGACTT
1 AATTTCAAGGAAATTAAGTAA-A--AAAAGACTGGCTT
* * **
39389 AATTTGAAGGAAATTAAGTAAAGATTGACTGGCTT
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTT
* * *
39424 AGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTT
1 AATTTCAAGGAAATTAAGTAAA-AAAAGACTGGCTT
39460 AATTTCAAGGAAATTAAGT-AAAAAAGACTGGCTT
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTT
* *
39494 AATTTCATGGAAATTAAGT-AAAAAAGAATGGCTT
1 AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTT
* *
39528 AATTTCAAGAAAGGAAATTAGGTAAAAAAAGATTGGCTT
1 AATTTC----AAGGAAATTAAGTAAAAAAAGACTGGCTT
*
39567 AATTTCAAAGAAATTAAGTAAAAAAA
1 AATTTCAAGGAAATTAAGTAAAAAAA
39593 AGAGACTGGC
Statistics
Matches: 195, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
33 2 0.01
34 62 0.32
35 48 0.25
36 43 0.22
37 7 0.04
38 13 0.07
39 20 0.10
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.27
Consensus pattern (35 bp):
AATTTCAAGGAAATTAAGTAAAAAAAGACTGGCTT
Found at i:39789 original size:36 final size:36
Alignment explanation
Indices: 39707--39868 Score: 220
Period size: 36 Copynumber: 4.5 Consensus size: 36
39697 TCAAGGAAAG
* *
39707 AAATTAGCAAAGACTTAAATTCACAAGAGTTAAGT-
1 AAATTAGCAAAGACTTAATTTCACAAGAATTAAGTA
*
39742 AAATT-GTCAAAGACTTAATTTCGCAAGAATTAAGTA
1 AAATTAG-CAAAGACTTAATTTCACAAGAATTAAGTA
*
39778 AAATTAGCAAAGACTTAATTTCACAAGAATTAGGTA
1 AAATTAGCAAAGACTTAATTTCACAAGAATTAAGTA
* *
39814 AAATTAGCAAAGACTTAATTTCGCGAGAATTAAGTA
1 AAATTAGCAAAGACTTAATTTCACAAGAATTAAGTA
* * *
39850 AAGTCAGCAAAGATTTAAT
1 AAATTAGCAAAGACTTAAT
39869 CCAAAAGATG
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
34 1 0.01
35 30 0.27
36 81 0.72
37 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (36 bp):
AAATTAGCAAAGACTTAATTTCACAAGAATTAAGTA
Found at i:39942 original size:11 final size:11
Alignment explanation
Indices: 39926--40114 Score: 243
Period size: 11 Copynumber: 16.5 Consensus size: 11
39916 AATTAGGCAA
39926 AAGACTGAAAG
1 AAGACTGAAAG
39937 AAGACTGAAAAAG
1 AAGACTG--AAAG
39950 AAGACTGAAAG
1 AAGACTGAAAG
39961 AAGACTGAAAAG
1 AAGACTG-AAAG
*
39973 AAGACTGAAAA
1 AAGACTGAAAG
*
39984 AAAACTGAAAG
1 AAGACTGAAAG
39995 AAGACTGAAAG
1 AAGACTGAAAG
*
40006 AAGACTGAAAAA
1 AAGACTG-AAAG
*
40018 AAGACTGAAAC
1 AAGACTGAAAG
40029 AAGACTGAAAGAG
1 AAGACTG-AA-AG
*
40042 AAGACTGAAAC
1 AAGACTGAAAG
* * *
40053 CATACTGAAAA
1 AAGACTGAAAG
40064 AAGACTGAAAG
1 AAGACTGAAAG
40075 AAAGACTGAAAG
1 -AAGACTGAAAG
40087 AAGACTGAAAG
1 AAGACTGAAAG
40098 AAGACTGAAAG
1 AAGACTGAAAG
40109 AAGACT
1 AAGACT
40115 AACTTAATTT
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
11 102 0.65
12 36 0.23
13 19 0.12
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.10
Consensus pattern (11 bp):
AAGACTGAAAG
Found at i:40007 original size:45 final size:45
Alignment explanation
Indices: 39927--40114 Score: 222
Period size: 45 Copynumber: 4.1 Consensus size: 45
39917 ATTAGGCAAA
39927 AGACTGAAAGAAGACTGAAAAAGAAGACTG-AAAGAAGACTGAAAAGA
1 AGACTGAAAGAAGACTG--AAAGAAGACTGAAAAGAAGACTGAAAA-A
* *
39974 AGACTGAAAAAAAACTGAAAGAAGACTG-AAAGAAGACTGAAAAAA
1 AGACTGAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTG-AAAAA
* ** *
40019 AGACTGAAACAAGACTGAAAGAGAAGACTG-AAACCATACTGAAAAA
1 AGACTGAAAGAAGACTG-AA-AGAAGACTGAAAAGAAGACTGAAAAA
*
40065 AGACTGAAAGAAAGACTGAAAGAAGACTG-AAAGAAGACTGAAAGA
1 AGACTGAAAG-AAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAA
40110 AGACT
1 AGACT
40115 AACTTAATTT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
45 64 0.51
46 22 0.18
47 39 0.31
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.10
Consensus pattern (45 bp):
AGACTGAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAA
Found at i:40007 original size:69 final size:69
Alignment explanation
Indices: 39924--40114 Score: 291
Period size: 69 Copynumber: 2.8 Consensus size: 69
39914 GAAATTAGGC
39924 AAAAGACTGAAAGAAGACTGAAAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAAAAAC
1 AAAAGACTGAAAGAAGACTGAAAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAAAAAC
39989 TGAA
66 TGAA
* * ** *
39993 AGAAGACTGAAAGAAGACTGAAAAA-AAGACTGAAACAAGACTGAAAGAGAAGACTGAAACCATA
1 AAAAGACTGAAAGAAGACTGAAAAAGAAGACTGAAAGAAGACTGAAA-AGAAGACTGAAAAAAAA
40057 CTGAA
65 CTGAA
40062 AAAAGACTGAAAGAAAGACTG--AAAGAAGACTGAAAGAAGACTG-AAAGAAGACT
1 AAAAGACTGAAAG-AAGACTGAAAAAGAAGACTGAAAGAAGACTGAAAAGAAGACT
40115 AACTTAATTT
Statistics
Matches: 112, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
67 8 0.07
68 25 0.22
69 72 0.64
70 7 0.06
ACGTcount: A:0.58, C:0.10, G:0.23, T:0.09
Consensus pattern (69 bp):
AAAAGACTGAAAGAAGACTGAAAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAAAAAC
TGAA
Found at i:40083 original size:92 final size:92
Alignment explanation
Indices: 39924--40107 Score: 298
Period size: 92 Copynumber: 2.0 Consensus size: 92
39914 GAAATTAGGC
* *
39924 AAAAGACTGAAAGAAGACTGAAAAAGAAGACTGAAAGAAGACTGAAAAGAAGACTGAAAAAAAAC
1 AAAAGACTGAAACAAGACTGAAAAAGAAGACTGAAACAAGACTGAAAAGAAGACTGAAAAAAAAC
39989 TGAAAGAAGACTGAAAGAAGACTGAAA
66 TGAAAGAAGACTGAAAGAAGACTGAAA
* * * *
40016 AAAAGACTGAAACAAGACTGAAAGAGAAGACTGAAACCATACTGAAAA-AAGACTGAAAGAAAGA
1 AAAAGACTGAAACAAGACTGAAAAAGAAGACTGAAACAAGACTGAAAAGAAGACTGAAA-AAAAA
40080 CTGAAAGAAGACTGAAAGAAGACTGAAA
65 CTGAAAGAAGACTGAAAGAAGACTGAAA
40108 GAAGACTAAC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
91 10 0.12
92 75 0.88
ACGTcount: A:0.58, C:0.10, G:0.22, T:0.09
Consensus pattern (92 bp):
AAAAGACTGAAACAAGACTGAAAAAGAAGACTGAAACAAGACTGAAAAGAAGACTGAAAAAAAAC
TGAAAGAAGACTGAAAGAAGACTGAAA
Found at i:40150 original size:36 final size:36
Alignment explanation
Indices: 40117--40630 Score: 616
Period size: 36 Copynumber: 14.5 Consensus size: 36
40107 AGAAGACTAA
*
40117 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * * *
40153 CTTAGTTTCAAGAAAACTAGGTAAAG--AAGACTGA
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * *
40187 CTTAATTTCACGGAAATTAAGTAAAGAAAAGACTAG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * *
40223 CTTAGTTTCAAGGAAACTAGGTAAAG--AAGACTGA
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
40257 CTTAATTTCAAGGAAATTAGGTAAAG--AAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * *
40291 CTTATTTTCGAGGAAATTAGGTAAAGGAAAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* *
40327 CTTAATTTCAAGGAAATTAAGTAAA-AAAAGGATTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAA-GACTGG
* *
40363 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * *
40399 CTTAGTTTCAAGGAAACTAGGTAAAG-ATAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* *
40434 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * * * *
40470 CTTAGTTTCAGGGGAACTAGGTAAAG-ATAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* * *
40505 CTTAATTTCAAGGGAATTAAGTAAA-AAAGGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
** * *
40540 CTTAGCTTCAAGGAAACTAGGTAAAGAAAAGTCTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
* *
40576 CTCAATTTCAAGGAAATTAGGTAAAGCAAAGACTGG
1 CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
40612 CTTAATTTCAAGGAAATTA
1 CTTAATTTCAAGGAAATTA
40631 AGTTAAAAGA
Statistics
Matches: 412, Mismatches: 57, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
34 89 0.22
35 93 0.23
36 226 0.55
37 4 0.01
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (36 bp):
CTTAATTTCAAGGAAATTAGGTAAAGAAAAGACTGG
Found at i:40182 original size:70 final size:71
Alignment explanation
Indices: 40117--40633 Score: 636
Period size: 70 Copynumber: 7.3 Consensus size: 71
40107 AGAAGACTAA
*
40117 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGAAAACTAGGTAAAG-AA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAA
*
40181 GACTGA
66 GACTGG
* *
40187 CTTAATTTCACGGAAATTAAGTAAAGAAAAGACTAGCTTAGTTTCAAGGAAACTAGGTAAAG-AA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAA
*
40251 GACTGA
66 GACTGG
* * * *
40257 CTTAATTTCAAGGAAATTAGGTAAAG--AAGACTGGCTTATTTTCGAGGAAATTAGGTAAAGGAA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAA-GAA
40320 AGACTGG
65 AGACTGG
*
40327 CTTAATTTCAAGGAAATTAAGTAAA-AAAAGGATTGGCTTAGTTTCAAGGAAACTAGGTAAAGAA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAA-GACTGGCTTAGTTTCAAGGAAACTAGGTAAAG-A
40391 AAGACTGG
64 AAGACTGG
* * * *
40399 CTTAGTTTCAAGGAAACTAGGTAAAG-ATAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAG-AA
40463 AGACTGG
65 AGACTGG
* * * * * * * * * *
40470 CTTAGTTTCAGGGGAACTAGGTAAAG-ATAGACTGGCTTAATTTCAAGGGAATTAAGTAAA-AAA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAA
40533 GGACTGG
66 -GACTGG
** * * * * * *
40540 CTTAGCTTCAAGGAAACTAGGTAAAGAAAAGTCTGGCTCAATTTCAAGGAAATTAGGTAAAGCAA
1 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAG-AA
40605 AGACTGG
65 AGACTGG
40612 CTTAATTTCAAGGAAATTAAGT
1 CTTAATTTCAAGGAAATTAAGT
40634 TAAAAGACAC
Statistics
Matches: 398, Mismatches: 38, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
68 29 0.07
69 4 0.01
70 151 0.38
71 127 0.32
72 84 0.21
73 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.25
Consensus pattern (71 bp):
CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAA
GACTGG
Found at i:40247 original size:106 final size:106
Alignment explanation
Indices: 40117--40633 Score: 666
Period size: 106 Copynumber: 4.9 Consensus size: 106
40107 AGAAGACTAA
* * * *
40117 CTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGGCTTAGTTTCAAGAAAACTAGGTAAAGAAG
1 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAG
* * *
40182 ACTGACTTAATTTCACGGAAATTAAGTAAAGAAAAGACTAG
66 ACTGGCTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
* * *
40223 CTTAGTTTCAAGGAAACTAGGTAAAG--AAGACTGACTTAATTTCAAGGAAATTAGGTAAAGAAG
1 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAG
* * * *
40286 ACTGGCTTATTTTCGAGGAAATTAGGTAAAGGAAAGACTGG
66 ACTGGCTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
* * * *
40327 CTTAATTTCAAGGAAATTAAGTAAA-AAAAGGATTGGCTTAGTTTCAAGGAAACTAGGTAAAGAA
1 CTTAGTTTCAAGGAAACTAGGTAAAGAAAA-GACTGGCTTAGTTTCAAGGAAACTAGGTAAAG--
* * * *
40391 AAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAG-ATAGACTGG
63 AAGACTGGCTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
* *
40434 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAGGGGAACTAGGTAAAGATA
1 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGA-A
* *
40499 GACTGGCTTAATTTCAAGGGAATTAAGTAAA-AAAGGACTGG
65 GACTGGCTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
* * * * *
40540 CTTAGCTTCAAGGAAACTAGGTAAAGAAAAGTCTGGCTCAATTTCAAGGAAATTAGGTAAAGCAA
1 CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAG--A
40605 AGACTGGCTTAATTTCAAGGAAATTAAGT
64 AGACTGGCTTAATTTCAAGGAAATTAAGT
40634 TAAAAGACAC
Statistics
Matches: 356, Mismatches: 45, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
104 89 0.25
105 3 0.01
106 141 0.40
107 87 0.24
108 36 0.10
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.25
Consensus pattern (106 bp):
CTTAGTTTCAAGGAAACTAGGTAAAGAAAAGACTGGCTTAGTTTCAAGGAAACTAGGTAAAGAAG
ACTGGCTTAATTTCAAGGAAATTAAGTAAAGAAAAGACTGG
Done.