Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008155.1 Hibiscus syriacus cultivar Beakdansim tig00110721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 962042
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:4143 original size:13 final size:14
Alignment explanation
Indices: 4116--4144 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4106 GAATTTGGTT
4116 TGACTTTTGAAAAG
1 TGACTTTTGAAAAG
4130 TGACTTTT-AAAAG
1 TGACTTTTGAAAAG
4143 TG
1 TG
4145 TTGTAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TGACTTTTGAAAAG
Found at i:4364 original size:32 final size:33
Alignment explanation
Indices: 4297--4367 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
4287 TTACACTTAT
* *
4297 ATATCATAATTTTAAACTATAATAAATTCAAAAA
1 ATAT-ATAATTTTAAACTATAAAAAAATCAAAAA
*
4331 ATATATAA-TTTAAACTATAACAAAAAT-ATAAA
1 ATATATAATTTTAAACTATAA-AAAAATCAAAAA
4363 ATATA
1 ATATA
4368 AAAAATACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 21 0.64
33 8 0.24
34 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (33 bp):
ATATATAATTTTAAACTATAAAAAAATCAAAAA
Found at i:6662 original size:2 final size:2
Alignment explanation
Indices: 6655--6703 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6645 AAATATCTTT
6655 TA TA TA TA TA 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 TA TA TA TA TA
6697 TA TA TA T
1 TA TA TA T
6704 TTATTTAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7670 original size:23 final size:23
Alignment explanation
Indices: 7627--7674 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
7617 TTATCTTTTT
*
7627 AATTTTATAAAAAAATTTATATA
1 AATTTTATAAAAAAATATATATA
*
7650 AATTTT-T-AAAATATATATATA
1 AATTTTATAAAAAAATATATATA
7671 AATT
1 AATT
7675 AATTATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTTTATAAAAAAATATATATA
Found at i:8244 original size:22 final size:22
Alignment explanation
Indices: 8219--8261 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8209 AAAAAGGAAT
8219 AAAAAAATGATAAAAGGAAAGG
1 AAAAAAATGATAAAAGGAAAGG
8241 AAAAAAATGATAAAAGGAAAG
1 AAAAAAATGATAAAAGGAAAG
8262 AAGGGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAAATGATAAAAGGAAAGG
Found at i:11415 original size:12 final size:12
Alignment explanation
Indices: 11397--11456 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
11387 AAAATACGGT
11397 ATGAACAGTACC
1 ATGAACAGTACC
*
11409 GTGAACAGTA--
1 ATGAACAGTACC
11419 ATGAACAGTACC
1 ATGAACAGTACC
*
11431 ATGAACAATACC
1 ATGAACAGTACC
* *
11443 CTGCTACAGTACC
1 ATG-AACAGTACC
11456 A
1 A
11457 AATGCTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 9 0.24
12 22 0.58
13 7 0.18
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:11522 original size:20 final size:21
Alignment explanation
Indices: 11486--11524 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11476 ATATTAGAGG
11486 GGTATCGATACCCCTGCTACA
1 GGTATCGATACCCCTGCTACA
11507 GGTATCGATA-CCCTGCTA
1 GGTATCGATACCCCTGCTA
11525 TAGTACTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (21 bp):
GGTATCGATACCCCTGCTACA
Found at i:12168 original size:23 final size:25
Alignment explanation
Indices: 12129--12176 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
12119 TGAAGGATCG
12129 CGTAGAAATTTGCACCGAAGTGCCA
1 CGTAGAAATTTGCACCGAAGTGCCA
*
12154 CGTAG-AA-TTGCACCGTAGTGCCA
1 CGTAGAAATTTGCACCGAAGTGCCA
12177 TATAATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 2 0.09
25 5 0.23
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (25 bp):
CGTAGAAATTTGCACCGAAGTGCCA
Found at i:13126 original size:21 final size:21
Alignment explanation
Indices: 13100--13143 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13090 ATTCTGGGCT
*
13100 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
13121 AGGGGAATCGATACCCCTTCA
1 AGGGGAATCGATACCCATTCA
13142 AG
1 AG
13144 CGAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:14495 original size:18 final size:18
Alignment explanation
Indices: 14472--14507 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14462 AGGAATGATA
14472 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
14490 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
14508 AAGTATCTTT
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:14613 original size:18 final size:18
Alignment explanation
Indices: 14586--14625 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
14576 CTTAAGGAAT
14586 GACA-TGTGGTCCTTCGG
1 GACATTGTGGTCCTTCGG
14603 GACATTGTGGTCCTTCGG
1 GACATTGTGGTCCTTCGG
14621 GACAT
1 GACAT
14626 ATATGTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.30
Consensus pattern (18 bp):
GACATTGTGGTCCTTCGG
Found at i:14705 original size:121 final size:121
Alignment explanation
Indices: 14369--14729 Score: 656
Period size: 118 Copynumber: 3.0 Consensus size: 121
14359 CGAGGGTCTA
14369 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
14434 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
14490 TGTGGTCCTTCGGGACATA-A-GTA-TCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
14552 GATCCCTAGCATATGTATATGATTCTTAAGGAATGACATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
*
14608 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* **
14673 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
14729 T
1 T
14730 ATTATATGGC
Statistics
Matches: 231, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
118 113 0.49
119 4 0.02
120 4 0.02
121 110 0.48
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:14767 original size:23 final size:23
Alignment explanation
Indices: 14737--14796 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
14727 ATTATTATAT
*
14737 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
14760 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
*
14783 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
14797 TTTATATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:14804 original size:23 final size:23
Alignment explanation
Indices: 14727--14804 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
14717 CCTTATGGAC
* *
14727 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
14751 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
14774 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
14797 TTTATATG
1 ATTATATG
14805 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:18553 original size:21 final size:21
Alignment explanation
Indices: 18527--18570 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
18517 ATTCTGGGCT
*
18527 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
18548 AGGGGAATCGATACCCCTTCA
1 AGGGGAATCGATACCCATTCA
18569 AG
1 AG
18571 CGAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:18641 original size:23 final size:22
Alignment explanation
Indices: 18597--18641 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18587 AATGTCATGG
*
18597 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
18619 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
18642 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:19930 original size:18 final size:18
Alignment explanation
Indices: 19907--19942 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19897 AGGAATGATA
19907 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
19925 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
19943 ATATGTATTC
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:19944 original size:62 final size:62
Alignment explanation
Indices: 19878--20063 Score: 142
Period size: 62 Copynumber: 3.0 Consensus size: 62
19868 TGTTCCCTAG
19878 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
* * * * * *
19940 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGATCC--
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCG-G-GACAT--TGTGGTCCTT
**
19995 CTAG-
58 CGGGA
*
19999 CATATGTACATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
20061 CAT
1 CAT
20064 TGTGGTCCTT
Statistics
Matches: 88, Mismatches: 17, Indels: 38
0.62 0.12 0.27
Matches are distributed among these distances:
57 6 0.07
58 7 0.08
59 18 0.20
60 12 0.14
61 11 0.12
62 21 0.24
63 7 0.08
64 6 0.07
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
Found at i:20018 original size:121 final size:121
Alignment explanation
Indices: 19804--20063 Score: 493
Period size: 121 Copynumber: 2.1 Consensus size: 121
19794 CGAGGGTCTA
*
19804 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
19869 GTTCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
19925 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
19990 GATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
20046 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20064 TGTGGTCCTT
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 136 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:20051 original size:18 final size:18
Alignment explanation
Indices: 20028--20081 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
20018 AGGAATGATA
20028 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20046 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20064 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20082 ATATGTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:20157 original size:139 final size:139
Alignment explanation
Indices: 19907--20185 Score: 513
Period size: 139 Copynumber: 2.0 Consensus size: 139
19897 AGGAATGATA
19907 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
1 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
19972 CTGGTGAGACACATACTTGATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCT
66 CTGGTGAGACACATACTTGATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCT
*
20037 TCGGGACAT
131 TAGGGACAT
20046 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
1 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
* * *
20111 CTGGTGAGACGCATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCT
66 CTGGTGAGACACATACTTGATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCT
*
20176 TATGGACAT
131 TAGGGACAT
20185 T
1 T
20186 ATTATATGGC
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 135 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (139 bp):
TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
CTGGTGAGACACATACTTGATCCCTAGCATATGTACATGATTCTTAAGGAATGATATGTGGTCCT
TAGGGACAT
Found at i:20223 original size:23 final size:23
Alignment explanation
Indices: 20193--20252 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
20183 ATTATTATAT
*
20193 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
20216 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
*
20239 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
20253 TTTATATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:20260 original size:23 final size:23
Alignment explanation
Indices: 20183--20260 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
20173 CCTTATGGAC
* *
20183 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
20207 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
20230 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
20253 TTTATATG
1 ATTATATG
20261 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:20986 original size:30 final size:30
Alignment explanation
Indices: 20945--21014 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
20935 ACATATAGTG
* * * *
20945 TATCTCATAGACATATTATTTTCATACCTT
1 TATCACATAGACATATGATTTCCATACATT
*
20975 TATCACATAGACATGTGATTTCCATACATT
1 TATCACATAGACATATGATTTCCATACATT
21005 TATCACATAG
1 TATCACATAG
21015 CTCATATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (30 bp):
TATCACATAGACATATGATTTCCATACATT
Found at i:33731 original size:14 final size:15
Alignment explanation
Indices: 33695--33734 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
33685 AAATATAATT
33695 AATATTTTAT-TTTA
1 AATATTTTATCTTTA
*
33709 AATAATTTATCTTTA
1 AATATTTTATCTTTA
33724 AAT-TTTTATCT
1 AATATTTTATCT
33735 AATTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTTATCTTTA
Found at i:36700 original size:47 final size:46
Alignment explanation
Indices: 36633--36725 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 46
36623 TATAATATAA
* *
36633 ACTTTAATTTTATTTAATTTAGTCTAATTTTATATCTTTAAGTTTAT
1 ACTTTAATTTTATTTAATTTAATCTAATCTTAT-TCTTTAAGTTTAT
* *
36680 ACTTT-ATTTTAATTCT-ATTTAATTTAGTCTTATTCTTTAAGTTTAT
1 ACTTTAATTTT-ATT-TAATTTAATCTAATCTTATTCTTTAAGTTTAT
36726 TCAAATTCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 18 0.45
47 21 0.52
48 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (46 bp):
ACTTTAATTTTATTTAATTTAATCTAATCTTATTCTTTAAGTTTAT
Found at i:37103 original size:23 final size:23
Alignment explanation
Indices: 37058--37103 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37048 TAAAGGAAAA
*
37058 GATTACCCCTTGATTCCTTAAGG
1 GATTACCCCTTGATTCCTCAAGG
*
37081 GATTATCCCTT-ATTCCTCCAAGG
1 GATTACCCCTTGATTCCT-CAAGG
37104 ACAACTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (23 bp):
GATTACCCCTTGATTCCTCAAGG
Found at i:43311 original size:2 final size:2
Alignment explanation
Indices: 43304--43350 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
43294 AGGACATTGC
43304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43345 AT AT AT
1 AT AT AT
43351 TTTAATTATC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:43604 original size:31 final size:31
Alignment explanation
Indices: 43566--43629 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
43556 TGCAATTTTT
43566 TTATTAAATATAAAAAACAGGAAGGAGATGG
1 TTATTAAATATAAAAAACAGGAAGGAGATGG
* *
43597 TTATTAAATATAAAAAGCAGGCAGGAGATGG
1 TTATTAAATATAAAAAACAGGAAGGAGATGG
43628 TT
1 TT
43630 GATGAAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (31 bp):
TTATTAAATATAAAAAACAGGAAGGAGATGG
Found at i:49222 original size:14 final size:14
Alignment explanation
Indices: 49203--49248 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
49193 GGTGTTGTAT
49203 AAAAATATTTATTA
1 AAAAATATTTATTA
**
49217 AAAAATA-AAATTA
1 AAAAATATTTATTA
49230 TAAAAATATTTATTA
1 -AAAAATATTTATTA
49245 AAAA
1 AAAA
49249 TAAGATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATATTTATTA
Found at i:49234 original size:27 final size:27
Alignment explanation
Indices: 49200--49266 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
49190 ATAGGTGTTG
49200 TATAAAAATATTTATTAAAAAATAAAAT
1 TATAAAAATATTTATT-AAAAATAAAAT
*
49228 TATAAAAATATTTATTAAAAATAAGAT
1 TATAAAAATATTTATTAAAAATAAAAT
49255 TATAAAAATATT
1 TATAAAAATATT
49267 ACTAGTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (27 bp):
TATAAAAATATTTATTAAAAATAAAAT
Found at i:49260 original size:14 final size:13
Alignment explanation
Indices: 49213--49264 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
49203 AAAAATATTT
49213 ATTA-AAAAATAAA
1 ATTATAAAAAT-AA
49226 ATTATAAAAAT-A
1 ATTATAAAAATAA
*
49238 TTTATTAAAAATAA
1 ATTA-TAAAAATAA
49252 GATTATAAAAATA
1 -ATTATAAAAATA
49265 TTACTAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 4 0.12
13 11 0.33
14 15 0.45
15 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTATAAAAATAA
Found at i:49751 original size:42 final size:43
Alignment explanation
Indices: 49702--50132 Score: 269
Period size: 43 Copynumber: 10.2 Consensus size: 43
49692 AATTCAGGCT
* *
49702 CTAATTTTTTCAAAT-TCAATTTTTAACTTTATAATTGAGGCCC
1 CTAATTTTTTC-AATCTCACTTTTTAACTTTATAATTGAAGCCC
* * * * *
49745 CT-ATTTTTTCCTATGTCACTTTCTAATTTTATAATTGAAGCCT
1 CTAATTTTTT-CAATCTCACTTTTTAACTTTATAATTGAAGCCC
* * ** *
49788 CTTATTTTTAT-AATATCACTTTTT-ACGCGTATAATTGAGGCCC
1 CTAATTTTT-TCAATCTCACTTTTTAAC-TTTATAATTGAAGCCC
* * *
49831 CTAATTTTATTCAATCACACTTTTT-ACATTTATAATTGATGCTC
1 CTAATTTT-TTCAATCTCACTTTTTAAC-TTTATAATTGAAGCCC
* ** * * * * * * *
49875 AT-ATTTTTTCTGTTTCTCTTTCTACCTTTATAATTAAAGTCT
1 CTAATTTTTTCAATCTCACTTTTTAACTTTATAATTGAAGCCC
* * * *
49917 CT-GTTTTTT-AATCTCA-TTTTTATCTTTATAATTGAGGCTC
1 CTAATTTTTTCAATCTCACTTTTTAACTTTATAATTGAAGCCC
* * * * * *
49957 TTAAATTTTTCAATCCCACTTTTTACCTTTATAATTGATGTCC
1 CTAATTTTTTCAATCTCACTTTTTAACTTTATAATTGAAGCCC
* * *
50000 CTAATTTTTTCAATCTCACTTTCTACCTTTATAATTGAAACCC
1 CTAATTTTTTCAATCTCACTTTTTAACTTTATAATTGAAGCCC
* * * *
50043 CTAATTTTTT-AATTCTCATTTTTTCAC-CT-TAATTAAAGCCC
1 CTAATTTTTTCAA-TCTCACTTTTTAACTTTATAATTGAAGCCC
* * * **
50084 CTAA-TTTTTCAATC-CAATTTTTTACTTTAATAATTTAAGTTC
1 CTAATTTTTTCAATCTCACTTTTTAACTTT-ATAATTGAAGCCC
50126 CTAATTT
1 CTAATTT
50133 AATCATTTTT
Statistics
Matches: 295, Mismatches: 76, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
39 9 0.03
40 26 0.09
41 24 0.08
42 60 0.20
43 142 0.48
44 33 0.11
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (43 bp):
CTAATTTTTTCAATCTCACTTTTTAACTTTATAATTGAAGCCC
Found at i:49987 original size:43 final size:42
Alignment explanation
Indices: 49602--50072 Score: 257
Period size: 43 Copynumber: 11.1 Consensus size: 42
49592 TTTTATTTTT
* * * *
49602 CTTTATAATTAAGGCTTCTAATTTTTAT-AATCTTATTTTTTAC
1 CTTTATAATTGAGGCTCCT-ATTTTT-TCAATCTCACTTTTTAC
*** * * *
49645 CTTTATAATT-AAAATATCTAATTTTTCAGT-TCTAC-TTTTAC
1 CTTTATAATTGAGGCT-CCTATTTTTTCAATCTC-ACTTTTTAC
* * * *
49686 ATTTATAATTCAGGCT-CTAATTTTTTCAAAT-TCAATTTTTAA
1 CTTTATAATTGAGGCTCCT-ATTTTTTC-AATCTCACTTTTTAC
* * * * *
49728 CTTTATAATTGAGGCCCCTATTTTTTCCTATGTCACTTTCTAA
1 CTTTATAATTGAGGCTCCTATTTTTT-CAATCTCACTTTTTAC
* * * *
49771 TTTTATAATTGAAGCCTCTTATTTTTAT-AATATCACTTTTTAC
1 CTTTATAATTG-AGGCTCCTATTTTT-TCAATCTCACTTTTTAC
* * *
49814 GC-GTATAATTGAGGCCCCTAATTTTATTCAATCACACTTTTTAC
1 -CTTTATAATTGAGGCTCCT-ATTTT-TTCAATCTCACTTTTTAC
* * * ** * * *
49858 ATTTATAATTGATGCTCATATTTTTTCTGTTTCTCTTTCTAC
1 CTTTATAATTGAGGCTCCTATTTTTTCAATCTCACTTTTTAC
* * * *
49900 CTTTATAATTAAAG-TCTCTGTTTTTT-AATCTCA-TTTTTAT
1 CTTTATAATTGAGGCTC-CTATTTTTTCAATCTCACTTTTTAC
* * *
49940 CTTTATAATTGAGGCTCTTAAATTTTTCAATCCCACTTTTTAC
1 CTTTATAATTGAGGCTCCT-ATTTTTTCAATCTCACTTTTTAC
* *
49983 CTTTATAATTGATG-TCCCTAATTTTTTCAATCTCACTTTCTAC
1 CTTTATAATTGAGGCT-CCT-ATTTTTTCAATCTCACTTTTTAC
** * *
50026 CTTTATAATTGAAACCCCTAATTTTTT-AATTCTCATTTTTTCAC
1 CTTTATAATTGAGGCTCCT-ATTTTTTCAA-TCTCACTTTTT-AC
50070 CTT
1 CTT
50073 AATTAAAGCC
Statistics
Matches: 327, Mismatches: 75, Indels: 51
0.72 0.17 0.11
Matches are distributed among these distances:
40 20 0.06
41 37 0.11
42 87 0.27
43 139 0.43
44 43 0.13
45 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.51
Consensus pattern (42 bp):
CTTTATAATTGAGGCTCCTATTTTTTCAATCTCACTTTTTAC
Found at i:50090 original size:126 final size:125
Alignment explanation
Indices: 49721--50132 Score: 372
Period size: 126 Copynumber: 3.2 Consensus size: 125
49711 TCAAATTCAA
* * * * ** *
49721 TTTTTAACTTTATAATTGAGGCCCCT-ATTTTTTCCTATGTCACTTTCTAATTTTATAATTGAAG
1 TTTTTACCTTTATAATTGATGTCCCTAATTTTTT-CTATCTCACTTTCTACCTTTATAATTGAAA
* * *
49785 CCTCTTATTTTTATAATATCACTTTTT-ACGCGTATAATTGAGGCCCCTAATTTTATTCAATCAC
65 CCTC-TATTTTT-TAATCTCATTTTTTCAC-C-TATAATTGAGGCCCCTAA-TTT-TTCAATCCC
49849 AC
124 AC
* * * * *
49851 TTTTTACATTTATAATTGATG-CTC-ATATTTTTTCTGTTTCTCTTTCTACCTTTATAATT-AAA
1 TTTTTACCTTTATAATTGATGTCCCTA-ATTTTTTCTATCTCACTTTCTACCTTTATAATTGAAA
* * ** * *
49913 GTCTCTGTTTTTTAATCTCATTTTTATC-TTTATAATTGAGGCTCTTAAATTTTTCAATCCCAC
65 -CCTCTATTTTTTAATCTCATTTTT-TCACCTATAATTGAGGCCCCT-AATTTTTCAATCCCAC
*
49976 TTTTTACCTTTATAATTGATGTCCCTAATTTTTTCAATCTCACTTTCTACCTTTATAATTGAAAC
1 TTTTTACCTTTATAATTGATGTCCCTAATTTTTTCTATCTCACTTTCTACCTTTATAATTGAAAC
* * * * *
50041 CCCTAATTTTTTAATTCTCATTTTTTCACCT-TAATTAAAGCCCCTAATTTTTCAATCCAAT
66 CTCT-ATTTTTTAA-TCTCATTTTTTCACCTATAATTGAGGCCCCTAATTTTTCAATCCCAC
* * *
50102 TTTTTA-CTTTAATAATTTAAGTTCCTAATTT
1 TTTTTACCTTT-ATAATTGATGTCCCTAATTT
50133 AATCATTTTT
Statistics
Matches: 230, Mismatches: 39, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
125 34 0.15
126 88 0.38
127 37 0.16
128 20 0.09
129 26 0.11
130 25 0.11
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (125 bp):
TTTTTACCTTTATAATTGATGTCCCTAATTTTTTCTATCTCACTTTCTACCTTTATAATTGAAAC
CTCTATTTTTTAATCTCATTTTTTCACCTATAATTGAGGCCCCTAATTTTTCAATCCCAC
Found at i:57760 original size:2 final size:2
Alignment explanation
Indices: 57753--57784 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57743 TGATAATTTC
57753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57785 TATTTAAAAT
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):
AT
Found at i:57869 original size:28 final size:28
Alignment explanation
Indices: 57832--57895 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
57822 ATATATAATT
*
57832 AATTTTTTTAACTTCAATAATAATTTTA
1 AATTTTTTTAACTTAAATAATAATTTTA
57860 AATTTTTTTAACTTAAATAATAATTTTA
1 AATTTTTTTAACTTAAATAATAATTTTA
57888 AATTTTTT
1 AATTTTTT
57896 ATTAATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTTTTTTAACTTAAATAATAATTTTA
Found at i:57901 original size:21 final size:23
Alignment explanation
Indices: 57877--57918 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
57867 TTAACTTAAA
57877 TAATAATTTTA-A-ATTTTTTAT
1 TAATAATTTTATATATTTTTTAT
*
57898 TAATGATTTTATATATTTTTT
1 TAATAATTTTATATATTTTTT
57919 GACTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TAATAATTTTATATATTTTTTAT
Found at i:58301 original size:20 final size:21
Alignment explanation
Indices: 58276--58327 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
58266 TTTTCCCAAT
*
58276 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
58296 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
58317 TCGCAATGCGA
1 TCGCAATGCGA
58328 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:58383 original size:20 final size:20
Alignment explanation
Indices: 58358--58410 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
58348 TAATACAAAA
*
58358 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATACCGACTT
*
58378 TCGCAAC-ATGATTCCGACTT
1 TCGCAACGA-GATACCGACTT
*
58398 TCGCAACGCGATA
1 TCGCAACGAGATA
58411 ATACATAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGAGATACCGACTT
Found at i:58626 original size:22 final size:23
Alignment explanation
Indices: 58598--58640 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
58588 CACTCTCTCA
58598 CCCATCTCCG-ACGAAATCCGTC
1 CCCATCTCCGAACGAAATCCGTC
58620 CCCATCTCCGAACGAAATCCG
1 CCCATCTCCGAACGAAATCCG
58641 CCTATCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.26, C:0.44, G:0.14, T:0.16
Consensus pattern (23 bp):
CCCATCTCCGAACGAAATCCGTC
Found at i:58959 original size:20 final size:20
Alignment explanation
Indices: 58906--58963 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
58896 CGATTCTCTC
**
58906 GTTGCGATAGTCAAATTCGA
1 GTTGCGATAGTCATTTTCGA
*
58926 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGA
**
58946 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
58964 AGAAACTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGA
Found at i:59154 original size:25 final size:24
Alignment explanation
Indices: 59100--59154 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
59090 TGTTTATTAT
* *
59100 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
59124 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
59150 TGTTT
1 TGTTT
59155 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:60308 original size:18 final size:18
Alignment explanation
Indices: 60281--60324 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
60271 CAACTTCGGC
*
60281 AGCCATCACCTCGCCCAG
1 AGCCATCACCTCACCCAG
*
60299 AGCTATCACCTCACCCAG
1 AGCCATCACCTCACCCAG
60317 AGCCATCA
1 AGCCATCA
60325 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.45, G:0.14, T:0.14
Consensus pattern (18 bp):
AGCCATCACCTCACCCAG
Found at i:60879 original size:14 final size:14
Alignment explanation
Indices: 60860--60923 Score: 65
Period size: 14 Copynumber: 4.2 Consensus size: 14
60850 AATGCGAAAT
*
60860 AAAAATTGCAACGA
1 AAAAATCGCAACGA
60874 AAAAATCGCAATGCGA
1 AAAAATCGCAA--CGA
60890 AATGAAATCGCAACGA
1 AA--AAATCGCAACGA
*
60906 CAAAATCGCAACGCA
1 AAAAATCGCAACG-A
60921 AAA
1 AAA
60924 TGAAAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 21 0.50
15 3 0.07
16 9 0.21
18 9 0.21
ACGTcount: A:0.53, C:0.20, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAAATCGCAACGA
Found at i:60911 original size:32 final size:32
Alignment explanation
Indices: 60845--60935 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
60835 GGAAATGCCT
* * *
60845 ATCGTAATGCGAAATAAAAATTGCAACGAAAAA
1 ATCGCAATGCGAAAT-GAAATCGCAACGAAAAA
*
60878 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGAAAAA
* *
60910 ATCGCAACGCAAAATGAAAATCGCAA
1 ATCGCAATGCGAAATG-AAATCGCAA
60936 TGCGATTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 28 0.55
33 23 0.45
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAAAAA
Found at i:60971 original size:14 final size:14
Alignment explanation
Indices: 60952--61009 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
60942 TTGTGTTTCG
*
60952 CGTTGCGATTTTGT
1 CGTTGCGATTTTTT
60966 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
60982 CGTATTGCGATTTTTT
1 CG--TTGCGATTTTTT
60998 CGTTGCGATTTT
1 CGTTGCGATTTT
61010 CATTTCGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.52
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:60990 original size:32 final size:33
Alignment explanation
Indices: 60947--61025 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
60937 GCGATTTGTG
*
60947 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
* *
60979 TTTCGTATTGCGATTTTTTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
61012 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
61026 AGCCATTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 24 0.57
33 18 0.43
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:61041 original size:20 final size:19
Alignment explanation
Indices: 61010--61065 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
61000 TTGCGATTTT
61010 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
61029 CATTTCTGCATTGCGATAGT
1 CATTTC-GCATTGCGATAGC
*
61049 CATTTTCGCGTTGCGAT
1 CA-TTTCGCATTGCGAT
61066 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 6 0.18
20 23 0.70
21 4 0.12
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:63066 original size:20 final size:20
Alignment explanation
Indices: 63041--63079 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63031 ATGTTGAAGG
63041 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
63061 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
63080 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:63091 original size:14 final size:14
Alignment explanation
Indices: 63072--63125 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
63062 AAAACTGACT
*
63072 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
63086 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
63105 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
63119 ATCGCAA
1 ATCGCAA
63126 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:63109 original size:19 final size:17
Alignment explanation
Indices: 63085--63130 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
63075 GCAACGAGAG
63085 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
63104 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
63118 AATCGCAATGCGA
1 AATCGCAATGCGA
63131 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:63195 original size:20 final size:20
Alignment explanation
Indices: 63156--63225 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
63146 GCGATTTTGT
63156 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
63175 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
63195 CGTTGCGATAGCCATTTTTG
1 CGTTGCGATAGCCATTTTCG
63215 CGTTGCGATAG
1 CGTTGCGATAG
63226 TCAAATGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 14 0.29
20 35 0.71
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:63463 original size:20 final size:20
Alignment explanation
Indices: 63438--63488 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
63428 AAATGATTGC
*
63438 CTTTCGCAATGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
63458 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
*
63478 CTTTCACAACG
1 CTTTCGCAACG
63489 AGATAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:64260 original size:24 final size:24
Alignment explanation
Indices: 64233--64286 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
64223 GTATTCGAAA
*
64233 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
64257 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
64281 TTTGAT
1 TTTGAT
64287 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:64478 original size:12 final size:12
Alignment explanation
Indices: 64461--64485 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64451 ATATAATCCT
64461 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64473 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64485 G
1 G
64486 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:66797 original size:19 final size:19
Alignment explanation
Indices: 66775--66905 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
66765 GGAAATTACT
66775 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
66794 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
66808 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
66827 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
66841 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
66860 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
66874 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
66893 ATCGCAACGCGAA
1 ATCGCAATGCGAA
66906 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:66817 original size:33 final size:33
Alignment explanation
Indices: 66775--66901 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
66765 GGAAATTACT
66775 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
66808 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
66840 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
66874 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
66902 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:66882 original size:66 final size:66
Alignment explanation
Indices: 66776--66908 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
66766 GAAATTACTA
*
66776 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
66841 T
66 T
*
66842 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
66907 T
66 T
66908 T
1 T
66909 AATTTCGCTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:67083 original size:14 final size:14
Alignment explanation
Indices: 67064--67100 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67054 CATCAATTAA
67064 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
67078 ACAAATCACCTTTT
1 ACAAATCAACTTTT
67092 ACAAATCAA
1 ACAAATCAA
67101 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:68560 original size:42 final size:42
Alignment explanation
Indices: 68493--68572 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
68483 CGATGACAGT
* * *
68493 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
68535 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
68573 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:68903 original size:92 final size:90
Alignment explanation
Indices: 68794--68977 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 90
68784 ATTTCAAACT
*
68794 TTCAACCAAAAGACAAAAC-AAA-ACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTAG
68857 CAGAATTGGCAGCAACCGAATAAATTTAC
62 CAGAATTGGCAGCAACCGAATAAATTTAC
68886 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAAC-AAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
**
68951 TTTTGGCAGCAACCGAATAAATTTAC
65 AATTGGCAGCAACCGAATAAATTTAC
68977 T
1 T
68978 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
91 41 0.48
92 19 0.22
94 3 0.03
95 23 0.27
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:70781 original size:19 final size:19
Alignment explanation
Indices: 70759--70828 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
70749 GCGACGAGAG
70759 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
70778 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
*
70797 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
*
70816 AATCGCAATGCGA
1 AATCGCAACGCGA
70829 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:70783 original size:33 final size:33
Alignment explanation
Indices: 70689--70774 Score: 145
Period size: 33 Copynumber: 2.6 Consensus size: 33
70679 ACGAGATAAT
*
70689 GAGAATCGCAACGCGGAAATGACTAGCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
70723 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
70756 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
70775 AAAAATCGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.10
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:70846 original size:19 final size:19
Alignment explanation
Indices: 70824--70909 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
70814 AAAATCGCAA
**
70824 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
70843 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
70862 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
70881 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
70901 TGCGATTTT
1 TGCGATTTT
70910 CATTCTCGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 46 0.79
20 12 0.21
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.50
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:71474 original size:19 final size:20
Alignment explanation
Indices: 71425--71476 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
71415 GCGCTATGTA
*
71425 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
71445 AATCACGTTGCGAAAGTCA-
1 AATCACGTTGCGAAAGTCAG
* *
71464 TATCTCGTTGCGA
1 AATCACGTTGCGA
71477 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:71510 original size:20 final size:20
Alignment explanation
Indices: 71485--71538 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
71475 GATTTTGTAT
71485 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
71505 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
71525 TATCGCATTGCGAT
1 TATCGCATTGCGAT
71539 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:71649 original size:21 final size:21
Alignment explanation
Indices: 71609--71649 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
71599 ACTGTAGACC
**
71609 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
71630 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
71650 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:79491 original size:20 final size:20
Alignment explanation
Indices: 79468--79514 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
79458 GTTTCCAAAT
79468 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
79488 TCGCAACGCGAATCTGTAAT
1 TCGCAACGCGAATCTGTAAA
79508 TCGCAAC
1 TCGCAAC
79515 ACAGAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:79543 original size:19 final size:20
Alignment explanation
Indices: 79505--79552 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
79495 GCGAATCTGT
79505 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
79525 AATTCGCAACACA-AAGTCA
1 AATTCGCAACACAGAAGTCA
79544 AATTCGCAA
1 AATTCGCAA
79553 AGTGCGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:79666 original size:20 final size:20
Alignment explanation
Indices: 79641--79690 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
79631 GTATAATCGC
*
79641 AAATCATAACCTAAAACCCT
1 AAATCACAACCTAAAACCCT
79661 AAATCACAACCTAAAACCCT
1 AAATCACAACCTAAAACCCT
79681 AAATCACAAC
1 AAATCACAAC
79691 TCAATCTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (20 bp):
AAATCACAACCTAAAACCCT
Found at i:79745 original size:22 final size:22
Alignment explanation
Indices: 79720--79777 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
79710 TCACTCTCTA
*
79720 CGACGACATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
79742 CGACGAAATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
79764 CGACGAAATCCGTC
1 CGACGAAATCCGTC
79778 TATCTCCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.22, C:0.45, G:0.16, T:0.17
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:80163 original size:19 final size:20
Alignment explanation
Indices: 80141--80192 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
80131 AAATCGCAAC
80141 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTAAGTTTCGCGTT
* *
80160 GCGATTTTCA-TTTTGCGTT
1 GCGATTTTAAGTTTCGCGTT
80179 GCGATTTTAAGTTT
1 GCGATTTTAAGTTT
80193 AAGAAACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (20 bp):
GCGATTTTAAGTTTCGCGTT
Found at i:81495 original size:16 final size:16
Alignment explanation
Indices: 81455--81497 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
81445 ACTATCCATT
81455 ACAGAGGCTGACACCC
1 ACAGAGGCTGACACCC
81471 ACA-AGGGCTGACACCC
1 ACAGA-GGCTGACACCC
81487 ACAGAGGCTGA
1 ACAGAGGCTGA
81498 GCTTGCCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.33, C:0.33, G:0.28, T:0.07
Consensus pattern (16 bp):
ACAGAGGCTGACACCC
Found at i:82272 original size:42 final size:42
Alignment explanation
Indices: 82212--82305 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
82202 CTTCTCCTAT
* *
82212 CGTTCAAGATGCCCCTATCATCCTTCAAGAGACCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCTTCAAAAGACCCCTCCCAC
* * * ** *
82254 CGTTTAAGAGGCCTCTATCATCGTTCAAAAGGTCTCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCTTCAAAAGACCCCTCCCAC
82296 CGTTCAAGAG
1 CGTTCAAGAG
82306 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.24
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTATCATCCTTCAAAAGACCCCTCCCAC
Found at i:82299 original size:21 final size:21
Alignment explanation
Indices: 82247--82302 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
82237 CAAGAGACCC
* *
82247 CTCCCACCGTTTAAGAGGCCT
1 CTCCCACCGTTCAAAAGGCCT
** * *
82268 CTATCATCGTTCAAAAGGTCT
1 CTCCCACCGTTCAAAAGGCCT
82289 CTCCCACCGTTCAA
1 CTCCCACCGTTCAA
82303 GAGCCCGATT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (21 bp):
CTCCCACCGTTCAAAAGGCCT
Found at i:83674 original size:14 final size:14
Alignment explanation
Indices: 83655--83691 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
83645 GCTGGTTTAA
83655 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
83669 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
83683 TTGATTTGT
1 TTGATTTGT
83692 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:83874 original size:20 final size:20
Alignment explanation
Indices: 83852--83955 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
83842 TGCGATGGTT
* *
83852 GCGAAAGTCAAATTTGCGTT
1 GCGAAAGTCAAATTCGCGTC
* ***
83872 GCGATAGTCAAATTCGTAAC
1 GCGAAAGTCAAATTCGCGTC
**
83892 GCGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCGTC
* **
83912 GTGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCGTC
*
83932 GCGAAAGTCAAATTCGCGTT
1 GCGAAAGTCAAATTCGCGTC
83952 GCGA
1 GCGA
83956 TTTTTGCGTT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCGTC
Found at i:84034 original size:49 final size:48
Alignment explanation
Indices: 83961--84068 Score: 164
Period size: 49 Copynumber: 2.2 Consensus size: 48
83951 TGCGATTTTT
*
83961 GCGTTTC-AATTTGATTTTACAACAATCGCAACGCGAATTTGACTTTC
1 GCGTTTCGAATTTGATTTCACAACAATCGCAACGCGAATTTGACTTTC
* *
84008 GCGTTTCGAATTTGACTTTCACAACAATCGCATCGTGAATTTGACTTTC
1 GCGTTTCGAATTTGA-TTTCACAACAATCGCAACGCGAATTTGACTTTC
*
84057 GCGTTGCGAATT
1 GCGTTTCGAATT
84069 CAAGGAAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 7 0.13
48 7 0.13
49 41 0.75
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (48 bp):
GCGTTTCGAATTTGATTTCACAACAATCGCAACGCGAATTTGACTTTC
Found at i:84284 original size:12 final size:12
Alignment explanation
Indices: 84269--84309 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
84259 AAGCCGGTTG
*
84269 TGATTGGGATTT
1 TGATTGCGATTT
**
84281 TGATTTTGATTT
1 TGATTGCGATTT
84293 TGATTGCGATTT
1 TGATTGCGATTT
84305 TGATT
1 TGATT
84310 TCTTTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.56
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:84285 original size:6 final size:6
Alignment explanation
Indices: 84276--84310 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
84266 TTGTGATTGG
**
84276 GATTTT GATTTT GATTTT GATTGC GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
84311 CTTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:85965 original size:24 final size:24
Alignment explanation
Indices: 85938--85984 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
85928 CAAAATCCGA
85938 GTATTGACCAAGATCAAAGTTTGG
1 GTATTGACCAAGATCAAAGTTTGG
*
85962 GTATTGACCAAGATCAAATTTTG
1 GTATTGACCAAGATCAAAGTTTG
85985 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTTGG
Found at i:85993 original size:24 final size:24
Alignment explanation
Indices: 85942--85993 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
85932 ATCCGAGTAT
** *
85942 TGACCAAGATCAAAGTTTGGGTAT
1 TGACCAAGATCAAAGTTTGAATAC
*
85966 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTTTGAATAC
85990 TGAC
1 TGAC
85994 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTTGAATAC
Found at i:86936 original size:20 final size:19
Alignment explanation
Indices: 86892--87020 Score: 84
Period size: 20 Copynumber: 6.5 Consensus size: 19
86882 CAAAATATTT
*
86892 GTGTTGCGAAACTAAAA-C
1 GTGTTGCGAAATTAAAATC
*
86910 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
86930 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
* **
86950 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
86970 GCGTTGCG-AATTCAGAAATC
1 GTGTTGCGAAATT-A-AAATC
* * *
86990 GAGTTGCGAATTTGAAATTC
1 GTGTTGCGAAATT-AAAATC
87010 AGTGTTGCGAA
1 -GTGTTGCGAA
87021 TTTGAAAAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
18 15 0.17
19 10 0.11
20 40 0.46
21 22 0.25
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:86956 original size:40 final size:40
Alignment explanation
Indices: 86912--87103 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
86902 ACTAAAACCT
*
86912 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATTAAAATTCGCGTTGCGAATTCGAAAATCGA
**
86952 GTTGCGAAAACAAAATTCGCGTTGCGAATTC-AGAAATCGA
1 GTTGCGAAATTAAAATTCGCGTTGCGAATTCGA-AAATCGA
* * * *
86992 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGAAAAATCGCA
1 GTTGCGAAATTAAAATTC-GCGTTGCGAATTCG-AAAATCG-A
* * * * *
87035 -ATGC-AATTTACATATTCGCGTTGCGAATTTGGAAA-CTGA
1 GTTGCGAAATTA-AAATTCGCGTTGCGAATTCGAAAATC-GA
** *
87074 GTTGCGAAATTGGAGTTCGCGTTGCGAATT
1 GTTGCGAAATTAAAATTCGCGTTGCGAATT
87104 TGTTGGTCAT
Statistics
Matches: 123, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
39 3 0.02
40 71 0.58
41 33 0.27
42 14 0.11
43 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGCGTTGCGAATTCGAAAATCGA
Found at i:87063 original size:21 final size:20
Alignment explanation
Indices: 86912--87105 Score: 117
Period size: 20 Copynumber: 9.6 Consensus size: 20
86902 ACTAAAACCT
* * *
86912 GTTGCGAAATTAAAATTCGT
1 GTTGCGAATTTGAAATTCGC
* * *
86932 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTCGC
****
86952 GTTGCGAAAACAAAATTCGC
1 GTTGCGAATTTGAAATTCGC
* *
86972 GTTGCGAATTCAGAAA-TCGA
1 GTTGCGAATT-TGAAATTCGC
*
86992 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTC-GC
*
87013 GTTGCGAATTTGAAAAATCGC
1 GTTGCGAATTTG-AAATTCGC
**
87034 AATGC-AATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* *
87054 GTTGCGAATTTGGAAACT-GA
1 GTTGCGAATTT-GAAATTCGC
* * *
87074 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAATTTGAAATTCGC
87094 GTTGCGAATTTG
1 GTTGCGAATTTG
87106 TTGGTCATTT
Statistics
Matches: 132, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
18 1 0.01
19 8 0.06
20 89 0.67
21 27 0.20
22 6 0.05
23 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:89153 original size:3 final size:3
Alignment explanation
Indices: 89140--89172 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
89130 ATTAATTGGT
89140 AAG AA- AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
89173 TTACAAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93247 original size:10 final size:10
Alignment explanation
Indices: 93223--93257 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
93213 AAATAAAATA
93223 TAAAAAT-TT
1 TAAAAATATT
*
93232 TTAAAATATT
1 TAAAAATATT
93242 TAAAAATATT
1 TAAAAATATT
93252 TAAAAA
1 TAAAAA
93258 CACTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAAATATT
Found at i:94780 original size:14 final size:15
Alignment explanation
Indices: 94724--94789 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
94714 TTAACAACAT
*
94724 AAAATGAATTTATATA
1 AAAAT-AATTAATATA
* * *
94740 AATAAAAATCTAAGATG
1 AA-AATAAT-TAATATA
*
94757 AAAGTAATTAATA-A
1 AAAATAATTAATATA
94771 AAAATAATTAATATA
1 AAAATAATTAATATA
94786 AAAA
1 AAAA
94790 ATTTGAATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
14 12 0.32
15 9 0.24
16 9 0.24
17 8 0.21
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAATAATTAATATA
Found at i:95727 original size:27 final size:25
Alignment explanation
Indices: 95664--95727 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 25
95654 TTAAATTCAT
*
95664 AATATTTTATATATATTAACTTTAAC
1 AATATTTTAT-TATATTAACTTTAAA
95690 AATA-TTT-TTATATTAA-TTTATTAA
1 AATATTTTATTATATTAACTTTA--AA
95714 ATATATTTTATTAT
1 A-ATATTTTATTAT
95728 TTGCCTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 3 0.09
25 6 0.19
26 7 0.22
27 4 0.12
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
AATATTTTATTATATTAACTTTAAA
Found at i:95964 original size:27 final size:27
Alignment explanation
Indices: 95934--95997 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
95924 AATAAAATGT
95934 ATATTTTAAATTGTAAATTAA-AATAAA
1 ATATTTTAAATT-TAAATTAATAATAAA
* *
95961 ATATTTTTAATTTAAATTAATGATAAA
1 ATATTTTAAATTTAAATTAATAATAAA
95988 ATATATTTAA
1 ATAT-TTTAA
95998 TAAGTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.25
27 20 0.62
28 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTTTAAATTTAAATTAATAATAAA
Found at i:95998 original size:27 final size:27
Alignment explanation
Indices: 95933--96019 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
95923 GAATAAAATG
*
95933 TATATTTTAAATTGTAAATTAA-AATAAAA
1 TATA-TTT-AATT-TAAATTAATGATAAAA
*
95962 TATTTTTAATTTAAATTAATGATAAAA
1 TATATTTAATTTAAATTAATGATAAAA
*
95989 TATATTTAA--TAAGTTAATG-TAAAA
1 TATATTTAATTTAAATTAATGATAAAA
*
96013 AATATTT
1 TATATTT
96020 CTTAAAGTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.21
25 9 0.17
26 8 0.15
27 18 0.35
28 3 0.06
29 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (27 bp):
TATATTTAATTTAAATTAATGATAAAA
Found at i:96024 original size:27 final size:25
Alignment explanation
Indices: 95958--96031 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
95948 AAATTAAAAT
* *
95958 AAAATATTTTTAATTTAAATTAATGAT
1 AAAATATTTTTAA--TAAGTTAATGAA
*
95985 AAAATATATTTAATAAGTTAATGTAA
1 AAAATATTTTTAATAAGTTAATG-AA
96011 AAAATATTTCTT-A-AAGTTAAT
1 AAAATATTT-TTAATAAGTTAAT
96032 ATATTAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 17 0.41
26 10 0.24
27 14 0.34
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.43
Consensus pattern (25 bp):
AAAATATTTTTAATAAGTTAATGAA
Found at i:96027 original size:25 final size:26
Alignment explanation
Indices: 95972--96031 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
95962 TATTTTTAAT
*
95972 TTAAA-TTAATGATAAAATATATTTA
1 TTAAAGTTAATGATAAAAAATATTTA
* *
95997 AT-AAGTTAATG-TAAAAAATATTTC
1 TTAAAGTTAATGATAAAAAATATTTA
96021 TTAAAGTTAAT
1 TTAAAGTTAAT
96032 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (26 bp):
TTAAAGTTAATGATAAAAAATATTTA
Found at i:96232 original size:31 final size:31
Alignment explanation
Indices: 96194--96254 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
96184 GTTACCACAT
*
96194 CTTAATTAAATAAAAATGAAAATGACTATAC
1 CTTAATTAAATAAAAATGAAAATAACTATAC
*
96225 CTTAATTAAATAAAAATGAAAGTAACTATA
1 CTTAATTAAATAAAAATGAAAATAACTATA
96255 TATTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.30
Consensus pattern (31 bp):
CTTAATTAAATAAAAATGAAAATAACTATAC
Found at i:97065 original size:22 final size:19
Alignment explanation
Indices: 97039--97090 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 19
97029 AACTTAATAT
97039 TATTTTTTTCAAATATTAAAA
1 TATTTTTTT--AATATTAAAA
* *
97060 TAATTTATTTATTATTAAAA
1 T-ATTTTTTTAATATTAAAA
97080 TATTATTTTTA
1 TATT-TTTTTA
97091 TAATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTTTTTAATATTAAAA
Found at i:97156 original size:31 final size:29
Alignment explanation
Indices: 97049--97157 Score: 75
Period size: 31 Copynumber: 3.7 Consensus size: 29
97039 TATTTTTTTC
*
97049 AAATATTAAAATAATT-TA-TTTATT-ATTA
1 AAATATT--AATAATTATATTTTATTAATAA
**
97077 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATAATTAT-ATTTTATTAATAA
*
97106 AAATATTAATATTGGTATATTTTATTGAAATAA
1 AAATATTAATAAT--TATATTTTATT--AATAA
97139 AAATATT-ATAAATTATATT
1 AAATATTAAT-AATTATATT
97158 AATTATTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
25 4 0.06
26 1 0.02
27 1 0.02
28 13 0.20
29 10 0.15
30 4 0.06
31 14 0.21
32 5 0.08
33 14 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
AAATATTAATAATTATATTTTATTAATAA
Found at i:98629 original size:22 final size:21
Alignment explanation
Indices: 98599--98658 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
98589 ATTACTCAGA
98599 GGGA-ACCGATTCCCCCCCAAG
1 GGGATACCGATTCCCCCCC-AG
*
98620 GGGGTACCGATTCCCCCCCAG
1 GGGATACCGATTCCCCCCCAG
98641 GGGATACCGATTCCCCCC
1 GGGATACCGATTCCCCCC
98659 TTGTATAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 22 0.61
22 14 0.39
ACGTcount: A:0.18, C:0.43, G:0.25, T:0.13
Consensus pattern (21 bp):
GGGATACCGATTCCCCCCCAG
Found at i:115004 original size:23 final size:25
Alignment explanation
Indices: 114963--115011 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
114953 GTGCCACAAT
*
114963 AACAGAGAAAAAACGTGTCA-TAAG
1 AACAGAGAAAAAACATGTCACTAAG
114987 AACAGAG-AAAAACATGTCACTAAG
1 AACAGAGAAAAAACATGTCACTAAG
115011 A
1 A
115012 TAAATATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.12
Consensus pattern (25 bp):
AACAGAGAAAAAACATGTCACTAAG
Found at i:121059 original size:21 final size:21
Alignment explanation
Indices: 121033--121073 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
121023 GATGAGCATG
121033 CGACCCGAACCCGA-CGGGTTC
1 CGACCCG-ACCCGATCGGGTTC
121054 CGACCCGACCCGATCGGGTT
1 CGACCCGACCCGATCGGGTT
121074 GGTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.17, C:0.41, G:0.29, T:0.12
Consensus pattern (21 bp):
CGACCCGACCCGATCGGGTTC
Found at i:123879 original size:380 final size:381
Alignment explanation
Indices: 123176--123936 Score: 1499
Period size: 380 Copynumber: 2.0 Consensus size: 381
123166 TACAATACTC
123176 GATCTAGATTAATCGAATAATAAATTAGATATCGATAATTATATAAAAAAATAAAATAGAAGGAT
1 GATCTAGATTAATCGAATAATAAATTAGATATCGATAATTATATAAAAAAATAAAATAGAAGGAT
123241 TTTTTTTTTAAATTTTGTAATCGATCTTAAAAATTATAGATTCTATCTCGAAAGAAATTATTGTT
66 TTTTTTTTTAAATTTTGTAATCGATCTTAAAAATTATAGATTCTATCTCGAAAGAAATTATTGTT
123306 TGAAAAAACTTTTGGGATCATGGAGAATAATGAAAAATCTTGTTATAATTTCTATATCAATTCAA
131 TGAAAAAACTTTTGGGATCATGGAGAATAATGAAAAATCTTGTTATAATTTCTATATCAATTCAA
123371 GTTAACGAGATCTTATTATATATAATATGATTTCTTAAAAATTAATTTTTAGTCTTTTGAATATT
196 GTTAACGAGATCTTATTATATATAATATGATTTCTTAAAAATTAATTTTTAGTCTTTTGAATATT
123436 AAAAGGAAATATTTTGGTGTATTTTTTTAAAAAGAAAGAAAAATGTTATATTGTTTTAAATTTCT
261 AAAAGGAAATATTTTGGTGTATTTTTTTAAAAAGAAAGAAAAATGTTATATTGTTTTAAATTTCT
123501 TCAACCTTATATTTTTAAATAGTGACATGTGATATTATTGGGAGTGACTTATGTTTT
326 TCAACCTTATATTTTTAAATAGTGACATGTGATATTATT-GGAGTGACTTATGTTTT
123558 GATCTAGATTAATCGAATAATAAATTAGATATCGATAATTATAT-AAAAAATAAAATAGAAGGA-
1 GATCTAGATTAATCGAATAATAAATTAGATATCGATAATTATATAAAAAAATAAAATAGAAGGAT
123621 TTTTTTTTTAAATTTTGTAATCGATCTTAAAAATTATAGATTCTATCTCGAAAGAAATTATTGTT
66 TTTTTTTTTAAATTTTGTAATCGATCTTAAAAATTATAGATTCTATCTCGAAAGAAATTATTGTT
123686 TGAAAAAACTTTTGGGATCATGGAGAATAATGAAAAATCTTGTTATAATTTCTATATCAATTCAA
131 TGAAAAAACTTTTGGGATCATGGAGAATAATGAAAAATCTTGTTATAATTTCTATATCAATTCAA
123751 GTTAACGAGATCTTATTATATATAATATGATTTCTTAAAAATTAATTTTTAGTCTTTTGAATATT
196 GTTAACGAGATCTTATTATATATAATATGATTTCTTAAAAATTAATTTTTAGTCTTTTGAATATT
123816 AAAAGGAAATATTTTGGTGTATTTTTTTAAAAAGAAAGAAAAATGTTATATTGTTTTAAATTTCT
261 AAAAGGAAATATTTTGGTGTATTTTTTTAAAAAGAAAGAAAAATGTTATATTGTTTTAAATTTCT
123881 TCAACCTTATATTTTTAAATAGTGACATGTGATATTATTGGAGTGACTTATGTTTT
326 TCAACCTTATATTTTTAAATAGTGACATGTGATATTATTGGAGTGACTTATGTTTT
123937 ATGATTAAGA
Statistics
Matches: 379, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
379 17 0.04
380 299 0.79
381 19 0.05
382 44 0.12
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (381 bp):
GATCTAGATTAATCGAATAATAAATTAGATATCGATAATTATATAAAAAAATAAAATAGAAGGAT
TTTTTTTTTAAATTTTGTAATCGATCTTAAAAATTATAGATTCTATCTCGAAAGAAATTATTGTT
TGAAAAAACTTTTGGGATCATGGAGAATAATGAAAAATCTTGTTATAATTTCTATATCAATTCAA
GTTAACGAGATCTTATTATATATAATATGATTTCTTAAAAATTAATTTTTAGTCTTTTGAATATT
AAAAGGAAATATTTTGGTGTATTTTTTTAAAAAGAAAGAAAAATGTTATATTGTTTTAAATTTCT
TCAACCTTATATTTTTAAATAGTGACATGTGATATTATTGGAGTGACTTATGTTTT
Found at i:126568 original size:26 final size:29
Alignment explanation
Indices: 126539--126601 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
126529 TAAAAAAACA
126539 TAAGATAT-TCAC-TT-TTTTTATTTAAT
1 TAAGATATGTCACTTTGTTTTTATTTAAT
*
126565 TAAGATATGGTGACTTTTGTTTTTATTTAAT
1 TAAGATAT-GTCAC-TTTGTTTTTATTTAAT
126596 TAAGAT
1 TAAGAT
126602 GTGGTCACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 8 0.26
28 3 0.10
30 2 0.06
31 18 0.58
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (29 bp):
TAAGATATGTCACTTTGTTTTTATTTAAT
Found at i:127594 original size:31 final size:31
Alignment explanation
Indices: 127559--127657 Score: 180
Period size: 31 Copynumber: 3.2 Consensus size: 31
127549 GGGTGACCAC
127559 ATCTTAATTAAATAAAAACGAAAGTGATAAT
1 ATCTTAATTAAATAAAAACGAAAGTGATAAT
*
127590 ATCTTAATTAAATAAAAACAAAAGTGATAAT
1 ATCTTAATTAAATAAAAACGAAAGTGATAAT
*
127621 ATCTTAATTAAATAAAAACGAAAGTGATCAT
1 ATCTTAATTAAATAAAAACGAAAGTGATAAT
127652 ATCTTA
1 ATCTTA
127658 TGTTTTTTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGTGATAAT
Found at i:133410 original size:24 final size:24
Alignment explanation
Indices: 133382--133442 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
133372 ATCATGATTA
*
133382 TTCATGAAAATTAAATTAAGTATT
1 TTCATGAAAAATAAATTAAGTATT
*
133406 TTCATGAAAAATAAATTAAGTCTT
1 TTCATGAAAAATAAATTAAGTATT
133430 TTCATGAAAAATA
1 TTCATGAAAAATA
133443 GTTATTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (24 bp):
TTCATGAAAAATAAATTAAGTATT
Found at i:133515 original size:21 final size:21
Alignment explanation
Indices: 133486--133544 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
133476 CATGTTAACC
* *
133486 TTTTGATCAAAAGGTTATAAT
1 TTTTAATCAAATGGTTATAAT
133507 TTTTAATCAAATGGTTATAAT
1 TTTTAATCAAATGGTTATAAT
133528 TTTTAATCAAATGGTTA
1 TTTTAATCAAATGGTTA
133545 AGTCATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (21 bp):
TTTTAATCAAATGGTTATAAT
Found at i:146615 original size:18 final size:18
Alignment explanation
Indices: 146473--146604 Score: 228
Period size: 18 Copynumber: 7.3 Consensus size: 18
146463 GAGAGTCCCC
*
146473 AGCCTGCTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
* *
146491 AACCTATTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
146509 AGCCTGTTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
146527 AGCCTGTTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
146545 AGCCTGTTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
*
146563 AGCCTGCTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
146581 AGCCTGTTGAACCTGAAG
1 AGCCTGTTGAACCTGAAG
146599 AGCCTG
1 AGCCTG
146605 CTGACATTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 107 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (18 bp):
AGCCTGTTGAACCTGAAG
Found at i:150940 original size:14 final size:14
Alignment explanation
Indices: 150923--150956 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
150913 CACACTTTTT
*
150923 ATTATTTTCTTTCA
1 ATTATTTCCTTTCA
150937 ATTACTTTCCTTTCA
1 ATTA-TTTCCTTTCA
150952 ATTAT
1 ATTAT
150957 CCGATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTCCTTTCA
Found at i:152561 original size:28 final size:28
Alignment explanation
Indices: 152475--152568 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
152465 GTGACATAGT
* * *
152475 CGACCATATATTATTCAAATGGTAGAGC
1 CGACCATATATTAATCAAGTGGTAAAGC
*
152503 CAACCATATATTAATC-AGATGGTATAA-C
1 CGACCATATATTAATCAAG-TGGTA-AAGC
* *
152531 CGACCATATATCAATCAAGTGGCAAAGC
1 CGACCATATATTAATCAAGTGGTAAAGC
152559 CGACCATATA
1 CGACCATATA
152569 ATAAAACTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 3 0.05
28 49 0.89
29 3 0.05
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (28 bp):
CGACCATATATTAATCAAGTGGTAAAGC
Found at i:167219 original size:15 final size:15
Alignment explanation
Indices: 167199--167235 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
167189 TAGGTTCTAG
167199 AGGCTTCCAAACTAT
1 AGGCTTCCAAACTAT
167214 AGGCTTCCAAACTAT
1 AGGCTTCCAAACTAT
167229 AGGCTTC
1 AGGCTTC
167236 AAGGAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (15 bp):
AGGCTTCCAAACTAT
Found at i:167877 original size:325 final size:324
Alignment explanation
Indices: 167357--167953 Score: 876
Period size: 325 Copynumber: 1.8 Consensus size: 324
167347 AAATAAGGTA
* * *
167357 CACGTTCGGTAAAAAGTGAAGTTAAAATTTATGTTTTATAAAAATTAAGTATCATGCATTTATTA
1 CACGTTCGGTAAAAAGTGAAGTTAAAATTTACGTTTTACAAAAATCAAGTATCATGCATTTATTA
* * * ** *
167422 TTATTTTTATTAAATAGTAAATGATTATTTAAAAAAGTTAATAGGTCTCGTGTATTATAAAATAC
66 TTATTTTTATCAAATAGTAAATAATTATATAAAAAAGTTAATAGGTCTCACGTATTATAAAACAC
* *
167487 GAGGTTCATTAAACGAGTTTTATAGAATACAAGATAATCTTACGTAGGTTCTTTGAGGTTATTTT
131 GAGGTTCATTAAACGAGTTTTATAGAACACAAGATAATCCTACGTAGGTTCTTTGAGGTTATTTT
*
167552 TCTAACTAATATGACATGGGGTTATTTCT-AAAAAAAATAATTAAAGGGGATTTTTAATATAATA
196 TCTAACTAATATGACATGGGATTATTTCTAAAAAAAAATAATTAAAGGGGATTTTTAATATAATA
167616 ATGCCAAGGAGAAACATGATCAATTAGTTAAAAAATAATTTCAAATTGTCCACGGAAAATACTT
261 ATGCCAAGGAGAAACATGATCAATTAGTTAAAAAATAATTTCAAATTGTCCACGGAAAATACTT
* * * * *
167680 CACGTTCTGTAAAAAGTGAAGTTAAATTTTACGTTTTACCAAAATCAAGTTTTATGCATTTATTA
1 CACGTTCGGTAAAAAGTGAAGTTAAAATTTACGTTTTACAAAAATCAAGTATCATGCATTTATTA
* * *
167745 TTATTTTTATCAAATATTAAATAACTTTATATGAAAAAGTTGAT-GGATCTCACGTATTATAAAA
66 TTATTTTTATCAAATAGTAAATAA--TTATATAAAAAAGTTAATAGG-TCTCACGTATTATAAAA
** * * * * *
167809 CGTGAGGTTCATTAAATGAGTTTTATAGGACGCGAGATAATCCTACGTATGTTGC-TTGAGGTTA
128 CACGAGGTTCATTAAACGAGTTTTATAGAACACAAGATAATCCTACGTAGGTT-CTTTGAGGTTA
167873 TTTTTCTAACTAATATGACATGGGATTATTTCTCAAAAAAAAATAATTAAAGGGGATTTTTAATA
192 TTTTTCTAACTAATATGACATGGGATTATTTCT-AAAAAAAAATAATTAAAGGGGATTTTTAATA
*
167938 TAATAATGTCAAGGAG
256 TAATAATGCCAAGGAG
167954 GAACGTCATC
Statistics
Matches: 240, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
323 78 0.32
324 2 0.01
325 114 0.47
326 1 0.00
327 45 0.19
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (324 bp):
CACGTTCGGTAAAAAGTGAAGTTAAAATTTACGTTTTACAAAAATCAAGTATCATGCATTTATTA
TTATTTTTATCAAATAGTAAATAATTATATAAAAAAGTTAATAGGTCTCACGTATTATAAAACAC
GAGGTTCATTAAACGAGTTTTATAGAACACAAGATAATCCTACGTAGGTTCTTTGAGGTTATTTT
TCTAACTAATATGACATGGGATTATTTCTAAAAAAAAATAATTAAAGGGGATTTTTAATATAATA
ATGCCAAGGAGAAACATGATCAATTAGTTAAAAAATAATTTCAAATTGTCCACGGAAAATACTT
Found at i:168272 original size:22 final size:20
Alignment explanation
Indices: 168240--168279 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
168230 TGATCATTAT
*
168240 TTTAATTTAATTTAATAAAA
1 TTTAATTTAATTAAATAAAA
168260 TTTAATCTCTAATTAAATAA
1 TTTAAT-T-TAATTAAATAA
168280 TGACACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATTTAATTAAATAAAA
Found at i:168674 original size:7 final size:8
Alignment explanation
Indices: 168649--168673 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
168639 AAATAAATAT
168649 AATCTAAA
1 AATCTAAA
168657 AATCTAAA
1 AATCTAAA
168665 AATCTAAA
1 AATCTAAA
168673 A
1 A
168674 TTTCTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AATCTAAA
Found at i:171027 original size:21 final size:21
Alignment explanation
Indices: 171001--171041 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
170991 CCAAATTACC
171001 CATAGGGTACCGATACCCCCT
1 CATAGGGTACCGATACCCCCT
171022 CATAGGGTACCGATACCCCC
1 CATAGGGTACCGATACCCCC
171042 ATGCAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.17
Consensus pattern (21 bp):
CATAGGGTACCGATACCCCCT
Found at i:176404 original size:23 final size:23
Alignment explanation
Indices: 176378--176423 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
176368 CACCACAGCT
*
176378 CGTATAATTGCACCGA-AGTGCCA
1 CGTAGAATTGCACC-ATAGTGCCA
176401 CGTAGAATTGCACCATAGTGCCA
1 CGTAGAATTGCACCATAGTGCCA
176424 TATAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCATAGTGCCA
Found at i:176575 original size:149 final size:148
Alignment explanation
Indices: 176398--176703 Score: 477
Period size: 149 Copynumber: 2.1 Consensus size: 148
176388 CACCGAAGTG
176398 CCACGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG
1 CCACGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG
* * * * * * *
176463 AATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTTCCAAAGAAT
*
176528 ATATATATATCCCAAAGGA
130 ATACATATATCCCAAAGGA
*
176547 CCACGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG
1 CCACGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG
*
176612 AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCCAAAGAATA
66 AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATA
* *
176677 TACATATGTCCCGAAGGA
131 TACATATATCCCAAAGGA
* *
176695 TCGCGTAGA
1 CCACGTAGA
176704 CCCTCGACTC
Statistics
Matches: 143, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
148 45 0.31
149 98 0.69
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (148 bp):
CCACGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG
AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATA
TACATATATCCCAAAGGA
Found at i:178316 original size:63 final size:62
Alignment explanation
Indices: 178210--178368 Score: 205
Period size: 63 Copynumber: 2.5 Consensus size: 62
178200 TAATGGAGGC
* * * * *
178210 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATT-AGA-A
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGAT-TT--TTGTATTAAAATA
178273 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATTTTTGTATTAAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATTTTTGTATTAAAA-TA
* *
178336 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
178369 CTTCAACAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
60 6 0.07
61 2 0.02
62 2 0.02
63 76 0.88
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATTTTTGTATTAAAATA
Found at i:178360 original size:19 final size:20
Alignment explanation
Indices: 178336--178373 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
178326 ATTAAAATTA
178336 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
178355 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
178374 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:180192 original size:23 final size:23
Alignment explanation
Indices: 180161--180243 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
180151 CTGTGCGCTA
*
180161 GGTATCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
**
180184 GGTACCGATACCATCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
* *
180207 GGTACTGATACCCCC-AT-AA-G
1 GGTACCGATACCCCCTTTGAATG
*
180227 GGTACCAATACCCCCTT
1 GGTACCGATACCCCCTT
180244 CGGGTTCTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 14 0.29
21 2 0.04
22 1 0.02
23 32 0.65
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAATG
Found at i:180706 original size:13 final size:13
Alignment explanation
Indices: 180688--180719 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
180678 CACCTTGATA
*
180688 TTCAAACATTGTT
1 TTCAAACATAGTT
180701 TTCAAACATAGTT
1 TTCAAACATAGTT
180714 TTCAAA
1 TTCAAA
180720 AATTTGCTCA
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:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (13 bp):
TTCAAACATAGTT
Found at i:182797 original size:22 final size:21
Alignment explanation
Indices: 182767--182807 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
182757 CCAGATTGCC
*
182767 CATATGGTACCGATAGCCCCCT
1 CATAGGGTACCGATA-CCCCCT
*
182789 CATAGGGTACTGATACCCC
1 CATAGGGTACCGATACCCC
182808 TATGAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
CATAGGGTACCGATACCCCCT
Done.