Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 26
Found at i:2702419 original size:19 final size:20
Alignment explanation
Indices: 2702383--2702425 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
2702373 TATATATATA
*
2702383 TATATATATATTC-CAAAAT
1 TATATATATATTCAAAAAAT
* *
2702402 TATATATATTTTGAAAAAAT
1 TATATATATATTCAAAAAAT
2702422 TATA
1 TATA
2702426 ATGTACATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATATATATTCAAAAAAT
Found at i:2702459 original size:49 final size:50
Alignment explanation
Indices: 2702324--2702460 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
2702314 GTTTTCGCAA
* *
2702324 ATATATA-ATATATATTTTTAAAAACTACT-TATATTATTTTTAAAAAATAT
1 ATATATATACATATATTTTTAAAAACTA-TATATA-TATTTTGAAAAAATAT
* **
2702374 ATATATATATATATATATATTCCAAAA-T-TATATATATTTTGAAAAAAT-T
1 ATATATATACATATAT-T-TTTAAAAACTATATATATATTTTGAAAAAATAT
*
2702423 ATA-ATGTACATATATTCTTTAAAAACTATATATATATT
1 ATATATATACATATATT-TTTAAAAACTATATATATATT
2702461 CCAAAACTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
47 7 0.10
48 11 0.15
49 14 0.19
50 21 0.29
51 12 0.16
52 2 0.03
53 6 0.08
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (50 bp):
ATATATATACATATATTTTTAAAAACTATATATATATTTTGAAAAAATAT
Found at i:2702547 original size:29 final size:28
Alignment explanation
Indices: 2702485--2702547 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
2702475 TTGTAAAAAC
*
2702485 ATAATATATATATTTAAAAATTGTAATA
1 ATAATATATATATATAAAAATTGTAATA
* *
2702513 AT-ATATATTTATATAATAAATT-TATATT
1 ATAATATATATATATAA-AAATTGTA-ATA
2702541 ATAATAT
1 ATAATAT
2702548 TACAACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 14 0.48
28 11 0.38
29 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATAATATATATATATAAAAATTGTAATA
Found at i:2706650 original size:60 final size:60
Alignment explanation
Indices: 2706575--2706689 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
2706565 ATAGTCATGT
*
2706575 GACTATTTTACAACTTTTAATAGTTGAGGG-ACTCAACAAAGCAATACCTTATAATTAGGA
1 GACTATTTTACAACTTTTAATAGTT-AGGGAACTCAACAAAGCAATACCCTATAATTAGGA
** * *
2706635 GACTATTTTGTAACTTTTAATAGTTAGGGAACTCAATAAAGCAATGCCCTATAAT
1 GACTATTTTACAACTTTTAATAGTTAGGGAACTCAACAAAGCAATACCCTATAAT
2706690 CAAGAGATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 4 0.08
60 45 0.92
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (60 bp):
GACTATTTTACAACTTTTAATAGTTAGGGAACTCAACAAAGCAATACCCTATAATTAGGA
Found at i:2712670 original size:18 final size:18
Alignment explanation
Indices: 2712642--2712685 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
2712632 ATATTGGAAT
*
2712642 AATTT-AATCGAATATAA
1 AATTTAAATCGAATAGAA
2712659 AATTTAAATCGAATAGAA
1 AATTTAAATCGAATAGAA
2712677 AATCTTAAA
1 AAT-TTAAA
2712686 ATTACTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (18 bp):
AATTTAAATCGAATAGAA
Found at i:2714540 original size:12 final size:13
Alignment explanation
Indices: 2714523--2714555 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2714513 AGTGGGCAAA
*
2714523 TTTGAAAACT-AT
1 TTTGAAAACTAAG
2714535 TTTGAAAACTAAG
1 TTTGAAAACTAAG
2714548 TTTGAAAA
1 TTTGAAAA
2714556 ATTATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACTAAG
Found at i:2715181 original size:20 final size:21
Alignment explanation
Indices: 2715132--2715184 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
2715122 ATTGTATGAC
*
2715132 TAGTATCGATACTCATTCAAG
1 TAGTATCGATACTCATGCAAG
* * *
2715153 CAATATCGATACT-ATGCTAG
1 TAGTATCGATACTCATGCAAG
2715173 TAGTATCGATAC
1 TAGTATCGATAC
2715185 CTAGTAAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (21 bp):
TAGTATCGATACTCATGCAAG
Found at i:2724225 original size:45 final size:45
Alignment explanation
Indices: 2724151--2724747 Score: 897
Period size: 45 Copynumber: 13.2 Consensus size: 45
2724141 GGTATTTAAT
* * *
2724151 ATAAGTAAAATGCATAACAGTGCAATAAAGGCATGAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * *
2724196 ATAAATAAAATGTATAACGGTACATTAAAGGCATGAAATGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * * *
2724241 ATAAATAAAATGCATAATGGAGCATTAAAGACATTAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * * * *
2724286 TTAAATTAAATGTATAACGATGCATTAAATGCATGAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
2724331 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
2724376 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
2724421 ATAAATAAAATGCATAACGGTGCATTAAAGGAATGGAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * * *
2724466 ATAAATAAAATACATAACGGTGCATTAAAGGAATGGAAGAATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
*
2724511 ATAAATAAAATGCATAATGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
2724556 ATAAATAAAATGCATAACGATGCATTAAAGGCATGAATGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * * *
2724601 ATAAATAAAATGCATAACGCTGCATTAAAGTCATAAAAGGATGCA
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
2724646 ATAAATAAAATGCATAACGGTACATTAAAGGCATGAATGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
2724691 ATAAATAAAATGCATAACGGTGCATTAAAGGAATAAAAGGATGCC
1 ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
2724736 ATAAATGAAAAT
1 ATAAAT-AAAAT
2724748 AATGAATAAT
Statistics
Matches: 497, Mismatches: 54, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
45 492 0.99
46 5 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (45 bp):
ATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
Found at i:2728245 original size:3 final size:3
Alignment explanation
Indices: 2728237--2728303 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
2728227 CTATTTTAAA
* * * *
2728237 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT CTT ATA AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2728285 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
2728304 AAATATATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2729821 original size:15 final size:17
Alignment explanation
Indices: 2729792--2729826 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
2729782 AAATAAAATA
2729792 TTATATTTAATTTATTT
1 TTATATTTAATTTATTT
2729809 TTAT-TTTAA-TTATTT
1 TTATATTTAATTTATTT
2729824 TTA
1 TTA
2729827 AAGGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTAATTTATTT
Found at i:2730492 original size:6 final size:7
Alignment explanation
Indices: 2730477--2730503 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2730467 TTTCGAATTG
2730477 AAAATAA
1 AAAATAA
2730484 AAAATAA
1 AAAATAA
2730491 AAAATAA
1 AAAATAA
2730498 AAAATA
1 AAAATA
2730504 GGGATAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:2745817 original size:20 final size:21
Alignment explanation
Indices: 2745792--2745839 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
2745782 TAGCCAGTTG
*
2745792 GTATCGATTCCT-AGAGATTA
1 GTATCGATTACTCAGAGATTA
*
2745812 GTATCGA-TACTCAGAGGTTA
1 GTATCGATTACTCAGAGATTA
2745832 GTATCGAT
1 GTATCGAT
2745840 ACTAAAGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
GTATCGATTACTCAGAGATTA
Found at i:2745840 original size:20 final size:20
Alignment explanation
Indices: 2745804--2745842 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2745794 ATCGATTCCT
2745804 AGAGATTAGTATCGATACTC
1 AGAGATTAGTATCGATACTC
*
2745824 AGAGGTTAGTATCGATACT
1 AGAGATTAGTATCGATACT
2745843 AAAGGGCTTA
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:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
AGAGATTAGTATCGATACTC
Found at i:2745855 original size:21 final size:20
Alignment explanation
Indices: 2745804--2745858 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
2745794 ATCGATTCCT
* *
2745804 AGAGATTAGTATCGATACTC
1 AGAGGTTAGTATCGATACTA
2745824 AGAGGTTAGTATCGATACTA
1 AGAGGTTAGTATCGATACTA
2745844 A-AGGGCTTAGTATCG
1 AGA-GG-TTAGTATCG
2745859 GTACCCACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 21 0.68
21 9 0.29
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (20 bp):
AGAGGTTAGTATCGATACTA
Found at i:2750294 original size:65 final size:63
Alignment explanation
Indices: 2750182--2750383 Score: 203
Period size: 65 Copynumber: 3.1 Consensus size: 63
2750172 AGTGATACAC
* * * ** * *
2750182 CGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACATCAAATGCATTTCATGCA
1 CGATGCA-CAA-CCATGCATCGATGCACTAAGGA-TATTTTGAAACATCGAATGCATTTGATGCA
2750246 T
63 T
2750247 CGATGCACATACCATGCA-CTGATGCACTAAGGAT-TTTATGAAAACATCGAATGCATTTGATGC
1 CGATGCACA-ACCATGCATC-GATGCACTAAGGATATTT-TG-AAACATCGAATGCATTTGATGC
2750310 AT
62 AT
** * * *
2750312 CGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGAAT
1 CGATGCA-CAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATTTGATGCAT
2750376 CGATGCAC
1 CGATGCAC
2750384 TCTTAGTGCA
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 48 0.41
65 57 0.49
66 6 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (63 bp):
CGATGCACAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATTTGATGCAT
Found at i:2758850 original size:20 final size:20
Alignment explanation
Indices: 2758825--2758880 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
2758815 TTTCAGAGTA
2758825 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
2758845 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
2758865 ATGCATCGATGCACCA
1 ATGCACCGATGCACCA
2758881 TGAATTAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.16
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:2758940 original size:64 final size:64
Alignment explanation
Indices: 2758844--2758988 Score: 157
Period size: 65 Copynumber: 2.2 Consensus size: 64
2758834 TGCACCAATC
* ** * *
2758844 CATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAGATTG-AACATCGAATGCATT
1 CATGCATCGATGCACTTA-CCATGCACCGATGCACCAAGAATTAGA-TGAAACATCGAATGCATT
2758908 T
64 T
* * * **
2758909 CATGCATTGATGCACTTACCATGCACCGATGCACTAAGGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTTACCATGCACCGATGCACCAAGAATTAGATG-AAACATCGAATGCATTT
*
2758974 GATGCATCGATGCAC
1 CATGCATCGATGCAC
2758989 CAGCTATGCA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
63 2 0.03
64 21 0.32
65 43 0.65
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (64 bp):
CATGCATCGATGCACTTACCATGCACCGATGCACCAAGAATTAGATGAAACATCGAATGCATTT
Found at i:2758962 original size:65 final size:65
Alignment explanation
Indices: 2758893--2759054 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 65
2758883 AATTAGATTG
* * *
2758893 AACATCGAATGCATTTCATGCATTGATGCACTTA-CCATGCACCGATGCACTAAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTAAGGATATTT-TG
2758956 AA
65 -A
* * ** *
2758958 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCTATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTAAGGATATTTTGA
* *
2759022 AACATCGAATGCACTTGATGCATCGGTGCACTC
1 AACATCGAATGCATTTGATGCATCGATGCACTC
2759055 TTAGTGCACC
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 31 0.37
65 50 0.60
66 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTAAGGATATTTTGA
Found at i:2759068 original size:64 final size:64
Alignment explanation
Indices: 2758893--2759076 Score: 185
Period size: 65 Copynumber: 2.8 Consensus size: 64
2758883 AATTAGATTG
* * * * *
2758893 AACATCGAATGCATTTCATGCATTGATGCACTTACCATGCACCGATGCACTAAGGATTTTATGAA
1 AACATCGAATGCACTTGATGCATCGATGCAC-CACTATGCACCGATGCACTAAGGATTTTATGAA
* * ** *
2758958 AACATCGAATGCATTTGATGCATCGATGCACCAGCTATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCACTTGATGCATCGATGCACCA-CTATGCACCGATGCACTAAGGAT-TTTATGA
2759021 A
64 A
* * *
2759022 AACATCGAATGCACTTGATGCATCGGTGCACTC-TTAGTGCACCGATGTACTAAGG
1 AACATCGAATGCACTTGATGCATCGATGCAC-CACTA-TGCACCGATGCACTAAGG
2759077 GTCTAACGGT
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 45 0.45
65 50 0.50
66 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCACTTGATGCATCGATGCACCACTATGCACCGATGCACTAAGGATTTTATGAA
Found at i:2760531 original size:21 final size:21
Alignment explanation
Indices: 2760505--2760548 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2760495 GTGCTATGTC
2760505 TTAGAAACAAAGGATTCTGTT
1 TTAGAAACAAAGGATTCTGTT
2760526 TTAGAAACAAAGGATTCTGTT
1 TTAGAAACAAAGGATTCTGTT
2760547 TT
1 TT
2760549 GTTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (21 bp):
TTAGAAACAAAGGATTCTGTT
Found at i:2771882 original size:987 final size:987
Alignment explanation
Indices: 2769969--2771939 Score: 3451
Period size: 987 Copynumber: 2.0 Consensus size: 987
2769959 TGATCATAAA
* *
2769969 GTGGAAAAATGTATGTGATTGTGTGATTTTCCAAGGAAGCTAATTGTGCATGTGTGCTTGTGATT
1 GTGGAAAAATGTATGTGATTGTGTGATTTTACAAGGAAGCTAATTGTGCATGTGTGCTTGTGATC
2770034 TCTTTGAACTATATGGTCCTTGATGTTTGTTTAATCTGGAAATCAAGTGATTTGGAAAACATTAT
66 TCTTTGAACTATATGGTCCTTGATGTTTGTTTAATCTGGAAATCAAGTGATTTGGAAAACATTAT
*
2770099 CTGATCACTCAAGCATGAGATGTTGAATTATATGTGTGGAGTAAAGAACATGTTACGTACGAACA
131 CTGATCACTCAAGCATGAGATGTTGAATTATATGTGTGGAGTAAAGAACACGTTACGTACGAACA
* *
2770164 TATATGATTGATCTTTATCTTGGTTATATGCATTGCTTTGGATGTGAATTGTTCACTAGGCTTTA
196 TATAGGATTGATCTTTATCTTGGTTATATGCATTGCTTTGAATGTGAATTGTTCACTAGGCTTTA
* *
2770229 CAAGCTCACACTCTATGTTAAGATTTACAAAGGATTAGAGTTGAGGTTGGAGGTGAAGAGCTTAG
261 CAAACTCACACTCTATGTTAACATTTACAAAGGATTAGAGTTGAGGTTGGAGGTGAAGAGCTTAG
* *
2770294 CATCAATGTGATCAAGCAAGGCTAAGTCATAAAACTATAAATATGTAGTTTTTGGAAGCTGTGTG
326 CATCAATGTGATCAAGCAAGGCTAAGTCATAAAACTATAAATACGTAGTTTTTGGAAACTGTGTG
*
2770359 TGGTAATTTAGGGACATATGGACTTAAACCTACTATTCACTTTGTTGGACTTATAATGTTGGATT
391 TGGCAATTTAGGGACATATGGACTTAAACCTACTATTCACTTTGTTGGACTTATAATGTTGGATT
*
2770424 TTGGTGTGTAATAAGTGGATTTATGTTTGTGATTTTATGTTTGTTTGATTCGTTGAATTTGGATT
456 TTGGTGTGTAATAACTGGATTTATGTTTGTGATTTTATGTTTGTTTGATTCGTTGAATTTGGATT
2770489 TATAACTATGAACTTGTTGCTTTAAGCATAAGATTAATCAAATATTGTTTTAGTCCTTAAAATGT
521 TATAACTATGAACTTGTTGCTTTAAGCATAAGATTAATCAAATATTGTTTTAGTCCTTAAAATGT
* *
2770554 TTTTGGAGTGTTTAGTTAAGTGTAAATTGGAAACCTAAACGTGTTTGAATCTTAAGTTACATGAA
586 TTTTGGAGTGTTTAGTTAAGTGTAAATTAGAAACCTAAACGTGTTAGAATCTTAAGTTACATGAA
* * *
2770619 ACGACCTTAAATGCCAAAAATGAGTAGGTGACTTATGCTTGAAATGAACTTTTATGCAATTGTTT
651 ACGACCTTAAATGCAAAAAATGAGTAGGTGACTTATGCTTGAAATGAACTTATATGCAATTGTTG
* *
2770684 ACTCTTGGTGTCAAATCCCTAATTAATGTGTTGTCTTGTGTTATAAAGCATGTTATACCTTTGTT
716 ACTCTTGGTGTCAAATCCCTAATTAATGTGTTGACTTATGTTATAAAGCATGTTATACCTTTGTT
*
2770749 TTGACATGTATGTAGTGGTTGAATATTGTACAAGCAAGATCCTAGTCCATTATTACTTTTACGTA
781 TTGACATGTATGAAGTGGTTGAATATTGTACAAGCAAGATCCTAGTCCATTATTACTTTTACGTA
*
2770814 GGTGATTAGTTAACCAAATTTTCATGTTCTTGATAAATATGTAGTTTTTCAGAAAAAGGGTAAAT
846 GGTGATTAGTTAACCAAATTTGCATGTTCTTGATAAATATGTAGTTTTTCAGAAAAAGGGTAAAT
*
2770879 CCCTTAGGAGATAGGATCGATCCCAAAGTTTCTGTTTTGCAAAGAATCAATTCATTTTCAAAAGA
911 CCCTTAGGAGATAGGATCGATCCCAAAGTTTCTATTTTGCAAAGAATCAATTCATTTTCAAAAGA
2770944 ATCGATCCCAAT
976 ATCGATCCCAAT
*
2770956 GTGGAAAAATGTATGTGATTGTGTGATTTTACAAGGAAGGTAATTGTGCATGTGTGCTTGTGATC
1 GTGGAAAAATGTATGTGATTGTGTGATTTTACAAGGAAGCTAATTGTGCATGTGTGCTTGTGATC
2771021 TCTTTGAACTATATGGTCCTTGATGTTTGTTTAATCTGGAAATCAAGTGATTTGGAAAACATTAT
66 TCTTTGAACTATATGGTCCTTGATGTTTGTTTAATCTGGAAATCAAGTGATTTGGAAAACATTAT
* * *
2771086 CTGATCACTCAGGCATGAGCTGTTGAATTATATGTGTGGAGTAAAGAACACGTTATGTACGAACA
131 CTGATCACTCAAGCATGAGATGTTGAATTATATGTGTGGAGTAAAGAACACGTTACGTACGAACA
* *
2771151 TATAGGATTGATCTTTATCTTTGTTATATGCATTGCTTTGAATGTTAATTGTTCACTAGGCTTTA
196 TATAGGATTGATCTTTATCTTGGTTATATGCATTGCTTTGAATGTGAATTGTTCACTAGGCTTTA
* * *
2771216 CAAACTCACACTC-ATTGTTAACATTTACAAAGGATTAGAGTTGTGTTTGGAGGTGAAGAGCTTG
261 CAAACTCACACTCTA-TGTTAACATTTACAAAGGATTAGAGTTGAGGTTGGAGGTGAAGAGCTTA
** * ** * *
2771280 GCATCGTTGTGATCAAGCAAGGCTAAGTCATAAAATTATACGTACGTGGTTTTTGGAAACTTTGT
325 GCATCAATGTGATCAAGCAAGGCTAAGTCATAAAACTATAAATACGTAGTTTTTGGAAACTGTGT
2771345 GTGGCAATTTAGGGACATATGGACTTAAACCTACTATTCACTTTGTTGGACTTATAATGTTGGAT
390 GTGGCAATTTAGGGACATATGGACTTAAACCTACTATTCACTTTGTTGGACTTATAATGTTGGAT
*
2771410 TTTGGTGTGTAATAACTGGATTTATGTTTGTTATTTTATG-TTGTTTTGATTCGTTGAATTTGGA
455 TTTGGTGTGTAATAACTGGATTTATGTTTGTGATTTTATGTTTG-TTTGATTCGTTGAATTTGGA
2771474 TTTATAACTATGAACTTGTTGCTTTAAGCATAAGATTAATCAAATATTGTTTTAGTCCTTAAAAT
519 TTTATAACTATGAACTTGTTGCTTTAAGCATAAGATTAATCAAATATTGTTTTAGTCCTTAAAAT
2771539 GTTTTTGGAGTGTTTAGTTAAGTGTAAATTAGAAACCTAAACGTGTTAGAATCTTAAGTTACATG
584 GTTTTTGGAGTGTTTAGTTAAGTGTAAATTAGAAACCTAAACGTGTTAGAATCTTAAGTTACATG
* *
2771604 ACACGACCTTAAATGCAAAAAATGAGTAGGTTACTTATGCTTGAAATGAACTTATATGCAATTGT
649 AAACGACCTTAAATGCAAAAAATGAGTAGGTGACTTATGCTTGAAATGAACTTATATGCAATTGT
2771669 TGACTCTTGGTGTCAAATCCCTAATTAATGTGTTGACTTATGTTATAAAGCATGTTATACCTTTG
714 TGACTCTTGGTGTCAAATCCCTAATTAATGTGTTGACTTATGTTATAAAGCATGTTATACCTTTG
* * *
2771734 TTTTGATATGTATGAAGTGGTTGAATATTGTTCAAGCAAGATCCTAGTCCATTATTACTTTTATG
779 TTTTGACATGTATGAAGTGGTTGAATATTGTACAAGCAAGATCCTAGTCCATTATTACTTTTACG
* * * * **
2771799 TAGGTTATTAGTTGACCAAATTTGCATGTTTTTGATAAATATGTAGTTTTTCAGAAAAATGGTCG
844 TAGGTGATTAGTTAACCAAATTTGCATGTTCTTGATAAATATGTAGTTTTTCAGAAAAAGGGTAA
* *
2771864 ATCCTTTAGGAGATAGGATCGATCCCAAAGTTTCTATTTTGCTAAGAATCAATTCATTTTCAAAA
909 ATCCCTTAGGAGATAGGATCGATCCCAAAGTTTCTATTTTGCAAAGAATCAATTCATTTTCAAAA
2771929 GAATCGATCCC
974 GAATCGATCCC
2771940 TTTCAGGAAA
Statistics
Matches: 931, Mismatches: 51, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
986 4 0.00
987 927 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (987 bp):
GTGGAAAAATGTATGTGATTGTGTGATTTTACAAGGAAGCTAATTGTGCATGTGTGCTTGTGATC
TCTTTGAACTATATGGTCCTTGATGTTTGTTTAATCTGGAAATCAAGTGATTTGGAAAACATTAT
CTGATCACTCAAGCATGAGATGTTGAATTATATGTGTGGAGTAAAGAACACGTTACGTACGAACA
TATAGGATTGATCTTTATCTTGGTTATATGCATTGCTTTGAATGTGAATTGTTCACTAGGCTTTA
CAAACTCACACTCTATGTTAACATTTACAAAGGATTAGAGTTGAGGTTGGAGGTGAAGAGCTTAG
CATCAATGTGATCAAGCAAGGCTAAGTCATAAAACTATAAATACGTAGTTTTTGGAAACTGTGTG
TGGCAATTTAGGGACATATGGACTTAAACCTACTATTCACTTTGTTGGACTTATAATGTTGGATT
TTGGTGTGTAATAACTGGATTTATGTTTGTGATTTTATGTTTGTTTGATTCGTTGAATTTGGATT
TATAACTATGAACTTGTTGCTTTAAGCATAAGATTAATCAAATATTGTTTTAGTCCTTAAAATGT
TTTTGGAGTGTTTAGTTAAGTGTAAATTAGAAACCTAAACGTGTTAGAATCTTAAGTTACATGAA
ACGACCTTAAATGCAAAAAATGAGTAGGTGACTTATGCTTGAAATGAACTTATATGCAATTGTTG
ACTCTTGGTGTCAAATCCCTAATTAATGTGTTGACTTATGTTATAAAGCATGTTATACCTTTGTT
TTGACATGTATGAAGTGGTTGAATATTGTACAAGCAAGATCCTAGTCCATTATTACTTTTACGTA
GGTGATTAGTTAACCAAATTTGCATGTTCTTGATAAATATGTAGTTTTTCAGAAAAAGGGTAAAT
CCCTTAGGAGATAGGATCGATCCCAAAGTTTCTATTTTGCAAAGAATCAATTCATTTTCAAAAGA
ATCGATCCCAAT
Found at i:2785972 original size:45 final size:45
Alignment explanation
Indices: 2785918--2786514 Score: 917
Period size: 45 Copynumber: 13.3 Consensus size: 45
2785908 TGGTGTTTAA
** *
2785918 CATAAATAAAATAAATAACGGTGCATTAAAGGCATGAAAGCATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2785963 CATAAATAAAATGCATAATGGTGCATTAAAGGCGTGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
2786008 CATACATAAAATGCATAACGGAGCATTAAAGGCCTGAAAGGATCC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
2786053 CATAAATAAAATGCATAACGGAGAATTGAAGGCGTGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
2786098 CATTAATAAAATGCATAACGGTCCATTAAAGGCCTGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2786143 CATAAATAAAATTCATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2786188 CATAAATAAAATTCATAACGGTACATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2786233 CATAAAT-AAATGCATAGCTGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2786277 CATAAATAAAATGCATAACGGTGTATTAAATGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2786322 CAAAAATAAAATGCATAACGGTGCATTAAAGGCATGAAATGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2786367 CATAAATAAAATGCATAATGGTGCATTAAAGGCATAAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2786412 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGG
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2786457 CATAAATAAAATACATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
2786502 CATAAATGAAAAT
1 CATAAAT-AAAAT
2786515 AATGAGTAAT
Statistics
Matches: 503, Mismatches: 47, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
44 40 0.08
45 458 0.91
46 5 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:2786238 original size:21 final size:21
Alignment explanation
Indices: 2786214--2786282 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2786204 AACGGTACAT
2786214 TAAAGGCATGAAAGGATGCCA
1 TAAAGGCATGAAAGGATGCCA
*** *
2786235 TAAATAAATGCATAGCTG-TG-CA
1 TAAAGGCATG-AAAG--GATGCCA
2786257 TTAAAGGCATGAAAGGATGCCA
1 -TAAAGGCATGAAAGGATGCCA
2786279 TAAA
1 TAAA
2786283 TAAAATGCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 10 0.29
23 9 0.26
24 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (21 bp):
TAAAGGCATGAAAGGATGCCA
Found at i:2786386 original size:24 final size:24
Alignment explanation
Indices: 2786359--2786429 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
2786349 AAAGGCATGA
2786359 AATGATGCCATAAATAAAATGCAT
1 AATGATGCCATAAATAAAATGCAT
* *
2786383 AATGGTG-CAT---T-AAAGGCAT
1 AATGATGCCATAAATAAAATGCAT
*
2786402 AAAAGGATGCCATAAATAAAATGCAT
1 --AATGATGCCATAAATAAAATGCAT
2786428 AA
1 AA
2786430 CGGTGCATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 7 0.20
20 1 0.03
21 5 0.14
22 3 0.09
23 3 0.09
24 8 0.23
25 1 0.03
26 7 0.20
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (24 bp):
AATGATGCCATAAATAAAATGCAT
Found at i:2788266 original size:2 final size:2
Alignment explanation
Indices: 2788259--2788323 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
2788249 GATGTCAGAA
2788259 AT AT AT AT AT 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 AT AT AT AT AT
2788301 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2788324 GTTTTTATGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2790915 original size:17 final size:17
Alignment explanation
Indices: 2790893--2790954 Score: 124
Period size: 17 Copynumber: 3.6 Consensus size: 17
2790883 CTTGTGCAAT
2790893 GGGTATCGATATTGGTG
1 GGGTATCGATATTGGTG
2790910 GGGTATCGATATTGGTG
1 GGGTATCGATATTGGTG
2790927 GGGTATCGATATTGGTG
1 GGGTATCGATATTGGTG
2790944 GGGTATCGATA
1 GGGTATCGATA
2790955 CTACAAACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.19, C:0.06, G:0.40, T:0.34
Consensus pattern (17 bp):
GGGTATCGATATTGGTG
Found at i:2791470 original size:45 final size:45
Alignment explanation
Indices: 2791401--2791862 Score: 692
Period size: 45 Copynumber: 10.3 Consensus size: 45
2791391 TTCTATTTAA
* * *
2791401 CATAAGTAAAATACATAACGGTGCAATAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
2791446 CATAAATAAAATGTATAACAGTGCATTAAAGGCAT-AAATGATGT
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2791490 CATAAATAAAATGCATAACGGAGCATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
2791535 CATAAATAAAATGTATAACAGTGCATTAAATGCATGAAATGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
2791580 CATAAATAAAATACATAATGGTGCATTAAAGGCATGAAAGGATTC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2791625 CATAAATAAAATGCCTAACGGTGCATTAAAGGCATTAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
2791670 CATAAATAAAATACATAACGGTGCATTAAAGGCATGGAATGATGT
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2791715 CATAAATAAAATGCATAACAGTGCATTAAAGGCATGAAAAGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2791760 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAATGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
2791805 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
2791850 CATAAATGAAAAT
1 CATAAAT-AAAAT
2791863 AAAGAATAAT
Statistics
Matches: 371, Mismatches: 44, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
44 39 0.11
45 327 0.88
46 5 0.01
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (45 bp):
CATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:2794475 original size:16 final size:16
Alignment explanation
Indices: 2794454--2794486 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2794444 AAAAAAAATT
2794454 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2794470 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2794486 T
1 T
2794487 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2796856 original size:21 final size:22
Alignment explanation
Indices: 2796818--2796864 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
2796808 GTCATTGTAT
2796818 TTATGCTTATTTTATTTTTA-TG
1 TTATGCTTA-TTTATTTTTATTG
2796840 TTATG-TTATGTT-TTTTTATTG
1 TTATGCTTAT-TTATTTTTATTG
2796861 TTAT
1 TTAT
2796865 TAGATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (22 bp):
TTATGCTTATTTATTTTTATTG
Found at i:2798770 original size:240 final size:233
Alignment explanation
Indices: 2798222--2798841 Score: 642
Period size: 235 Copynumber: 2.6 Consensus size: 233
2798212 TTACTAAGTC
* *
2798222 TTTCGAGCATGATAC-TCAAATCATTC-GGTTCAT-ATATAAGTATTTCAAGCAAGATGATAAGT
1 TTTCGAGCATGATGCGT-AAATCCTTCAGG-TCATCA-ATAAGTATTTCAAGCAAGATGATAAGT
* * * * * * *
2798284 CCTTCAGGTCATCCATAAAACCTTCAGGCAGGATGTTTCACATGA-TTTCTGAAAAATGAGAATG
63 CCTTCGGGCCATCCATAAGACCTTCAGGTAGGATCTTTCACATGATTTTC-G-AAAATGAAAAAG
* * * * *
2798348 CGATTTCCACAGTTTCTCATTTAAATCTTTTATGATAACTGACTTTTCTGAAAAGTAAGAAAGTG
126 CGATTTCCAAAGTTTCTTATTTAAATATTTTATGAAAACTGACTTTTCTGAAAAGTAAGAAAGTA
* * *
2798413 ATTTCCAAAGTTTTTTATAAGTCGTTCGAGCCATCAGTGAGTC
191 ATTTCCAAAGTTTTTGATAAGTCCTTCGAGCCATCAGTGAGTA
* * ** *
2798456 TTTCGAGCATGATGCGTAAATCCTTTAGGTCATCTATATTTTTTTCGAAGCAAGATGATAAGTCC
1 TTTCGAGCATGATGCGTAAATCCTTCAGGTCATCAATAAGTATTTC-AAGCAAGATGATAAGTCC
* ** * * * **
2798521 TTCGGGCCATCCATACGACCTTTGGGTTGGATATTTTCACATAATTTTCGAAAATGAAAAAGATA
65 TTCGGGCCATCCATAAGACCTTCAGGTAGGAT-CTTTCACATGATTTTCGAAAATGAAAAAGCGA
* * * *
2798586 TTTCCAAAGTTTCTTATTTTAATATTTTCTGAAAATTGATTTTTCTTGAAAA-TAAAGAAAGTAA
129 TTTCCAAAGTTTCTTATTTAAATATTTTATGAAAACTGACTTTTC-TGAAAAGT-AAGAAAGTAA
*
2798650 TTTCCAAAGGTTCTTACTGAGTAAGTCCTTCGGGCCATCAGT-AGGTA
192 TTTCCAAA-GTT-TT--TGA-TAAGTCCTTCGAGCCATCAGTGA-GTA
* * ** *
2798697 TTTTGAGGATGATGTTTAAATCCTTCAGGTCATCAATAAGTCTTTCAAGCAAGATGATAAGTCCT
1 TTTCGAGCATGATGCGTAAATCCTTCAGGTCATCAATAAGTATTTCAAGCAAGATGATAAGTCCT
* *
2798762 TCGGGCCATCCATAGGACCTTCAGGTAGGATGCTTTCACATGATTTTTGAAAAT-AAGAAAGCGA
66 TCGGGCCATCCATAAGACCTTCAGGTAGGAT-CTTTCACATGATTTTCGAAAATGAA-AAAGCGA
**
2798826 TTTCTGAAGTTTCTTA
129 TTTCCAAAGTTTCTTA
2798842 CTGAGTAATT
Statistics
Matches: 316, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
234 33 0.10
235 94 0.30
236 33 0.10
237 7 0.02
238 2 0.01
239 2 0.01
240 87 0.28
241 58 0.18
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (233 bp):
TTTCGAGCATGATGCGTAAATCCTTCAGGTCATCAATAAGTATTTCAAGCAAGATGATAAGTCCT
TCGGGCCATCCATAAGACCTTCAGGTAGGATCTTTCACATGATTTTCGAAAATGAAAAAGCGATT
TCCAAAGTTTCTTATTTAAATATTTTATGAAAACTGACTTTTCTGAAAAGTAAGAAAGTAATTTC
CAAAGTTTTTGATAAGTCCTTCGAGCCATCAGTGAGTA
Found at i:2798934 original size:176 final size:176
Alignment explanation
Indices: 2798628--2799004 Score: 470
Period size: 176 Copynumber: 2.1 Consensus size: 176
2798618 AAATTGATTT
** *
2798628 TTCTTGAAAATAAAGAAAGTAATTTCCAAAGGTTCTTACTGAGTAAGTCCTTCGGGCCATCAGTA
1 TTCTTGAAAAT-AAGAAAGCGATTTCCAAAGGTTCTTACTGAGTAAGTCCATCGGGCCATCAGTA
* ** * *
2798693 GGTATTTTGAGGATGATGTTTAAATCCTTCAGGTCATCAATAAGTCTTTCAAGCAAGATGATAAG
65 AGTATTTCAAGCATGATGTTTAAATCATTCAGGTCATCAATAAGTCTTTCAAGCAAGATGATAAG
* * *
2798758 TCCTTCGGGCCATCCATAGGACCTTCAGGTAGGATGCTTTCACATGA
130 TCCTTCGGGCCATCCATAAGACCTTCAGGCAGAATGCTTTCACATGA
* ** * * *
2798805 TTTTTGAAAATAAGAAAGCGATTTCTGAAGTTTCTTACTGAGTAATTCGATCGGGCCATCAGTAA
1 TTCTTGAAAATAAGAAAGCGATTTCCAAAGGTTCTTACTGAGTAAGTCCATCGGGCCATCAGTAA
* * * **
2798870 GTCTTTCAAGCATGATGTTTAAATCATT-TGGATCAT-ATTTAAGTCTTTTGAGCAAGATGATAA
66 GTATTTCAAGCATGATGTTTAAATCATTCAGG-TCATCA-ATAAGTCTTTCAAGCAAGATGATAA
* * *
2798933 GTCCTTCGGGTCATCTATAAGACCTTCAGGCAGAATGTTTTCACATGA
129 GTCCTTCGGGCCATCCATAAGACCTTCAGGCAGAATGCTTTCACATGA
**
2798981 TTCTAAAAAATAAGAAAGCGATTT
1 TTCTTGAAAATAAGAAAGCGATTT
2799005 TAAAAGTTAT
Statistics
Matches: 170, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
175 3 0.02
176 157 0.92
177 10 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (176 bp):
TTCTTGAAAATAAGAAAGCGATTTCCAAAGGTTCTTACTGAGTAAGTCCATCGGGCCATCAGTAA
GTATTTCAAGCATGATGTTTAAATCATTCAGGTCATCAATAAGTCTTTCAAGCAAGATGATAAGT
CCTTCGGGCCATCCATAAGACCTTCAGGCAGAATGCTTTCACATGA
Found at i:2801380 original size:45 final size:45
Alignment explanation
Indices: 2801319--2801405 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
2801309 AAAAATAAAG
2801319 TATATATATATATAACTAATTATTTACCAAAAAACCAATACAATA
1 TATATATATATATAACTAATTATTTACCAAAAAACCAATACAATA
2801364 TATATATATATATAACTAATTATTTACCAAAAAACCAATACA
1 TATATATATATATAACTAATTATTTACCAAAAAACCAATACA
2801406 GTTACACAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (45 bp):
TATATATATATATAACTAATTATTTACCAAAAAACCAATACAATA
Found at i:2801489 original size:25 final size:25
Alignment explanation
Indices: 2801436--2801495 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2801426 AATTAATTCT
*
2801436 CACAATTAATAGCACACTTAACATT
1 CACAATTAATAGCACACTTAACATC
*
2801461 CACAATTAATATTCACAAC-TAACA-C
1 CACAATTAATA-GCAC-ACTTAACATC
2801486 CACAATTAAT
1 CACAATTAAT
2801496 GATATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 21 0.68
26 8 0.26
27 2 0.06
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.27
Consensus pattern (25 bp):
CACAATTAATAGCACACTTAACATC
Found at i:2801531 original size:13 final size:13
Alignment explanation
Indices: 2801435--2801544 Score: 75
Period size: 13 Copynumber: 8.8 Consensus size: 13
2801425 TAATTAATTC
2801435 TCACAATTAAT-A
1 TCACAATTAATAA
* * * *
2801447 GCACACTTAACAT
1 TCACAATTAATAA
*
2801460 TCACAATTAATAT
1 TCACAATTAATAA
* *
2801473 TCACAACTAA-CA
1 TCACAATTAATAA
* *
2801485 CCACAATTAATGA
1 TCACAATTAATAA
* *
2801498 T-ATAATAAATAA
1 TCACAATTAATAA
2801510 -CACAATTAATAA
1 TCACAATTAATAA
* *
2801522 TCACACTTAATAT
1 TCACAATTAATAA
2801535 TCACAATTAA
1 TCACAATTAA
2801545 CAACATAATT
Statistics
Matches: 72, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
12 33 0.46
13 39 0.54
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (13 bp):
TCACAATTAATAA
Found at i:2801650 original size:2 final size:2
Alignment explanation
Indices: 2801643--2801681 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2801633 TTCACAATTA
2801643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2801682 AGCCTAGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2823417 original size:20 final size:23
Alignment explanation
Indices: 2823370--2823423 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 23
2823360 TAATAAGGAT
2823370 AGTATCGATAC-CATAGACTAGA
1 AGTATCGATACTCATAGACTAGA
2823392 AGTATCGATACTCA-A-ACTAG-
1 AGTATCGATACTCATAGACTAGA
2823412 AGTATCGATACT
1 AGTATCGATACT
2823424 ACCTCTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.39
21 5 0.16
22 12 0.39
23 2 0.06
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (23 bp):
AGTATCGATACTCATAGACTAGA
Found at i:2842251 original size:7 final size:7
Alignment explanation
Indices: 2842239--2842371 Score: 266
Period size: 7 Copynumber: 19.0 Consensus size: 7
2842229 GTGGAGGCAA
2842239 AAGCTTC
1 AAGCTTC
2842246 AAGCTTC
1 AAGCTTC
2842253 AAGCTTC
1 AAGCTTC
2842260 AAGCTTC
1 AAGCTTC
2842267 AAGCTTC
1 AAGCTTC
2842274 AAGCTTC
1 AAGCTTC
2842281 AAGCTTC
1 AAGCTTC
2842288 AAGCTTC
1 AAGCTTC
2842295 AAGCTTC
1 AAGCTTC
2842302 AAGCTTC
1 AAGCTTC
2842309 AAGCTTC
1 AAGCTTC
2842316 AAGCTTC
1 AAGCTTC
2842323 AAGCTTC
1 AAGCTTC
2842330 AAGCTTC
1 AAGCTTC
2842337 AAGCTTC
1 AAGCTTC
2842344 AAGCTTC
1 AAGCTTC
2842351 AAGCTTC
1 AAGCTTC
2842358 AAGCTTC
1 AAGCTTC
2842365 AAGCTTC
1 AAGCTTC
2842372 GAACGTGTGA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 126 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
AAGCTTC
Found at i:2844120 original size:14 final size:13
Alignment explanation
Indices: 2844092--2844185 Score: 57
Period size: 13 Copynumber: 7.0 Consensus size: 13
2844082 AATTTTTCTT
2844092 TTTAGG-TTTAAGG
1 TTTAGGATTT-AGG
2844105 TTTAGGATTTAGGG
1 TTTAGGATTTA-GG
* *
2844119 TTTAAGATTTATGA
1 TTTAGGATTTA-GG
*
2844133 TTTAAGG-TTTAAGA
1 TTT-AGGATTT-AGG
*
2844147 TTTATGATTTAGG
1 TTTAGGATTTAGG
* *
2844160 TTTAGGGTTTAGC
1 TTTAGGATTTAGG
* *
2844173 CTTAGAATTTAGG
1 TTTAGGATTTAGG
2844186 GTTTGAGGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
13 30 0.48
14 30 0.48
15 3 0.05
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.46
Consensus pattern (13 bp):
TTTAGGATTTAGG
Found at i:2844122 original size:21 final size:20
Alignment explanation
Indices: 2844092--2844163 Score: 99
Period size: 21 Copynumber: 3.5 Consensus size: 20
2844082 AATTTTTCTT
*
2844092 TTTAGGTTTAAGGTTTAGGA
1 TTTAGGTTTAAGATTTAGGA
*
2844112 TTTAGGGTTTAAGATTTATGA
1 TTTA-GGTTTAAGATTTAGGA
*
2844133 TTTAAGGTTTAAGATTTATGA
1 TTT-AGGTTTAAGATTTAGGA
2844154 TTTAGGTTTA
1 TTTAGGTTTA
2844164 GGGTTTAGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.23
21 36 0.75
22 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
TTTAGGTTTAAGATTTAGGA
Found at i:2844171 original size:7 final size:7
Alignment explanation
Indices: 2844095--2844170 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
2844085 TTTTCTTTTT
2844095 AGGTTTA
1 AGGTTTA
2844102 AGGTTT-
1 AGGTTTA
2844108 AGGATTTA
1 AGG-TTTA
*
2844116 GGGTTTA
1 AGGTTTA
*
2844123 AGATTTA
1 AGGTTTA
* *
2844130 TGATTTA
1 AGGTTTA
2844137 AGGTTTA
1 AGGTTTA
*
2844144 AGATTTA
1 AGGTTTA
* *
2844151 TGATTT-
1 AGGTTTA
2844157 AGGTTTA
1 AGGTTTA
*
2844164 GGGTTTA
1 AGGTTTA
2844171 GCCTTAGAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
6 7 0.13
7 46 0.84
8 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (7 bp):
AGGTTTA
Found at i:2846325 original size:21 final size:22
Alignment explanation
Indices: 2846299--2846346 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2846289 AGAAAAATAC
* * *
2846299 AAAAAG-AAGAGACCAAAGGAA
1 AAAAAGAAAGAAACAAAAAGAA
2846320 AAAAAGAAAGAAACAAAAAGAA
1 AAAAAGAAAGAAACAAAAAGAA
2846342 AAAAA
1 AAAAA
2846347 TCAACAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAGAAACAAAAAGAA
Found at i:2848107 original size:18 final size:18
Alignment explanation
Indices: 2848074--2848109 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2848064 GTAGAACACA
* *
2848074 TATGTCCCGTAGGACCAC
1 TATGTCCCGAAAGACCAC
2848092 TATGTCCCGAAAGACCAC
1 TATGTCCCGAAAGACCAC
2848110 GTAGAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (18 bp):
TATGTCCCGAAAGACCAC
Found at i:2849310 original size:21 final size:21
Alignment explanation
Indices: 2849278--2849320 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2849268 TGCTTCTTTA
2849278 ATTGAGAGTGCATCGATACAC
1 ATTGAGAGTGCATCGATACAC
*
2849299 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATACAC
2849320 A
1 A
2849321 CAACCCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATACAC
Found at i:2852413 original size:8 final size:8
Alignment explanation
Indices: 2852400--2852431 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
2852390 TTTCTTCCAT
2852400 CACCATAC
1 CACCATAC
2852408 CACCATAC
1 CACCATAC
*
2852416 CACCATTC
1 CACCATAC
2852424 CACCATAC
1 CACCATAC
2852432 AAATACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (8 bp):
CACCATAC
Found at i:2853829 original size:83 final size:82
Alignment explanation
Indices: 2853732--2853953 Score: 232
Period size: 83 Copynumber: 2.7 Consensus size: 82
2853722 ACTTTAGCGA
* *
2853732 CGTTTCTTCAACAAACGCTGTGATAGAGTTGTACTTTAGCGGCGTTTTTATACAAACGCCGCAAT
1 CGTTT-TTCAACAAACACCGTGATAGAGTTGTACTTTAGCGGCGTTTTTATACAAACGCCGCAAT
* *
2853797 AAGGATCGTTTATAATGG
65 AAGGATCATTCATAATGG
* ** * *
2853815 CGTTTTTCTAACAAACTCCACGATAGA-TTAGTACTTTAGCGGCATTTTTATACAAACGCTGCAA
1 CGTTTTTC-AACAAACACCGTGATAGAGTT-GTACTTTAGCGGCGTTTTTATACAAACGCCGCAA
* * *
2853879 TAGGGTTCATTCATATTGG
64 TAAGGATCATTCATAATGG
* * * * *
2853898 CGTTTTCCCAACAAACACCGTGATAAAG-AGTACTTTAGTGGTGTTTTTTATACAAA
1 CGTTTT-TCAACAAACACCGTGATAGAGTTGTACTTTAGCGGCG-TTTTTATACAAA
2853954 TGCAGTAATA
Statistics
Matches: 114, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
82 16 0.14
83 97 0.85
84 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (82 bp):
CGTTTTTCAACAAACACCGTGATAGAGTTGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATA
AGGATCATTCATAATGG
Found at i:2856819 original size:43 final size:42
Alignment explanation
Indices: 2856775--2857103 Score: 363
Period size: 43 Copynumber: 7.7 Consensus size: 42
2856765 GTAATTAGCG
* * * ** *
2856775 GCGTTTGTATCAAAAAATGCAGCTATAGATATGATATTTTGCG
1 GCGTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTTGCA
* *
2856818 GCGTTTGTATCCAAAAACGCCGCCATAGATCTGACCTTTTGCA
1 GCGTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTTGCA
* * *
2856861 ACGTTTGCTCC-AAAACGCCGCTATAGATATCAACCTTTTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTTGCA
* * * * * * *
2856903 ACGTTTGTTCAAAAAACGCAGCTATAGATTTTACCTTTTACG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGCA
* *
2856945 GCGTTTGTATCCTAAAACGCCGCTATAGATATCAACCTTTTGCA
1 GCGTTTGT-TCCAAAAACGCCGCTATAGATAT-GACCTTTTGCA
*
2856989 GCGTTTGTTCCAAAAACGTCGCTATAGATATTGACCTTTTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATA-TGACCTTTTGCA
* * *
2857032 GCGTTTATTCCAAAAACGCCGCTATAGATAGCGACCTTTTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATA-TGACCTTTTGCA
*
2857075 GCGTTTGTTCCAAAAACGCCGCGATAGAT
1 GCGTTTGTTCCAAAAACGCCGCTATAGAT
2857104 CTTAACCTAT
Statistics
Matches: 243, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
41 17 0.07
42 37 0.15
43 172 0.71
44 17 0.07
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (42 bp):
GCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGCA
Found at i:2856984 original size:86 final size:87
Alignment explanation
Indices: 2856772--2857123 Score: 403
Period size: 86 Copynumber: 4.1 Consensus size: 87
2856762 AAGGTAATTA
* * * * *
2856772 GCGGCGTTTGTATCAAAAAATGCAGCTATAGATATGATA--TTTTGCGGCGTTTGTATCCAAAAA
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATCA-ACCTTTTGCAGCGTTTGT-TCCAAAAA
* *
2856835 CGCCGCCATAGAT-CTGACCTTTT
64 CGCCGCTATAGATATTGACCTTTT
** * * *
2856858 GCAACGTTTG-CTCC-AAAACGCCGCTATAGATATCAACCTTTTGCAACGTTTGTTCAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATCAACCTTTTGCAGCGTTTGTTCCAAAAACG
* *
2856921 CAGCTATAGAT-TTTACCTTTT
66 CCGCTATAGATATTGACCTTTT
* *
2856942 ACGGCGTTTGTATCCTAAAACGCCGCTATAGATATCAACCTTTTGCAGCGTTTGTTCCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATCAACCTTTTGCAGCGTTTGTTCCAAAAACG
*
2857007 TCGCTATAGATATTGACCTTTT
66 CCGCTATAGATATTGACCTTTT
* * * * *
2857029 GCAGCGTTTAT-TCCAAAAACGCCGCTATAGATAGCGACCTTTTGCGGCGTTTGTTCCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATCAACCTTTTGCAGCGTTTGTTCCAAAAACG
* * * *
2857093 CCGCGATAGATCTTAACCTATT
66 CCGCTATAGATATTGACCTTTT
2857115 GCGGCGTTT
1 GCGGCGTTT
2857124 TTTGTTCTCA
Statistics
Matches: 225, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
83 1 0.00
84 51 0.23
85 18 0.08
86 138 0.61
87 17 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (87 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATCAACCTTTTGCAGCGTTTGTTCCAAAAACG
CCGCTATAGATATTGACCTTTT
Found at i:2857056 original size:129 final size:128
Alignment explanation
Indices: 2856784--2857123 Score: 416
Period size: 129 Copynumber: 2.7 Consensus size: 128
2856774 GGCGTTTGTA
* * **
2856784 TCAAAAAATGCAGCTATAGATA-TGATATTTTGCGGCGTTTGTATCCAAAAACGCCGCCATAGAT
1 TCAAAAAACGCAGCTATAGATAGCGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCCATAGAT
* * *
2856848 CTGACCTTTTGCAACGTTTGCTCCAAAACGCCGCTATAGATATCAACCTTTTGCAACGTTTGT
66 CTAACCTTTTGCAGCGTTTGCTCCAAAACGCCGCTATAGATATCAACCTTTTGCAACGTTTAT
*** * * *
2856911 TCAAAAAACGCAGCTATAGAT-TTTACCTTTTACGGCGTTTGTATCCTAAAACGCCGCTATAGAT
1 TCAAAAAACGCAGCTATAGATAGCGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCCATAGAT
* * * ** *
2856975 ATCAACCTTTTGCAGCGTTTGTTCCAAAAACGTCGCTATAGATATTGACCTTTTGCAGCGTTTAT
66 CT-AACCTTTTGCAGCGTTTGCTCC-AAAACGCCGCTATAGATATCAACCTTTTGCAACGTTTAT
* * *
2857040 TCCAAAAACGCCGCTATAGATAGCGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCGATAGAT
1 TCAAAAAACGCAGCTATAGATAGCGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCCATAGAT
* *
2857104 CTTAACCTATTGCGGCGTTT
66 C-TAACCTTTTGCAGCGTTT
2857124 TTTGTTCTCA
Statistics
Matches: 181, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
127 57 0.31
128 19 0.10
129 87 0.48
130 18 0.10
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (128 bp):
TCAAAAAACGCAGCTATAGATAGCGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCCATAGAT
CTAACCTTTTGCAGCGTTTGCTCCAAAACGCCGCTATAGATATCAACCTTTTGCAACGTTTAT
Found at i:2864484 original size:9 final size:9
Alignment explanation
Indices: 2864467--2864502 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
2864457 AATTCCAGTA
2864467 CTGGAATTT
1 CTGGAATTT
*
2864476 CTTGAATTT
1 CTGGAATTT
*
2864485 ATGGAATTT
1 CTGGAATTT
2864494 CTGGAATTT
1 CTGGAATTT
2864503 TTTGTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (9 bp):
CTGGAATTT
Found at i:2864491 original size:18 final size:18
Alignment explanation
Indices: 2864468--2864502 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2864458 ATTCCAGTAC
*
2864468 TGGAATTTCTTGAATTTA
1 TGGAATTTCTGGAATTTA
2864486 TGGAATTTCTGGAATTT
1 TGGAATTTCTGGAATTT
2864503 TTTGTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (18 bp):
TGGAATTTCTGGAATTTA
Found at i:2865126 original size:26 final size:26
Alignment explanation
Indices: 2865076--2865126 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2865066 TATGTGTCAT
* * *
2865076 ATGTTATTATATGTGATATGTTTGAC
1 ATGTTATTATATATGACATGATTGAC
*
2865102 ATGTTATTTTATATGACATGATTGA
1 ATGTTATTATATATGACATGATTGA
2865127 TGTGATCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (26 bp):
ATGTTATTATATATGACATGATTGAC
Found at i:2865551 original size:20 final size:19
Alignment explanation
Indices: 2865523--2865587 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
2865513 TCGGGATAAT
*
2865523 TTTACATGCCTTAGTGGAAA
1 TTTATATGCCTTAGTGG-AA
*
2865543 TTTATATGCCTTAGCGGGAA
1 TTTATATGCCTTAG-TGGAA
*
2865563 TTCATATGCCTTAGTAGGAA
1 TTTATATGCCTTAGT-GGAA
2865583 TTTAT
1 TTTAT
2865588 TCGAGCTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (19 bp):
TTTATATGCCTTAGTGGAA
Found at i:2865562 original size:21 final size:21
Alignment explanation
Indices: 2865514--2865576 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
2865504 CGAGATCATT
*
2865514 CGGGATAATTTTACATGCCTTAG
1 CGGGA-AA-TTTATATGCCTTAG
*
2865537 -TGGAAATTTATATGCCTTAG
1 CGGGAAATTTATATGCCTTAG
*
2865557 CGGG-AATTCATATGCCTTAG
1 CGGGAAATTTATATGCCTTAG
2865577 TAGGAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 28 0.80
21 4 0.11
22 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (21 bp):
CGGGAAATTTATATGCCTTAG
Found at i:2865680 original size:30 final size:30
Alignment explanation
Indices: 2865646--2865708 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
2865636 CCTTGAGTTC
2865646 TCAGTAATGTACATGGGAATATAAAAGATA
1 TCAGTAATGTACATGGGAATATAAAAGATA
* * * **
2865676 TCAGTATTGTATATTGGCCTATAAAAGATA
1 TCAGTAATGTACATGGGAATATAAAAGATA
2865706 TCA
1 TCA
2865709 AAAGTGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (30 bp):
TCAGTAATGTACATGGGAATATAAAAGATA
Found at i:2865901 original size:6 final size:6
Alignment explanation
Indices: 2865890--2865954 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
2865880 AATGTATTAC
* * * * *
2865890 ATGATA ATGATA TTGATG TTGAGA ATGATA GA-GATC ATGATA ATGATA
1 ATGATA ATGATA ATGATA ATGATA ATGATA -ATGATA ATGATA ATGATA
* *
2865938 TTGATA CTGATA ATGAT
1 ATGATA ATGATA ATGAT
2865955 GATTTATGTG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 1 0.02
6 44 0.96
7 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (6 bp):
ATGATA
Found at i:2865948 original size:18 final size:17
Alignment explanation
Indices: 2865891--2865954 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
2865881 ATGTATTACA
*
2865891 TGATAATGATATTGATGT
1 TGATAATGATATTGAT-C
* **
2865909 TGAGAATGATAGAGATC
1 TGATAATGATATTGATC
2865926 ATGATAATGATATTGATAC
1 -TGATAATGATATTGAT-C
2865945 TGATAATGAT
1 TGATAATGAT
2865955 GATTTATGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (17 bp):
TGATAATGATATTGATC
Found at i:2870380 original size:30 final size:31
Alignment explanation
Indices: 2870346--2870408 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
2870336 TATAAAATTT
** *
2870346 GGGGACC-ATTTTGTAATTTTTGAAAAGTTA
1 GGGGACCAATTTAATAATTTTGGAAAAGTTA
2870376 GGGGACCAATTTAATAATTTTGGAAAAGTTA
1 GGGGACCAATTTAATAATTTTGGAAAAGTTA
2870407 GG
1 GG
2870409 AATGGTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (31 bp):
GGGGACCAATTTAATAATTTTGGAAAAGTTA
Found at i:2870626 original size:9 final size:9
Alignment explanation
Indices: 2870609--2870653 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
2870599 AATTCTAGTA
2870609 CTGGAATTT
1 CTGGAATTT
*
2870618 CTTGAATTT
1 CTGGAATTT
*
2870627 ATGGAATTT
1 CTGGAATTT
*
2870636 CTTGAATTT
1 CTGGAATTT
2870645 CTGGAATTT
1 CTGGAATTT
2870654 ATGGTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (9 bp):
CTGGAATTT
Found at i:2870662 original size:18 final size:18
Alignment explanation
Indices: 2870609--2870653 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
2870599 AATTCTAGTA
2870609 CTGGAATTTCTTGAATTT
1 CTGGAATTTCTTGAATTT
*
2870627 ATGGAATTTCTTGAATTT
1 CTGGAATTTCTTGAATTT
2870645 CTGGAATTT
1 CTGGAATTT
2870654 ATGGTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (18 bp):
CTGGAATTTCTTGAATTT
Found at i:2871245 original size:26 final size:26
Alignment explanation
Indices: 2871216--2871268 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2871206 GAAAACGGGT
*
2871216 ATATGTGTCATATGTTATTATATGTG
1 ATATGTGTCACATGTTATTATATGTG
* * *
2871242 ATATGTTTGACATGTTATTTTATGTG
1 ATATGTGTCACATGTTATTATATGTG
2871268 A
1 A
2871269 CATGATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (26 bp):
ATATGTGTCACATGTTATTATATGTG
Found at i:2871277 original size:26 final size:26
Alignment explanation
Indices: 2871227--2871277 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2871217 TATGTGTCAT
* *
2871227 ATGTTATTATATGTGATATGTTTGAC
1 ATGTTATTATATGTGACATGATTGAC
*
2871253 ATGTTATTTTATGTGACATGATTGA
1 ATGTTATTATATGTGACATGATTGA
2871278 TGTGAACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (26 bp):
ATGTTATTATATGTGACATGATTGAC
Found at i:2871702 original size:20 final size:20
Alignment explanation
Indices: 2871674--2871719 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
2871664 TCAGGATAAT
*
2871674 TTTACATGCCTTAGTGG-GAA
1 TTTATATGCCTTAG-GGTGAA
2871694 TTTATATGCCTTAGGGTGAA
1 TTTATATGCCTTAGGGTGAA
2871714 TTTATA
1 TTTATA
2871720 CGAGCTGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (20 bp):
TTTATATGCCTTAGGGTGAA
Found at i:2872057 original size:6 final size:6
Alignment explanation
Indices: 2872046--2872076 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2872036 GAGATCATGC
*
2872046 TATTGA TATTGA TATTGA TATTGA TAATGA T
1 TATTGA TATTGA TATTGA TATTGA TATTGA T
2872077 GATATATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTGA
Found at i:2879654 original size:13 final size:13
Alignment explanation
Indices: 2879631--2879656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2879621 AGAAAAAAAC
2879631 AAAACAAAAATAG
1 AAAACAAAAATAG
2879644 AAAACAAAAATAG
1 AAAACAAAAATAG
2879657 TTCAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAACAAAAATAG
Found at i:2882769 original size:19 final size:19
Alignment explanation
Indices: 2882745--2882789 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2882735 CAAAGACAAC
*
2882745 GGTCAACGGGTTGGGTCAA
1 GGTCAACGGGTTGGGCCAA
*
2882764 GGTCAATGGGTTGGGCCAA
1 GGTCAACGGGTTGGGCCAA
*
2882783 AGTCAAC
1 GGTCAAC
2882790 AGGTCAGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (19 bp):
GGTCAACGGGTTGGGCCAA
Found at i:2883693 original size:19 final size:20
Alignment explanation
Indices: 2883669--2883708 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2883659 TTTAGAAAAT
*
2883669 AATAAAACTTAA-TCCTAAA
1 AATAAAACATAATTCCTAAA
*
2883688 AATAAAAGATAATTCCTAAA
1 AATAAAACATAATTCCTAAA
2883708 A
1 A
2883709 CTAATCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAAAACATAATTCCTAAA
Found at i:2886864 original size:53 final size:52
Alignment explanation
Indices: 2886804--2886984 Score: 220
Period size: 53 Copynumber: 3.4 Consensus size: 52
2886794 CTCTTCTTTG
* * *
2886804 AACAATCTTCGACC-AGTGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCG
1 AACAATCTTCG-CCTA-CGGGTTTGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
* *
2886857 AACAATCTTCTTCCTACGGGTTTGCTCCCTCTTGGTTCAGGGAGTAGAACTCA
1 AACAATCTTC-GCCTACGGGTTTGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
** *
2886910 AACAATCTTCTGCCTACAAGTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCA
1 AACAATCTTC-GCCTACGGGTTTGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
* *
2886963 AACAATCTCCTGCCTACAGGTT
1 AACAATCTTC-GCCTACGGGTT
2886985 CGCTTCACTA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 113 0.99
54 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (52 bp):
AACAATCTTCGCCTACGGGTTTGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
Found at i:2887520 original size:80 final size:80
Alignment explanation
Indices: 2887387--2887598 Score: 325
Period size: 80 Copynumber: 2.6 Consensus size: 80
2887377 GCTCGAAAGA
* * * *
2887387 CTTACAAATGACTCGAAGGATTTCATTATCATGCTCGAAAGACTTATTGATGAATTTGCTTCACT
1 CTTACAAATTACCCGAAGGATTTCATTATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACT
2887452 ACTCTTCGGGGAAGG
66 ACTCTTCGGGGAAGG
2887467 CTTACAAATTACCCGAAGGATTTCATTATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACT
1 CTTACAAATTACCCGAAGGATTTCATTATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACT
* * *
2887532 TCTCTTCGGTGAATG
66 ACTCTTCGGGGAAGG
* * * *
2887547 CTTACAAATTACCCAAAGCATTTAATCATCATGCTCGAAAGACTTACTGATG
1 CTTACAAATTACCCGAAGGATTTCATTATCATGCTCGAAAGACTTACTGATG
2887599 GCCCAAAGGA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 121 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (80 bp):
CTTACAAATTACCCGAAGGATTTCATTATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACT
ACTCTTCGGGGAAGG
Found at i:2887606 original size:42 final size:42
Alignment explanation
Indices: 2887558--2887641 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
2887548 TTACAAATTA
*
2887558 CCCAAAGCATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCAAAGCACTTAATCATCATGCTCGAAAGACTTACTGATGG
* * *
2887600 CCCAAAGGACTTCATCATCATGCTCGAAAGATTTACTGATGG
1 CCCAAAGCACTTAATCATCATGCTCGAAAGACTTACTGATGG
2887642 GTTTGCTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
CCCAAAGCACTTAATCATCATGCTCGAAAGACTTACTGATGG
Found at i:2887620 original size:122 final size:122
Alignment explanation
Indices: 2887482--2887762 Score: 384
Period size: 122 Copynumber: 2.3 Consensus size: 122
2887472 AAATTACCCG
* * * *
2887482 AAGGATTTCATTATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACTTCTC-TTCGGTGAAT
1 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACTACTCTTTC-ATGAAG
*
2887546 GCTTACAAATTACCCAAAGCATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
65 GCTTACAAATTACCCAAAGCATTTAATCATAATGCTCGAAAGACTTACTGATGGCCCA
* * ** *
2887604 AAGGACTTCATCATCATGCTCGAAAGATTTACTGATGGGTTTGCTTCACTACTCTTTCATGAAGG
1 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACTACTCTTTCATGAAGG
* * *
2887669 CTTACAAATTACCCTAAGGATTTAATCATAATGCTCGAAAGACTTACTGATGGCCCT
66 CTTACAAATTACCCAAAGCATTTAATCATAATGCTCGAAAGACTTACTGATGGCCCA
* * * * *
2887726 AAGGATTTAAGCATCATGCTTGAAAGTCTTATTGATG
1 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATG
2887763 GCCCGAAGGA
Statistics
Matches: 138, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
122 135 0.98
123 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (122 bp):
AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGAATCTGCTTCACTACTCTTTCATGAAGG
CTTACAAATTACCCAAAGCATTTAATCATAATGCTCGAAAGACTTACTGATGGCCCA
Found at i:2887728 original size:42 final size:42
Alignment explanation
Indices: 2887680--2887772 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
2887670 TTACAAATTA
*
2887680 CCCTAAGGATTTAATCATAATGCTCGAAAGACTTACTGATGG
1 CCCTAAGGATTTAAGCATAATGCTCGAAAGACTTACTGATGG
* * * *
2887722 CCCTAAGGATTTAAGCATCATGCTTGAAAGTCTTATTGATGG
1 CCCTAAGGATTTAAGCATAATGCTCGAAAGACTTACTGATGG
*
2887764 CCCGAAGGA
1 CCCTAAGGA
2887773 CTTACTAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
CCCTAAGGATTTAAGCATAATGCTCGAAAGACTTACTGATGG
Found at i:2892269 original size:13 final size:13
Alignment explanation
Indices: 2892232--2892270 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2892222 AATGACGCGC
*
2892232 AATGAGCGTCATA
1 AATGCGCGTCATA
* *
2892245 AATGCACATCATA
1 AATGCGCGTCATA
2892258 AATGCGCGTCATA
1 AATGCGCGTCATA
2892271 GATTTATGAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:2920079 original size:11 final size:11
Alignment explanation
Indices: 2920065--2920098 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2920055 TATAAAAAAT
*
2920065 AATAAATTTAA
1 AATAAAATTAA
2920076 AATAAAATTAA
1 AATAAAATTAA
*
2920087 AAGAAAATTAA
1 AATAAAATTAA
2920098 A
1 A
2920099 TTTTTTTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:2922059 original size:44 final size:44
Alignment explanation
Indices: 2922004--2922176 Score: 242
Period size: 44 Copynumber: 4.0 Consensus size: 44
2921994 TGTTACCGAA
* * *
2922004 ATAAATG-AAATGCGTAATGGTGCATTATTAGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * *
2922047 ATAAACGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
2922091 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* *
2922135 ATAAATGAAAATGCATAACAGTGCATTACTGGC-GAAAAGGTG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAG-AAAGGTG
2922177 CCACTCATGG
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 6 0.05
44 109 0.95
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
Found at i:2925214 original size:24 final size:26
Alignment explanation
Indices: 2925187--2925242 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
2925177 ATATATATAT
2925187 ATATATATAT-ATATTAAATT-TAAA
1 ATATATATATCATATTAAATTATAAA
* * *
2925211 ATATATATTTCATATTAACTTATTAA
1 ATATATATATCATATTAAATTATAAA
2925237 ATATAT
1 ATATAT
2925243 TTTCTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 9 0.33
25 9 0.33
26 9 0.33
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATATATATCATATTAAATTATAAA
Found at i:2925218 original size:2 final size:2
Alignment explanation
Indices: 2925170--2925200 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2925160 CATAATAATT
2925170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2925201 TAAATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2925258 original size:22 final size:24
Alignment explanation
Indices: 2925187--2925256 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
2925177 ATATATATAT
* *
2925187 ATATATATAT-ATATTAAATTTAAA
1 ATATATATTTCATATTAACTTT-AA
2925211 ATATATATTTCATATTAACTTATTAA
1 ATATATATTTCATATTAAC-T-TTAA
*
2925237 ATATAT-TTTCTTATTAACTT
1 ATATATATTTCATATTAACTT
2925257 AATTTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 10 0.25
25 18 0.45
26 9 0.22
27 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATATATTTCATATTAACTTTAA
Found at i:2925263 original size:27 final size:27
Alignment explanation
Indices: 2925203--2925272 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2925193 ATATATATTA
2925203 AATTTAAAATATATATTTCATATTAACTT
1 AATTT-AAATATAT-TTTCATATTAACTT
*
2925232 -A-TTAAATATATTTTCTTATTAACTT
1 AATTTAAATATATTTTCATATTAACTT
*
2925257 AATTTAAAAATATTTT
1 AATTTAAATATATTTT
2925273 TTTTATTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 13 0.35
26 9 0.24
27 14 0.38
28 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTTAAATATATTTTCATATTAACTT
Found at i:2925476 original size:19 final size:19
Alignment explanation
Indices: 2925436--2925474 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2925426 TTTAGATATG
*
2925436 AATAAAAATATATATTTAA
1 AATAAAAAAATATATTTAA
2925455 AATAAAAAAATAT-TTTAA
1 AATAAAAAAATATATTTAA
2925473 AA
1 AA
2925475 ATTAAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAAAAATATATTTAA
Found at i:2932563 original size:65 final size:65
Alignment explanation
Indices: 2932485--2932636 Score: 191
Period size: 65 Copynumber: 2.3 Consensus size: 65
2932475 CTATTTCAAT
* *
2932485 TGCATTTTATGTACCGATGCACA-AGCCATGCATCGATGCAC-TCTAGAATTTTTTGAAACATCG
1 TGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTTCT-GAATCTTTTGAAACATCG
2932548 AA
64 AA
* **
2932550 TGCATTTTGTGTACCGATGCACAGACCATGCATCGATGTACTTCTGTCTCTTTTGAAACATCGAA
1 TGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTTCTGAATCTTTTGAAACATCGAA
* * * *
2932615 TGTAATTAGAGTACCGATGCAC
1 TGCATTTTGTGTACCGATGCAC
2932637 CCCTAGTGTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
65 72 0.95
66 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (65 bp):
TGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTTCTGAATCTTTTGAAACATCGAA
Found at i:2941380 original size:65 final size:65
Alignment explanation
Indices: 2941310--2941466 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
2941300 CACACCCATT
* *
2941310 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCTTAAATATTTTGAAAG
1 TCGAATGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTCCTAAATATTTTGAAAC
2941374 A
65 A
*** *
2941375 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTAAATATTTTGAAACA
* * *
2941440 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
2941467 CCCTAGTGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 81 0.99
66 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTAAATATTTTGAAACA
Found at i:2948398 original size:22 final size:22
Alignment explanation
Indices: 2948373--2948418 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2948363 GCCTGACCCA
* *
2948373 TTGACCGGTATGACCGTTTACT
1 TTGACAGGTATGACCGTTGACT
* *
2948395 TTGACAGGTCTGATCGTTGACT
1 TTGACAGGTATGACCGTTGACT
2948417 TT
1 TT
2948419 ATCTTTGACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (22 bp):
TTGACAGGTATGACCGTTGACT
Found at i:2949405 original size:20 final size:20
Alignment explanation
Indices: 2949380--2949425 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2949370 TGTTTCAATT
2949380 GCACTATTGGTACACACTGA
1 GCACTATTGGTACACACTGA
2949400 GCACTATTGGTACACACTGA
1 GCACTATTGGTACACACTGA
2949420 GCACTA
1 GCACTA
2949426 GCTCACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
GCACTATTGGTACACACTGA
Found at i:2954408 original size:58 final size:57
Alignment explanation
Indices: 2954337--2954498 Score: 150
Period size: 58 Copynumber: 2.8 Consensus size: 57
2954327 TCTTAGAAAT
* *
2954337 CTTGAATGATTCTATCTTTGAAAGAGAAAAAAATTGTTAAATTTATTTTCTTAAGAAC
1 CTTGAAGGGTTCTAT-TTTGAAAGAGAAAAAAATTGTTAAATTTATTTTCTTAAGAAC
* * * ** *
2954395 CTTGAGGGGTTCTATTTTGTGAAAGA-AAATAAAA-TGTTGAGTTTATTTTCTTGTGAAT
1 CTTGAAGGGTTCTA-TTT-TGAAAGAGAAA-AAAATTGTTAAATTTATTTTCTTAAGAAC
* * *
2954453 CTTGAATGTTTCTATTTTCTAAA-AGAAAATAAATTGTTAAATTTAT
1 CTTGAAGGGTTCTATTTT-GAAAGAGAAAA-AAATTGTTAAATTTAT
2954499 ATCCTAGGAA
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
56 3 0.04
57 12 0.14
58 56 0.67
59 12 0.14
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (57 bp):
CTTGAAGGGTTCTATTTTGAAAGAGAAAAAAATTGTTAAATTTATTTTCTTAAGAAC
Found at i:2955824 original size:2 final size:2
Alignment explanation
Indices: 2955819--2955854 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2955809 TATAGCACAG
2955819 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
2955855 AATAGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2956377 original size:12 final size:13
Alignment explanation
Indices: 2956341--2956384 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
2956331 GCCCCGATTA
2956341 CCCGATTACCCGC
1 CCCGATTACCCGC
2956354 CCCGATTACCCGC
1 CCCGATTACCCGC
*
2956367 CCCGA-TACCCGA
1 CCCGATTACCCGC
2956379 CCCGAT
1 CCCGAT
2956385 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:2956438 original size:32 final size:32
Alignment explanation
Indices: 2956387--2956487 Score: 109
Period size: 32 Copynumber: 3.1 Consensus size: 32
2956377 GACCCGATAA
*
2956387 ATATTAAAAATAATT-ATTTATATATATATATA-
1 ATATTAAAAAT--TTAATTTAAATATATATATAT
* *
2956419 ATATTAATAAATTTAATTTAAATA-AAAAATAT
1 ATATTAA-AAATTTAATTTAAATATATATATAT
*
2956451 ATATTTAAATATTTAATTTAAATATATATATAT
1 ATA-TTAAAAATTTAATTTAAATATATATATAT
2956484 ATAT
1 ATAT
2956488 ATACCCGGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
31 7 0.12
32 34 0.59
33 17 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATTAAAAATTTAATTTAAATATATATATAT
Found at i:2956523 original size:12 final size:12
Alignment explanation
Indices: 2956508--2956542 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2956498 CGATTCTCGG
2956508 CCCAATACCCGA
1 CCCAATACCCGA
*
2956520 CCCAATACCCGG
1 CCCAATACCCGA
*
2956532 CCTAATACCCG
1 CCCAATACCCG
2956543 TTTAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.49, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:2956667 original size:25 final size:25
Alignment explanation
Indices: 2956633--2956702 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
2956623 AATCCCCGCA
2956633 GTTTTTTAAACGGGGACGGGTACCG
1 GTTTTTTAAACGGGGACGGGTACCG
2956658 GTTTTTTAAACGGGGACGGGTACCG
1 GTTTTTTAAACGGGGACGGGTACCG
2956683 GTTTTTTAAACGGGGACGGG
1 GTTTTTTAAACGGGGACGGG
2956703 GACGGGGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (25 bp):
GTTTTTTAAACGGGGACGGGTACCG
Found at i:2958339 original size:17 final size:17
Alignment explanation
Indices: 2958315--2958355 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
2958305 TCTCATCTCA
2958315 TCTTCTTCATCCTTCATT
1 TCTTCTTCATCC-TCATT
2958333 T-TTCTTCATCCTCATT
1 TCTTCTTCATCCTCATT
2958349 TCTTCTT
1 TCTTCTT
2958356 TCTTCCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 15 0.68
18 1 0.05
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (17 bp):
TCTTCTTCATCCTCATT
Found at i:2958352 original size:14 final size:14
Alignment explanation
Indices: 2958307--2958353 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
2958297 CTTTTATATC
2958307 TCAT-CTCATCTTCT
1 TCATCCTCAT-TTCT
2958321 TCATCCTTCATTTTTCT
1 TCATCC-TCA--TTTCT
2958338 TCATCCTCATTTCT
1 TCATCCTCATTTCT
2958352 TC
1 TC
2958354 TTTCTTCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.38
15 1 0.03
16 6 0.21
17 10 0.34
18 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.00, T:0.53
Consensus pattern (14 bp):
TCATCCTCATTTCT
Found at i:2959004 original size:15 final size:15
Alignment explanation
Indices: 2958976--2959027 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2958966 ATCTTATTTT
2958976 ATTTCTCTTC-TCTTC
1 ATTT-TCTTCTTCTTC
2958991 ATTTTCTTCTTCTTC
1 ATTTTCTTCTTCTTC
*
2959006 A-TTTATTCTTTCTTC
1 ATTTTCTTC-TTCTTC
*
2959021 ATCTTCT
1 ATTTTCT
2959028 CTAAGTAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.35
15 17 0.55
16 3 0.10
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTCTTCTTCTTC
Found at i:2960597 original size:22 final size:19
Alignment explanation
Indices: 2960551--2960601 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
2960541 TGCATAAATG
*
2960551 GTATCGATACCATAATAGA
1 GTATCGGTACCATAATAGA
2960570 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATA--ATAG-A
2960592 GTATCGGTAC
1 GTATCGGTAC
2960602 TGAGAGACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
21 4 0.14
22 11 0.39
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (19 bp):
GTATCGGTACCATAATAGA
Found at i:2961103 original size:54 final size:54
Alignment explanation
Indices: 2961038--2961355 Score: 456
Period size: 54 Copynumber: 5.9 Consensus size: 54
2961028 TTATGTGTAC
* *
2961038 TTTTGGCACTATATGTGCAACCCACTGAATTCATCATAAGTTGATGAACAACCA
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
* *
2961092 TTTTGGAACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
*
2961146 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACTG
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
* ** *
2961200 TTTTGGCACTATGTGTGCAACCCACAAAACTCATCATAAGTTGATGAACAACCG
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
* * *
2961254 TTTTGACACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
* * * ** * * *
2961308 TTTAGGCATTATGTGTGCAACCCACATAATTCATAATATGTTTATGAA
1 TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAA
2961356 TGGCTGTATT
Statistics
Matches: 240, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 240 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
TTTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCG
Found at i:2964722 original size:22 final size:22
Alignment explanation
Indices: 2964697--2964767 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
2964687 AATGATAAGG
*
2964697 CACTTTAGTATCAGTGCTACTA
1 CACTTTAGTATCAGTGCTACGA
** *
2964719 CACTTCCGTATCAGTGCTGA-GG
1 CACTTTAGTATCAGTGCT-ACGA
* *
2964741 CACTTTAGTACCAATGCTACGA
1 CACTTTAGTATCAGTGCTACGA
2964763 CACTT
1 CACTT
2964768 CTATTAATTG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (22 bp):
CACTTTAGTATCAGTGCTACGA
Found at i:2965489 original size:19 final size:18
Alignment explanation
Indices: 2965465--2965501 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2965455 ATGTTGAGGG
*
2965465 CTTGTTATTTCCTTTCCTC
1 CTTGTTATCTCC-TTCCTC
2965484 CTTGTTATCTCCTTCCTC
1 CTTGTTATCTCCTTCCTC
2965502 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.05, C:0.35, G:0.05, T:0.54
Consensus pattern (18 bp):
CTTGTTATCTCCTTCCTC
Found at i:2965567 original size:21 final size:20
Alignment explanation
Indices: 2965531--2965571 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2965521 TCTAAATTGT
2965531 TTTCTTTTTTTCTTCGAATC
1 TTTCTTTTTTTCTTCGAATC
2965551 TTTCTGTTTTTGT-TTCGAATC
1 TTTCT-TTTTT-TCTTCGAATC
2965572 AAAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 13 0.68
22 1 0.05
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.63
Consensus pattern (20 bp):
TTTCTTTTTTTCTTCGAATC
Found at i:2968020 original size:64 final size:66
Alignment explanation
Indices: 2967935--2968080 Score: 192
Period size: 65 Copynumber: 2.3 Consensus size: 66
2967925 GCACCATCTG
* * *
2967935 ATGCATCGATGCAC-CCTTGAATA-AATTGTATTTCGAATGGATTTTGTGTACCGATGCACA-AG
1 ATGCATCGATGCACTCCTTGAATATAATTGAATATCGAATGCATTTTGTGTACCGATGCACAGA-
*
2967997 GC
65 CC
**
2967999 ATGCATCGATGCACTCC-TGAATATTTTTGAATATCGAATGCATTTTGTGTACCGATGCACAGAC
1 ATGCATCGATGCACTCCTTGAATATAATTGAATATCGAATGCATTTTGTGTACCGATGCACAGAC
2968063 C
66 C
*
2968064 ATGCATCGTTGCACTCC
1 ATGCATCGATGCACTCC
2968081 AGGCTCATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
64 20 0.28
65 51 0.71
66 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (66 bp):
ATGCATCGATGCACTCCTTGAATATAATTGAATATCGAATGCATTTTGTGTACCGATGCACAGAC
C
Found at i:2968103 original size:65 final size:64
Alignment explanation
Indices: 2967969--2968123 Score: 161
Period size: 65 Copynumber: 2.4 Consensus size: 64
2967959 ATTGTATTTC
* * * * *
2967969 GAATGGATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCTGAATATTTTTGAATATC
1 GAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATA-TTTTGAACATA
* **
2968034 GAATGCATTTTGTGTACCGATGCAC-AGACCATGCATCGTTGCACTCCAGGCTCA-TTTGAAACA
1 GAATGCATTTTGTGTACCGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTG-AACA
2968097 TA
63 TA
* * *
2968099 GAATGCATTTTATGCATCGATGCAC
1 GAATGCATTTTGTGTACCGATGCAC
2968124 CCCTAGTGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 6 0.08
65 69 0.91
66 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (64 bp):
GAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAACATA
Found at i:2970049 original size:21 final size:21
Alignment explanation
Indices: 2970024--2970063 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2970014 AAGATTTTAT
2970024 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
2970045 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
2970064 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:2976738 original size:65 final size:64
Alignment explanation
Indices: 2976606--2976750 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 64
2976596 GCACCATCTA
* * * * *
2976606 ATGCATCGATGCACCCTTGAATAAATTGTATTTCGAATGCATTTTGTGTATAGATCCATAAGGC
1 ATGCATCGATGCACTCTTGAATAAATTGAATATCGAATGCATTTTGTGTATAGATCCACAAGCC
* ** *
2976670 ATGCATCTATGCACTCTTGAATATTTTTGAATATCGAATGCATTTTGTGTACT-GATGCAC-AGA
1 ATGCATCGATGCACTCTTGAATA-AATTGAATATCGAATGCATTTTGTGTA-TAGATCCACAAG-
2976733 CC
63 CC
2976735 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
2976751 CAGGCTCATT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 23 0.34
65 44 0.65
66 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTCTTGAATAAATTGAATATCGAATGCATTTTGTGTATAGATCCACAAGCC
Found at i:2986583 original size:33 final size:33
Alignment explanation
Indices: 2986541--2986701 Score: 155
Period size: 33 Copynumber: 4.9 Consensus size: 33
2986531 CAAGAGTTAC
* *
2986541 CATTTCAAGTCATGCCTCTTCACCAATAGTTTT
1 CATTTCAAGTCATGCCTCTTCACCAAAAGGTTT
* * *
2986574 CATTTCAAGTTATTCATCTTCACCAAAAGG-TT
1 CATTTCAAGTCATGCCTCTTCACCAAAAGGTTT
* * * *
2986606 CTATTGT-AAGCCCTGCCTCATCACCAAAAGGTTA
1 C-ATT-TCAAGTCATGCCTCTTCACCAAAAGGTTT
* * *
2986640 CATTTCAAGTAATGCCTCTTCACCAAAGGGTGT
1 CATTTCAAGTCATGCCTCTTCACCAAAAGGTTT
* * *
2986673 CATTTCAAGTCATGCATGTTCACTAAAAG
1 CATTTCAAGTCATGCCTCTTCACCAAAAG
2986702 TTGTGACTTT
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
32 4 0.04
33 93 0.93
34 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (33 bp):
CATTTCAAGTCATGCCTCTTCACCAAAAGGTTT
Found at i:2986701 original size:66 final size:65
Alignment explanation
Indices: 2986541--2986701 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 65
2986531 CAAGAGTTAC
* * * * *
2986541 CATTTCAAGTCATGCCTCTTCACCAATAGTTTTCATTTCAAGTTATTCATCTTCACCAAAAGGTT
1 CATTTCAAGTCATGCCTCTTCACCAAAAGGTTACATTTCAAGTAATGCATCTTCACCAAAAGGTT
* * * * *
2986606 CTATTGT-AAGCCCTGCCTCATCACCAAAAGGTTACATTTCAAGTAATGCCTCTTCACCAAAGGG
1 C-ATT-TCAAGTCATGCCTCTTCACCAAAAGGTTACATTTCAAGTAATGCATCTTCACCAAAAGG
2986670 TGT
64 T-T
* * *
2986673 CATTTCAAGTCATGCATGTTCACTAAAAG
1 CATTTCAAGTCATGCCTCTTCACCAAAAG
2986702 TTGTGACTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
65 2 0.03
66 71 0.93
67 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (65 bp):
CATTTCAAGTCATGCCTCTTCACCAAAAGGTTACATTTCAAGTAATGCATCTTCACCAAAAGGTT
Found at i:2989819 original size:46 final size:46
Alignment explanation
Indices: 2989766--2990154 Score: 526
Period size: 47 Copynumber: 8.4 Consensus size: 46
2989756 ACATCCATTA
*
2989766 ATGCATTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
1 ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
* * * * *
2989812 ATGCATTTTAGTTTATAGAATCCTTTCATACCTTAATGCATCCTTTC
1 ATGCATTTTA-ATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
* * * *
2989859 ATTCATTTTAGTTTATGGCATCCTTTTATGCCTTAATGCATCCTTTC
1 ATGCATTTTA-ATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
* *
2989906 ATGCATTTTAATTATGGCAACCTTTCATGCCTTAATGCATCCTTTC
1 ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
* *
2989952 ATGCATTTTAGTTTATGGCATCCTTTTATGCCTTAATGCATCATTTC
1 ATGCATTTTA-ATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
** *
2989999 ATGCATTTTAATTATGGCATCCTTGAATTCCTTAATGCATCATTTC
1 ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
* *
2990045 ATGCATTTTAATTATAGCATCCTTTTATGCCTTAATGCATCATTTC
1 ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
** * * *
2990091 ATGCATTTTTGTTTATGGTATCATTTCATGCCTTAATGCATCCTTTC
1 ATGCA-TTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
2990138 ATGCATTTTAATTATGG
1 ATGCATTTTAATTATGG
2990155 ATTCGATTTA
Statistics
Matches: 304, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 141 0.46
47 163 0.54
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (46 bp):
ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
Found at i:2989901 original size:20 final size:20
Alignment explanation
Indices: 2989876--2990094 Score: 87
Period size: 20 Copynumber: 9.7 Consensus size: 20
2989866 TTAGTTTATG
*
2989876 GCATCCTTTTATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
2989896 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
2989921 GGCAACCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
2989942 GCATCCTTTCATGCATTTTAGTTTAT
1 GCATCCTTTCATGC--CTTA----AT
*
2989968 GGCATCCTTTTATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
2989989 GCATCATTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
** *
2990014 GGCATCCTTGAATTCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
2990035 GCATCATTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
2990060 AGCATCCTTTTATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
2990081 GCATCATTTCATGC
1 GCATCCTTTCATGC
2990095 ATTTTTGTTT
Statistics
Matches: 148, Mismatches: 26, Indels: 50
0.66 0.12 0.22
Matches are distributed among these distances:
20 60 0.41
21 8 0.05
22 9 0.06
23 6 0.04
24 6 0.04
25 9 0.06
26 37 0.25
27 13 0.09
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2989970 original size:93 final size:93
Alignment explanation
Indices: 2989777--2990147 Score: 539
Period size: 93 Copynumber: 4.0 Consensus size: 93
2989767 TGCATTTAAA
* * *
2989777 TTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTTATAG-AATCCTTTCAT
1 TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTA-ATTATGGCAA-CCTTTCAT
* *
2989841 ACCTTAATGCATCCTTTCATTCATTTTAGT
64 GCCTTAATGCATCCTTTCATGCATTTTAGT
*
2989871 TTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCAACCTTTCATGC
1 TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCAACCTTTCATGC
2989936 CTTAATGCATCCTTTCATGCATTTTAGT
66 CTTAATGCATCCTTTCATGCATTTTAGT
* ** *
2989964 TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTGAATTC
1 TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCAACCTTTCATGC
* *
2990029 CTTAATGCATCATTTCATGCATTTTA-A
66 CTTAATGCATCCTTTCATGCATTTTAGT
* ** * * *
2990056 TTATAGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTTGTTTATGGTATCATTTCATG
1 TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCA-TTTTAATTATGGCAACCTTTCATG
2990121 CCTTAATGCATCCTTTCATGCATTTTA
65 CCTTAATGCATCCTTTCATGCATTTTA
2990148 ATTATGGATT
Statistics
Matches: 253, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
92 39 0.15
93 169 0.67
94 45 0.18
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.46
Consensus pattern (93 bp):
TTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCAACCTTTCATGC
CTTAATGCATCCTTTCATGCATTTTAGT
Found at i:2996944 original size:13 final size:13
Alignment explanation
Indices: 2996926--2996953 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2996916 TCACTTAACT
2996926 TTCAAAATTTATA
1 TTCAAAATTTATA
2996939 TTCAAAATTTATA
1 TTCAAAATTTATA
2996952 TT
1 TT
2996954 TTAGTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCAAAATTTATA
Found at i:3005883 original size:21 final size:21
Alignment explanation
Indices: 3005857--3005902 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3005847 AAATTGTAAT
*
3005857 TTTTCAAAGTTTTTGGGCTAG
1 TTTTCAAAGTTTTTAGGCTAG
3005878 TTTTCAAAGTTTTTAGGCTAG
1 TTTTCAAAGTTTTTAGGCTAG
3005899 TTTT
1 TTTT
3005903 AAAAATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.52
Consensus pattern (21 bp):
TTTTCAAAGTTTTTAGGCTAG
Found at i:3007581 original size:59 final size:59
Alignment explanation
Indices: 3007490--3007724 Score: 353
Period size: 59 Copynumber: 4.0 Consensus size: 59
3007480 ATAATTCAAT
* * * * * * *
3007490 TGGAATTTCATACAATCAATATGATTTTCTTACCATTTTAGCACATAAAGTGCCCTATT
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* *
3007549 TGGAAATCCATACACTTAGTATGACTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* *
3007608 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCAAACAAAGTGTCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* *
3007667 TGGAAATTCATACACTTAGTATGATTTCTTTACCATTTTAGCACACAAAGTGTCCTAT
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTAT
3007725 GATTTCCTTA
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 161 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (59 bp):
TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
Found at i:3007736 original size:36 final size:36
Alignment explanation
Indices: 3007686--3007760 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
3007676 ATACACTTAG
* *
3007686 TATGATTTCTTTACCATTTTAGCACACAAAGTGTCC
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCC
3007722 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCC
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCC
3007758 TAT
1 TAT
3007761 CTGGAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (36 bp):
TATGATTTCCTTACCATTTTAGCACACAAAGTGCCC
Found at i:3007795 original size:95 final size:95
Alignment explanation
Indices: 3007627--3007819 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 95
3007617 ATACACTTAG
*
3007627 TATGATTTCCTTACCATTTTAGCAAACAAAGTGTCCTATCTGGAAATTCATACACTTAGTATGAT
1 TATGATTTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
* *
3007692 TTCTTTACCATTTTAGCACACAAAGTGTCC
66 TTCCTTACCATTTTAGCACACAAAGTGCCC
*
3007722 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
1 TATGATTTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
3007787 TTCCTTACCATTTTAGCACACAAAGTGCCC
66 TTCCTTACCATTTTAGCACACAAAGTGCCC
3007817 TAT
1 TAT
3007820 CTGGAAATTC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (95 bp):
TATGATTTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
TTCCTTACCATTTTAGCACACAAAGTGCCC
Found at i:3007814 original size:59 final size:59
Alignment explanation
Indices: 3007722--3007876 Score: 310
Period size: 59 Copynumber: 2.6 Consensus size: 59
3007712 CAAAGTGTCC
3007722 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
3007781 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
3007840 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCT
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCT
3007877 TTGGTAATTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 96 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (59 bp):
TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
Found at i:3007848 original size:154 final size:154
Alignment explanation
Indices: 3007568--3007872 Score: 574
Period size: 154 Copynumber: 2.0 Consensus size: 154
3007558 ATACACTTAG
3007568 TATGACTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
1 TATGACTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
* *
3007633 TTCCTTACCATTTTAGCAAACAAAGTGTCCTATCTGGAAATTCATACACTTAGTATGATTTCTTT
66 TTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTT
3007698 ACCATTTTAGCACACAAAGTGTCC
131 ACCATTTTAGCACACAAAGTGTCC
*
3007722 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
1 TATGACTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
*
3007787 TTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTT
66 TTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTT
3007852 ACCATTTTAGCACACAAAGTG
131 ACCATTTTAGCACACAAAGTG
3007873 CCCTTTGGTA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 147 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (154 bp):
TATGACTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGAT
TTCCTTACCATTTTAGCAAACAAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTT
ACCATTTTAGCACACAAAGTGTCC
Found at i:3008226 original size:53 final size:53
Alignment explanation
Indices: 3008162--3008317 Score: 213
Period size: 53 Copynumber: 2.9 Consensus size: 53
3008152 TTCCCTCAAG
* *
3008162 AGGTATCGATACACTACTGGGGTATCGATACCCAAATTAAGTTCGATGTTTAC
1 AGGTATCGATACACTACTGGTGTATCGATACCCAAATTAAATTCGATGTTTAC
* * *
3008215 ATGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTTGATGTTTAC
1 AGGTATCGATACACTACTGGTGTATCGATACCCAAATTAAATTCGATGTTTAC
* * * * * *
3008268 AGGCATCGATACACTATTGGTGCATAGATACCCTACTTAAATTCGATGTT
1 AGGTATCGATACACTACTGGTGTATCGATACCCAAATTAAATTCGATGTT
3008318 CATTAAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 89 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (53 bp):
AGGTATCGATACACTACTGGTGTATCGATACCCAAATTAAATTCGATGTTTAC
Found at i:3011729 original size:22 final size:22
Alignment explanation
Indices: 3011701--3011743 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3011691 ATTCTACGAT
*
3011701 GCACTTTCGAGTGCAATTCTAC
1 GCACTTTCGAATGCAATTCTAC
*
3011723 GCACTTTTGAATGCAATTCTA
1 GCACTTTCGAATGCAATTCTA
3011744 TGAAGCACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (22 bp):
GCACTTTCGAATGCAATTCTAC
Found at i:3012594 original size:13 final size:13
Alignment explanation
Indices: 3012556--3012594 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3012546 GTCATAAATC
3012556 TATGACGCGCATT
1 TATGACGCGCATT
* * *
3012569 GATGACTCACATT
1 TATGACGCGCATT
3012582 TATGACGCGCATT
1 TATGACGCGCATT
3012595 GACCGTCATT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:3012758 original size:2 final size:2
Alignment explanation
Indices: 3012751--3012785 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3012741 TTTCGTAAAT
3012751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3012786 TGTAGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3021696 original size:18 final size:18
Alignment explanation
Indices: 3021670--3021704 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3021660 AAATAAATAC
*
3021670 ACGTTATAGGTAGGAAGA
1 ACGTGATAGGTAGGAAGA
3021688 ACGTGATAGGTAGGAAG
1 ACGTGATAGGTAGGAAG
3021705 GAGATGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (18 bp):
ACGTGATAGGTAGGAAGA
Found at i:3022292 original size:671 final size:671
Alignment explanation
Indices: 3021011--3022346 Score: 2582
Period size: 671 Copynumber: 2.0 Consensus size: 671
3021001 ACTCCCACTG
* *
3021011 GGAAGAACGTGATAGGTAGGAAGGAGATGGATTAATCCTGTATTGAGTTGATAAGGGGTCTCGCC
1 GGAAGAACGTGATAGGTAGGAAGGAGATGGATTAATCATGTATTGAGCTGATAAGGGGTCTCGCC
*
3021076 ATTAGGAAAAGTGATACAAAGTGGCTGTTGTACAGTAAGAGCTGTGGTTATCTCTCTAATCGTTC
66 ATTAGGAAAAGTGATACAAAGTGGCTGTTGTACAGTAAGAGCTGCGGTTATCTCTCTAATCGTTC
*
3021141 GATTTTCCATCAGTTCTAGATTAGGTATGGGATCTGTGACTGGTGCAGTTAGAGTGGCTTCAGGC
131 AATTTTCCATCAGTTCTAGATTAGGTATGGGATCTGTGACTGGTGCAGTTAGAGTGGCTTCAGGC
* *
3021206 ACCGATTCTTCTTAGGATTGAGTATGGGATAGTGTTTCAAAAGTGTATTCCTGATTTTATTGGTC
196 ACCGATTCTTCTTAGGATTGAGTATGGGATAGTGTTTAAAAAGTGGATTCCTGATTTTATTGGTC
*
3021271 ATGAGTTCTCTGAGCTCTTGCTTTGATCACCAGGTCAAGTTCTACTAATTCTATAACACCCATAT
261 ATGAGTTCTCTGAGCTCTTGCTTTGATCACCAGGTCAAGTTCTACTAATTCTATAACAACCATAT
3021336 CTTGTATACCTTTCCGTACACGAGATATGGATGTCACATCACTTTATAAAAATGTTTGTCATTTG
326 CTTGTATACCTTTCCGTACACGAGATATGGATGTCACATCACTTTATAAAAATGTTTGTCATTTG
3021401 AAAACCCATAAAATTTCTTTTTGAAATTTAAAGTAAAACATTTTAGCACAATTATAAAACAATCA
391 AAAACCCATAAAATTTCTTTTTGAAATTTAAAGTAAAACATTTTAGCACAATTATAAAACAATCA
3021466 TCGAACTATACTACCAAATTTCCACTTTATAAACATTCCAGAGCATTTTTCTTCAAATTCGATTA
456 TCGAACTATACTACCAAATTTCCACTTTATAAACATTCCAGAGCATTTTTCTTCAAATTCGATTA
3021531 CAAGCCAGCAATTGCTCAAAATAAATAGGATTGTCTTACCATTACTGATGAGAGTCAACCTTAAC
521 CAAGCCAGCAATTGCTCAAAATAAATAGGATTGTCTTACCATTACTGATGAGAGTCAACCTTAAC
3021596 AGATGAAAGCTGCTACTACTGCTACACTCCTTACGCAACTAATCTTTGCCTTTACCTACGCATGA
586 AGATGAAAGCTGCTACTACTGCTACACTCCTTACGCAACTAATCTTTGCCTTTACCTACGCATGA
3021661 AATAAATACACGTTATAGGTA
651 AATAAATACACGTTATAGGTA
3021682 GGAAGAACGTGATAGGTAGGAAGGAGATGGATTAATCATGTATTGAGCTGATAAGGGGTCTCGCC
1 GGAAGAACGTGATAGGTAGGAAGGAGATGGATTAATCATGTATTGAGCTGATAAGGGGTCTCGCC
3021747 ATTAGGAAAAGTGATACAAAGTGGCTGTTGTACAGTAAGAGCTGCGGTTATCTCTCTAATCGTTC
66 ATTAGGAAAAGTGATACAAAGTGGCTGTTGTACAGTAAGAGCTGCGGTTATCTCTCTAATCGTTC
*
3021812 AATTTTCCATCAGTTCTAGATTAGGTGTGGGATCTGTGACTGGTGCAGTTAGAGTGGCTTCAGGC
131 AATTTTCCATCAGTTCTAGATTAGGTATGGGATCTGTGACTGGTGCAGTTAGAGTGGCTTCAGGC
3021877 ACCGATTCTTCTTAGGATTGAGTATGGGATAGTGTTTAAAAAGTGGATTCCTGATTTTATTGGTC
196 ACCGATTCTTCTTAGGATTGAGTATGGGATAGTGTTTAAAAAGTGGATTCCTGATTTTATTGGTC
* *
3021942 GTGAGTTCTCTGAGCTCTTGCTTTGATCACCAGGTCAAGTTCTACTAATTCTATAACAACTATAT
261 ATGAGTTCTCTGAGCTCTTGCTTTGATCACCAGGTCAAGTTCTACTAATTCTATAACAACCATAT
3022007 CTTGTATACCTTTCCGTACACGAGATATGGATGTCACATCACTTTATAAAAATGTTTGTCATTTG
326 CTTGTATACCTTTCCGTACACGAGATATGGATGTCACATCACTTTATAAAAATGTTTGTCATTTG
3022072 AAAACCCATAAAATTTCTTTTTGAAATTTAAAGTAAAACATTTTAGCACAATTATAAAACAATCA
391 AAAACCCATAAAATTTCTTTTTGAAATTTAAAGTAAAACATTTTAGCACAATTATAAAACAATCA
3022137 TCGAACTATACTACCAAATTTCCACTTTATAAACATTCCAGAGCATTTTTCTTCAAATTCGATTA
456 TCGAACTATACTACCAAATTTCCACTTTATAAACATTCCAGAGCATTTTTCTTCAAATTCGATTA
3022202 CAAGCCAGCAATTGCTCAAAATAAATAGGATTGTCTTACCATTACTGATGAGAGTCAACCTTAAC
521 CAAGCCAGCAATTGCTCAAAATAAATAGGATTGTCTTACCATTACTGATGAGAGTCAACCTTAAC
3022267 AGATGAAAGCTGCTACTACTGCTACACTCCTTACGCAACTAATCTTTGCCTTTACCTACGCATGA
586 AGATGAAAGCTGCTACTACTGCTACACTCCTTACGCAACTAATCTTTGCCTTTACCTACGCATGA
3022332 AATAAATACACGTTA
651 AATAAATACACGTTA
3022347 AGTATTTACT
Statistics
Matches: 655, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
671 655 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (671 bp):
GGAAGAACGTGATAGGTAGGAAGGAGATGGATTAATCATGTATTGAGCTGATAAGGGGTCTCGCC
ATTAGGAAAAGTGATACAAAGTGGCTGTTGTACAGTAAGAGCTGCGGTTATCTCTCTAATCGTTC
AATTTTCCATCAGTTCTAGATTAGGTATGGGATCTGTGACTGGTGCAGTTAGAGTGGCTTCAGGC
ACCGATTCTTCTTAGGATTGAGTATGGGATAGTGTTTAAAAAGTGGATTCCTGATTTTATTGGTC
ATGAGTTCTCTGAGCTCTTGCTTTGATCACCAGGTCAAGTTCTACTAATTCTATAACAACCATAT
CTTGTATACCTTTCCGTACACGAGATATGGATGTCACATCACTTTATAAAAATGTTTGTCATTTG
AAAACCCATAAAATTTCTTTTTGAAATTTAAAGTAAAACATTTTAGCACAATTATAAAACAATCA
TCGAACTATACTACCAAATTTCCACTTTATAAACATTCCAGAGCATTTTTCTTCAAATTCGATTA
CAAGCCAGCAATTGCTCAAAATAAATAGGATTGTCTTACCATTACTGATGAGAGTCAACCTTAAC
AGATGAAAGCTGCTACTACTGCTACACTCCTTACGCAACTAATCTTTGCCTTTACCTACGCATGA
AATAAATACACGTTATAGGTA
Found at i:3023293 original size:58 final size:58
Alignment explanation
Indices: 3023171--3023310 Score: 147
Period size: 58 Copynumber: 2.4 Consensus size: 58
3023161 TCCCAAGTGA
* * ** * **
3023171 AAATTCATACACTTAGTATGAGTTTCTTATCTTTTTGCACATAAAGTGCCCAATATGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTGAGCACACAAAGTGCCCAATACAG
*
3023229 AAATTCATACACTTAGTATGAATTTCTTAACATTTGAGCACACATAGTGCCCAA-ACAG
1 AAATTCATACACTTAGTATGAATTTCTTAAC-TTTGAGCACACAAAGTGCCCAATACAG
** * * *
3023287 TTATTCATCCACATAGGATGAATT
1 AAATTCATACACTTAGTATGAATT
3023311 CCGTGAAATG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
58 50 0.74
59 18 0.26
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTGAGCACACAAAGTGCCCAATACAG
Done.