Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 30
Found at i:723153 original size:20 final size:19
Alignment explanation
Indices: 723124--723161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
723114 ATTTCAAAAA
723124 TGGTACCGATACTGACCTTT
1 TGGTACCGATACT-ACCTTT
*
723144 TGGTATCGATACTACCTT
1 TGGTACCGATACTACCTT
723162 CCAAGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (19 bp):
TGGTACCGATACTACCTTT
Found at i:737362 original size:24 final size:25
Alignment explanation
Indices: 737307--737376 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
737297 GACTTGTTGA
737307 TGAGTGCTTCAACTTTTCTTTCTTTT
1 TGAGTGCTTCAA-TTTTCTTTCTTTT
*
737333 TAAGTGCTTGCAATTTTC-TTC-TTT
1 TGAGTGCTT-CAATTTTCTTTCTTTT
737357 TGAGTGCTTTCAA-TTTCTTT
1 TGAGTGC-TTCAATTTTCTTT
737377 GCTGATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 4 0.10
24 14 0.36
25 5 0.13
26 13 0.33
27 3 0.08
ACGTcount: A:0.14, C:0.17, G:0.13, T:0.56
Consensus pattern (25 bp):
TGAGTGCTTCAATTTTCTTTCTTTT
Found at i:741444 original size:23 final size:22
Alignment explanation
Indices: 741394--741478 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
741384 ATAGAACCCC
*
741394 AGGGGGATATCGATTCCCCTACA
1 AGGGGGA-ATCGATTCCCCTTCA
* *
741417 GGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTC-A
*
741440 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
741462 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
741479 TCTATACTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 28 0.51
23 27 0.49
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.22
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:752061 original size:20 final size:22
Alignment explanation
Indices: 752036--752088 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
752026 ACTTGGAGTA
752036 GTATCGATAC-TCCCTA-TGGG
1 GTATCGATACTTCCCTACTGGG
*
752056 GTATCGATACTTCCCTAGCTGTG
1 GTATCGATACTTCCCTA-CTGGG
752079 GTATCGATAC
1 GTATCGATAC
752089 CCAATTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 6 0.21
23 13 0.45
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
GTATCGATACTTCCCTACTGGG
Found at i:752161 original size:15 final size:15
Alignment explanation
Indices: 752141--752184 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
752131 TACTGACCTT
752141 TTGGTATCGGTACTC
1 TTGGTATCGGTACTC
752156 TTGGTATCGGTACTC
1 TTGGTATCGGTACTC
*
752171 TTGGTATCGATACT
1 TTGGTATCGGTACT
752185 ACCATCCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (15 bp):
TTGGTATCGGTACTC
Found at i:753576 original size:18 final size:17
Alignment explanation
Indices: 753532--753586 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
753522 TTTAAAGGAG
753532 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
* *
753549 -TCGATTTAATTGAATTAA
1 CTAG-TTTAATT-AATGAA
*
753567 CTAGTTTAATTAATGGA
1 CTAGTTTAATTAATGAA
753584 CTA
1 CTA
753587 ACTTTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 2 0.07
17 14 0.47
18 12 0.40
19 2 0.07
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:753649 original size:17 final size:17
Alignment explanation
Indices: 753605--753736 Score: 174
Period size: 17 Copynumber: 7.5 Consensus size: 17
753595 AAATGATCCA
* *
753605 ACATACTTAAATAAACT
1 ACATGCTTAAATGAACT
*
753622 AGCATGCTTAAATGATCT
1 A-CATGCTTAAATGAACT
* *
753640 ACATGTTTAAATGAAGT
1 ACATGCTTAAATGAACT
753657 AGCATGCTTAAATGAACT
1 A-CATGCTTAAATGAACT
753675 ACATGCTTAAATGAACT
1 ACATGCTTAAATGAACT
753692 ACATGCTTAAATGAACT
1 ACATGCTTAAATGAACT
*
753709 ACATGCTTTAAATGAAGT
1 ACATGC-TTAAATGAACT
753727 AGCATGCTTA
1 A-CATGCTTA
753737 TTTATTCATG
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
17 54 0.53
18 43 0.42
19 5 0.05
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (17 bp):
ACATGCTTAAATGAACT
Found at i:753660 original size:35 final size:35
Alignment explanation
Indices: 753605--753736 Score: 194
Period size: 35 Copynumber: 3.8 Consensus size: 35
753595 AAATGATCCA
* * *
753605 ACATACTTAAATAAACTAGCATGCTTAAATGATCT
1 ACATGCTTAAATGAACTAGCATGCTTAAATGAACT
* *
753640 ACATGTTTAAATGAAGTAGCATGCTTAAATGAACT
1 ACATGCTTAAATGAACTAGCATGCTTAAATGAACT
753675 ACATGCTTAAATGAACTA-CATGCTTAAATGAACT
1 ACATGCTTAAATGAACTAGCATGCTTAAATGAACT
*
753709 ACATGCTTTAAATGAAGTAGCATGCTTA
1 ACATGC-TTAAATGAACTAGCATGCTTA
753737 TTTATTCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 22 0.25
35 57 0.66
36 8 0.09
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (35 bp):
ACATGCTTAAATGAACTAGCATGCTTAAATGAACT
Found at i:753696 original size:52 final size:52
Alignment explanation
Indices: 753605--753736 Score: 185
Period size: 52 Copynumber: 2.5 Consensus size: 52
753595 AAATGATCCA
* * * * *
753605 ACATACTTAAATAAACTAGCATGCTTAAATGATCTACATGTTTAAATGAAGT
1 ACATGCTTAAATGAACTAGCATGCTTAAATGAACTACATGCTTAAATGAACT
753657 AGCATGCTTAAATGAACTA-CATGCTTAAATGAACTACATGCTTAAATGAACT
1 A-CATGCTTAAATGAACTAGCATGCTTAAATGAACTACATGCTTAAATGAACT
*
753709 ACATGCTTTAAATGAAGTAGCATGCTTA
1 ACATGC-TTAAATGAACTAGCATGCTTA
753737 TTTATTCATG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
51 5 0.07
52 43 0.61
53 23 0.32
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (52 bp):
ACATGCTTAAATGAACTAGCATGCTTAAATGAACTACATGCTTAAATGAACT
Found at i:755048 original size:25 final size:26
Alignment explanation
Indices: 755010--755100 Score: 62
Period size: 25 Copynumber: 3.5 Consensus size: 26
755000 AGTAAGGGGC
*
755010 AACA-TTTTCTAAAACTCTTTCATAA
1 AACATTTTTCAAAAACTCTTTCATAA
* *
755035 AACATTTTTC-AAAA-TTTTATCATAT
1 AACATTTTTCAAAAACTCTT-TCATAA
*** * **
755060 ATTTTTTTTCAGAAAATTCTTTCATCG
1 AACATTTTTCA-AAAACTCTTTCATAA
755087 AACATTTTTCAAAA
1 AACATTTTTCAAAA
755101 CTTCTTCATT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 3 0.06
25 20 0.40
26 8 0.16
27 16 0.32
28 3 0.06
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.45
Consensus pattern (26 bp):
AACATTTTTCAAAAACTCTTTCATAA
Found at i:756782 original size:12 final size:11
Alignment explanation
Indices: 756757--756804 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
756747 TTTTATTATT
756757 TTATTAT-T-A
1 TTATTATATAA
756766 TTATTATATAA
1 TTATTATATAA
756777 TATATTTATATAA
1 T-TA-TTATATAA
756790 TTATTAATATAA
1 TTATT-ATATAA
756802 TTA
1 TTA
756805 CATTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 4 0.12
12 13 0.38
13 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATTATATAA
Found at i:756811 original size:27 final size:25
Alignment explanation
Indices: 756754--756812 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
756744 CATTTTTATT
* *
756754 ATTTTATTATTATTATTATATAATAT
1 ATTTTA-TATAATTATTATATAATAC
756780 A-TTTATATAATTATTAATATAATTAC
1 ATTTTATATAATTATT-ATATAA-TAC
756806 ATTTTAT
1 ATTTTAT
756813 TTTGTAGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 9 0.32
25 10 0.36
26 4 0.14
27 5 0.18
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTATATAATTATTATATAATAC
Found at i:759347 original size:13 final size:12
Alignment explanation
Indices: 759327--759366 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
759317 TTATTATCAT
759327 TTTATTATTTTA
1 TTTATTATTTTA
759339 TTTACTTA-TTTA
1 TTTA-TTATTTTA
759351 TTTATTATATTTA
1 TTTATTAT-TTTA
759364 TTT
1 TTT
759367 TCTTGTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.12
12 12 0.48
13 10 0.40
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:760248 original size:24 final size:24
Alignment explanation
Indices: 760216--760272 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
760206 AAACTAGTAC
760216 GACACATAGTCGACCGATAAGAAT
1 GACACATAGTCGACCGATAAGAAT
760240 GACACATAGTCGACCGATAAGAAT
1 GACACATAGTCGACCGATAAGAAT
*
760264 GCCACATAG
1 GACACATAG
760273 AACTACCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (24 bp):
GACACATAGTCGACCGATAAGAAT
Found at i:762045 original size:5 final size:5
Alignment explanation
Indices: 762031--762098 Score: 68
Period size: 5 Copynumber: 13.6 Consensus size: 5
762021 GTTAAATAAA
* * * *
762031 AAAAT AAAAT GAAAT -AAAG AAAAC AAAAT AATAA- AAAATT AAATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA-T AAAAT AAAAT
762081 AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA
762099 CACGGGTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 5 0.09
5 43 0.81
6 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:762047 original size:10 final size:9
Alignment explanation
Indices: 762023--762098 Score: 61
Period size: 10 Copynumber: 8.4 Consensus size: 9
762013 AAATTAATGT
762023 TAAATAAAA
1 TAAATAAAA
762032 -AAATAAAA
1 TAAATAAAA
762040 TGAAATAAAGA
1 T-AAATAAA-A
*
762051 -AAACAAAA
1 TAAATAAAA
762059 T-AATAAAA
1 TAAATAAAA
* *
762067 -AATTAAAT
1 TAAATAAAA
762075 TAAAATAAAA
1 T-AAATAAAA
762085 TAAAATAAAA
1 T-AAATAAAA
762095 TAAA
1 TAAA
762099 CACGGGTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
8 20 0.37
9 9 0.17
10 24 0.44
11 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (9 bp):
TAAATAAAA
Found at i:762064 original size:35 final size:36
Alignment explanation
Indices: 762025--762097 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
762015 ATTAATGTTA
*
762025 AATAAAAAAATAAAATGAAAT-AAAGAAAACAAAAT
1 AATAAAAAAATAAAATAAAATAAAAGAAAACAAAAT
* * * *
762060 AATAAAAAATTAAATTAAAATAAAATAAAATAAAAT
1 AATAAAAAAATAAAATAAAATAAAAGAAAACAAAAT
762096 AA
1 AA
762098 ACACGGGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 18 0.56
36 14 0.44
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (36 bp):
AATAAAAAAATAAAATAAAATAAAAGAAAACAAAAT
Found at i:763258 original size:23 final size:23
Alignment explanation
Indices: 763226--763280 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
763216 TCAAAAATCG
763226 AAAT-TAATAATAATATTAATATAAT
1 AAATATAATAATAA-A-T-ATATAAT
*
763251 AAATATAATAGTAAATATATAAT
1 AAATATAATAATAAATATATAAT
763274 AAATATA
1 AAATATA
763281 TAAATTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.50
24 1 0.04
25 5 0.18
26 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATATAATAATAAATATATAAT
Found at i:763259 original size:14 final size:14
Alignment explanation
Indices: 763232--763390 Score: 59
Period size: 14 Copynumber: 11.5 Consensus size: 14
763222 ATCGAAATTA
763232 ATAAT-AATATTAAT
1 ATAATAAATA-TAAT
763246 ATAATAAATATAAT
1 ATAATAAATATAAT
*
763260 AGTAA-ATATATAAT
1 A-TAATAAATATAAT
*
763274 A-AATATATA-AATT
1 ATAATAAATATAA-T
* *
763287 CTATATAGTATATAAT
1 ATA-ATA-AATATAAT
* *
763303 ATACTATATATAAT
1 ATAATAAATATAAT
**
763317 AATAAT-AATATGCT
1 -ATAATAAATATAAT
* *
763331 AT-AT-CATATCAT
1 ATAATAAATATAAT
*
763343 ATATATATATATAAT
1 ATA-ATAAATATAAT
*
763358 ATACT--ATATAAT
1 ATAATAAATATAAT
*
763370 ATAA-AATATATTAT
1 ATAATAA-ATATAAT
763384 ATAATAA
1 ATAATAA
763391 TGTACCATAA
Statistics
Matches: 113, Mismatches: 16, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
12 23 0.20
13 8 0.07
14 46 0.41
15 27 0.24
16 7 0.06
17 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAATAAATATAAT
Found at i:763280 original size:11 final size:11
Alignment explanation
Indices: 763244--763283 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
763234 AATAATATTA
763244 ATATAATAAAT
1 ATATAATAAAT
*
763255 ATAATAGTAAAT
1 AT-ATAATAAAT
763267 ATATAATAAAT
1 ATATAATAAAT
763278 ATATAA
1 ATATAA
763284 ATTCTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:763281 original size:2 final size:2
Alignment explanation
Indices: 763244--763386 Score: 69
Period size: 2 Copynumber: 74.5 Consensus size: 2
763234 AATAATATTA
* * * *
763244 AT AT A- AT AA AT AT A- AT AGT AA AT AT AT A- AT AA AT AT AT AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
763284 AT -T CT AT AT AGT AT AT A- AT AT ACT AT AT AT A- AT A- AT A- AT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
763323 A- AT AT GCT AT AT CAT AT CAT AT AT AT AT AT AT A- AT AT ACT AT
1 AT AT AT -AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT A-T AT
*
763365 AT A- AT AT A- AA AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
763387 ATAATGTACC
Statistics
Matches: 109, Mismatches: 12, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
1 13 0.12
2 83 0.76
3 13 0.12
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:763310 original size:12 final size:12
Alignment explanation
Indices: 763289--763372 Score: 81
Period size: 12 Copynumber: 7.4 Consensus size: 12
763279 TATAAATTCT
*
763289 ATATAGTATATA
1 ATATACTATATA
763301 ATATACTATAT-
1 ATATACTATATA
*
763312 ATAATAATA-ATA
1 AT-ATACTATATA
* *
763324 ATATGCTATATC
1 ATATACTATATA
763336 ATAT-C-ATAT-
1 ATATACTATATA
763345 ATATA-TATATA
1 ATATACTATATA
763356 ATATACTATATA
1 ATATACTATATA
763368 ATATA
1 ATATA
763373 AAATATATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.07
10 8 0.13
11 14 0.23
12 34 0.57
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATACTATATA
Found at i:764817 original size:22 final size:22
Alignment explanation
Indices: 764769--764818 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
764759 TTGATTAATG
* * *
764769 GAAGTGCCTTAGCATTGGTACA
1 GAAGTGCCTCAGCACTGATACA
* *
764791 AAAGTGCCTCAGCACTGATGCA
1 GAAGTGCCTCAGCACTGATACA
764813 GAAGTG
1 GAAGTG
764819 TGTTAACATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (22 bp):
GAAGTGCCTCAGCACTGATACA
Found at i:767458 original size:14 final size:16
Alignment explanation
Indices: 767439--767479 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
767429 ATTATATTGT
*
767439 ATATATTATGTAA-ATA
1 ATATA-TATATAATATA
767455 ATATATATATAATATA
1 ATATATATATAATATA
767471 ATATATATA
1 ATATATATA
767480 ATTTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATATATATAATATA
Found at i:767520 original size:29 final size:27
Alignment explanation
Indices: 767466--767560 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
767456 TATATATATA
767466 ATATAATATATATAATTTTTGAAAAAT
1 ATATAATATATATAATTTTTGAAAAAT
*
767493 ATATAATATATATAGTCTTATTTGAAAATAT
1 ATATAATATATATA--ATT-TTTGAAAA-AT
*
767524 ATAGCATATATAATATATAGTTTTTG-AAAAT
1 AT---ATA-AT-ATATATAATTTTTGAAAAAT
767555 ATATAA
1 ATATAA
767561 CATAGTTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
27 15 0.26
28 3 0.05
29 2 0.04
30 8 0.14
31 8 0.14
32 3 0.05
33 4 0.07
34 5 0.09
35 2 0.04
36 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (27 bp):
ATATAATATATATAATTTTTGAAAAAT
Found at i:767601 original size:21 final size:21
Alignment explanation
Indices: 767538--767607 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
767528 CATATATAAT
*
767538 ATATAGTTTTTGAAAATATATA
1 ATATAG-TTTTGAAAAAATATA
* * *
767560 ACATAGTTTTGGAAAACATATT
1 ATATAGTTTT-GAAAAAATATA
*
767582 GTATAGTTTTGAAAAAATATA
1 ATATAGTTTTGAAAAAATATA
767603 ATATA
1 ATATA
767608 TATAATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (21 bp):
ATATAGTTTTGAAAAAATATA
Found at i:767625 original size:22 final size:21
Alignment explanation
Indices: 767602--767672 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 21
767592 GAAAAAATAT
767602 AATATATATAATTTTTG--AA
1 AATATATATAATTTTTGAAAA
767621 AATA-A-ATAATTTTTGAAAA
1 AATATATATAATTTTTGAAAA
* * *
767640 CATATTATGTAGTTTTTGAAAA
1 AATA-TATATAATTTTTGAAAA
*
767662 TATAATATATA
1 AAT-ATATATA
767673 TTATATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.24
18 1 0.02
19 9 0.22
21 1 0.02
22 19 0.46
23 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (21 bp):
AATATATATAATTTTTGAAAA
Found at i:767702 original size:29 final size:29
Alignment explanation
Indices: 767639--767702 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
767629 ATTTTTGAAA
* *
767639 ACATATTATGTAGTTTTTGAAAATATAAT
1 ACATATTATATAGTTTTTAAAAATATAAT
* *
767668 ATATATTATATATTTTTTAAGAAATAT-AT
1 ACATATTATATAGTTTTTAA-AAATATAAT
767697 ACATAT
1 ACATAT
767703 ACACATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (29 bp):
ACATATTATATAGTTTTTAAAAATATAAT
Found at i:768949 original size:4 final size:4
Alignment explanation
Indices: 768940--768965 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
768930 ATTTGATCCC
768940 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
768966 TGGTGTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:770217 original size:331 final size:331
Alignment explanation
Indices: 769615--770270 Score: 1294
Period size: 331 Copynumber: 2.0 Consensus size: 331
769605 TTAATTTATT
769615 CTCCAAGTCAGGCCTAGCAATTAGCCTCTGGGATTCATATGCCTTATTTTTTTGTAGGAATTTAT
1 CTCCAAGTCAGGCCTAGCAATTAGCCTCTGGGATTCATATGCCTTATTTTTTTGTAGGAATTTAT
769680 TCCTCGTGTAAGACATAGGGAAATGTGTCACCTCATGTTTAACTCAGTCCGTATAAGCCTATGAT
66 TCCTCGTGTAAGACATAGGGAAATGTGTCACCTCATGTTTAACTCAGTCCGTATAAGCCTATGAT
769745 GTGTTTAGGATTGAGGGTCTGGTAAGCTCAAGGGAGAACCAACAAGGAGAACTTAAGTCCCTTTT
131 GTGTTTAGGATTGAGGGTCTGGTAAGCTCAAGGGAGAACCAACAAGGAGAACTTAAGTCCCTTTT
769810 TAGACCCAAATCATGTCATTGAGGGAAGTAGAGCCTACCCATAAGCCTCATGCAAACACTAGGAT
196 TAGACCCAAATCATGTCATTGAGGGAAGTAGAGCCTACCCATAAGCCTCATGCAAACACTAGGAT
*
769875 TTTGTTGCTTTATTTCTTGACTATATTTTACAAATCATGTGAACTATAGATATATAGGATTAGGA
261 TTTGTTGCTTTATTTCTTGACTATATTTTACAAATCATGTGAACTAGAGATATATAGGATTAGGA
769940 ATTAGC
326 ATTAGC
*
769946 CTCCAAGTCAGGCCTATCAATTAGCCTCTGGGATTCATATGCCTTATTTTTTTGTAGGAATTTAT
1 CTCCAAGTCAGGCCTAGCAATTAGCCTCTGGGATTCATATGCCTTATTTTTTTGTAGGAATTTAT
770011 TCCTCGTGTAAGACATAGGGAAATGTGTCACCTCATGTTTAACTCAGTCCGTATAAGCCTATGAT
66 TCCTCGTGTAAGACATAGGGAAATGTGTCACCTCATGTTTAACTCAGTCCGTATAAGCCTATGAT
770076 GTGTTTAGGATTGAGGGTCTGGTAAGCTCAAGGGAGAACCAACAAGGAGAACTTAAGTCCCTTTT
131 GTGTTTAGGATTGAGGGTCTGGTAAGCTCAAGGGAGAACCAACAAGGAGAACTTAAGTCCCTTTT
770141 TAGACCCAAATCATGTCATTGAGGGAAGTAGAGCCTACCCATAAGCCTCATGCAAACACTAGGAT
196 TAGACCCAAATCATGTCATTGAGGGAAGTAGAGCCTACCCATAAGCCTCATGCAAACACTAGGAT
770206 TTTGTTGCTTTATTTCTTGACTATATTTTACAAATCATGTGAACTAGAGATATATAGGATTAGGA
261 TTTGTTGCTTTATTTCTTGACTATATTTTACAAATCATGTGAACTAGAGATATATAGGATTAGGA
770271 TTATTTTTGT
Statistics
Matches: 323, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
331 323 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (331 bp):
CTCCAAGTCAGGCCTAGCAATTAGCCTCTGGGATTCATATGCCTTATTTTTTTGTAGGAATTTAT
TCCTCGTGTAAGACATAGGGAAATGTGTCACCTCATGTTTAACTCAGTCCGTATAAGCCTATGAT
GTGTTTAGGATTGAGGGTCTGGTAAGCTCAAGGGAGAACCAACAAGGAGAACTTAAGTCCCTTTT
TAGACCCAAATCATGTCATTGAGGGAAGTAGAGCCTACCCATAAGCCTCATGCAAACACTAGGAT
TTTGTTGCTTTATTTCTTGACTATATTTTACAAATCATGTGAACTAGAGATATATAGGATTAGGA
ATTAGC
Found at i:772366 original size:2 final size:2
Alignment explanation
Indices: 772359--772387 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
772349 AAATGAATGG
772359 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 A
772388 GTTTGCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:775628 original size:13 final size:13
Alignment explanation
Indices: 775610--775667 Score: 89
Period size: 13 Copynumber: 4.5 Consensus size: 13
775600 GTCAAAAATC
775610 TATGACGCACATT
1 TATGACGCACATT
*
775623 TATGACACACATT
1 TATGACGCACATT
*
775636 TATGACGCGCATT
1 TATGACGCACATT
*
775649 TATGACGCTCATT
1 TATGACGCACATT
775662 TATGAC
1 TATGAC
775668 ACTCATTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:775672 original size:13 final size:13
Alignment explanation
Indices: 775619--775674 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
775609 CTATGACGCA
*
775619 CATTTATGACACA
1 CATTTATGACACT
* *
775632 CATTTATGACGCG
1 CATTTATGACACT
*
775645 CATTTATGACGCT
1 CATTTATGACACT
775658 CATTTATGACACT
1 CATTTATGACACT
775671 CATT
1 CATT
775675 GCACGTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (13 bp):
CATTTATGACACT
Found at i:775738 original size:85 final size:85
Alignment explanation
Indices: 775646--775802 Score: 228
Period size: 85 Copynumber: 1.8 Consensus size: 85
775636 TATGACGCGC
* *
775646 ATTTATGACGC-TCATTTATGACACT-CATTGCACGTCATTGAAGCCCCCATCATAAATGAAGAT
1 ATTTATGACACGT-ATTTATGAC-CTACATTACACGTCATTGAAGCCCCCATCATAAATGAAGAT
775709 GACACACATTTGTCTGTCATAA
64 GACACACATTTGTCTGTCATAA
* ** *
775731 ATTTATGACACGTATTTATGACTTACATTACGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACACGTATTTATGACCTACATTACACGTCATTGAAGCCCCCATCATAAATGAAGATGA
775796 CACACAT
66 CACACAT
775803 GCGTGTGTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.97
86 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGTATTTATGACCTACATTACACGTCATTGAAGCCCCCATCATAAATGAAGATGA
CACACATTTGTCTGTCATAA
Found at i:786132 original size:47 final size:44
Alignment explanation
Indices: 786063--786165 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 44
786053 TGTTGGATTT
** *
786063 CCAACTTATTTCTCTCGCTATGTTGGAGCTATTACCAATAATATTAC
1 CCAACTTATTTCTCTAACTATGTTGGAGCTATTACC---AACATTAC
*
786110 CCAACTTATTTC-CTAAACTATGTTGGAGTTATTACCAACATTAC
1 CCAACTTATTTCTCT-AACTATGTTGGAGCTATTACCAACATTAC
786154 CCAACTTATTTC
1 CCAACTTATTTC
786166 GAAAGATCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 19 0.37
46 2 0.04
47 30 0.59
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (44 bp):
CCAACTTATTTCTCTAACTATGTTGGAGCTATTACCAACATTAC
Found at i:799966 original size:20 final size:20
Alignment explanation
Indices: 799943--800007 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
799933 GGGAGACTTT
799943 TGAGATGGTGATTGATCTAG
1 TGAGATGGTGATTGATCTAG
* *** **
799963 TGAGGATTTGTGGGAGA-CTTT
1 TGA-GA-TGGTGATTGATCTAG
799984 TGAGATGGTGATTGATCTAG
1 TGAGATGGTGATTGATCTAG
800004 TGAG
1 TGAG
800008 GTCGACTTGG
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
19 6 0.20
20 11 0.37
21 7 0.23
22 6 0.20
ACGTcount: A:0.23, C:0.05, G:0.37, T:0.35
Consensus pattern (20 bp):
TGAGATGGTGATTGATCTAG
Found at i:799988 original size:41 final size:41
Alignment explanation
Indices: 799926--800008 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
799916 TGACATAATA
799926 GATTGGTGGGAGACTTTTGAGATGGTGATTGATCTAGTGAG
1 GATTGGTGGGAGACTTTTGAGATGGTGATTGATCTAGTGAG
*
799967 GATTTGTGGGAGACTTTTGAGATGGTGATTGATCTAGTGAG
1 GATTGGTGGGAGACTTTTGAGATGGTGATTGATCTAGTGAG
800008 G
1 G
800009 TCGACTTGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.05, G:0.39, T:0.35
Consensus pattern (41 bp):
GATTGGTGGGAGACTTTTGAGATGGTGATTGATCTAGTGAG
Found at i:804464 original size:20 final size:19
Alignment explanation
Indices: 804439--804477 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
804429 CGTAAGCTAC
804439 GGGTATCGATACCAATAGGT
1 GGGTATCGATACCAA-AGGT
804459 GGGTATCGATACCAAAGGT
1 GGGTATCGATACCAAAGGT
804478 TTAGTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (19 bp):
GGGTATCGATACCAAAGGT
Found at i:807347 original size:32 final size:32
Alignment explanation
Indices: 807310--807371 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
807300 AATGTCCCAA
* * *
807310 TTACAATTTTTATGATGATGAATATTAAATCT
1 TTACAATTTTTAAGACGATGAATAATAAATCT
*
807342 TTACAATTTTTAAGACGTTGAATAATAAAT
1 TTACAATTTTTAAGACGATGAATAATAAAT
807372 GATTATACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (32 bp):
TTACAATTTTTAAGACGATGAATAATAAATCT
Found at i:813100 original size:18 final size:18
Alignment explanation
Indices: 813072--813141 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
813062 AATAAATAAC
813072 CATGCTACTTCATTTAAAG
1 CATG-TACTTCATTTAAAG
*
813091 CCTGTACTTCATTTAAAG
1 CATGTACTTCATTTAAAG
* * * *
813109 AATTTAGTTCATTCAAAG
1 CATGTACTTCATTTAAAG
813127 CATGTACTTC-TTTAA
1 CATGTACTTCATTTAA
813142 GTAAATTACT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 4 0.10
18 34 0.83
19 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (18 bp):
CATGTACTTCATTTAAAG
Found at i:813155 original size:35 final size:36
Alignment explanation
Indices: 813077--813156 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
813067 ATAACCATGC
* * *
813077 TACTTCATTTAAAGCCTGTACTTCATTTAAAGAATT
1 TACTTCATTCAAAGCATGTACTTCATTTAAAGAAAT
*
813113 TAGTTCATTCAAAGCATGTACTTC-TTT-AAGTAAAT
1 TACTTCATTCAAAGCATGTACTTCATTTAAAG-AAAT
813148 TACTTCATT
1 TACTTCATT
813157 TAAGTTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 3 0.08
35 14 0.37
36 21 0.55
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (36 bp):
TACTTCATTCAAAGCATGTACTTCATTTAAAGAAAT
Found at i:818543 original size:2 final size:2
Alignment explanation
Indices: 818536--818565 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
818526 TATGTATTTA
818536 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
818566 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:818570 original size:2 final size:2
Alignment explanation
Indices: 818565--818597 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
818555 TATATATATA
818565 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
818598 AATTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:820827 original size:23 final size:22
Alignment explanation
Indices: 820800--820969 Score: 154
Period size: 23 Copynumber: 7.7 Consensus size: 22
820790 TACTTGGAGT
820800 AGTACTTTGTGTACTATGGTAAG
1 AGTACTTTGTGTACTATGG-AAG
820823 AGTACTTTGTGTACT-TGG-AG
1 AGTACTTTGTGTACTATGGAAG
* * *
820843 TAGTACTTGGTGTACTATGCAAAT
1 -AGTACTTTGTGTACTATG-GAAG
820867 AGTACTTTGTGTACTA-GG-AG
1 AGTACTTTGTGTACTATGGAAG
* *
820887 TAGTACATTGTGTACTATGACAAG
1 -AGTACTTTGTGTACTATG-GAAG
*
820911 AGTACATTGTGTACT-TGG-AG
1 AGTACTTTGTGTACTATGGAAG
*
820931 AAGTACTTTGTATACTATGGCAAG
1 -AGTACTTTGTGTACTATGG-AAG
* *
820955 AGTATTTTCTGTACT
1 AGTACTTTGTGTACT
820970 TGTAGTAGTA
Statistics
Matches: 121, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.04
21 42 0.35
22 12 0.10
23 57 0.47
24 5 0.04
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (22 bp):
AGTACTTTGTGTACTATGGAAG
Found at i:820847 original size:44 final size:44
Alignment explanation
Indices: 820789--820981 Score: 262
Period size: 44 Copynumber: 4.4 Consensus size: 44
820779 TTTTGTAACA
*
820789 GTACTTGGAGTAGTACTTTGTGTACTATGGTAAGAGTACTTTGT
1 GTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACTTTGT
* *
820833 GTACTTGGAGTAGTACTTGGTGTACTAT-GCAAATAGTACTTTGT
1 GTACTTGGAGTAGTACTTTGTGTACTATGGC-AAGAGTACTTTGT
* * * *
820877 GTACTAGGAGTAGTACATTGTGTACTATGACAAGAGTACATTGT
1 GTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACTTTGT
* * * *
820921 GTACTTGGAGAAGTACTTTGTATACTATGGCAAGAGTATTTTCT
1 GTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACTTTGT
*
820965 GTACTTGTAGTAGTACT
1 GTACTTGGAGTAGTACT
820982 ATGGCACTCT
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
43 1 0.01
44 126 0.98
45 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (44 bp):
GTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACTTTGT
Found at i:824149 original size:15 final size:17
Alignment explanation
Indices: 824124--824157 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
824114 TAAAGGTCCT
824124 AAATAACTAATAAA-TA
1 AAATAACTAATAAACTA
824140 AAATAA-TAATAAACTA
1 AAATAACTAATAAACTA
824156 AA
1 AA
824158 CATATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAACTAATAAACTA
Found at i:828053 original size:10 final size:9
Alignment explanation
Indices: 828040--828087 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
828030 AAATTTTGGC
828040 TTTTTTGTGT
1 TTTTTTGT-T
828050 TTTTTTGTT
1 TTTTTTGTT
828059 TTTTTT-TT
1 TTTTTTGTT
**
828067 TTTTTTGCC
1 TTTTTTGTT
828076 TTTTTTGTT
1 TTTTTTGTT
828085 TTT
1 TTT
828088 ATGTTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 8 0.24
9 17 0.52
10 8 0.24
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:828874 original size:15 final size:17
Alignment explanation
Indices: 828849--828882 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
828839 TAAAGGTCCT
828849 AAATAACTAATAAA-TA
1 AAATAACTAATAAACTA
828865 AAATAA-TAATAAACTA
1 AAATAACTAATAAACTA
828881 AA
1 AA
828883 CATATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAACTAATAAACTA
Found at i:836112 original size:13 final size:13
Alignment explanation
Indices: 836094--836121 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
836084 CATAGATTAA
836094 CAGTCTTCATATG
1 CAGTCTTCATATG
836107 CAGTCTTCATATG
1 CAGTCTTCATATG
836120 CA
1 CA
836122 CATCTGTAAT
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:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:844053 original size:16 final size:16
Alignment explanation
Indices: 844032--844065 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
844022 TAAGATGCTC
*
844032 ATACTAATGTTAGAGT
1 ATACTAAGGTTAGAGT
844048 ATACTAAGGTTAGAGT
1 ATACTAAGGTTAGAGT
844064 AT
1 AT
844066 GTCTAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (16 bp):
ATACTAAGGTTAGAGT
Found at i:873792 original size:2 final size:2
Alignment explanation
Indices: 873785--873878 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
873775 ACCATAAATG
873785 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
873827 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
873869 AT AT AT AT AT
1 AT AT AT AT AT
873879 TCCTTCATAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:874324 original size:15 final size:15
Alignment explanation
Indices: 874304--874333 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
874294 TGTCACCCTC
874304 ATATTTTTTAAAAAA
1 ATATTTTTTAAAAAA
874319 ATATTTTTTAAAAAA
1 ATATTTTTTAAAAAA
874334 TAAGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTTTTTAAAAAA
Found at i:874570 original size:22 final size:21
Alignment explanation
Indices: 874535--874579 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
874525 TAAAAATCCC
874535 CTTAAATTCATAAATCCCAAAA
1 CTTAAATTCATAAA-CCCAAAA
*
874557 CTTAAATTTC-TAAACCCTAAA
1 CTTAAA-TTCATAAACCCAAAA
874578 CT
1 CT
874580 CTAACCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 10 0.48
23 3 0.14
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
CTTAAATTCATAAACCCAAAA
Found at i:874696 original size:27 final size:27
Alignment explanation
Indices: 874628--874689 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
874618 ATTTGCAGAT
874628 GATTTACAGTCATTTAAACCGTTCGAC
1 GATTTACAGTCATTTAAACCGTTCGAC
874655 GATTTACAGTCATTTAAACCGTTCGAC
1 GATTTACAGTCATTTAAACCGTTCGAC
874682 GATTTACA
1 GATTTACA
874690 ATAATTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
GATTTACAGTCATTTAAACCGTTCGAC
Found at i:879576 original size:129 final size:129
Alignment explanation
Indices: 879389--879687 Score: 420
Period size: 129 Copynumber: 2.3 Consensus size: 129
879379 TTTAGGAAGA
* * * * * *
879389 GTGATAACTTGGTTCCTACGCGATGAGGACTGCTGGTTATCTAAGGTTGACACGGCTCCTACGTG
1 GTGATAACATGGTTCCTACGTGATGAGGACAGCTGGTTATCGAAGGTTGACACAGCTCCTACATG
* * * *
879454 ATGAGGAGATCAGGTTGGGTGATGACACGGCTCATACATGATGAAGAGTTCT-AGCCATCTAAAG
66 ATGAGGAGATCAGGTCGAGTGATGACACAGCTCATACATGATGAAGAGTTCTGA-CCATATAAAG
* *
879518 GTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCGAAGGTTGACACAGCTCCTACATG
1 GTGATAACATGGTTCCTACGTGATGAGGACAGCTGGTTATCGAAGGTTGACACAGCTCCTACATG
* *
879583 ATGAGGATATCAGGTCGAGTGATGACACAGCTCATACGTGATGAAGAGTTCTGACCATATAAAG
66 ATGAGGAGATCAGGTCGAGTGATGACACAGCTCATACATGATGAAGAGTTCTGACCATATAAAG
* * * *
879647 TTGATAACATGGTTTCTAGGTGATGAAGACAGCTGGTTATC
1 GTGATAACATGGTTCCTACGTGATGAGGACAGCTGGTTATC
879688 TGGGATAACA
Statistics
Matches: 150, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 149 0.99
130 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (129 bp):
GTGATAACATGGTTCCTACGTGATGAGGACAGCTGGTTATCGAAGGTTGACACAGCTCCTACATG
ATGAGGAGATCAGGTCGAGTGATGACACAGCTCATACATGATGAAGAGTTCTGACCATATAAAG
Found at i:892188 original size:32 final size:34
Alignment explanation
Indices: 892152--892221 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
892142 ACCTTACAAC
*
892152 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
892184 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
892218 TCCC
1 TCCC
892222 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:892629 original size:20 final size:21
Alignment explanation
Indices: 892606--892673 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
892596 TGCACAGCAG
892606 GATGCACA-ATAGGATGCATC
1 GATGCACAGATAGGATGCATC
* *
892626 GATGCACAGCCT-TGATGCATC
1 GATGCACAG-ATAGGATGCATC
*
892647 GATGCATAGA-AGGATGCATC
1 GATGCACAGATAGGATGCATC
892667 GATGCAC
1 GATGCAC
892674 TAATTGGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 22 0.56
21 16 0.41
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (21 bp):
GATGCACAGATAGGATGCATC
Found at i:892766 original size:21 final size:20
Alignment explanation
Indices: 892694--892792 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 20
892684 CAGTGTTTGA
* *
892694 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTGCAGG
*
892714 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
892736 GTGTATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
*
892756 GATGCATGGATGCCCTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
892778 GTGCATGGATGCACT
1 GTGCATGGATGCACT
892793 TTGACACCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.06
20 15 0.23
21 28 0.42
22 16 0.24
23 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:892874 original size:21 final size:21
Alignment explanation
Indices: 892850--892895 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
892840 GAATTATTTT
*
892850 TAAAACCTTTAAAACATTGAA
1 TAAAACCATTAAAACATTGAA
** *
892871 TAAATTCATTAAAACTTTGAA
1 TAAAACCATTAAAACATTGAA
892892 TAAA
1 TAAA
892896 TTCAATTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAACCATTAAAACATTGAA
Found at i:892896 original size:21 final size:22
Alignment explanation
Indices: 892858--892904 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
892848 TTTAAAACCT
892858 TTAAAACATTGAATAAATTC-A
1 TTAAAACATTGAATAAATTCAA
*
892879 TTAAAACTTTGAATAAATTCAA
1 TTAAAACATTGAATAAATTCAA
892901 TTAA
1 TTAA
892905 GTCCAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (22 bp):
TTAAAACATTGAATAAATTCAA
Found at i:892913 original size:29 final size:29
Alignment explanation
Indices: 892892--892949 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
892882 AAACTTTGAA
892892 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
892921 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
892950 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:892939 original size:30 final size:30
Alignment explanation
Indices: 892892--892951 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
892882 AAACTTTGAA
892892 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
892921 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
892952 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:894251 original size:20 final size:18
Alignment explanation
Indices: 894214--894262 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
894204 TCTAAATTAT
*
894214 TTTTCAAAATTTAATTTTG
1 TTTTCAAAA-TCAATTTTG
894233 ATTTTCAAAATCAACTTTTG
1 -TTTTCAAAATCAA-TTTTG
*
894253 CTTTCAAAAT
1 TTTTCAAAAT
894263 AAAATTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (18 bp):
TTTTCAAAATCAATTTTG
Found at i:895802 original size:32 final size:34
Alignment explanation
Indices: 895766--895835 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
895756 ACCTTACAAC
*
895766 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
895798 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
895832 TCCC
1 TCCC
895836 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:896243 original size:20 final size:21
Alignment explanation
Indices: 896220--896287 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 21
896210 TGCACAGCAG
896220 GATGCACA-ATAGGATGCATC
1 GATGCACAGATAGGATGCATC
* *
896240 GATGCACAGCCT-TGATGCATC
1 GATGCACAG-ATAGGATGCATC
896261 GATGCACAGA-AGGATGCATC
1 GATGCACAGATAGGATGCATC
896281 GATGCAC
1 GATGCAC
896288 TAATTGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 23 0.56
21 17 0.41
22 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (21 bp):
GATGCACAGATAGGATGCATC
Found at i:896355 original size:22 final size:23
Alignment explanation
Indices: 896322--896365 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
896312 ATGGATGCAC
896322 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
896345 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCGATGCACTA
896366 CAGGGATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:896377 original size:21 final size:20
Alignment explanation
Indices: 896308--896427 Score: 152
Period size: 21 Copynumber: 5.8 Consensus size: 20
896298 CGGTGTTTGA
*
896308 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
896328 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
896350 GTGCATGGATGCACTACAGG
1 GTGCATGGATGCACTGCAGG
896370 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
896392 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCA-GG
896413 GTGCATGGATGCACT
1 GTGCATGGATGCACT
896428 TTGACACCCT
Statistics
Matches: 90, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
19 3 0.03
20 15 0.17
21 51 0.57
22 17 0.19
23 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:896382 original size:63 final size:62
Alignment explanation
Indices: 896309--896427 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
896299 GGTGTTTGAG
*
896309 TGCATGGATGCACTGCA-TGGTGCATCGATGCACTAGTGCA-GGTGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTGCAGGGGTGCATCGATGCAC---TGCAGGGTGCATGGATGCACTACAGGGA
*
896372 TGCATGGATGCACTGCAGGGGTGCATGGATGCACTGCAGGGGTGCATGGATGCACT
1 TGCATGGATGCACTGCAGGGGTGCATCGATGCACTGCA-GGGTGCATGGATGCACT
896428 TTGACACCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
61 4 0.08
63 33 0.65
64 14 0.27
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (62 bp):
TGCATGGATGCACTGCAGGGGTGCATCGATGCACTGCAGGGTGCATGGATGCACTACAGGGA
Found at i:896520 original size:21 final size:22
Alignment explanation
Indices: 896494--896540 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
896484 TTGAAACCTT
896494 TTAAAACTTTGAATAAATTC-A
1 TTAAAACTTTGAATAAATTCAA
896515 TTAAAACTTTGAATAAATTCAA
1 TTAAAACTTTGAATAAATTCAA
896537 TTAA
1 TTAA
896541 GTCCTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAAAACTTTGAATAAATTCAA
Found at i:896549 original size:29 final size:29
Alignment explanation
Indices: 896528--896585 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
896518 AAACTTTGAA
896528 TAAATTCAATT-AAGTCCTAAAACATTTTG
1 TAAATTCAATTCAAGTCCTAAAACA-TTTG
*
896557 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCTAAAA-CATTT
896586 TACCTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCTAAAACATTTG
Found at i:896580 original size:30 final size:30
Alignment explanation
Indices: 896528--896586 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
896518 AAACTTTGAA
*
896528 TAAATTCAATTAAGTCCTAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
896557 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
896587 ACCTCAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:897191 original size:3 final size:3
Alignment explanation
Indices: 897183--897235 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
897173 TTTATTTTGT
* * *
897183 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA CAA CAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
897230 TAA TAA
1 TAA TAA
897236 ACCCGGACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:897270 original size:3 final size:3
Alignment explanation
Indices: 897262--897321 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
897252 GTTATTTTGT
* *
897262 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
897310 TAA TAA TAA TAA
1 TAA TAA TAA TAA
897322 ACCCGGACAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:900279 original size:17 final size:16
Alignment explanation
Indices: 900250--900284 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
900240 TTTTCGTGGT
900250 TCAACAAAGCCTTCAG
1 TCAACAAAGCCTTCAG
*
900266 TCAACCAAATCCTTCAG
1 TCAA-CAAAGCCTTCAG
900283 TC
1 TC
900285 TTTTACGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (16 bp):
TCAACAAAGCCTTCAG
Found at i:903664 original size:14 final size:14
Alignment explanation
Indices: 903645--903685 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
903635 TTTCTGTCTA
*
903645 TATGCAGAGATTAT
1 TATGCAGGGATTAT
903659 TATGCAGGGATTTAT
1 TATGCAGGGA-TTAT
903674 TA-GCAGGGATTA
1 TATGCAGGGATTA
903686 CTTCCCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 16 0.64
15 6 0.24
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (14 bp):
TATGCAGGGATTAT
Found at i:905184 original size:17 final size:17
Alignment explanation
Indices: 905154--905186 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
905144 TCCTTAAATT
905154 TTTTAATTTTTTTTATA
1 TTTTAATTTTTTTTATA
905171 TTTT-ATTTTATTTTAT
1 TTTTAATTTT-TTTTAT
905187 TTTGTCTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTAATTTTTTTTATA
Found at i:907104 original size:26 final size:26
Alignment explanation
Indices: 907068--907155 Score: 158
Period size: 26 Copynumber: 3.4 Consensus size: 26
907058 TCATGATATC
907068 AGACAAAAACGAAGTAAAAATTATTT
1 AGACAAAAACGAAGTAAAAATTATTT
907094 AGACAAAAACGAAGTAAAAATTATTT
1 AGACAAAAACGAAGTAAAAATTATTT
*
907120 AGACAAAAACAAAGTAAAAATTATTT
1 AGACAAAAACGAAGTAAAAATTATTT
*
907146 AAACAAAAAC
1 AGACAAAAAC
907156 AAGGCCACCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (26 bp):
AGACAAAAACGAAGTAAAAATTATTT
Found at i:909618 original size:39 final size:39
Alignment explanation
Indices: 909564--909642 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
909554 TAAGAAGGAC
909564 GTCATCAATTCATATTAACATCATTAAAGAGCAATATAA
1 GTCATCAATTCATATTAACATCATTAAAGAGCAATATAA
909603 GTCATCAATTCATATTAACATCATTAAAGAGCAATATAA
1 GTCATCAATTCATATTAACATCATTAAAGAGCAATATAA
909642 G
1 G
909643 AGTTCGATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (39 bp):
GTCATCAATTCATATTAACATCATTAAAGAGCAATATAA
Found at i:912145 original size:13 final size:12
Alignment explanation
Indices: 912111--912153 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
912101 CAGCAGCAGC
912111 CTTTTTCTCTTTTT
1 CTTTTTC-C-TTTT
*
912125 CCTTTTCCTTCTT
1 CTTTTTCCTT-TT
912138 CTTTTTCCTTTT
1 CTTTTTCCTTTT
912150 CTTT
1 CTTT
912154 GCAGCAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
13 12 0.46
14 6 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCCTTTT
Found at i:912355 original size:12 final size:12
Alignment explanation
Indices: 912335--912368 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
912325 GTCCTGCCAC
912335 TCTTGTTCTTCT
1 TCTTGTTCTTCT
*
912347 TCTTATTCTTCT
1 TCTTGTTCTTCT
912359 TCTTGTTCTT
1 TCTTGTTCTT
912369 AGAAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.24, G:0.06, T:0.68
Consensus pattern (12 bp):
TCTTGTTCTTCT
Found at i:912919 original size:123 final size:124
Alignment explanation
Indices: 912725--912955 Score: 311
Period size: 123 Copynumber: 1.9 Consensus size: 124
912715 TGAAGGAACA
* * * * * * * * *
912725 TCTTCCTCATCTTCTTTTACACTCTCATCATTTTCAAGCTCGTCATCTAAGGCTGCAAATGTAGC
1 TCTTCCTCATCTTCTTTCAAACCCTCATCATTTTCAACCTCATCACCCAAGGCTGCAAAGGCAGC
912790 ACTGTTTTTCTTCTTAGATGACTTC-TTCTTACCTGAAAATCCAAATGAAGGAGCATCT
66 ACTGTTTTTCTTCTTAGATGACTTCTTTCTTACCTGAAAATCCAAATGAAGGAGCATCT
* * *
912848 TCTTCCTCGTCTTCTTTCAAACCCTCTTCGTTTTCAACCTCATCACCCAAGGCTGCAAAGGCAGC
1 TCTTCCTCATCTTCTTTCAAACCCTCATCATTTTCAACCTCATCACCCAAGGCTGCAAAGGCAGC
* *
912913 AGTGTTTTTCTTCTTAGATGCCTTCTTATTCTTACCTGAAAAT
66 ACTGTTTTTCTTCTTAGATGACTTC-T-TTCTTACCTGAAAAT
912956 GCAATCATGG
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
123 76 0.84
126 15 0.16
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (124 bp):
TCTTCCTCATCTTCTTTCAAACCCTCATCATTTTCAACCTCATCACCCAAGGCTGCAAAGGCAGC
ACTGTTTTTCTTCTTAGATGACTTCTTTCTTACCTGAAAATCCAAATGAAGGAGCATCT
Found at i:929305 original size:42 final size:42
Alignment explanation
Indices: 929176--929312 Score: 143
Period size: 42 Copynumber: 3.2 Consensus size: 42
929166 ATTGGGCTCC
* *
929176 TAATTTTTT-ATTATATTTTTTATTTTTATAATTTA-ACCCTT
1 TAATTTTTTAATTATATTTTTTATCTTTATAATTGAGACCC-T
* * **
929217 TAATTTTCTTTAATTTTAATTTTTTATCCTTATAATTGAGGTCCT
1 TAA-TTT-TTTAATTAT-ATTTTTTATCTTTATAATTGAGACCCT
* * *
929262 TAATTTTTTAATCATACTTTTTATCTTTATAATGGAGACCCT
1 TAATTTTTTAATTATATTTTTTATCTTTATAATTGAGACCCT
929304 TAATTTTTT
1 TAATTTTTT
929313 TTTCAATCTC
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.04
42 34 0.44
43 10 0.13
44 7 0.09
45 22 0.28
46 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.59
Consensus pattern (42 bp):
TAATTTTTTAATTATATTTTTTATCTTTATAATTGAGACCCT
Found at i:939454 original size:19 final size:21
Alignment explanation
Indices: 939413--939454 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
939403 ATCATGATTT
*
939413 TTATCAAAATAATGATAAACA
1 TTATCAAAATAATAATAAACA
*
939434 TTATC-AAATAA-AATAAGCA
1 TTATCAAAATAATAATAAACA
939453 TT
1 TT
939455 TCATATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (21 bp):
TTATCAAAATAATAATAAACA
Found at i:942367 original size:21 final size:20
Alignment explanation
Indices: 942333--942379 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
942323 CCACTGGTGC
*
942333 CGATATTGAACCCTTCAGTAT
1 CGATACTGAACCC-TCAGTAT
* *
942354 CGATACTGACCCCTGAGTAT
1 CGATACTGAACCCTCAGTAT
942374 CGATAC
1 CGATAC
942380 CAATCTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
CGATACTGAACCCTCAGTAT
Found at i:944087 original size:96 final size:96
Alignment explanation
Indices: 943909--944089 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 96
943899 TATCGTACCA
* * *
943909 AAATGGTAGTATCAATACCATGGTAAGGGTATAGATACCATACTACATCGAATCTAAAATGGGTA
1 AAATAGTAGTATCAATACCATGGTAAGGGTATAGATACCAGACAACATCGAATCTAAAATGGGTA
*
943974 TCAATACCGGAAAGGGTATCAGTACCATAAT
66 TCAATACCAGAAAGGGTATCAGTACCATAAT
* * * * *
944005 AAATAGTAGTATCGATATCATGGTAAGGGTATCGATACCAGCCAACATCGAATC-AAAAGTTGGT
1 AAATAGTAGTATCAATACCATGGTAAGGGTATAGATACCAGACAACATCGAATCTAAAA-TGGGT
* **
944069 ATCGATACCAGAGGGGGTATC
65 ATCAATACCAGAAAGGGTATC
944090 CATAGTATAG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 4 0.06
96 68 0.94
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (96 bp):
AAATAGTAGTATCAATACCATGGTAAGGGTATAGATACCAGACAACATCGAATCTAAAATGGGTA
TCAATACCAGAAAGGGTATCAGTACCATAAT
Found at i:944134 original size:35 final size:34
Alignment explanation
Indices: 944068--944134 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
944058 CAAAAGTTGG
* *
944068 TATCGATACCAGAGGGGGTATCCATAGTATAGTA
1 TATCGATACCAGAGAGGGTATCCATACTATAGTA
* *
944102 TATCGATACCATGATAGGGTATCGATACTATAG
1 TATCGATACCA-GAGAGGGTATCCATACTATAG
944135 AGCCAGAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
TATCGATACCAGAGAGGGTATCCATACTATAGTA
Found at i:944594 original size:55 final size:57
Alignment explanation
Indices: 944457--944876 Score: 579
Period size: 57 Copynumber: 7.5 Consensus size: 57
944447 GTGCAAAATA
* * *
944457 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGGC-TTTCATATAGGT-AAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-AGGGCGTTTCGTA-CGCTAAAATGT
* *
944514 TAAGAAATCATACTAAGTGTGTGAATTTCAGATAGGACGTTTCGTACGCT-AAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
944570 TAAG-AATCATACTAAGTGTATGAATTTCAGATAAGGC-TTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * **
944625 TAAGAAATCATACTAA-AGTATGAATTTTAGATAGGGCGTTTTGTATACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
944681 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCATACGCTAAAA--T
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* ** *
944736 TAAGAAATCATACTAAGGGTATGAATTTCAGATAGGGCGTTTTATACGATAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
944793 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGAGTTTCGTACACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
944850 TAAGAAATC-TACTAAGTGTATGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
944877 TTATTTATAA
Statistics
Matches: 325, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
54 10 0.03
55 109 0.34
56 77 0.24
57 129 0.40
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:944693 original size:112 final size:113
Alignment explanation
Indices: 944457--944876 Score: 547
Period size: 112 Copynumber: 3.7 Consensus size: 113
944447 GTGCAAAATA
*
944457 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGGCTTTCATATA-GGT-AAATGTTAAGAA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAA-GGCTTT--TATACGCTAAAATGTTAAGAA
* * * **
944520 ATCATACTAAGTGTGTGAATTTCAGATAGGACGTTTCGTACGCT-AAATGT
63 ATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTATACTAAAATGT
*
944570 TAAG-AATCATACTAAGTGTATGAATTTCAGATAAGGCTTTTGTACGCTAAAATGTTAAGAAATC
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCTTTTATACGCTAAAATGTTAAGAAATC
* *
944634 ATACTAA-AGTATGAATTTTAGATAGGGCGTTTTGTATACTAAAATGT
66 ATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTATACTAAAATGT
*
944681 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-AGGGTGTTTCATACGCTAAAA--TTAAGAAA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCT-TTT-ATACGCTAAAATGTTAAGAAA
*
944743 TCATACTAAGGGTATGAATTTCAGATAGGGCG-TTT-TATACGATAAAATGT
64 TCATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTATAC--TAAAATGT
* * ** *
944793 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGAGTTTCGTACACTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGG-CTTTTATACGCTAAAATGTTAAGAAAT
944858 C-TACTAAGTGTATGAATTT
65 CATACTAAGTGTATGAATTT
944877 TTATTTATAA
Statistics
Matches: 276, Mismatches: 18, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
109 3 0.01
110 33 0.12
111 62 0.22
112 131 0.47
113 35 0.13
114 12 0.04
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (113 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCTTTTATACGCTAAAATGTTAAGAAATC
ATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTATACTAAAATGT
Found at i:945890 original size:28 final size:27
Alignment explanation
Indices: 945795--945894 Score: 143
Period size: 26 Copynumber: 3.8 Consensus size: 27
945785 CTTTTATATT
* *
945795 TATAT-TATATATATAATTTTTGAATA
1 TATATATATATATATAGTTTTTGAAAA
*
945821 TATATATATA-ATATAGTTTCTGAAAA
1 TATATATATATATATAGTTTTTGAAAA
945847 TATATATA-ATATATAGTTTTTGAAAA
1 TATATATATATATATAGTTTTTGAAAA
945873 TATATATATATAATATAGTTTT
1 TATATATATAT-ATATAGTTTT
945895 AAGAATATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
25 1 0.02
26 49 0.74
27 6 0.09
28 10 0.15
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (27 bp):
TATATATATATATATAGTTTTTGAAAA
Found at i:945902 original size:21 final size:22
Alignment explanation
Indices: 945824--945932 Score: 78
Period size: 26 Copynumber: 4.6 Consensus size: 22
945814 TTGAATATAT
945824 ATATATAATATA-GTTTCTGAAAA
1 ATATATAATATATGTTT-T-AAAA
945847 TATATATAATATATAGTTTTTGAAAA
1 -ATATATAATATAT-G-TTTT-AAAA
*
945873 TATATATATATAATATAGTTTTAAGA
1 -ATATATA-AT-ATAT-GTTTTAAAA
* *
945899 ATATATTATA-ATTTTTTAAAA
1 ATATATAATATATGTTTTAAAA
*
945920 ACATATAATATAT
1 ATATATAATATAT
945933 ATTATGTATT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
21 15 0.21
22 4 0.05
23 1 0.01
24 14 0.19
25 6 0.08
26 18 0.25
27 9 0.12
28 6 0.08
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (22 bp):
ATATATAATATATGTTTTAAAA
Found at i:945908 original size:28 final size:26
Alignment explanation
Indices: 945795--945908 Score: 130
Period size: 26 Copynumber: 4.4 Consensus size: 26
945785 CTTTTATATT
* *
945795 TATAT-TATATATATAATTTTTGAATA
1 TATATATATATATAT-AGTTTTGAAAA
945821 TATATATATA-ATATAGTTTCTGAAAA
1 TATATATATATATATAGTTT-TGAAAA
945847 TATATATA-ATATATAGTTTTTGAAAA
1 TATATATATATATATAG-TTTTGAAAA
945873 TATATATATATAATATAGTTTT-AAGAA
1 TATATATATAT-ATATAGTTTTGAA-AA
945900 TATAT-TATA
1 TATATATATA
945909 ATTTTTTAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
25 5 0.06
26 48 0.61
27 20 0.25
28 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (26 bp):
TATATATATATATATAGTTTTGAAAA
Found at i:945909 original size:54 final size:53
Alignment explanation
Indices: 945795--945910 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 53
945785 CTTTTATATT
945795 TATATTAT-ATATATAATTTTTGAATATATATATATAATATAGTTTCTGAAAA
1 TATATTATAATATATAATTTTTGAATATATATATATAATATAGTTTCTGAAAA
*
945847 TATA-TATAATATATAGTTTTTGAAAATATATATATATAATATAGTTT-T-AAGAA
1 TATATTATAATATATAATTTTTG--AATATATATATATAATATAGTTTCTGAA-AA
945900 TATATTATAAT
1 TATATTATAAT
945911 TTTTTAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
51 3 0.05
52 19 0.33
53 7 0.12
54 29 0.50
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (53 bp):
TATATTATAATATATAATTTTTGAATATATATATATAATATAGTTTCTGAAAA
Found at i:946020 original size:4 final size:4
Alignment explanation
Indices: 946011--946041 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
946001 TATTATTATC
946011 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
946042 TTGTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:950489 original size:17 final size:17
Alignment explanation
Indices: 950481--950552 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
950471 ATTCATGAAT
*
950481 CTAGTTCATTGAATAAAG
1 CTAGTTCATT-AATAAAA
* *
950499 TTAGTTCATTAATTAAA
1 CTAGTTCATTAATAAAA
* * *
950516 CTAGGTCATTCATCAAA
1 CTAGTTCATTAATAAAA
* *
950533 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATAAAA
950550 CTA
1 CTA
950553 ACTCTTAGGT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 35 0.80
18 9 0.20
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (17 bp):
CTAGTTCATTAATAAAA
Found at i:950851 original size:38 final size:38
Alignment explanation
Indices: 950809--951043 Score: 120
Period size: 39 Copynumber: 6.3 Consensus size: 38
950799 AAATTTGGGT
950809 TCGGGTCTGGTTGGGTTTTTTTAAGTTTGATATTCGGG
1 TCGGGTCTGGTTGGGTTTTTTTAAGTTTGATATTCGGG
* * * **
950847 TCGGGTCAGGTCGGGTTTTTTTTAAGTGTGATATTCATG
1 TCGGGTCTGGTTGGG-TTTTTTTAAGTTTGATATTCGGG
* ** *
950886 TCGTGT-TCGGTTCGGGTTTTTTT---TTAAAT-TTCGAGA
1 TCGGGTCT-GGTT-GGGTTTTTTTAAGTTTGATATTCG-GG
**
950922 TCGGGTC-GGATT---TTTTTTTAA---AAAT-TTCGGG
1 TCGGGTCTGG-TTGGGTTTTTTTAAGTTTGATATTCGGG
* * *
950953 TTCGGGTCGGGTCGAG-TTTTTTAAGTTTGATATTCGGG
1 -TCGGGTCTGGTTGGGTTTTTTTAAGTTTGATATTCGGG
* * * * *
950991 TCGAGATCGGGTCGGATTTTTTTTAAGTGTGATATTCGGG
1 TCG-GGTCTGGTTGG-GTTTTTTTAAGTTTGATATTCGGG
951031 TCGGGTTCTGGTT
1 TCGGG-TCTGGTT
951044 TAGGGTGAAA
Statistics
Matches: 150, Mismatches: 26, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
31 1 0.01
32 23 0.15
33 2 0.01
34 8 0.05
35 5 0.03
36 10 0.07
37 5 0.03
38 28 0.19
39 36 0.24
40 32 0.21
ACGTcount: A:0.14, C:0.10, G:0.31, T:0.45
Consensus pattern (38 bp):
TCGGGTCTGGTTGGGTTTTTTTAAGTTTGATATTCGGG
Found at i:950940 original size:31 final size:32
Alignment explanation
Indices: 950892--950962 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
950882 CATGTCGTGT
* *
950892 TCGGTTCGGGTTTTTTTTT--AAATTTCGAGA
1 TCGGGTCGGATTTTTTTTTAAAAATTTCGAGA
* *
950922 TCGGGTCGGATTTTTTTTTAAAAATTTCGGGT
1 TCGGGTCGGATTTTTTTTTAAAAATTTCGAGA
950954 TCGGGTCGG
1 TCGGGTCGG
950963 GTCGAGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 17 0.49
32 18 0.51
ACGTcount: A:0.15, C:0.11, G:0.28, T:0.45
Consensus pattern (32 bp):
TCGGGTCGGATTTTTTTTTAAAAATTTCGAGA
Found at i:951024 original size:40 final size:39
Alignment explanation
Indices: 950916--951033 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
950906 TTTTTAAATT
**
950916 TCGAGATCGGGTCGGATTTTTTTTTAA--AAAT-TTCGGG
1 TCGAGATCGGGTCGGA-TTTTTTTTAAGTTGATATTCGGG
* *
950953 TTCG-GGTCGGGTC-GA-GTTTTTTAAGTTTGATATTCGGG
1 -TCGAGATCGGGTCGGATTTTTTTTAAG-TTGATATTCGGG
950991 TCGAGATCGGGTCGGATTTTTTTTAAGTGTGATATTCGGG
1 TCGAGATCGGGTCGGATTTTTTTTAAGT-TGATATTCGGG
951031 TCG
1 TCG
951034 GGTTCTGGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
34 8 0.12
36 2 0.03
37 13 0.20
38 17 0.26
39 3 0.05
40 23 0.35
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.41
Consensus pattern (39 bp):
TCGAGATCGGGTCGGATTTTTTTTAAGTTGATATTCGGG
Found at i:955670 original size:24 final size:24
Alignment explanation
Indices: 955657--955775 Score: 148
Period size: 24 Copynumber: 5.0 Consensus size: 24
955647 AAACATAATT
* *
955657 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
955681 CAGGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
* * *
955705 CAAGTCAAGTATCAGATTAGAATT
1 CATGTCAAGTATCAGATCAGAATC
* *
955729 CATGTCAAATATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
955753 CATGTCAAGTATCATATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
955776 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:955736 original size:48 final size:48
Alignment explanation
Indices: 955650--955778 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
955640 AAAATCAAAA
* * * *
955650 CATAATTCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGAT
1 CATAATCCATGTCAAGTATCATATCAGAATTCAGGTCAAATATCAGAT
* * * * *
955698 CATAATCCAAGTCAAGTATCAGATTAGAATTCATGTCAAATATCATAT
1 CATAATCCATGTCAAGTATCATATCAGAATTCAGGTCAAATATCAGAT
*
955746 CAGAATCCATGTCAAGTATCATATCAGAATTCA
1 CATAATCCATGTCAAGTATCATATCAGAATTCA
955779 AATCGAAAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (48 bp):
CATAATCCATGTCAAGTATCATATCAGAATTCAGGTCAAATATCAGAT
Found at i:955791 original size:72 final size:72
Alignment explanation
Indices: 955653--955793 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
955643 ATCAAAACAT
* * * *
955653 AATTCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCATAATCCAAGTCAAGTATC
1 AATTCATGTCAAATATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATC
955718 AGATTAG
66 AGATTAG
* * * *
955725 AATTCATGTCAAATATCATATCAGAATCCATGTCAAGTATCATATCAGAATTCAAATCGAA-AAT
1 AATTCATGTCAAATATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAAT
955789 CAGAT
65 CAGAT
955794 AAAATATTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 58 0.97
73 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (72 bp):
AATTCATGTCAAATATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATC
AGATTAG
Found at i:957128 original size:17 final size:17
Alignment explanation
Indices: 957106--957142 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
957096 GTACAAATCC
957106 TCAAAGTACTTTCTCAT
1 TCAAAGTACTTTCTCAT
957123 TCAAAGTACTTTCTCAT
1 TCAAAGTACTTTCTCAT
957140 TCA
1 TCA
957143 GGGTTAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (17 bp):
TCAAAGTACTTTCTCAT
Found at i:958268 original size:17 final size:17
Alignment explanation
Indices: 958246--958282 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
958236 CAACTGTGGT
*
958246 AACGCAGGTCAACGGTC
1 AACGCAAGTCAACGGTC
958263 AACGCAAGTCAACGGTC
1 AACGCAAGTCAACGGTC
958280 AAC
1 AAC
958283 AGTCGACCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.30, G:0.24, T:0.11
Consensus pattern (17 bp):
AACGCAAGTCAACGGTC
Found at i:959975 original size:57 final size:57
Alignment explanation
Indices: 959835--960416 Score: 880
Period size: 57 Copynumber: 10.2 Consensus size: 57
959825 GTGCAAAATA
* * *
959835 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGGC-TTTCATATAGGTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-AGGGCGTTTCGTA-CGCTAAAATGT
* *
959893 TAAGAAATCATACTAAGTGTGTGAATTTCAGATAGGACGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
959950 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCGTTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * **
960007 TAAGAAATCATACTAAATGTATGAATTTCAGATAGGGCGTTTTGTATACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
960064 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* ** *
960121 TAAGAAATCATACTAAGGGTATGAATTTCAGATAGGGCGTTTTATACGATAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
960178 TAAGAATTCATACTAAGTGTATGAATTTCAGATAAGGAGTTTCGTACACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
960235 TAAGAAATC-TACTAAGTGTATGAATTTTAGATAGGGCGTTTCATATGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
960291 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
960348 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
960405 TAAGAAAACATA
1 TAAGAAATCATA
960417 TGGGTATACA
Statistics
Matches: 475, Mismatches: 47, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
56 49 0.10
57 388 0.82
58 38 0.08
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:960917 original size:68 final size:68
Alignment explanation
Indices: 960779--960917 Score: 152
Period size: 68 Copynumber: 2.0 Consensus size: 68
960769 AAAAGATTAA
* * * * **
960779 GAGGCCTAACTGAGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATTAAAGACTAAGTGTC
1 GAGGCCTAACTGAGAATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGACTAAGTACC
*
960844 TTT
66 ATT
* * * * * **
960847 GAGGCCTAGCTGGGAATTTGACAGAAAGATGTCAATTATGCCATTTAGATGAACGGTTAAGTACC
1 GAGGCCTAACTGAGAATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGACTAAGTACC
960912 ATT
66 ATT
960915 GAG
1 GAG
960918 TAAAAAAATA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (68 bp):
GAGGCCTAACTGAGAATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGACTAAGTACC
ATT
Found at i:961127 original size:45 final size:45
Alignment explanation
Indices: 961077--961189 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
961067 GTATAATTGT
* *
961077 ATGAAAGGATGCCATAAATGAAACGTATAATAGTGTATCAAAGGC
1 ATGAAAGGATGCCATAAATGAAACGTATAATAGTGTATAAAAGAC
*
961122 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
1 ATGAAAGGATGCCATAAATGAAACGTATAATAGTGTATAAAAGAC
* * *
961167 ATGTAAGGATGACATAATTGAAA
1 ATGAAAGGATGCCATAAATGAAA
961190 TGCATATAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAACGTATAATAGTGTATAAAAGAC
Found at i:964733 original size:17 final size:18
Alignment explanation
Indices: 964711--964745 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
964701 CAATACCATA
964711 GGAAGGG-TATCGATACC
1 GGAAGGGATATCGATACC
*
964728 GGAAGGGATATCGGTACC
1 GGAAGGGATATCGATACC
964746 ATAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (18 bp):
GGAAGGGATATCGATACC
Found at i:964877 original size:20 final size:22
Alignment explanation
Indices: 964829--964888 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
964819 ATAACAGAAG
*
964829 GGGGTATCGGTACCATAGTATA
1 GGGGTATCGATACCATAGTATA
**
964851 GTAGTATCGATACCAT-G-ATA
1 GGGGTATCGATACCATAGTATA
*
964871 GGGGTATCGATACTATAG
1 GGGGTATCGATACCATAG
964889 AGCCATAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 13 0.42
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (22 bp):
GGGGTATCGATACCATAGTATA
Found at i:965293 original size:57 final size:57
Alignment explanation
Indices: 965225--965765 Score: 787
Period size: 57 Copynumber: 9.5 Consensus size: 57
965215 GTGCAAAATA
* *
965225 TAAGAAATCATACTAAGGGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * * * ** * **
965282 TAATAAATCATACTAAGTGTACGAGTTTTAGAAATTGTGTTTCGTACTATAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
965339 TAAGAAATCATACTAAGTGTATGAATTTTAGATAGGGTGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
965396 TAAGAAATCATACTAAGTGTATGAATTTCATG-TAGGGCGTTTGGTACGCTAAACTGT
1 TAAGAAATCATACTAAGTGTATGAATTTCA-GATAGGGCGTTTCGTACGCTAAAATGT
* *
965453 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTCTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
965510 TAAGAAATCATACTAAGTGTATGAATTTCAGAGAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* ** *
965567 TAATAAATCATACTAAGTGTATGAATTTCAGATAGGGTATTTCGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
965624 TACGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
965681 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGCATTTCGTATGCTATAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
965738 TAAGAAATCATACTAATTGTTTGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
965766 TTGTATTGGA
Statistics
Matches: 432, Mismatches: 50, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
56 1 0.00
57 430 1.00
58 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:966544 original size:45 final size:45
Alignment explanation
Indices: 966493--966607 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
966483 GCATAATTGT
*
966493 ATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATCAAAGGC
1 ATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATAAAAGGC
* *
966538 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATAAAAGGC
* *
966583 ATGTAAGGATG-ACATAATTGAAATG
1 ATGAAAGGATGCA-ATAAATGAAATG
966608 CATATAGGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.24
Consensus pattern (45 bp):
ATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATAAAAGGC
Found at i:968460 original size:29 final size:30
Alignment explanation
Indices: 968404--968460 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
968394 GTGAATCCAC
* *
968404 AACTTTTCCAAAATTACTAATTGTTCCCTG
1 AACTTTTCCAAAATTACTAAATGGTCCCTG
968434 AACTTTT-CAAAATTA-TAGAATGGTCCC
1 AACTTTTCCAAAATTACTA-AATGGTCCC
968461 CAAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 15 0.62
30 7 0.29
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (30 bp):
AACTTTTCCAAAATTACTAAATGGTCCCTG
Found at i:970932 original size:95 final size:95
Alignment explanation
Indices: 970750--970943 Score: 214
Period size: 95 Copynumber: 2.0 Consensus size: 95
970740 GTTAAGGCAA
* *
970750 TATCGATACCATTGTAAGGGTATCGATACCAAGCAAATATCGAATCTAATTTTGGTATCGATATC
1 TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATATC
** * * * *
970815 GTAAGGGGTATTGATTCCATAGTATAGTAG
66 CCAAGGAGTATCGATACCATAGTATAGAAG
* * *
970845 TATCGATACCATGGTACGGGTATCGATACC-AGGAAACATCG-AGCTTAATTTTGGTATCGATA-
1 TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAATC-TAATTTTGGTATCGATAT
* * *
970907 CCCAGAGGAAGTATCGGTACTATAGTATTGAAG
65 CCCA-AGG-AGTATCGATACCATAGTATAGAAG
970940 TATC
1 TATC
970944 AGTACCAAGG
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
93 4 0.05
94 29 0.35
95 49 0.60
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (95 bp):
TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATATC
CCAAGGAGTATCGATACCATAGTATAGAAG
Found at i:971469 original size:45 final size:45
Alignment explanation
Indices: 971369--971688 Score: 405
Period size: 45 Copynumber: 7.2 Consensus size: 45
971359 TGAAAATAAT
* * * * * *
971369 AATGTATATGGGTGCATTATCGACA-TAAAGGATGCCATAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* * * *
971413 AATGTATATGGGTACATTATCAACAGAAAAATTTACTATAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* * *
971458 AATGCATATGGGTGCATTATCAAGAGAAAAGTATGCCATAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* *
971503 AATGCATATGGGTGCATTATCAACAGAAAAGTATGTTATAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
971548 AAT--ATATGGGTACATTATCAACA-AAAAGTATGCTATAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* * * * *
971590 ATTGTATATGGGTACATTATCAACATAAAAGTATGATATAGTTAA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* *
971635 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTAAA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTT-GA
971681 AATGCATA
1 AATGCATA
971689 ATGGTGCATT
Statistics
Matches: 243, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
42 20 0.08
43 19 0.08
44 43 0.18
45 151 0.62
46 10 0.04
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
Found at i:971620 original size:132 final size:134
Alignment explanation
Indices: 971369--971677 Score: 435
Period size: 132 Copynumber: 2.3 Consensus size: 134
971359 TGAAAATAAT
* * * * *
971369 AATGTATATGGGTGCATTATCGACA-TAAAGGATGCCATAGTTGAAATGTATATGGGTACATTAT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAA-GTATATGGGTACATTAT
* * * *
971433 CAACAGAAAAATTTACTATAGTTGAAATGCATATGGGTGCATTATCAAGAGAAAAGTATGCCATA
65 CAACAGAAAAATATACTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGACATA
*
971498 GTTGA
130 GTTAA
*
971503 AATGCATATGGGTGCATTATCAACAGAAAAGTATGTTATAGTTGAAA-TATATGGGTACATTATC
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAAGTATATGGGTACATTATC
* * * * * *
971567 AACA-AAAAGTATGCTATAGTTGAATTGTATATGGGTACATTATCAACATAAAAGTATGATATAG
66 AACAGAAAAATATACTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGACATAG
971631 TTAA
131 TTAA
971635 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTT
971678 AAAAATGCAT
Statistics
Matches: 156, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
132 95 0.61
133 21 0.13
134 23 0.15
135 17 0.11
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (134 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAAGTATATGGGTACATTATC
AACAGAAAAATATACTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGACATAG
TTAA
Found at i:971669 original size:177 final size:178
Alignment explanation
Indices: 971373--971698 Score: 496
Period size: 177 Copynumber: 1.8 Consensus size: 178
971363 AATAATAATG
* * *
971373 TATATGGGTGCATTATCGACATAAAGGATGCCATAGTTGAAATGTATATGGGTACATTATCAACA
1 TATATGGGTACATTATCAACAAAAAGGATGCCATAGTTGAAATGTATATGGGTACATTATCAACA
* * * *
971438 GAAAAATTTACTATAGTTGAAATGCATATGGGTGCATTATCAAGAGAAAAGTATGCCATAGTT-G
66 GAAAAATTGACTATAGTTAAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCCATAGTTAA
971502 AAATGCAT-ATGGGTGCATTATCAACAGAAAAGTATGTTATAGTTGAAA
131 AAATGCATAAT-GGTGCATTATCAACAGAAAAGTATGTTATAGTTGAAA
* * *
971550 TATATGGGTACATTATCAACAAAAAGTATGCTATAGTTGAATTGTATATGGGTACATTATCAACA
1 TATATGGGTACATTATCAACAAAAAGGATGCCATAGTTGAAATGTATATGGGTACATTATCAACA
* * *
971615 TAAAAGTATGA-TATAGTTAAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTA
66 GAAAAAT-TGACTATAGTTAAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCCATAGTTA
971679 AAAATGCATAATGGTGCATT
130 AAAATGCATAATGGTGCATT
971699 TTAAACATGA
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
177 113 0.85
178 18 0.14
179 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (178 bp):
TATATGGGTACATTATCAACAAAAAGGATGCCATAGTTGAAATGTATATGGGTACATTATCAACA
GAAAAATTGACTATAGTTAAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCCATAGTTAA
AAATGCATAATGGTGCATTATCAACAGAAAAGTATGTTATAGTTGAAA
Found at i:975045 original size:11 final size:12
Alignment explanation
Indices: 975006--975047 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
974996 CTTTACTTAG
*
975006 GAAGAGGAAGAT
1 GAAGAGGAAAAT
975018 GAAGAGAGAAAAT
1 GAAGAG-GAAAAT
*
975031 GAAG-GGAACAT
1 GAAGAGGAAAAT
975042 GAAGAG
1 GAAGAG
975048 TGTTAGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 9 0.35
12 8 0.31
13 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.38, T:0.07
Consensus pattern (12 bp):
GAAGAGGAAAAT
Found at i:983061 original size:296 final size:292
Alignment explanation
Indices: 982516--983380 Score: 848
Period size: 294 Copynumber: 2.9 Consensus size: 292
982506 ACTCCAATCA
* * ** * * * * * *
982516 AAAGCATATTGACCACATAATAGCAACAAATAGCTATCTTCTAGTTAAAATTCAAAGCCATGTCT
1 AAAGCACATTGACCACATAATAGAAACAAGGAG--ATATTCCAATCAAAATTCAAACCCATGTTT
* * * ** * * * ***
982581 TTATGTCTATAAGATGACCCAAATTGATTACGATTTAGCAATAAGAAACTACTTATGAGTCTAGA
64 TTAAGTCAAGAAGAAAACCCAAATTGACTACGATTTAGCAACAAGGAACTACTTCCCAGTCTAGA
* * * * * *
982646 CTTT-GAAGCAAATATTTCAACTTCGTGACAAAGGATATTGA-TATCAAAACACAAGATTAACTC
129 -TTTCG-AGCAAAGATTTTAACTTC-TGACAAAGGATATCGAGCA-CAAATCACAAGATCAACTC
* * * ** *
982709 ACTATAAAGGGGTCACCCACAACATAACATAAGTCGAGAAGAGCTATCTGTCAACCAAA-CTTTC
190 ACGATAAAGGGGTCACCCACAACATAGCTTAAGTCGAGAAGAATTA-CTATCAACCAAAGCTTTC
* *
982773 AAGTTTAGTTTCAACTTCATAACAAATGATACTCGAA-TTG
254 AAGTTTAGTTTCAACTTCACAACAAATGATA-TC-AACTCG
* * * ****
982813 AAAGTACATTGACCACATATTAGAAATAAGGAGATATATTTTGGTCAAAATTCAAACCCATGTTT
1 AAAGCACATTGACCACATAATAGAAACAAGGAG--ATATTCCAATCAAAATTCAAACCCATGTTT
* * *
982878 TTAAGTCAAGAAGAAAACCCAAAATGACTATGATTTAGCAACAAGGAACTACTTCCCAGTCCAGA
64 TTAAGTCAAGAAGAAAACCCAAATTGACTACGATTTAGCAACAAGGAACTACTTCCCAGTCTAGA
* *
982943 TTTCGAGCAAAGATTTTAACTTCATGACAAAAGATATCGAGCACAAATCATAAGATCAACTCACG
129 TTTCGAGCAAAGATTTTAACTTC-TGACAAAGGATATCGAGCACAAATCACAAGATCAACTCACG
983008 ATAAAGGGGTCACCCACAACATAGCTTAAGTCGAGAAGAATTACCTATCAACCAAAGCTTTCAAG
193 ATAAAGGGGTCACCCACAACATAGCTTAAGTCGAGAAGAATTA-CTATCAACCAAAGCTTTCAAG
*
983073 TTTAGTTTCAACTTTACAACAAATGATATCAACTCG
257 TTTAGTTTCAACTTCACAACAAATGATATCAACTCG
** * * * * *
983109 AAAGCACATTGACTGCATAATAGCAACGAGGAGCTCTTCCAATCAAAATTCAAACCCCA-GCTTT
1 AAAGCACATTGACCACATAATAGAAACAAGGAGATATTCCAATCAAAATTCAAA-CCCATGTTTT
* * * *
983173 TAAGTCAAGAA-AAAGACCTAAATTAACTGCGATTTAGCAACAATGAACTACTTCCCAGTCTAGA
65 TAAGTCAAGAAGAAA-ACCCAAATTGACTACGATTTAGCAACAAGGAACTACTTCCCAGTCTAGA
* * * * * *
983237 TTTCAAGCAAAGATTTTAACTTCTCGACGAAGGATATGGAGCTCAAATTACAAGACCAACTCGA-
129 TTTCGAGCAAAGATTTTAACTTCT-GACAAAGGATATCGAGCACAAATCACAAGATCAACTC-AC
* * * * * *
983301 GATAGAGGGGTCACCCATAGA-ATAGCTTAAGTCGATAAGAGATATAC-ATAAACCAAATCTTTT
192 GATAAAGGGGTCACCCACA-ACATAGCTTAAGTCGAGAAGA-AT-TACTATCAACCAAAGCTTTC
983364 AAGTTTAGTTTCAACTT
254 AAGTTTAGTTTCAACTT
983381 GACGATGAAG
Statistics
Matches: 475, Mismatches: 82, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
293 4 0.01
294 189 0.40
295 11 0.02
296 133 0.28
297 138 0.29
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (292 bp):
AAAGCACATTGACCACATAATAGAAACAAGGAGATATTCCAATCAAAATTCAAACCCATGTTTTT
AAGTCAAGAAGAAAACCCAAATTGACTACGATTTAGCAACAAGGAACTACTTCCCAGTCTAGATT
TCGAGCAAAGATTTTAACTTCTGACAAAGGATATCGAGCACAAATCACAAGATCAACTCACGATA
AAGGGGTCACCCACAACATAGCTTAAGTCGAGAAGAATTACTATCAACCAAAGCTTTCAAGTTTA
GTTTCAACTTCACAACAAATGATATCAACTCG
Found at i:984051 original size:48 final size:48
Alignment explanation
Indices: 983994--984148 Score: 158
Period size: 48 Copynumber: 3.2 Consensus size: 48
983984 ATATTTATAC
983994 AATGT-ATATAATTTTTGAAAATATATATA-ATATATAGTTTTTGAAA
1 AATGTAATATAATTTTTGAAAATATATATATATATATAGTTTTTGAAA
* *
984040 ATATGTAATAT-ATGATTTGAATATATATATATATATATAG-TTTTGAAA
1 A-ATGTAATATAAT-TTTTGAAAATATATATATATATATAGTTTTTGAAA
* * * * * *
984088 AATATATTATAGTTTTTGAAAATGTACATTATATATTATGGTTTTTGAAA
1 AATGTAATATAATTTTTGAAAATATATA-TATATA-TATAGTTTTTGAAA
984138 AAT-TATATATA
1 AATGTA-ATATA
984149 TAATATTAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
46 1 0.01
47 24 0.27
48 35 0.39
49 14 0.16
50 15 0.17
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (48 bp):
AATGTAATATAATTTTTGAAAATATATATATATATATAGTTTTTGAAA
Found at i:984092 original size:21 final size:21
Alignment explanation
Indices: 984068--984109 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
984058 GAATATATAT
984068 ATATATATATAG-TTTTGAAAA
1 ATATAT-TATAGTTTTTGAAAA
984089 ATATATTATAGTTTTTGAAAA
1 ATATATTATAGTTTTTGAAAA
984110 TGTACATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
ATATATTATAGTTTTTGAAAA
Found at i:984098 original size:26 final size:25
Alignment explanation
Indices: 983998--984098 Score: 95
Period size: 26 Copynumber: 4.1 Consensus size: 25
983988 TTATACAATG
*
983998 TATATA-ATTTTTGAAAATATA-TA
1 TATATATAGTTTTGAAAATATATTA
*
984021 TAATATATAGTTTTTGAAAATAT-GTA
1 T-ATATATAG-TTTTGAAAATATATTA
* *
984047 -ATATAT-GATTTGAATATATATATA
1 TATATATAGTTTTGAAAATATAT-TA
984071 TATATATAGTTTTGAAAAATATATTA
1 TATATATAGTTTTG-AAAATATATTA
984097 TA
1 TA
984099 GTTTTTGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
22 10 0.16
23 2 0.03
24 13 0.21
25 7 0.11
26 23 0.37
27 8 0.13
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TATATATAGTTTTGAAAATATATTA
Found at i:984100 original size:20 final size:22
Alignment explanation
Indices: 983998--984150 Score: 71
Period size: 26 Copynumber: 6.3 Consensus size: 22
983988 TTATACAATG
*
983998 TATATAATTTTTGAAAATATATATAA
1 TATATAGTTTTTG-AAA-A-ATAT-A
*
984024 TATATAGTTTTTG-AAAATATG
1 TATATAGTTTTTGAAAAATATA
*
984045 TAATATA-TGATTTGAATATATATATA
1 T-ATATAGT-TTTTGAA-A-A-ATATA
984071 TATATA-TAGTTTTGAAAAATATA
1 TATATAGT--TTTTGAAAAATATA
984094 T-TATAGTTTTTGAAAATGTACATTATA
1 TATATAGTTTTTG-AAA---A-A-TATA
*
984121 TATTATGGTTTTTGAAAAATTATA
1 TA-TATAGTTTTTGAAAAA-TATA
984145 TATATA
1 TATATA
984151 ATATTAATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 35
0.71 0.05 0.24
Matches are distributed among these distances:
21 7 0.07
22 20 0.19
23 12 0.12
24 12 0.12
25 10 0.10
26 25 0.24
27 5 0.05
28 3 0.03
29 10 0.10
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (22 bp):
TATATAGTTTTTGAAAAATATA
Done.