Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_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: 1024377
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 3 of 5
Found at i:568204 original size:14 final size:14
Alignment explanation
Indices: 568187--568221 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
568177 AAAAGTTTGG
568187 GCCTAAATGCAAGT
1 GCCTAAATGCAAGT
568201 GCCTAAATGCAAGT
1 GCCTAAATGCAAGT
568215 GCCTAAA
1 GCCTAAA
568222 AAGTTTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (14 bp):
GCCTAAATGCAAGT
Found at i:590559 original size:3 final size:3
Alignment explanation
Indices: 590551--590584 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
590541 TCTGCAACAA
*
590551 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
590585 TTATTACAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:592814 original size:6 final size:5
Alignment explanation
Indices: 592791--592826 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
592781 CGTCCGGACC
592791 TTTTA TTTTA TTTTA TTATTA TTATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTT
592827 TATTAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:592820 original size:17 final size:17
Alignment explanation
Indices: 592793--592831 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
592783 TCCGGACCTT
592793 TTATT-TTATTTTATTA
1 TTATTATTATTTTATTA
*
592809 TTATTATTATTTTATTT
1 TTATTATTATTTTATTA
592826 TTATTA
1 TTATTA
592832 ATACATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTATTTTATTA
Found at i:593051 original size:12 final size:12
Alignment explanation
Indices: 593034--593058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
593024 GAAAACCAAC
593034 AAATCAAATAAA
1 AAATCAAATAAA
593046 AAATCAAATAAA
1 AAATCAAATAAA
593058 A
1 A
593059 TACAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATCAAATAAA
Found at i:597990 original size:3 final size:3
Alignment explanation
Indices: 597984--598011 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
597974 TTTTCATTTT
597984 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
598012 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:598776 original size:4 final size:4
Alignment explanation
Indices: 598767--598819 Score: 52
Period size: 4 Copynumber: 12.5 Consensus size: 4
598757 TTATTTTATG
** *
598767 ATTT ATTT ATTT ATTT ATCATT GCTT AATT ATCTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT AT--TT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT
598818 AT
1 AT
598820 CTTTGCTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
4 35 0.85
5 4 0.10
6 2 0.05
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (4 bp):
ATTT
Found at i:599750 original size:64 final size:67
Alignment explanation
Indices: 599677--599804 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 67
599667 TTTAAAAAGA
*
599677 AAACATCGAATAGGATTTATGCATCGATGCATAAG-G-ATTGCATCGATGCAT-CC-CCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCAT-AGTGTAGTGCATCGATGCATACCTCCATTAAA
599738 TAC
65 TAC
* *
599741 AAACATCGAATAGGATTTATGCATCGATGTATGGTGTAGTGCATCGATGCATACCTCCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAA
599805 AGATGAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 1 0.02
64 32 0.56
65 14 0.25
66 2 0.04
67 8 0.14
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (67 bp):
AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAAT
AC
Found at i:600350 original size:23 final size:23
Alignment explanation
Indices: 600289--600339 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
600279 TTATTATATA
*
600289 GCACTGTGGTGCAATTCTACGCG
1 GCACTCTGGTGCAATTCTACGCG
*
600312 GCACTCTGGTGCAATTCTACGTG
1 GCACTCTGGTGCAATTCTACGCG
600335 GCACT
1 GCACT
600340 TCGGTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GCACTCTGGTGCAATTCTACGCG
Found at i:602957 original size:21 final size:21
Alignment explanation
Indices: 602928--602982 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
602918 GCTCCGAAAG
*
602928 AATTGCAAGAGTTAAAGAATC
1 AATTACAAGAGTTAAAGAATC
602949 AATTACAAGAGTTAAAGAATC
1 AATTACAAGAGTTAAAGAATC
602970 AATTGA-AAGAGTT
1 AATT-ACAAGAGTT
602983 GTTAGGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (21 bp):
AATTACAAGAGTTAAAGAATC
Found at i:606549 original size:64 final size:67
Alignment explanation
Indices: 606474--606601 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 67
606464 TTTAAAAAGA
606474 AAACATCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT-CC-CCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCAT-AGTGTAGTGCATCGATGCATACCTCCATTAAA
606535 TAC
65 TAC
*
606538 AAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCATACCTCCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAA
606602 AGATGAAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.56
65 15 0.25
66 2 0.03
67 8 0.14
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (67 bp):
AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAAT
AC
Found at i:607234 original size:103 final size:103
Alignment explanation
Indices: 607050--607275 Score: 409
Period size: 103 Copynumber: 2.2 Consensus size: 103
607040 GTAGTGGGTC
* *
607050 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTAAGGTCTGGTGAGACACATAC
*
607115 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
607153 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTAAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTAAGGTCTGGTGAGACACATAC
607218 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
607256 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
607276 TATTATATGG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 1 0.01
103 118 0.99
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTAAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:609054 original size:3 final size:3
Alignment explanation
Indices: 609048--609078 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
609038 AAAATTATAT
609048 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
609079 AATCCTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:615159 original size:10 final size:10
Alignment explanation
Indices: 615144--615168 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
615134 TATAAGGGAG
615144 ATAAAAATAA
1 ATAAAAATAA
615154 ATAAAAATAA
1 ATAAAAATAA
615164 ATAAA
1 ATAAA
615169 TAAACAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:615233 original size:25 final size:26
Alignment explanation
Indices: 615177--615231 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
615167 AATAAACAAG
* *
615177 AAAAA-AGAAATATATATAAAAAAGT
1 AAAAATAGAAAGATATATAAAAAAAT
615202 AAAAATAGAAAGATA-ATAAAAATAAT
1 AAAAATAGAAAGATATATAAAAA-AAT
615228 AAAA
1 AAAA
615232 TAATAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (26 bp):
AAAAATAGAAAGATATATAAAAAAAT
Found at i:615234 original size:17 final size:18
Alignment explanation
Indices: 615192--615237 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
615182 AGAAATATAT
615192 ATAAAA-AAGTAAAAATAG
1 ATAAAATAA-TAAAAATAG
*
615210 A-AAGATAATAAAAATA-
1 ATAAAATAATAAAAATAG
615226 ATAAAATAATAA
1 ATAAAATAATAA
615238 TAACAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 20 0.83
18 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
ATAAAATAATAAAAATAG
Found at i:615237 original size:20 final size:20
Alignment explanation
Indices: 615214--615251 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
615204 AAATAGAAAG
*
615214 ATAATAAAAATAATAAAATA
1 ATAATAAAAATAAGAAAATA
*
615234 ATAATAACAATAAGAAAA
1 ATAATAAAAATAAGAAAA
615252 AAGGTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
ATAATAAAAATAAGAAAATA
Found at i:615291 original size:24 final size:23
Alignment explanation
Indices: 615202--615309 Score: 66
Period size: 24 Copynumber: 4.7 Consensus size: 23
615192 ATAAAAAAGT
*
615202 AAAAATAGAAAGATAATAAAAATA-
1 AAAAATAGAAA-ATAA-AAATATAG
* *
615226 ATAAAATA-ATAATAACAATA-AG
1 A-AAAATAGAAAATAAAAATATAG
** *
615248 AAAAA-AGGTAAT-ATAATATA-
1 AAAAATAGAAAATAAAAATATAG
615268 AATAAATAGAAAACTAAAAATATAG
1 AA-AAATAGAAAA-TAAAAATATAG
*
615293 AAATATAGAAAATAAAA
1 AAAAATAGAAAATAAAA
615310 TAGAAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
20 8 0.12
21 13 0.20
22 8 0.12
23 10 0.15
24 19 0.29
25 8 0.12
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
AAAAATAGAAAATAAAAATATAG
Found at i:615752 original size:23 final size:23
Alignment explanation
Indices: 615718--615770 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
615708 TTCATTAATG
*
615718 GATGAACAGTCGCCTGGGTTCTT
1 GATGAACAGTCGCATGGGTTCTT
* *
615741 GATGAACGGTCGCATGGTTTCTT
1 GATGAACAGTCGCATGGGTTCTT
615764 GATGAAC
1 GATGAAC
615771 CCAGAATCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (23 bp):
GATGAACAGTCGCATGGGTTCTT
Found at i:618420 original size:37 final size:36
Alignment explanation
Indices: 618361--618480 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
618351 ATCCCATTAT
* *
618361 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
618397 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
618433 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
618468 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
618481 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:618436 original size:21 final size:21
Alignment explanation
Indices: 618412--618472 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
618402 TTCAAAGAAA
618412 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
618433 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
618447 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
618468 CATTT
1 CATTT
618473 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:618489 original size:35 final size:36
Alignment explanation
Indices: 618363--618507 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
618353 CCCATTATCA
*
618363 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
618398 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
618435 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
618471 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
618505 TTT
1 TTT
618508 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:622574 original size:16 final size:17
Alignment explanation
Indices: 622543--622577 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
622533 TGTATCGCCG
*
622543 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
622560 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
622576 AC
1 AC
622578 GTGAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:623034 original size:37 final size:36
Alignment explanation
Indices: 622972--623091 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
622962 ATCACATTAT
* * *
622972 CATTTTTC-AACAAACATCTATCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
623008 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
623044 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
623079 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
623092 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 35 0.46
36 13 0.17
37 28 0.37
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:623047 original size:21 final size:21
Alignment explanation
Indices: 623023--623083 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
623013 TTCAAAGAAA
623023 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
623044 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
623058 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
623079 CATTT
1 CATTT
623084 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:623100 original size:35 final size:36
Alignment explanation
Indices: 622993--623118 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 36
622983 AAACATCTAT
* *
622993 CAAACTTTGAAAAAC-TATTTTTCAAAGAAACATTTAC
1 CAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGTTAC
*
623030 CAAACTTTGAAAACCA--TTTTCAAAGAAACATTTAC
1 CAAACTTTGAAAACCATTTTTTCAAAG-AACAGTTAC
***
623065 CAAACTTTGAAAACCATTTTTTCAAAG-TTGGTTAC
1 CAAACTTTGAAAACCATTTTTTCAAAGAACAGTTAC
623100 CAAAC-TTGAAAACCATTTT
1 CAAACTTTGAAAACCATTTT
623119 AATACTTTCA
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.54
37 23 0.28
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (36 bp):
CAAACTTTGAAAACCATTTTTTCAAAGAACAGTTAC
Found at i:628460 original size:6 final size:6
Alignment explanation
Indices: 628449--628581 Score: 239
Period size: 6 Copynumber: 22.2 Consensus size: 6
628439 TCGTCTCGGC
* * *
628449 TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
628497 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
628545 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
628582 AATACGTGTC
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 125 1.00
ACGTcount: A:0.02, C:0.17, G:0.50, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:628884 original size:22 final size:22
Alignment explanation
Indices: 628859--628913 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
628849 TCAGGAGTTA
* *
628859 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
628881 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
628903 CGGGAGTTATA
1 CAGGAGTTATA
628914 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:634405 original size:5 final size:5
Alignment explanation
Indices: 634386--634424 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
634376 GTCCGTCCGT
* * *
634386 CTCGT CTCGT CTCGG CTCGG CACGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
634425 TGGTCGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.41, G:0.33, T:0.23
Consensus pattern (5 bp):
CTCGG
Found at i:634433 original size:6 final size:6
Alignment explanation
Indices: 634422--634511 Score: 155
Period size: 6 Copynumber: 15.2 Consensus size: 6
634412 TCGGCTCGGC
* *
634422 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
634470 TCGTGG TCGTGG TCGTGG TCGTGG TCG-GG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
634512 AATACGTGTC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
5 5 0.06
6 76 0.94
ACGTcount: A:0.02, C:0.17, G:0.50, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:634813 original size:22 final size:22
Alignment explanation
Indices: 634788--634842 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
634778 TCAGGAGTTA
* *
634788 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
634810 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
634832 CGGGAGTTATA
1 CAGGAGTTATA
634843 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:639781 original size:24 final size:24
Alignment explanation
Indices: 639754--639799 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
639744 CACCACAGCT
* *
639754 CGTATAAATTGCATCAAAGTGCAG
1 CGTAGAAATTGCACCAAAGTGCAG
*
639778 CGTAGAAATTGCACCGAAGTGC
1 CGTAGAAATTGCACCAAAGTGC
639800 CACATAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (24 bp):
CGTAGAAATTGCACCAAAGTGCAG
Found at i:639853 original size:23 final size:23
Alignment explanation
Indices: 639778--639900 Score: 115
Period size: 23 Copynumber: 5.3 Consensus size: 23
639768 CAAAGTGCAG
639778 CGTAGAAAT-TGCACCGAAGTG-CCA
1 CGTAGAAATAT-C-CCGAAG-GACCA
* * *
639802 CATAGAAATATCCCGAATGAGCA
1 CGTAGAAATATCCCGAAGGACCA
* **
639825 CATAGAAATATCCCGAAGGACTG
1 CGTAGAAATATCCCGAAGGACCA
*
639848 CGTAGAAATATCCTGAAGGACCA
1 CGTAGAAATATCCCGAAGGACCA
* * *
639871 CGTAGAATTGTCCCGAAGGACCG
1 CGTAGAAATATCCCGAAGGACCA
639894 CGTAGAA
1 CGTAGAA
639901 CCCTCGACTC
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.01
23 71 0.87
24 9 0.11
25 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (23 bp):
CGTAGAAATATCCCGAAGGACCA
Found at i:639854 original size:46 final size:46
Alignment explanation
Indices: 639804--639900 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
639794 AAGTGCCACA
* * *
639804 TAGAAATATCCCGAATGAGCACATAGAAATATCCCGAAGGACTGCG
1 TAGAAATATCCCGAAGGACCACATAGAAATATCCCGAAGGACCGCG
* * * *
639850 TAGAAATATCCTGAAGGACCACGTAGAATTGTCCCGAAGGACCGCG
1 TAGAAATATCCCGAAGGACCACATAGAAATATCCCGAAGGACCGCG
639896 TAGAA
1 TAGAA
639901 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (46 bp):
TAGAAATATCCCGAAGGACCACATAGAAATATCCCGAAGGACCGCG
Found at i:640153 original size:40 final size:38
Alignment explanation
Indices: 640097--640176 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 38
640087 GTGCATGTAA
*
640097 CATATAAACATATACTTGTACTCATGTACACATAGAAAT
1 CATATAAACATATACTTGTACTCATGAACACATA-AAAT
* * *
640136 CATATCAACAATATACTTGTATTCATGAACTCATAAAAT
1 CATATAAAC-ATATACTTGTACTCATGAACACATAAAAT
640175 CA
1 CA
640177 AAACATTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 14 0.39
40 22 0.61
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (38 bp):
CATATAAACATATACTTGTACTCATGAACACATAAAAT
Found at i:640242 original size:46 final size:46
Alignment explanation
Indices: 640167--640258 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
640157 TTCATGAACT
*
640167 CATAAAATCAAAACATTGGAAATAGACTCATTGCAAGTCTTCTTTC
1 CATAAAATCAAAACATTGGAAATAGACTCATCGCAAGTCTTCTTTC
640213 CATACAAA-CAAAACATTGGAAATAGACTCATCGCAAGTCTTCTTTC
1 CATA-AAATCAAAACATTGGAAATAGACTCATCGCAAGTCTTCTTTC
640259 TATATGATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 41 0.93
47 3 0.07
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (46 bp):
CATAAAATCAAAACATTGGAAATAGACTCATCGCAAGTCTTCTTTC
Found at i:645800 original size:30 final size:31
Alignment explanation
Indices: 645761--645827 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
645751 GAAGTACCTA
* * *
645761 TCCAGAGGTCATAAAAAACCTTGG-CAACTG
1 TCCATAGGTCATAAAAAACCTAGGTAAACTG
* * *
645791 TCCATAGGTCCTGAAGAACCTAGGTAAACTG
1 TCCATAGGTCATAAAAAACCTAGGTAAACTG
645822 TCCATA
1 TCCATA
645828 TGTTCCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (31 bp):
TCCATAGGTCATAAAAAACCTAGGTAAACTG
Found at i:645906 original size:32 final size:32
Alignment explanation
Indices: 645787--645911 Score: 125
Period size: 31 Copynumber: 4.0 Consensus size: 32
645777 AACCTTGGCA
* * *
645787 ACTGTCCATA-GGTCCTGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCC-GTAGAACATAGGTAAT
*
645818 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
645849 ACTGTCCATAT-ATCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
645881 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
645912 ACCCTCGACT
Statistics
Matches: 77, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
30 5 0.06
31 40 0.52
32 28 0.36
33 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:646285 original size:25 final size:26
Alignment explanation
Indices: 646257--646310 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
646247 ATCATATAGT
646257 CATATTTCATATAA-CACTTATATTA
1 CATATTTCATATAATCACTTATATTA
* *
646282 CATA-TTCCTATAATTACTTATATTA
1 CATATTTCATATAATCACTTATATTA
646307 -ATAT
1 CATAT
646311 AACATATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (26 bp):
CATATTTCATATAATCACTTATATTA
Found at i:646318 original size:25 final size:24
Alignment explanation
Indices: 646264--646318 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
646254 AGTCATATTT
*
646264 CATATAACACTTATATTACATATT
1 CATATAACACTTATATTACATATA
* *
646288 CCTATAATTACTTATATTA-ATATAA
1 CATATAA-CACTTATATTACATAT-A
646313 CATATA
1 CATATA
646319 TCACAAGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (24 bp):
CATATAACACTTATATTACATATA
Found at i:652122 original size:30 final size:30
Alignment explanation
Indices: 652069--652137 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
652059 AATTTTTTGT
* *
652069 CAATTTTTTCTAACATTTGTTATCAAAGGCC
1 CAATTTTTTCTAACACTTATTATC-AAGGCC
* *
652100 CAATTTTTTC-AATACTTATTATCAAGGTC
1 CAATTTTTTCTAACACTTATTATCAAGGCC
*
652129 TAATTTTTT
1 CAATTTTTT
652138 TTTTCAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 13 0.39
30 10 0.30
31 10 0.30
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (30 bp):
CAATTTTTTCTAACACTTATTATCAAGGCC
Found at i:655601 original size:43 final size:43
Alignment explanation
Indices: 655538--655629 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
655528 TAGTTAGCGT
* * * * *
655538 GTCAAGTTTTATAGCGGCGTTTTGAAAACAAACGCCGTAAAGG
1 GTCAAGCTCTATAGCAGCGTTTTGAAAACAAACACCGTAAAAG
655581 GTCAAGCTCTATAGCAGCGTTTTGAAAACAAACACCGTAAAAG
1 GTCAAGCTCTATAGCAGCGTTTTGAAAACAAACACCGTAAAAG
655624 GTCAAG
1 GTCAAG
655630 ATTTATAACG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (43 bp):
GTCAAGCTCTATAGCAGCGTTTTGAAAACAAACACCGTAAAAG
Found at i:655650 original size:44 final size:43
Alignment explanation
Indices: 655554--655660 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
655544 TTTTATAGCG
* * * *
655554 GCGTTTTGAAAACAAACGCCGTAAAGGGTCAAGCTCTATAGCA
1 GCGTTTTGAAAACAAACACCGTAAAAGGTCAAGATCTATAACA
* *
655597 GCGTTTTGAAAACAAACACCGTAAAAGGTCAAGATTTATAACG
1 GCGTTTTGAAAACAAACACCGTAAAAGGTCAAGATCTATAACA
**
655640 GTTTTTTTG-AAACAAACACCG
1 G-CGTTTTGAAAACAAACACCG
655661 CTAGTTATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 50 0.91
44 5 0.09
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (43 bp):
GCGTTTTGAAAACAAACACCGTAAAAGGTCAAGATCTATAACA
Found at i:659279 original size:38 final size:36
Alignment explanation
Indices: 659237--659403 Score: 131
Period size: 39 Copynumber: 4.3 Consensus size: 36
659227 TTAAATTATC
*
659237 TTTTTATTTTTTCCTTCTTTTTTGTTTTCTTTGATTTA
1 TTTTTATTTTTT-ATT-TTTTTTGTTTTCTTTGATTTA
* * *
659275 TTTTTATTCTATTT-TTACTTATTGTTTTCTTTTATTTA
1 TTTTTATT-T-TTTATT-TTTTTTGTTTTCTTTGATTTA
*
659313 TTATTTATTTATTTATTTTTCTTTTTTTTCCTTTGATTTA
1 TT-TTTATTT-TTTATTTTT-TTTGTTTT-CTTTGATTTA
* *
659353 TTTTTTTTCTTTTGATTTATTTTT-TTATTTTTTGATTTA
1 TTTTTATT-TTTT-ATTT-TTTTTGTT-TTCTTTGATTTA
659392 TTTATTATTTTT
1 TTT-TTATTTTT
659404 ATCTAACATT
Statistics
Matches: 107, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
38 37 0.35
39 40 0.37
40 28 0.26
41 2 0.02
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.77
Consensus pattern (36 bp):
TTTTTATTTTTTATTTTTTTTGTTTTCTTTGATTTA
Found at i:659314 original size:4 final size:4
Alignment explanation
Indices: 659305--659401 Score: 57
Period size: 4 Copynumber: 24.8 Consensus size: 4
659295 ATTGTTTTCT
* *
659305 TTTA TTTA -TTA TTTA TTTA TTTA TTT- TTCT- TTTT TTTCC TTTGA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTT-A TTT-A TTTA
*
659353 TTT- TTT- TTCT- TTTGA TTTA TTTT TTTA TTT- TTTGA TTTA TTTA -TTA
1 TTTA TTTA TT-TA TTT-A TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
659399 TTT
1 TTT
659402 TTATCTAACA
Statistics
Matches: 78, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
3 18 0.23
4 48 0.62
5 12 0.15
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:659358 original size:18 final size:19
Alignment explanation
Indices: 659334--659394 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
659324 TTTATTTTTC
659334 TTTTTTTTCCTTTGATTTA
1 TTTTTTTTCCTTTGATTTA
*
659353 TTTTTTTTCTTTTGATTTA
1 TTTTTTTTCCTTTGATTTA
**
659372 TTTTTTTATTTTTTGATTTA
1 TTTTTTT-TCCTTTGATTTA
659392 TTT
1 TTT
659395 ATTATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCCTTTGATTTA
Found at i:659376 original size:20 final size:20
Alignment explanation
Indices: 659255--659394 Score: 100
Period size: 20 Copynumber: 7.2 Consensus size: 20
659245 TTTTCCTTCT
659255 TTTTTGTTTTC-TTTGATTTA
1 TTTTT-TTTTCTTTTGATTTA
* *
659275 -TTTTTATTCTATT--TTTA
1 TTTTTTTTTCTTTTGATTTA
*
659292 CTTATTGTTTTCTTTT-ATTTA
1 -TT-TTTTTTTCTTTTGATTTA
* * *
659313 TTATTTATTT-ATTT-ATTTT
1 TT-TTTTTTTCTTTTGATTTA
*
659332 TCTTTTTTTTCCTTTGATTTA
1 T-TTTTTTTTCTTTTGATTTA
659353 -TTTTTTTTCTTTTGATTTA
1 TTTTTTTTTCTTTTGATTTA
659372 TTTTTTTATT-TTTTGATTTA
1 TTTTTTT-TTCTTTTGATTTA
659392 TTT
1 TTT
659395 ATTATTTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
17 4 0.04
18 4 0.04
19 39 0.40
20 40 0.41
21 10 0.10
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTCTTTTGATTTA
Found at i:659399 original size:19 final size:18
Alignment explanation
Indices: 659266--659403 Score: 84
Period size: 19 Copynumber: 7.1 Consensus size: 18
659256 TTTTGTTTTC
659266 TTTGATTTATTTTTATTCTAT
1 TTTGATTTATTTTTA-T-T-T
* * *
659287 TTTTACTTATTGTTT-TCT
1 TTTGATTTATT-TTTATTT
659305 TTT-ATTTATTATTTATTT
1 TTTGATTTATT-TTTATTT
* *
659323 ATTT-ATTTTTCTTTTTTTT
1 -TTTGATTTAT-TTTTATTT
*
659342 CCTTTGATTTATTTTTTTTCT
1 --TTTGATTTATTTTTATT-T
659363 TTTGATTTATTTTTTTATTT
1 TTTGATTTA--TTTTTATTT
659383 TTTGATTTATTTATTATTT
1 TTTGATTTATTT-TTATTT
659402 TT
1 TT
659404 ATCTAACATT
Statistics
Matches: 96, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
17 9 0.09
18 9 0.09
19 31 0.32
20 22 0.23
21 22 0.23
22 3 0.03
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTGATTTATTTTTATTT
Found at i:659403 original size:20 final size:18
Alignment explanation
Indices: 659197--659394 Score: 96
Period size: 20 Copynumber: 10.2 Consensus size: 18
659187 ACCTTAACCT
*
659197 TTTTTCTTTTTTTGATTTC
1 TTTTT-TTTTTTTGATTTA
* * * *
659216 TTTAATATTTTTTAAATTA
1 TTT-TTTTTTTTTGATTTA
**
659235 TCTTTTTATTTTTTCCTTCT-
1 T-TTTTT-TTTTTTGATT-TA
659255 TTTTTGTTTTCTTTGATTTA
1 TTTTT-TTTT-TTTGATTTA
* *
659275 TTTTTATTCTATTTTTACTTA
1 TTTTT-TT-T-TTTTGATTTA
* *
659296 TTGTTTTCTTTT-ATTTA
1 TTTTTTTTTTTTGATTTA
* *
659313 TTATTTATTTATTT-ATTTT
1 TT-TTT-TTTTTTTGATTTA
659332 TCTTTTTTTTCCTTTGATTTA
1 T-TTTTTTTT--TTTGATTTA
659353 TTTTTTTTCTTTTGATTTA
1 TTTTTTTT-TTTTGATTTA
659372 TTTTTTTATTTTTTGATTTA
1 -TTTTTT-TTTTTTGATTTA
659392 TTT
1 TTT
659395 ATTATTTTTA
Statistics
Matches: 137, Mismatches: 24, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
17 6 0.04
18 9 0.07
19 47 0.34
20 53 0.39
21 21 0.15
22 1 0.01
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTTTTGATTTA
Found at i:662151 original size:94 final size:94
Alignment explanation
Indices: 661954--662213 Score: 337
Period size: 95 Copynumber: 2.7 Consensus size: 94
661944 AGATTATAAT
* *
661954 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAATGCCCCAGCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAA-GCCCCAGCTTTA
662019 TGGATAAGATTCAGCTAGCCTGATAAAGATG
64 TGGATAAGATTCAGCTAGCCTGATAAAGATG
* *
662050 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTAGTTAAA-CCCCTGACTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAGCCCCAG-CTTTAT
* *
662114 GGATAATATTCAGCTAGCCTGATAAAGGTG
65 GGATAAGATTCAGCTAGCCTGATAAAGATG
* * * * *
662144 ATTATAATATTTACAACGATA--TTGAGTTGTTCCTCTAGAGTAATTGGTTAAACGCCCCCGCTT
1 ATTATAATA--TACAA-TAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAA-GCCCCAGCTT
662207 TATGGAT
62 TATGGAT
662214 CCAGTTAGCC
Statistics
Matches: 146, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
93 5 0.03
94 43 0.29
95 70 0.48
96 21 0.14
97 7 0.05
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (94 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAGCCCCAGCTTTATG
GATAAGATTCAGCTAGCCTGATAAAGATG
Found at i:663222 original size:83 final size:83
Alignment explanation
Indices: 663083--664800 Score: 2186
Period size: 83 Copynumber: 20.6 Consensus size: 83
663073 AATCCAATAT
** * *
663083 AGCATAACTCAAGATAAGAAGAGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663148 CAAAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * * * * *
663166 AGCATAGCTCAAGGAAAGAAGGGCTATATGCCAACAAAGACCTTCGAGTTCGATTACACACAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663231 CAAAGACACATCATTTAC
66 CAAAGGCACATCATTTAC
* ** * *
663249 AACATAACTCAAGGTTAGAAGGGTTATCTGTCAACAAAGACCTTCAAGTTCGATTACACTCAACT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
663314 CAAAGGAACATTATTTGC
66 CAAAGGCACATCATTTAC
* * **
663332 AGCATAACTTAAGGCAAGAAGGGATATCTACCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
663397 CAAAGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
* * * * *
663415 AGCATAACTCCAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTTGAGTTCGATTACACTTAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663480 CAAAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * * *
663498 AGTATAGCTCAAGGCAAGAAGGGATATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663563 CAAAGGCACATCATGTAC
66 CAAAGGCACATCATTTAC
* *
663581 AACATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
663646 CAAAGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
* *
663664 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTAAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663729 C-AAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * * * * * *
663746 ATCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTTGATTACATTCAGAT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* **
663811 TAAAGGCACATCATTTGT
66 CAAAGGCACATCATTTAC
* * * * *
663829 AGCATAGCTCAAGGCGAGAA-GGCTATCTGCCAATAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACACTCAGC
**
663893 TCAAAGGCACATCATTTGT
65 TCAAAGGCACATCATTTAC
** ** *
663912 AATATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
663977 CAAAGGTACATCATTTAC
66 CAAAGGCACATCATTTAC
** * * * *
663995 AATATAACTCAAGGCTAGAAGGGTTACCTGTCAACAAAGACATTCGAGTTTGATTACACTCA-CT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC-
**
664059 TCAAAGGCACATCATTTGT
65 TCAAAGGCACATCATTTAC
* *
664078 AGTATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
664143 CAAAGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
** * * *
664161 AATATAACTCAAGGCTAGAAGGATTATCTGTCAAGAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
664226 CAAAGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
** * *
664244 AATATAACTCAAGGCTAA-AAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTATACTCAGC
1 AGCATAACTCAAGGC-AAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
*
664308 TCAAAGGCACATCATTTGC
65 TCAAAGGCACATCATTTAC
* * * * *
664327 AGCACAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTTGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
664392 CAAAGGCGCATTATTTAC
66 CAAAGGCACATCATTTAC
* * * * ** *
664410 AGCATAGCGCAAGGCGAGAATGACTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
* *
664475 TCAAAGGCACATCGTTTAA
65 TCAAAGGCACATCATTTAC
* ** * * *
664494 ATCATAACTCAAGGTGAGAAGGGTTATCTGTTAACCAAGACCTTCGAGTTTGATTACACTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
664559 CAAAGGCTCATCAAATTTAC
66 CAAAGGCACATC--ATTTAC
* * * * * *
664579 AGCATAACTCAAGGCGAGAAGGGCTATATCTCAACAAAAGACCTTCAAGTTCGATTACACTCAGG
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
* *
664644 TCAAAAGCATATCAAATTTAC
65 TCAAAGGCACATC--ATTTAC
* * * * *
664665 AGTATAACTCAAGGCGAGAAGGGTTATCTTTCAACAAAGACCTTCGAGTTTGATTACATTCAGCT
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
664730 CAAAGGCACATCAAATTTAC
66 CAAAGGCACATC--ATTTAC
* * * *
664750 AACATAACTCAAGGCGAGAAGGGTTATCAT-TCAATAAATACCTTCGAGTTC
1 AGCATAACTCAAGGCAAGAAGGGTTATC-TGTCAACAAAGACCTTCGAGTTC
664801 AATTCTATTC
Statistics
Matches: 1434, Mismatches: 189, Indels: 22
0.87 0.11 0.01
Matches are distributed among these distances:
82 87 0.06
83 1069 0.75
84 82 0.06
85 121 0.08
86 75 0.05
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (83 bp):
AGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCACATCATTTAC
Found at i:666894 original size:4 final size:4
Alignment explanation
Indices: 666845--666923 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
666835 GTTTTCTTTG
* * *
666845 ATTT ATTT TTTT ATTCT A-TT -TTT ACTT ATTGT -TTT CTTT GATTT ATTT
1 ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATT-T ATTT ATTT -ATTT ATTT
*
666893 ATTT A-TT ATTT ATTTT ATTA ATTT A-TT ATTT
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT
666924 TGATTTTGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
3 10 0.17
4 39 0.66
5 10 0.17
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:666911 original size:20 final size:20
Alignment explanation
Indices: 666886--666923 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
666876 TTTTCTTTGA
*
666886 TTTATTTATTTATTATTTAT
1 TTTATTAATTTATTATTTAT
666906 TTTATTAATTTATTATTT
1 TTTATTAATTTATTATTT
666924 TGATTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTAATTTATTATTTAT
Found at i:673812 original size:2 final size:2
Alignment explanation
Indices: 673805--673850 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
673795 CTAATCACCA
673805 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
673847 AT AT
1 AT AT
673851 TAAATCAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:675590 original size:15 final size:16
Alignment explanation
Indices: 675562--675601 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
675552 GTTTGTTAAA
*
675562 TTTTATT-TATTTATT
1 TTTTATTATAATTATT
675577 TTTT-TTATAATTATT
1 TTTTATTATAATTATT
675592 TTTTATTATA
1 TTTTATTATA
675602 TATATATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTATAATTATT
Found at i:675639 original size:2 final size:2
Alignment explanation
Indices: 675632--675656 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
675622 TTAATTTTAT
675632 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 T
675657 TTAAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:676029 original size:15 final size:17
Alignment explanation
Indices: 675999--676030 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
675989 TGTTCTATTC
675999 ATTTTTATATTTACTTT
1 ATTTTTATATTTACTTT
676016 ATTTTT-TA-TTACTTT
1 ATTTTTATATTTACTTT
676031 CCTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTATATTTACTTT
Found at i:676051 original size:23 final size:24
Alignment explanation
Indices: 676013--676060 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
676003 TTATATTTAC
*
676013 TTTATTTTTTATTACTTTCCTTAT
1 TTTATTTTGTATTACTTTCCTTAT
*
676037 TTTA-TTTGTATTACTTTCTTTAT
1 TTTATTTTGTATTACTTTCCTTAT
676060 T
1 T
676061 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATTTTGTATTACTTTCCTTAT
Found at i:676071 original size:23 final size:23
Alignment explanation
Indices: 676014--676071 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
676004 TATATTTACT
676014 TTATTT-TTTATTACTTTCCTTA
1 TTATTTATTTATTACTTTCCTTA
*
676036 -T-TTTATTTGTATTACTTTCTTTA
1 TTATTTA-TT-TATTACTTTCCTTA
676059 TTATTTATTTATT
1 TTATTTATTTATT
676072 TCATCTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
20 3 0.10
21 1 0.03
22 2 0.07
23 17 0.57
24 3 0.10
25 4 0.13
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTTATTTATTACTTTCCTTA
Found at i:677016 original size:25 final size:25
Alignment explanation
Indices: 676961--677017 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
676951 TTACCCTAAC
676961 CATATTTTTATTTCTTCTTACTCTT
1 CATATTTTTATTTCTTCTTACTCTT
* *
676986 CTTATTTTTTTTTCTTTCTT-CAT-TT
1 CATATTTTTATTTC-TTCTTAC-TCTT
677011 CATATTT
1 CATATTT
677018 ATTTATACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (25 bp):
CATATTTTTATTTCTTCTTACTCTT
Found at i:679336 original size:24 final size:24
Alignment explanation
Indices: 679286--679336 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
679276 CATTTCTTGC
*
679286 ATTTTATATTTCATGTTTGTTTTT
1 ATTTTATATTTCATGTTTGTTTAT
679310 ATTTTATATTTTCCATG-TT-TTTAT
1 ATTTTATA-TTT-CATGTTTGTTTAT
679334 ATT
1 ATT
679337 CGTATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.62
25 5 0.21
26 4 0.17
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (24 bp):
ATTTTATATTTCATGTTTGTTTAT
Found at i:686421 original size:23 final size:23
Alignment explanation
Indices: 686393--686436 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
686383 TCCTAAGTTG
* * *
686393 AAAAAAAGAAGAAGGGAGAAAAC
1 AAAAAAACAAAAAAGGAGAAAAC
686416 AAAAAAACAAAAAAGGAGAAA
1 AAAAAAACAAAAAAGGAGAAA
686437 CGTTTAGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAAGGAGAAAAC
Found at i:686485 original size:7 final size:7
Alignment explanation
Indices: 686473--686521 Score: 80
Period size: 7 Copynumber: 6.7 Consensus size: 7
686463 GCCCCAAATT
686473 GAAAAAA
1 GAAAAAA
686480 GAAAAAA
1 GAAAAAA
686487 GAAAAAGA
1 GAAAAA-A
686495 GAAAAAA
1 GAAAAAA
686502 GAACAAAA
1 GAA-AAAA
686510 GAAAAAA
1 GAAAAAA
686517 GAAAA
1 GAAAA
686522 GAAAATAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 26 0.65
8 14 0.35
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:686497 original size:15 final size:14
Alignment explanation
Indices: 686473--686521 Score: 80
Period size: 15 Copynumber: 3.4 Consensus size: 14
686463 GCCCCAAATT
686473 GAAAAAAGAAAAAA
1 GAAAAAAGAAAAAA
686487 GAAAAAGAGAAAAAA
1 GAAAAA-AGAAAAAA
686502 GAACAAAAGAAAAAA
1 GAA-AAAAGAAAAAA
686517 GAAAA
1 GAAAA
686522 GAAAATAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.24
15 22 0.67
16 3 0.09
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAAAA
Found at i:686498 original size:22 final size:22
Alignment explanation
Indices: 686474--686521 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
686464 CCCCAAATTG
686474 AAAAAAGAAAAAAGAA-AAAGAG
1 AAAAAAGAAAAAAGAACAAA-AG
686496 AAAAAAGAACAAAAGAA-AAAAG
1 AAAAAAGAA-AAAAGAACAAAAG
686518 AAAA
1 AAAA
686522 GAAAATAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAAAAAGAACAAAAG
Found at i:687639 original size:106 final size:105
Alignment explanation
Indices: 687454--688308 Score: 947
Period size: 106 Copynumber: 8.4 Consensus size: 105
687444 GGGGCTTCCT
* *
687454 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* * *
687519 TCACGGCGAAGGGACCACTGGTTGTCAACAAATAACTTCTC
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCTC
* * *
687560 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACGCAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
*
687625 TCACGACGGAGGGACCGCTGGTTGTCAAC--A-AA---T-
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
** *
687658 AATTTC----CCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* * *
687719 TCACGATGAAGGGATCGCTGGTTGTCAATAAACAATT-TCC
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCT-C
* * * *
687759 GATTTCCGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
687824 TCACGACGAAGGGACCGCTGGTTGTCAAC--A-AA----C
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
* *
687857 AATTTC----CCAATTTCAACTTCGCAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* *
687918 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCTC
* *
687959 GATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
*
688024 TCACGACGAAGGGACCGCTGGTTGTC-A-ATA-AA----C
66 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
* * * * *
688057 AATTTC----CCAATTTCAACTTCACAGCGAAGAATATTAGACTCAAGACAGCACAAGCTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* * * * ** * *
688118 TCA-TAGTGAAGGGGCGGCTGACTGTCAACAAACGACTTCCC
66 TCACGA-CGAAGGGACCGCTGGTTGTCAACAAAC-AATTCTC
* * *
688159 AATTTCAGAGCCAATTTCAACTTCACAACGAAGTATATTGGACTCCAGACAACACAAGTTCAAAT
1 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* *
688224 TCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTTCC
66 TCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTCT-C
* * * *
688265 AGTTCCAGAACCAATTTCAACTTCACAACCG-AGGATATTAGACT
1 AATTTCAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGGACT
688309 TGGAACAATA
Statistics
Matches: 635, Mismatches: 74, Indels: 80
0.80 0.09 0.10
Matches are distributed among these distances:
93 1 0.00
94 220 0.35
95 1 0.00
96 4 0.01
97 4 0.01
98 19 0.03
99 2 0.00
101 5 0.01
102 15 0.02
103 5 0.01
104 3 0.00
105 81 0.13
106 272 0.43
107 3 0.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
Found at i:687732 original size:94 final size:95
Alignment explanation
Indices: 687569--688261 Score: 721
Period size: 94 Copynumber: 7.0 Consensus size: 95
687559 CAATTTCAGA
* * *
687569 GCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGG
1 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
687634 AGGGACCGCTGGTTGTCAACAAATAATTTC
66 AGGGACCGCTGGTTGTCAACAAATAATTTC
** * * *
687664 -CCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGATGA
1 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
* * *
687728 AGGGATCGCTGGTTGTCAATAAACAATTTCCGATTTCC
66 AGGGACCGCTGGTTGTC----AACAA-AT--AATTT-C
*
687766 GAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAGTTCAACTTCACGAC
1 --GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGAC
*
687831 GAAGGGACCGCTGGTTGTCAACAAACAATTTC
64 GAAGGGACCGCTGGTTGTCAACAAATAATTTC
* * *
687863 -CCAATTTCAACTTCGCAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGA
1 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
* *
687927 AGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTC
66 AGGGACCGCTGGTTGTC----AACAA-AT---AATTTC
687965 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGA
1 ---GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGA
* *
688030 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
63 CGAAGGGACCGCTGGTTGTCAACAAATAATTTC
* * * * * * * *
688063 -CCAATTTCAACTTCACAGCGAAGAATATTAGACTCAAGACAGCACAAGCTCAACTTCA-TAGTG
1 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGA-CG
* * **
688126 AAGGGGCGGCTGACTGTCAACAAACGACTTCCCAATTTC
65 AAGGGACCGCTGGTTGTCAAC-AA--A--T---AATTTC
* * *
688165 AGAGCCAATTTCAACTTCACAACGAAGTATATTGGACTCCAGACAACACAAGTTCAAATTCACAA
1 ---GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGA
*
688230 CGAAGGGA-CGACTGGTTGTCAACAAACAATTT
63 CGAAGGGACCG-CTGGTTGTCAACAAATAATTT
688262 TCCAGTTCCA
Statistics
Matches: 497, Mismatches: 63, Indels: 73
0.79 0.10 0.12
Matches are distributed among these distances:
93 1 0.00
94 218 0.44
95 2 0.00
97 2 0.00
98 24 0.05
99 1 0.00
101 9 0.02
102 16 0.03
103 1 0.00
105 77 0.15
106 145 0.29
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (95 bp):
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
AGGGACCGCTGGTTGTCAACAAATAATTTC
Found at i:687835 original size:43 final size:43
Alignment explanation
Indices: 687774--687929 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 43
687764 CCGAGCCAAT
687774 TTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAG
1 TTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAG
* ** ** * * *
687817 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-CATTGG-ACTC--CAGACAA---CACAAG
* * * *
687868 TTCAACTTCGCAACGAAGGATATTGGACTCAAGACAGCACAAG
1 TTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAG
*
687911 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
687930 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
43 37 0.45
44 3 0.04
45 4 0.05
46 6 0.07
48 8 0.10
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGACATTGGACTCCAGACAACACAAG
Found at i:688059 original size:200 final size:200
Alignment explanation
Indices: 687464--688261 Score: 1242
Period size: 200 Copynumber: 4.0 Consensus size: 200
687454 AATTTCAGAG
*
687464 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGGCGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
* * *
687529 GGGACCACTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
687594 ACATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGAGGGACCGCTGGTTGTCAACAAATA
131 ACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
687659 ATTTC
196 ATTTC
* *
687664 CCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGATGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
* * * * *
687729 GGGATCGCTGGTTGTCAATAAACAA-TTTCCGATTTCCGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
687793 ACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
131 ACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
687858 ATTTC
196 ATTTC
* *
687863 CCAATTTCAACTTCGCAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
* * *
687928 GGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
687993 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
131 ACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
688058 ATTTC
196 ATTTC
* * * * *
688063 CCAATTTCAACTTCACAGCGAAGAATATTAGACTCAAGACAGCACAAGCTCAACTTCA-TAGTGA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGA-CGA
* * ** *
688127 AGGGGCGGCTGACTGTCAACAAACGACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
65 AGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
* * * *
688192 TATATTGGACTCCAGACAACACAAGTTCAAATTCACAACGAAGGGA-CGACTGGTTGTCAACAAA
130 GACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAA
688256 CAATTT
194 CAATTT
688262 TCCAGTTCCA
Statistics
Matches: 553, Mismatches: 42, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
199 190 0.34
200 363 0.66
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (200 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
ACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ATTTC
Found at i:690103 original size:18 final size:18
Alignment explanation
Indices: 690082--690116 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
690072 TTATATTTAT
690082 TTATTTATTTATT-TATAA
1 TTATTT-TTTATTATATAA
690100 TTATTTTTTATTATATA
1 TTATTTTTTATTATATA
690117 TATATACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTTATTATATAA
Found at i:690103 original size:22 final size:22
Alignment explanation
Indices: 690072--690120 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
690062 GTTTGTTAAA
*
690072 TTATATTTATTTATTTATT-TAT
1 TTATAATTATTT-TTTATTATAT
690094 TTATAATTATTTTTTATTATAT
1 TTATAATTATTTTTTATTATAT
*
690116 ATATA
1 TTATA
690121 TACATTACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATAATTATTTTTTATTATAT
Found at i:693096 original size:31 final size:31
Alignment explanation
Indices: 693061--693126 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
693051 TATGATATGA
*
693061 TCACTTTCGTTTTTAATTAATGAATATGTGG
1 TCACTTTCGTTTTTAATTAATGAAGATGTGG
* *
693092 TCACTTTCGTTTTTATTTAATTAAGATGTGG
1 TCACTTTCGTTTTTAATTAATGAAGATGTGG
693123 TCAC
1 TCAC
693127 CCCAAGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (31 bp):
TCACTTTCGTTTTTAATTAATGAAGATGTGG
Found at i:693631 original size:39 final size:38
Alignment explanation
Indices: 693527--693632 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 38
693517 ATAACCCTCA
** * *
693527 AAATTATTTCAC-TCTAATATTCTAAAATACTAATTTCTT
1 AAATTATTTCACAT-TAACGTTCT-AAATTCTAATTTATT
* *
693566 AAATT-TTGACACAATAACGTTCTAAATTCTAAATTTATT
1 AAATTATT-TCACATTAACGTTCTAAATTCT-AATTTATT
693605 AAATTATTTCACATTAACGTTCTAAATT
1 AAATTATTTCACATTAACGTTCTAAATT
693633 ATTTTTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
38 8 0.15
39 45 0.82
40 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (38 bp):
AAATTATTTCACATTAACGTTCTAAATTCTAATTTATT
Found at i:693927 original size:24 final size:23
Alignment explanation
Indices: 693877--693928 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
693867 TAATTATATA
*
693877 TATTATAATTTTATTATATTAAC
1 TATTAAAATTTTATTATATTAAC
693900 --TTAAAATATTT-TTATATTAAC
1 TATTAAAAT-TTTATTATATTAAC
693921 TTATTAAA
1 -TATTAAA
693929 TATAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 16 0.67
22 3 0.12
24 5 0.21
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTAAAATTTTATTATATTAAC
Found at i:694131 original size:21 final size:21
Alignment explanation
Indices: 694086--694131 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
694076 ATTCGCAACG
* *
694086 CGAACTTCGACTATCGCACTT
1 CGAACTTCGACTATCGCAATA
*
694107 CGAACTTGGACTATCGCAATA
1 CGAACTTCGACTATCGCAATA
694128 CGAA
1 CGAA
694132 TATGTAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (21 bp):
CGAACTTCGACTATCGCAATA
Found at i:694165 original size:21 final size:21
Alignment explanation
Indices: 694139--694239 Score: 64
Period size: 21 Copynumber: 4.6 Consensus size: 21
694129 GAATATGTAA
694139 ATCGCAATGCGATAGCCGACT
1 ATCGCAATGCGATAGCCGACT
* * *
694160 ATCGCAATGTGAACTTGGACTGGACT
1 ATCGCAATGCG-A--TAG-C-CGACT
* *
694186 ATCGCAATGCGAATATG--TA-A
1 ATCGCAATGCG-ATA-GCCGACT
*
694206 ATCGCAATGCGATAGTCGACT
1 ATCGCAATGCGATAGCCGACT
694227 ATCGCAATGCGAT
1 ATCGCAATGCGAT
694240 TATGTAAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 12 0.19
21 24 0.39
22 1 0.02
24 3 0.05
25 2 0.03
26 16 0.26
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGATAGCCGACT
Found at i:694259 original size:20 final size:20
Alignment explanation
Indices: 694186--694259 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 20
694176 GGACTGGACT
*
694186 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATTATGTAA
*
694206 ATCGCAATGCGA-TA-GTCGACT
1 ATCGCAATGCGATTATGT--A-A
694227 ATCGCAATGCGATTATGTAA
1 ATCGCAATGCGATTATGTAA
694247 ATCGCAATGCGAT
1 ATCGCAATGCGAT
694260 AGTCGAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 26 0.55
21 13 0.28
22 2 0.04
23 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATTATGTAA
Found at i:694281 original size:41 final size:41
Alignment explanation
Indices: 694182--694265 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
694172 ACTTGGACTG
*
694182 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGATTATGTAAATCGCAATGCGATAGTC
694223 GACTATCGCAATGCGATTATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGATTATGTAAATCGCAATGCGATAGTC
694264 GA
1 GA
694266 AGTTCGCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (41 bp):
GACTATCGCAATGCGATTATGTAAATCGCAATGCGATAGTC
Found at i:694448 original size:5 final size:6
Alignment explanation
Indices: 694398--694445 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
694388 GACACGTATT
694398 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
694443 ACC
1 ACC
694446 CGAGACGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:695089 original size:21 final size:21
Alignment explanation
Indices: 695037--695161 Score: 114
Period size: 21 Copynumber: 6.0 Consensus size: 21
695027 CGTTGCGATT
695037 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
695056 TTGAAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
695079 TTCGACTATCGCAACACGAAC
1 TTGGACTATCGCAACGCGAAC
*
695100 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
695119 TTGGAATAAATCGTAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
695142 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
695162 TATGTAAATC
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
19 15 0.18
21 50 0.60
23 19 0.23
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:695137 original size:63 final size:63
Alignment explanation
Indices: 695037--695155 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
695027 CGTTGCGATT
695037 TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACACGAAC
1 TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACACGAAC
* * * *
695100 TTGGACTATCGCAACGAATTTGGAATAAATCGTAACGCGAACTTGGACTATCGCAA
1 TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAA
695156 TGCGAATATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (63 bp):
TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACACGAAC
Found at i:695427 original size:25 final size:28
Alignment explanation
Indices: 695371--695428 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
695361 TTATTAACTT
* *
695371 AATTTAAAAATATTTTATTTTTATTTTC
1 AATTTAAAAATATTATATATTTATTTTC
695399 -ATTTAAAAATA-TATA-ATTTA-TTTC
1 AATTTAAAAATATTATATATTTATTTTC
695423 AATTTA
1 AATTTA
695429 TTAAAAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 9 0.33
26 3 0.11
27 11 0.41
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
AATTTAAAAATATTATATATTTATTTTC
Found at i:700586 original size:11 final size:11
Alignment explanation
Indices: 700570--700594 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
700560 TTAACTAGTG
700570 AATAATAAATA
1 AATAATAAATA
700581 AATAATAAATA
1 AATAATAAATA
700592 AAT
1 AAT
700595 CAAAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATAAATA
Found at i:700638 original size:15 final size:15
Alignment explanation
Indices: 700620--700662 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
700610 AAATAATAAT
700620 AAATAAAAAAAGAT-A
1 AAATAAAAAAA-ATCA
*
700635 AAATAAAACAAATCA
1 AAATAAAAAAAATCA
*
700650 AAAGAAAAAAAAT
1 AAATAAAAAAAAT
700663 AGATCAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (15 bp):
AAATAAAAAAAATCA
Found at i:700652 original size:25 final size:25
Alignment explanation
Indices: 700602--700663 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
700592 AATCAAAGGG
*
700602 AAAAGAAAAAATAATAATAAATAAA
1 AAAAGAAAAAATAATAACAAATAAA
*
700627 AAAAGATAAAATAA-AACAAATCAAA
1 AAAAGAAAAAATAATAACAAAT-AAA
*
700652 AGAA-AAAAAATA
1 AAAAGAAAAAATA
700664 GATCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (25 bp):
AAAAGAAAAAATAATAACAAATAAA
Found at i:700724 original size:38 final size:33
Alignment explanation
Indices: 700682--700763 Score: 87
Period size: 38 Copynumber: 2.4 Consensus size: 33
700672 GAAAATCTTA
700682 AAAAATATAAAAACAAAATATTAATATAATAATATAAT
1 AAAAATATAAAAACAAAATA--AA-ATAAT-A-ATAAT
*
700720 AAAAA-ATTAAAAACAAAGTAAAATAATAATAAT
1 AAAAATA-TAAAAACAAAATAAAATAATAATAAT
700753 AAAAATA-AAAA
1 AAAAATATAAAA
700764 GGGGTTAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
32 4 0.10
33 10 0.24
34 2 0.05
35 5 0.12
36 2 0.05
37 1 0.02
38 17 0.41
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.23
Consensus pattern (33 bp):
AAAAATATAAAAACAAAATAAAATAATAATAAT
Found at i:703130 original size:40 final size:40
Alignment explanation
Indices: 703086--703169 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
703076 TGGGAAGTAA
* *
703086 TTGTGTATGGGTAATGTTGGGAAGTAATCGCG-GAAGGTTT
1 TTGTGTATGGGTAATGGTGGAAAGTAATCG-GTGAAGGTTT
*
703126 TTGTGTATGGTTAATGGTGGAAAGTAATCGGTGAAGGTTT
1 TTGTGTATGGGTAATGGTGGAAAGTAATCGGTGAAGGTTT
703166 TTGT
1 TTGT
703170 CTATTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.23, C:0.04, G:0.36, T:0.38
Consensus pattern (40 bp):
TTGTGTATGGGTAATGGTGGAAAGTAATCGGTGAAGGTTT
Found at i:705895 original size:22 final size:22
Alignment explanation
Indices: 705823--705911 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
705813 GTAAAGAAAG
* * *
705823 AATATCAGGCATACAAAAAGAC
1 AATATAAGGCATACAAAAACAA
*
705845 TATA-AAGGCATAC-AAAACATA
1 AATATAAGGCATACAAAAACA-A
705866 GAATATAAGGCATACAAAAACAA
1 -AATATAAGGCATACAAAAACAA
705889 AATATAAGGCATACAATAAACAA
1 AATATAAGGCATACAA-AAACAA
705912 GTAAACTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.09
21 8 0.14
22 22 0.39
23 16 0.28
24 6 0.11
ACGTcount: A:0.58, C:0.15, G:0.11, T:0.16
Consensus pattern (22 bp):
AATATAAGGCATACAAAAACAA
Found at i:707595 original size:176 final size:178
Alignment explanation
Indices: 707301--707656 Score: 689
Period size: 176 Copynumber: 2.0 Consensus size: 178
707291 CATTTATCAC
*
707301 TTATTTGTTTCTTTTTGTTGATTTATATGCATATATTTTTTTTTCTTTTTGTTGATTGTTATATT
1 TTATTTGTTTCTTTTTGTTGATTTATATGCATATATTTTTTTTTCTTTTTGGTGATTGTTATATT
707366 GTAATTCTAGATTGAAAAAGGCTATTTATGTAAATGGTTTAACTATTTACTTTCATGATTTATAT
66 GTAATTCTAGATTGAAAAAGGCTATTTATGTAAATGGTTTAACTATTTACTTTCATGATTTATAT
707431 AT-A-ATACTCGATAATATGTTCGTTTCGTCGATATATTTCTATTAAT
131 ATAACATACTCGATAATATGTTCGTTTCGTCGATATATTTCTATTAAT
707477 TTATTTGTTTCTTTTTGTTGATTTATATGCATATATTTTTTTTTCTTTTTGGTGATTGTTATATT
1 TTATTTGTTTCTTTTTGTTGATTTATATGCATATATTTTTTTTTCTTTTTGGTGATTGTTATATT
707542 GTAATTCTAGATTGAAAAAGGCTATTTATGTAAATGGTTTAACTATTTACTTTCATGATTTATAT
66 GTAATTCTAGATTGAAAAAGGCTATTTATGTAAATGGTTTAACTATTTACTTTCATGATTTATAT
707607 ATAACATACTCGATAATATGTTCGTTTCGTCGATATATTTCTATTAAT
131 ATAACATACTCGATAATATGTTCGTTTCGTCGATATATTTCTATTAAT
707655 TT
1 TT
707657 TAGGAGTTTC
Statistics
Matches: 177, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
176 131 0.74
177 1 0.01
178 45 0.25
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (178 bp):
TTATTTGTTTCTTTTTGTTGATTTATATGCATATATTTTTTTTTCTTTTTGGTGATTGTTATATT
GTAATTCTAGATTGAAAAAGGCTATTTATGTAAATGGTTTAACTATTTACTTTCATGATTTATAT
ATAACATACTCGATAATATGTTCGTTTCGTCGATATATTTCTATTAAT
Found at i:708789 original size:20 final size:19
Alignment explanation
Indices: 708748--708789 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
708738 TACTTCAAAA
*
708748 TTTTCTATTAACTGTGATT
1 TTTTCTATTAACTGTAATT
708767 TTTTCTATTAACTGTCAATT
1 TTTTCTATTAACTGT-AATT
708787 TTT
1 TTT
708790 GCTTCGTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTCTATTAACTGTAATT
Found at i:722562 original size:29 final size:28
Alignment explanation
Indices: 722474--722563 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
722464 TAAGTTATAT
* **
722474 AACTTTTCAAAATTATATTTTTGGTTTCTA
1 AACTTTT-AAAATTATA-TTTTAGTCACTA
* *
722504 AACTTTTACAAAGTTTATACTTTAGCCACTA
1 AACTTTTA-AAA--TTATATTTTAGTCACTA
722535 AACTTTTAAAACTTATATTTTAGTCACTA
1 AACTTTTAAAA-TTATATTTTAGTCACTA
722564 GACAATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 16 0.33
30 13 0.27
31 15 0.31
32 5 0.10
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (28 bp):
AACTTTTAAAATTATATTTTAGTCACTA
Found at i:731783 original size:20 final size:19
Alignment explanation
Indices: 731758--731810 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
731748 CCATGGGTGG
731758 GTATCGATACTAAA-GCAATA
1 GTATCGATACTAAAGGC--TA
731778 GTATCGATACTATAAGGCTA
1 GTATCGATACTA-AAGGCTA
731798 GTATCGATACTAA
1 GTATCGATACTAA
731811 GGTTGCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 26 0.84
21 2 0.06
22 2 0.06
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (19 bp):
GTATCGATACTAAAGGCTA
Found at i:732873 original size:22 final size:22
Alignment explanation
Indices: 732848--732893 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
732838 GAAGAAGCTT
732848 ATTATCCAATTCCTCCATCATC
1 ATTATCCAATTCCTCCATCATC
*
732870 ATTATCCAATTCCTCCATTATC
1 ATTATCCAATTCCTCCATCATC
732892 AT
1 AT
732894 AACAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTATCCAATTCCTCCATCATC
Found at i:733561 original size:15 final size:16
Alignment explanation
Indices: 733541--733575 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
733531 TCTCTTAATT
733541 TCATCTTCTTTT-TTA
1 TCATCTTCTTTTATTA
*
733556 TCATCTTTTTTTATTA
1 TCATCTTCTTTTATTA
733572 TCAT
1 TCAT
733576 TTATCAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (16 bp):
TCATCTTCTTTTATTA
Found at i:733621 original size:14 final size:15
Alignment explanation
Indices: 733600--733630 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
733590 ATAAGTTTTA
733600 ATTTTTTTTCAATTT
1 ATTTTTTTTCAATTT
733615 ATTTTTTTTCAATTT
1 ATTTTTTTTCAATTT
733630 A
1 A
733631 CTTTGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTTTTTCAATTT
Found at i:735115 original size:41 final size:41
Alignment explanation
Indices: 735070--735150 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
735060 ACCACCTTAA
*
735070 ATTTAATTACAATTCGAATTAAGTAATAATATATAAAAACT
1 ATTTAATTACAATTCGAATTAAGTAACAATATATAAAAACT
*
735111 ATTTAATTACGATTCGAATTAAGTAACAATATATAAAAAC
1 ATTTAATTACAATTCGAATTAAGTAACAATATATAAAAAC
735151 ATAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.35
Consensus pattern (41 bp):
ATTTAATTACAATTCGAATTAAGTAACAATATATAAAAACT
Found at i:736486 original size:28 final size:28
Alignment explanation
Indices: 736453--736515 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
736443 TGCACAATCA
736453 ATTTCATGAATCC-ATGATTATATTATGT
1 ATTTCAT-AATCCTATGATTATATTATGT
** * *
736481 ATTTCATTTTCCTCTGCTTATATTATGT
1 ATTTCATAATCCTATGATTATATTATGT
736509 ATTTCAT
1 ATTTCAT
736516 TTGCCTCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.52
Consensus pattern (28 bp):
ATTTCATAATCCTATGATTATATTATGT
Found at i:736516 original size:28 final size:28
Alignment explanation
Indices: 736470--736523 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
736460 GAATCCATGA
*
736470 TTATATTATGTATTTCATTTTCCTCTGC
1 TTATATTATGTATTTCATTTGCCTCTGC
736498 TTATATTATGTATTTCATTTGCCTCT
1 TTATATTATGTATTTCATTTGCCTCT
736524 ACTTCTATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (28 bp):
TTATATTATGTATTTCATTTGCCTCTGC
Found at i:736971 original size:18 final size:18
Alignment explanation
Indices: 736948--737021 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
736938 GTACTGAAAA
* *
736948 TTTGTCCTGGAGGACCAC
1 TTTGTCCCGAAGGACCAC
736966 TTTGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
*
736984 TATGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
* *
737002 TATGTCTCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
737020 TT
1 TT
737022 ATAATCCCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (18 bp):
TTTGTCCCGAAGGACCAC
Found at i:743588 original size:29 final size:29
Alignment explanation
Indices: 743556--743620 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
743546 CTGACCAGAT
743556 TAAAGATTCTAATGATTTCAAATTATCTA
1 TAAAGATTCTAATGATTTCAAATTATCTA
*
743585 TAAATATTCTAATGATTTCAAATTATCTA
1 TAAAGATTCTAATGATTTCAAATTATCTA
743614 TAAAGAT
1 TAAAGAT
743621 ATAGCATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (29 bp):
TAAAGATTCTAATGATTTCAAATTATCTA
Found at i:748138 original size:34 final size:35
Alignment explanation
Indices: 748095--748172 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
748085 GGTAGGGTTT
748095 TTTAAGTGTGATATTCAAGTCGAGTCGGG-TCGGG
1 TTTAAGTGTGATATTCAAGTCGAGTCGGGTTCGGG
** * *
748129 TTTAAGTGTGATATTCGGGTTGGGTCGGGTTCGGG
1 TTTAAGTGTGATATTCAAGTCGAGTCGGGTTCGGG
748164 TTTAGAGTG
1 TTTA-AGTG
748173 AAAAAAACCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 25 0.66
35 9 0.24
36 4 0.11
ACGTcount: A:0.17, C:0.09, G:0.38, T:0.36
Consensus pattern (35 bp):
TTTAAGTGTGATATTCAAGTCGAGTCGGGTTCGGG
Found at i:748753 original size:17 final size:18
Alignment explanation
Indices: 748731--748777 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
748721 TATGGAATTG
*
748731 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
748748 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
748766 GATTTCAATTCC
1 GATTCCAATTCC
748778 CTCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:750199 original size:58 final size:59
Alignment explanation
Indices: 750080--750208 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 59
750070 ACTTTTATTT
* *
750080 TAAATTAGTCCTTAAACGTTTGAATATTTTAATTTCATACCTAAACTATGACTCTCATTC
1 TAAATTAGTCCTTAAACGTTTGAACA-TTTAATTTCATACCTAAACTATGACCCTCATTC
* * * *
750140 TAAATTAGTCCTTAAACTTTTGAACA-TTAATTTCATCCCTAAACTATGTCCCTCTTTC
1 TAAATTAGTCCTTAAACGTTTGAACATTTAATTTCATACCTAAACTATGACCCTCATTC
*
750198 TAAATTGGTCC
1 TAAATTAGTCC
750209 CCACACTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 38 0.61
60 24 0.39
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (59 bp):
TAAATTAGTCCTTAAACGTTTGAACATTTAATTTCATACCTAAACTATGACCCTCATTC
Found at i:750484 original size:59 final size:58
Alignment explanation
Indices: 750362--750525 Score: 197
Period size: 60 Copynumber: 2.7 Consensus size: 58
750352 GTATATATGT
* *
750362 ATAGTTTGGGATAAAATTAGAATATTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATAAAATTA-AATATTC-AAAAGTTTGAGGACCAATTTAGAATGAAGGCC
* * *
750422 ATAGTTTGGGATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGATA-GCC
1 ATAGTTTGGGATAAAATT-AAATATTCAAAAGTTTGAGGACCAATTTAGAATGA-AGGCC
*
750481 ATAGTTTAGGGATAAAATTAAAATATTTAAAAGTTT-AGGGACCAA
1 ATAGTTT-GGGATAAAATT-AAATATTCAAAAGTTTGA-GGACCAA
750526 CTGAAAATGA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
59 35 0.39
60 54 0.60
61 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (58 bp):
ATAGTTTGGGATAAAATTAAATATTCAAAAGTTTGAGGACCAATTTAGAATGAAGGCC
Found at i:750935 original size:7 final size:7
Alignment explanation
Indices: 750923--750977 Score: 92
Period size: 7 Copynumber: 7.9 Consensus size: 7
750913 ACCGAAACCA
750923 AAGCTCG
1 AAGCTCG
*
750930 AAGCTCA
1 AAGCTCG
750937 AAGCTCG
1 AAGCTCG
750944 AAGCTCG
1 AAGCTCG
*
750951 AAGCTCA
1 AAGCTCG
750958 AAGCTCG
1 AAGCTCG
750965 AAGCTCG
1 AAGCTCG
750972 AAGCTC
1 AAGCTC
750978 AAATCCCGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.15
Consensus pattern (7 bp):
AAGCTCG
Found at i:750949 original size:21 final size:21
Alignment explanation
Indices: 750923--750980 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
750913 ACCGAAACCA
750923 AAGCTCGAAGCTCAAAGCTCG
1 AAGCTCGAAGCTCAAAGCTCG
750944 AAGCTCGAAGCTCAAAGCTCG
1 AAGCTCGAAGCTCAAAGCTCG
750965 AAGCTCGAAGCTCAAA
1 AAGCTCGAAGCTCAAA
750981 TCCCGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.36, C:0.28, G:0.22, T:0.14
Consensus pattern (21 bp):
AAGCTCGAAGCTCAAAGCTCG
Found at i:751155 original size:6 final size:6
Alignment explanation
Indices: 751144--751272 Score: 204
Period size: 6 Copynumber: 21.0 Consensus size: 6
751134 TCCAGTTCTT
751144 TTTGTG TTTGTG TTTGTG TTTGTGTG TTTGTG TTTGTG TTTGTG TTTGTG
1 TTTGTG TTTGTG TTTGTG -TT-TGTG TTTGTG TTTGTG TTTGTG TTTGTG
751194 TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTTGTG
1 TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG -TTTGTG
* * *
751243 TTTGTG TTTGTG TGTGTG TGTGTG TGTGTG
1 TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG
751273 ATTGATTAAC
Statistics
Matches: 119, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
6 105 0.88
7 10 0.08
8 4 0.03
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
TTTGTG
Found at i:756433 original size:29 final size:30
Alignment explanation
Indices: 756399--756456 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
756389 TATGGTCAAA
* *
756399 AATCAATTTGACCACCGAACT-TTTAATTG
1 AATCAATTAGACCACCCAACTATTTAATTG
756428 AATCAATTAGACCACCCAACTATTTAATT
1 AATCAATTAGACCACCCAACTATTTAATT
756457 TGTTCAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (30 bp):
AATCAATTAGACCACCCAACTATTTAATTG
Found at i:757432 original size:15 final size:14
Alignment explanation
Indices: 757408--757441 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
757398 TCGGTCACCG
757408 ACCAAACCGAATTA
1 ACCAAACCGAATTA
757422 ACCATAACCGAATTA
1 ACCA-AACCGAATTA
757437 ACCAA
1 ACCAA
757442 TTTTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.50, C:0.29, G:0.06, T:0.15
Consensus pattern (14 bp):
ACCAAACCGAATTA
Found at i:758194 original size:17 final size:17
Alignment explanation
Indices: 758172--758204 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
758162 TGTTGTAAGG
758172 CAAATAATTTATTTAAA
1 CAAATAATTTATTTAAA
*
758189 CAAATAATTTGTTTAA
1 CAAATAATTTATTTAA
758205 TTTTTATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
CAAATAATTTATTTAAA
Found at i:758973 original size:31 final size:29
Alignment explanation
Indices: 758914--758997 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 29
758904 GATTTGTGAT
**
758914 TTTTTTAAATATTATAAAATAATTATTAA
1 TTTTTTAAATATTATAAAATAAGAATTAA
*
758943 TTTTTTATATAATTATAGAAATAAGAATTAAAA
1 TTTTTTAAAT-ATTATA-AAATAAGAATT--AA
* *
758976 TTTATTTAACTATTCTAAAATA
1 TTT-TTTAAATATTATAAAATA
758998 GTCTTTAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 9 0.20
30 6 0.14
31 9 0.20
32 5 0.11
33 10 0.23
34 5 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTTTTAAATATTATAAAATAAGAATTAA
Found at i:762247 original size:21 final size:21
Alignment explanation
Indices: 762217--762268 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
762207 TTTAAGGGTG
*
762217 AGTATTGATACTGCAAGAAGC
1 AGTATCGATACTGCAAGAAGC
*
762238 AGTATCGATATTGCAAGAAGC
1 AGTATCGATACTGCAAGAAGC
*
762259 AATATCGATA
1 AGTATCGATA
762269 TTGTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (21 bp):
AGTATCGATACTGCAAGAAGC
Found at i:762269 original size:21 final size:21
Alignment explanation
Indices: 762223--762271 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
762213 GGTGAGTATT
* *
762223 GATACTGCAAGAAGCAGTATC
1 GATATTGCAAGAAGCAATATC
762244 GATATTGCAAGAAGCAATATC
1 GATATTGCAAGAAGCAATATC
762265 GATATTG
1 GATATTG
762272 TTCATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (21 bp):
GATATTGCAAGAAGCAATATC
Found at i:763678 original size:43 final size:43
Alignment explanation
Indices: 763603--763722 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
763593 TTTATAATGT
763603 TAAAATATATTATTTAATTA-TTAAAAATATAATAAATCATTA
1 TAAAATATATTATTTAATTATTTAAAAATATAATAAATCATTA
* * *
763645 TAAAATATATTATTTTAATAATTTAAAAA-ATAATAAATGATTG
1 TAAAATATATTA-TTTAATTATTTAAAAATATAATAAATCATTA
*
763688 T-AAATATATTATTTAATTATTTTAAAATATTAATA
1 TAAAATATATTATTTAATTATTTAAAAATA-TAATA
763723 TATTCGATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
41 14 0.20
42 23 0.33
43 25 0.36
44 7 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (43 bp):
TAAAATATATTATTTAATTATTTAAAAATATAATAAATCATTA
Found at i:768895 original size:14 final size:14
Alignment explanation
Indices: 768873--768903 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
768863 TCAACGGGTT
*
768873 ACTCGGACGAGTTG
1 ACTCAGACGAGTTG
768887 ACTCAGACGAGTTG
1 ACTCAGACGAGTTG
768901 ACT
1 ACT
768904 AAGTTAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (14 bp):
ACTCAGACGAGTTG
Found at i:770091 original size:12 final size:13
Alignment explanation
Indices: 770062--770088 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
770052 TGGTGGTTTA
770062 TTATTTTTTTGTT
1 TTATTTTTTTGTT
770075 TTATTTTTTTGTT
1 TTATTTTTTTGTT
770088 T
1 T
770089 ATTATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTGTT
Found at i:771239 original size:24 final size:25
Alignment explanation
Indices: 771213--771275 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
771203 CATATTAATA
*
771213 AAATAATAAATATATAATAAATAAAAAT
1 AAATAATATA-ATAT-AT-AATAAAAAT
771241 AAATAATATAATATATAATAAAAACT
1 AAATAATATAATATATAATAAAAA-T
*
771267 ATATAATAT
1 AAATAATAT
771276 TAGATTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 8 0.25
26 11 0.34
27 4 0.12
28 9 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATATAATATATAATAAAAAT
Found at i:771243 original size:21 final size:22
Alignment explanation
Indices: 771194--771274 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 22
771184 CATGAACCAT
771194 ATAAATTAACATAT-TAAT-AA-A
1 ATAAA-TAA-ATATATAATAAATA
771215 AT-AATAAATATATAATAAATA
1 ATAAATAAATATATAATAAATA
*
771236 A-AAATAAATAATATAATATATA
1 ATAAATAAAT-ATATAATAAATA
*
771258 ATAAA-AACTATATAATA
1 ATAAATAAATATATAATA
771275 TTAGATTTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.08
19 7 0.13
20 4 0.08
21 19 0.37
22 15 0.29
23 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
ATAAATAAATATATAATAAATA
Found at i:771336 original size:13 final size:13
Alignment explanation
Indices: 771318--771344 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
771308 TATATATTAT
771318 ATATGTTTTCAAA
1 ATATGTTTTCAAA
771331 ATATGTTTTCAAA
1 ATATGTTTTCAAA
771344 A
1 A
771345 CTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:771458 original size:38 final size:37
Alignment explanation
Indices: 771291--771480 Score: 204
Period size: 36 Copynumber: 5.0 Consensus size: 37
771281 TTACAAAAAT
* *
771291 AATATATTTTCAAAAAGTATATATTATATATGTTTTC-AA
1 AATATGTTTTC-AAAACTATATA--ATATATGTTTTCAAA
* **
771330 AATATGTTTTCAAAACTATATTATATACATTTTCAAA
1 AATATGTTTTCAAAACTATATAATATATGTTTTCAAA
* * * *
771367 AAT-CGTTTTTAAAACTATATATTATACGTTTTCAAA
1 AATATGTTTTCAAAACTATATAATATATGTTTTCAAA
*
771403 AATATGTTTTCAAAACTATATAATATATGCTTTCAAA
1 AATATGTTTTCAAAACTATATAATATATGTTTTCAAA
* *
771440 AATTTTGTTTTCGAAACTATATAATATTTATGTTTTCAAA
1 AA-TATGTTTTCAAAACTATATAATA--TATGTTTTCAAA
771480 A
1 A
771481 TTATATAATA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
36 41 0.32
37 35 0.27
38 30 0.23
39 10 0.08
40 12 0.09
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (37 bp):
AATATGTTTTCAAAACTATATAATATATGTTTTCAAA
Done.