Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008329.1 Hibiscus syriacus cultivar Beakdansim tig00111037_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: 291406
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:399 original size:14 final size:14
Alignment explanation
Indices: 380--415 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
370 ATTGTTTAAT
380 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
394 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
408 TGATTTGT
1 TGATTTGT
416 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:547 original size:20 final size:19
Alignment explanation
Indices: 522--623 Score: 135
Period size: 20 Copynumber: 5.6 Consensus size: 19
512 AAAAATGACT
522 ATCGCAATGCGAAATGAAAA
1 ATCGCAATGCGAAATG-AAA
542 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
561 ATCGCAA--CG--A-G-AG
1 ATCGCAATGCGAAATGAAA
574 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
593 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
613 ATCGCAATGCG
1 ATCGCAATGCG
624 TTATAATTTC
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
13 8 0.11
14 1 0.01
15 3 0.04
17 3 0.04
18 1 0.01
19 22 0.30
20 35 0.48
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:675 original size:19 final size:19
Alignment explanation
Indices: 651--957 Score: 376
Period size: 19 Copynumber: 17.4 Consensus size: 19
641 GATTATCTCG
651 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
670 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
689 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
703 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
722 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
760 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
779 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
793 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
812 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
831 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
845 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
864 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
883 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
897 TTGCGATTTTCATTTCAGCA
1 TTGCGATTTTCATTTC-GCA
917 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
931 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
950 TTGCGATT
1 TTGCGATT
958 GTATTTTCCG
Statistics
Matches: 252, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 35 0.14
16 31 0.12
17 28 0.11
18 2 0.01
19 144 0.57
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:726 original size:71 final size:71
Alignment explanation
Indices: 651--890 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
641 GATTATCTCG
651 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
716 TTCGCA
66 TTCGCA
*
722 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
785 TTC-TGTCG--
61 TTCATTTCGCA
*
793 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
858 TTCGCA
66 TTCGCA
864 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
891 CTCTCGTTGC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 6 0.04
68 7 0.05
69 6 0.04
71 115 0.75
73 6 0.04
74 8 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:783 original size:142 final size:139
Alignment explanation
Indices: 614--957 Score: 525
Period size: 142 Copynumber: 2.5 Consensus size: 139
604 GAAATGAAAA
* *
614 TCGCAATGCG-TTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
*
678 TTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
66 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
*
743 GCGATTTTCATT
131 GCGA--TTC-TC
* *
755 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
820 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
66 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
885 GCGATTCTC
131 GCGATTCTC
* * * *
894 TCG--TTGCGATTTTCATTTCAGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCGTTGCGA
1 TCGCATTGCGATTTTAATTTC-GCATTGCGATTATC-TCGTTGCGATTTTCATTTCGCATTGCGA
956 TT
64 TT
958 GTATTTTCCG
Statistics
Matches: 189, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
137 15 0.08
138 38 0.20
139 5 0.03
140 3 0.02
141 9 0.05
142 119 0.63
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (139 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
GCGATTCTC
Found at i:896 original size:52 final size:52
Alignment explanation
Indices: 651--929 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
641 GATTATCTCG
*
651 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
703 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
760 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
812 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
864 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCAGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTC-GCA
917 TTGCGATTTTCAT
1 TTGCGATTTTCAT
930 GTTGGGATTT
Statistics
Matches: 217, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
52 162 0.75
53 16 0.07
54 7 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:3223 original size:12 final size:12
Alignment explanation
Indices: 3206--3230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3196 TCTTCGGGGA
3206 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3218 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3230 C
1 C
3231 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3439 original size:24 final size:24
Alignment explanation
Indices: 3405--3451 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3395 CTGAAACATC
3405 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
3429 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
3452 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4161 original size:20 final size:20
Alignment explanation
Indices: 4133--4501 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
4123 AAATTTCAGT
* * * *
4133 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4153 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
4173 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4193 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
4213 GTTGCGATTTACGGATACGT
1 GTTGCGATTTACGGATACGC
*
4233 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4253 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4273 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4293 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
**
4313 GTTGCGATTTACGGATACAT
1 GTTGCGATTTACGGATACGC
*
4333 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4353 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4373 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
4393 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
4413 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
4433 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
4453 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
4473 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
4493 GTTGCGATT
1 GTTGCGATT
4502 ATGGAAAATC
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 5 0.02
20 295 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:4582 original size:20 final size:20
Alignment explanation
Indices: 4557--4608 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4547 AAGAATCGCG
*
4557 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4577 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4597 TTGCGATTCTGG
1 TTGCGATTCTGG
4609 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:8773 original size:15 final size:16
Alignment explanation
Indices: 8740--8773 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8730 ATCAACAAAT
8740 ATAATTTTATATATAA
1 ATAATTTTATATATAA
*
8756 ATAATTTT-TATTTAA
1 ATAATTTTATATATAA
8771 ATA
1 ATA
8774 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATTTTATATATAA
Found at i:16193 original size:34 final size:34
Alignment explanation
Indices: 16146--16216 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
16136 AATTATTGGG
*
16146 TAAACTCAACATTTAGTA-TCTAGAGTATCAATTT
1 TAAACTCAACATTTAGGACT-TAGAGTATCAATTT
* * *
16180 TAAACTTAGCATTTAGGACTTAGAGTATCAGTTT
1 TAAACTCAACATTTAGGACTTAGAGTATCAATTT
16214 TAA
1 TAA
16217 TACCTAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (34 bp):
TAAACTCAACATTTAGGACTTAGAGTATCAATTT
Found at i:20344 original size:15 final size:15
Alignment explanation
Indices: 20308--20336 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20298 AATTGCCATC
20308 TATATTCTTTTTAAA
1 TATATTCTTTTTAAA
20323 TATATTCTTTTTAA
1 TATATTCTTTTTAA
20337 TTTAATTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTCTTTTTAAA
Found at i:20765 original size:20 final size:20
Alignment explanation
Indices: 20695--20767 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
20685 TCATATATAT
20695 ATATATTA-TTTTTTAATTAA
1 ATATATTATTTTTTTAA-TAA
*
20715 ATCTA-TATTTTTATTGAATACA
1 ATATATTATTTTT-TT-AATA-A
*
20737 A-ATAATATTTTTTTAATAA
1 ATATATTATTTTTTTAATAA
20756 ATATATTATTTT
1 ATATATTATTTT
20768 GGACCGGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.09
20 21 0.48
21 8 0.18
22 11 0.25
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (20 bp):
ATATATTATTTTTTTAATAA
Found at i:28595 original size:41 final size:41
Alignment explanation
Indices: 28550--28690 Score: 212
Period size: 41 Copynumber: 3.5 Consensus size: 41
28540 AACACAGCTT
* *
28550 TCAAATTCGCAACGCGATTATCCAAAATCGCAATGCGATTC
1 TCAAATTCGCAACGCGATTCTCCAAAATCGCAATGCGGTTC
*
28591 TCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGGTTC
1 TCAAATTCGCAACGCGATTCTCCAAAATCGCAATGCGGTTC
* * *
28632 TCAAATTCGCAACGCGGTTCT-CAAATTCGCAATGCGGTTT
1 TCAAATTCGCAACGCGATTCTCCAAAATCGCAATGCGGTTC
*
28672 TCGAATTCGCAACGCGATT
1 TCAAATTCGCAACGCGATT
28691 TTTGAATTCG
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 33 0.36
41 58 0.64
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
TCAAATTCGCAACGCGATTCTCCAAAATCGCAATGCGGTTC
Found at i:28600 original size:20 final size:20
Alignment explanation
Indices: 28511--28706 Score: 189
Period size: 20 Copynumber: 9.7 Consensus size: 20
28501 AAATAACTAA
28511 CAAATTCGCAACGCGAATTCT
1 CAAATTCGCAACGCG-ATTCT
** * *
28532 -AGTTTCGCAACACAGCTT-T
1 CAAATTCGCAACGC-GATTCT
*
28551 CAAATTCGCAACGCGATTAT
1 CAAATTCGCAACGCGATTCT
* *
28571 CCAAAATCGCAATGCGATTCT
1 -CAAATTCGCAACGCGATTCT
28592 CAAATTCGCAACGCGATTCT
1 CAAATTCGCAACGCGATTCT
* *
28612 CCAAAATCGCAACGCGGTTCT
1 -CAAATTCGCAACGCGATTCT
*
28633 CAAATTCGCAACGCGGTTCT
1 CAAATTCGCAACGCGATTCT
* * *
28653 CAAATTCGCAATGCGGTTTT
1 CAAATTCGCAACGCGATTCT
* *
28673 CGAATTCGCAACGCGATTTT
1 CAAATTCGCAACGCGATTCT
**
28693 TGAATTCGCAACGC
1 CAAATTCGCAACGC
28707 TAATTACCGA
Statistics
Matches: 148, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.03
20 108 0.73
21 36 0.24
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGCGATTCT
Found at i:28749 original size:20 final size:20
Alignment explanation
Indices: 28724--28766 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
28714 CGATATAGGT
*
28724 AAACACGTAACTTAGTTTTC
1 AAACACGTAACTCAGTTTTC
28744 AAACACGTAACTCAGTTTTC
1 AAACACGTAACTCAGTTTTC
28764 AAA
1 AAA
28767 TTTTTCAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (20 bp):
AAACACGTAACTCAGTTTTC
Found at i:28799 original size:21 final size:21
Alignment explanation
Indices: 28772--28879 Score: 123
Period size: 21 Copynumber: 5.2 Consensus size: 21
28762 TCAAATTTTT
28772 CAACGCGATTCTTCAAAATCG
1 CAACGCGATTCTTCAAAATCG
*
28793 TAACGCGATTCTTCAAAATCG
1 CAACGCGATTCTTCAAAATCG
*
28814 CAACGCGATTC-TCAAATTCG
1 CAACGCGATTCTTCAAAATCG
* *
28834 CAACGCTG-TTCTCCAAAATTG
1 CAACGC-GATTCTTCAAAATCG
* * *
28855 CAACGCGGTT-TTTAAATTCG
1 CAACGCGATTCTTCAAAATCG
28875 CAACG
1 CAACG
28880 TGAACTTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
20 29 0.39
21 45 0.61
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
CAACGCGATTCTTCAAAATCG
Found at i:28851 original size:41 final size:41
Alignment explanation
Indices: 28772--28879 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
28762 TCAAATTTTT
* * *
28772 CAACGCGATTCTTCAAAATCGTAACGCGATTCTTCAAAATCG
1 CAACGCGATTC-TCAAATTCGCAACGCGATTCTCCAAAATCG
*
28814 CAACGCGATTCTCAAATTCGCAACGCTG-TTCTCCAAAATTG
1 CAACGCGATTCTCAAATTCGCAACGC-GATTCTCCAAAATCG
* * *
28855 CAACGCGGTTTTTAAATTCGCAACG
1 CAACGCGATTCTCAAATTCGCAACG
28880 TGAACTTCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
41 46 0.79
42 12 0.21
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (41 bp):
CAACGCGATTCTCAAATTCGCAACGCGATTCTCCAAAATCG
Found at i:28973 original size:20 final size:20
Alignment explanation
Indices: 28950--29023 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
28940 AACTCAGTTT
*
28950 TCAAATTCGCAATGCGATTA
1 TCAAATTCGCAACGCGATTA
* *
28970 TCAAATTTGCAACGCGATTC
1 TCAAATTCGCAACGCGATTA
* * *
28990 TCCAAAATCGCAACACGATTT
1 T-CAAATTCGCAACGCGATTA
29011 TCAAATTCGCAAC
1 TCAAATTCGCAAC
29024 TTTAATTATC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATTA
Found at i:38585 original size:29 final size:29
Alignment explanation
Indices: 38496--38585 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
38486 TTGGTCCTTG
*
38496 AACT-TTTGAATATTCCAATTTCATCCC-A
1 AACTATTT-AATATTTCAATTTCATCCCTA
** * * *
38524 AACTATGTATCTTATTTTAAATT-ACTCCTTA
1 AACTAT-T-TAATATTTCAATTTCA-TCCCTA
38555 AACTATTTAATATTTCAATTTCATCCCTA
1 AACTATTTAATATTTCAATTTCATCCCTA
38584 AA
1 AA
38586 ATGCAACCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 11
0.67 0.16 0.16
Matches are distributed among these distances:
28 4 0.09
29 19 0.42
30 14 0.31
31 8 0.18
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AACTATTTAATATTTCAATTTCATCCCTA
Found at i:38898 original size:60 final size:59
Alignment explanation
Indices: 38830--38942 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 59
38820 TATAGGGATG
* * * *
38830 AAAATGAAAT-TTTCAAAAGTTTAAGGACTAATTTAGAATCATAGTCATACTTTATGGGT
1 AAAATGAAATATTT-AAAACTTTAAGGACTAATTTAAAATAAGAGTCATACTTTATGGGT
*
38889 AAAATTGAAATATTTAAAACTTTAGGGACTAATTTAAAATAAGAGTCATACTTT
1 AAAA-TGAAATATTTAAAACTTTAAGGACTAATTTAAAATAAGAGTCATACTTT
38943 GATGACATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 4 0.09
60 40 0.85
61 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAATGAAATATTTAAAACTTTAAGGACTAATTTAAAATAAGAGTCATACTTTATGGGT
Found at i:40731 original size:19 final size:20
Alignment explanation
Indices: 40679--40731 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
40669 TTTTTTAAAA
40679 TTTAATAAAAAAATATTAAATT
1 TTTAAT-AAAAAATA-TAAATT
* **
40701 TATAATTGAAAATA-AAATT
1 TTTAATAAAAAATATAAATT
40720 TTTAATAAAAAA
1 TTTAATAAAAAA
40732 ATTATTTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 14 0.56
21 6 0.24
22 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAATAAAAAATATAAATT
Found at i:41974 original size:32 final size:32
Alignment explanation
Indices: 41938--42017 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
41928 TTGACCTAAA
*
41938 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* *
41970 CCG-AAATCTAACCAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
42002 CCAAAAATCAA-CGATC
1 CCGAAAATCAACCGATC
42018 CTGTATTGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.22
32 27 0.66
33 5 0.12
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:42508 original size:18 final size:20
Alignment explanation
Indices: 42466--42508 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
42456 AAATAAACCT
*
42466 AAATGATGATTTATCATCTCT
1 AAATGATGATTTA-CATCTCA
42487 AAATGATGATTTA-AT-TCA
1 AAATGATGATTTACATCTCA
42505 AAAT
1 AAAT
42509 ATAGAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
21 13 0.62
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATGATGATTTACATCTCA
Found at i:42708 original size:32 final size:32
Alignment explanation
Indices: 42672--42751 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
42662 TTGACCTAAA
*
42672 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* *
42704 CCG-AAATCTAACCAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
42736 CCAAAAATCAA-CGATC
1 CCGAAAATCAACCGATC
42752 CTGTATTGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.22
32 27 0.66
33 5 0.12
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:43452 original size:32 final size:32
Alignment explanation
Indices: 43416--43496 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
43406 TTGACCTAAA
*
43416 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* *
43448 CCG-AAATCTAACCAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
43480 CCAAAAATCAA-CGATCT
1 CCGAAAATCAACCGATCT
43497 TGTATTGTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 10 0.24
32 27 0.64
33 5 0.12
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.20
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:43635 original size:744 final size:744
Alignment explanation
Indices: 41277--45714 Score: 8236
Period size: 744 Copynumber: 6.0 Consensus size: 744
41267 CTTGATACGC
41277 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
41342 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
41407 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
41472 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
41537 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
41602 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
41667 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
41732 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
456 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
41797 AATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATTA
521 AATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATTA
41862 TTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAAG
586 TTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAAG
41927 GTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGATA
651 GTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGATA
41992 TTAACCCGACCCAAAAATCAACGATCCTG
716 TTAACCCGACCCAAAAATCAACGATCCTG
42021 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
42086 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
*
42151 GTTGCTGTCGTTGTTTATTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
42216 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
*
42281 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGAAA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
*
42346 CACTCTTTCTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
* * * **
42411 GTATTTCTTTTTAATATAAAGTACCCTCTTTTCAAAAAAAAATAAA-AAT-A-A----A----CC
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAA-AAATTATAAGATTGTATTTGTG
* * *
42465 T-AAA-TGAT-GATTTATCATCTCTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACT
455 TCAAATTG-TCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACT
*
42527 GAAATTAAACCTAAATGAAAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCA
519 AAAATTAAACCTAAATG--AAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCA
*
42592 ATTATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTCAACCCGAATTGACCTGATCT
582 ATTATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCT
42657 AAAGGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCT
647 AAAGGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCT
42722 GATATTAACCCGACCCAAAAATCAACGATCCTG
712 GATATTAACCCGACCCAAAAATCAACGATCCTG
42755 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
42820 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
42885 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
42950 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
43015 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
*
43080 CACTCTTTTTCCTCCACTTAAGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
43145 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAAATTATAAGATTGTATTTGTG
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTC-AAAAAAAAAAAATTATAAGATTGTATTTGTG
43210 TCAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTA
455 TCAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTA
43275 AAATTAAACCTAAATG-AAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATT
520 AAATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATT
43339 ATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAA
585 ATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAA
43404 GGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGAT
650 GGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGAT
*
43469 ATTAACCCGACCCAAAAATCAACGATCTTG
715 ATTAACCCGACCCAAAAATCAACGATCCTG
43499 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
43564 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
43629 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGG-TTT--TG-CTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
43690 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
43755 AGGATT-GGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
43819 CACTCTTTTTCCTCCACTTAGGATTAGGGAGG-TTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
43883 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
43948 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
456 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
44013 AATTAAACCTAAATGAAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATT
521 AATTAAACCTAAATG-AAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATT
*
44078 ATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTCAACCCGAATTGACCTGATCTAAA
585 ATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAA
44143 GGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGAT
650 GGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGAT
44208 ATTAACCCGACCCAAAAATCAACGATCCTG
715 ATTAACCCGACCCAAAAATCAACGATCCTG
44238 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
44303 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
*
44368 GTTGCTGTCG-TGTTTATTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
44432 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
44497 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
*
44562 CACTATTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
44627 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
44692 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
456 CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
44757 AATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATTA
521 AATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATTA
44822 TTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAAG
586 TTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAAG
44887 G-TGACCTAAACCGAAAATCAACCGATCTAATA-TGACCCGACCCGAAATCTAACCAATCTGATA
651 GTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGATA
44950 TTAACCCGACCC-AAAATCAACGATCCTG
716 TTAACCCGACCCAAAAATCAACGATCCTG
44978 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
1 TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
45043 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
66 ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
*
45108 GTTGCTGTCGTTGTTTATTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
131 GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
45173 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
196 CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
*
45238 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGAAA
261 AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
*
45303 CACTCTTTCTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
326 CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
* * **
45368 GTATTTCTTTTTAATATAAAGTACCCTCTTTTCAAAAAAAAAAAA-T-T-A-A----A----CCT
391 GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
* * * *
45421 -AAA-TGAT-GATTTATCATCTCTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTG
456 CAAATTG-TCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTA
45483 AAATTAAACCTAAATGAAAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAA
520 AAATTAAACCTAAATG--AAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAA
*
45548 TTATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTCAACCCGAATTGACCTGATCTA
583 TTATTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTA
*
45613 AAGGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATATG
648 AAGGTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTG
45678 ATATTAACCCGACCCAAAAATCAACGATCCTG
713 ATATTAACCCGACCCAAAAATCAACGATCCTG
45710 TATTG
1 TATTG
45715 ACCAAACCCA
Statistics
Matches: 3613, Mismatches: 47, Indels: 80
0.97 0.01 0.02
Matches are distributed among these distances:
727 69 0.02
728 4 0.00
729 116 0.03
730 31 0.01
731 42 0.01
732 90 0.02
733 5 0.00
734 629 0.17
735 11 0.00
736 1 0.00
737 114 0.03
738 99 0.03
739 439 0.12
740 240 0.07
741 337 0.09
742 115 0.03
743 208 0.06
744 986 0.27
745 4 0.00
746 4 0.00
747 69 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (744 bp):
TATTGTCCTCTGGATGTTTGCTTCTGCCCTTGGCCGAGTTTTACGTGCTCCAAGTCCTTCCTTAT
ACTTTGGATCCGTTTCAGCAAGTGAGTTTCGATTTGTATCATTGCCCGGCGTCGTTCAAGATACG
GTTGCTGTCGTTGTTTAGTTTGAGGTATTGGGTCATTACGTTGGTTTTGCTGTCTGTGGTCATTC
CCCTATTTAGTTTCTGTTTATGGTTTATCTAGGAAGGCTTTGTTGGTTTGTTTAGGGATTGTTGT
AGGATTGGGGATTGATTTGTGTGTTGTTAGTCTTTGTGTTTTCTCTTCCTTACCACTTCAAGATA
CACTCTTTTTCCTCCACTTAGGATTAGGGAGGTTTTTTAACGAAGTTCTTGAGGTGGTGTACTTT
GTATTTCTTTTTAATACAAAGTACCCTTTTTTCAAAAAAAAAAAATTATAAGATTGTATTTGTGT
CAAATTGTCGAATTATTATCTGTAAATGATGATTTAATTCAAAATATAGAACGATTGAGAACTAA
AATTAAACCTAAATGAAAAAAAATAACAAATAAGAAGACATATTTTTACAAGTATATATCAATTA
TTCTATAAATACTTGATTTTGATTATACTCATAACCAATTAAACCCGAATTGACCTGATCTAAAG
GTTGACCTAAACCGAAAATCAACCGATCTAATATTGACCCGACCCGAAATCTAACCAATCTGATA
TTAACCCGACCCAAAAATCAACGATCCTG
Found at i:44191 original size:32 final size:32
Alignment explanation
Indices: 44155--44234 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
44145 TTGACCTAAA
*
44155 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* *
44187 CCG-AAATCTAACCAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
44219 CCAAAAATCAA-CGATC
1 CCGAAAATCAACCGATC
44235 CTGTATTGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.22
32 27 0.66
33 5 0.12
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:44932 original size:31 final size:32
Alignment explanation
Indices: 44897--44974 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
44887 GTGACCTAAA
*
44897 CCGAAAATCAACCGATCTAATA-TGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* *
44928 CCG-AAATCTAACCAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
44960 CC-AAAATCAA-CGATC
1 CCGAAAATCAACCGATC
44975 CTGTATTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 9 0.22
31 16 0.40
32 15 0.38
ACGTcount: A:0.40, C:0.32, G:0.10, T:0.18
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:45463 original size:18 final size:20
Alignment explanation
Indices: 45421--45463 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
45411 AATTAAACCT
*
45421 AAATGATGATTTATCATCTCT
1 AAATGATGATTTA-CATCTCA
45442 AAATGATGATTTA-AT-TCA
1 AAATGATGATTTACATCTCA
45460 AAAT
1 AAAT
45464 ATAGAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
21 13 0.62
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATGATGATTTACATCTCA
Found at i:45663 original size:32 final size:32
Alignment explanation
Indices: 45627--45706 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
45617 TTGACCTAAA
*
45627 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
* * *
45659 CCG-AAATCTAACCAATATGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
45691 CCAAAAATCAA-CGATC
1 CCGAAAATCAACCGATC
45707 CTGTATTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
31 8 0.21
32 26 0.67
33 5 0.13
ACGTcount: A:0.41, C:0.30, G:0.10, T:0.19
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:50162 original size:65 final size:66
Alignment explanation
Indices: 50083--50216 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
50073 TAAAATGAAA
*
50083 TGAAAACTAAACGTTAGGTATGGTTTTG-AAAAATTGAAAGTTTTGGTACTAAAATAGACCAAAA
1 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
50147 C
66 C
50148 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
1 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
50213 C
66 C
50214 TGA
1 TGA
50217 TAGTTGAGGT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 28 0.42
66 39 0.58
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (66 bp):
TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
C
Found at i:50320 original size:187 final size:187
Alignment explanation
Indices: 49998--50337 Score: 493
Period size: 187 Copynumber: 1.8 Consensus size: 187
49988 TAAATTTTAT
* * * * * *
49998 AAAGTTTAGGTACTATAACAAACCACAATTGATAGTTTAGGTACTAAACGCTTTAATTTTTTAAT
1 AAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAAT
* ** * * * *
50063 GGTGGTGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGGTTTTGAAAAATTGAAAGTTTTG
66 CGACGAGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTAAAAAATTGAAAGTTTAG
* *
50128 GTACTAAAATAGACCAAAACTGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTG
131 GTACTAAAACAAACCAAAACTGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTG
* *
50185 AAAGTTTAGGTACTAAAATAGACCAAAACTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAA-
1 AAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAAT
*
50249 CGACGAGTACTAAAATGAAATGAAAACTAAATGTTAGGTATGATTTTAAAAAAATTGAAAGTTTA
66 CGACGAGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTT-AAAAAATTGAAAGTTTA
*
50314 GGTACTAAAACAAACCACAACTGA
130 GGTACTAAAACAAACCAAAACTGA
50338 TAGTTTAGGT
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
186 41 0.31
187 92 0.69
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (187 bp):
AAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAAT
CGACGAGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTAAAAAATTGAAAGTTTAG
GTACTAAAACAAACCAAAACTGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTG
Found at i:50444 original size:122 final size:121
Alignment explanation
Indices: 50148--50963 Score: 1132
Period size: 122 Copynumber: 6.7 Consensus size: 121
50138 AGACCAAAAC
* * *
50148 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
1 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
* * * *
50213 CTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAACGACGAGTACTAAAATGAAA
66 CTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGACGGGTACTAAAATGAAA
* * *
50269 TGAAAACTAAATGTTAGGTATGATTTTAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAA
1 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
* * * *
50334 CTGATAGTTTAGGTACTAAACACGTTAATTTTTTAACGGCGGGGTTCTAAAATAAAA
66 CTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGAC-GGGTACTAAAATGAAA
* * * * *
50391 TGAAAACTAAACATTAGATATGATTTTGAAAAACTTAAAAGTTTAGGTACTAAAACAGACCAAAA
1 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
* * * *
50456 ATGATAGTTTAGGTATTAAACGCATTAAATTTTTAACGACGGGTACTAAAATGAAA
66 CTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGACGGGTACTAAAATGAAA
*
50512 TGAAAACTAAACGTTAAGTATGATTTTGAAAAAAAATT-AAATGTTTAGGTACTAAAACAAACCA
1 TGAAAACTAAACGTTAGGTATGATTTTG--AAAAAATTGAAA-GTTTAGGTACTAAAACAAACCA
* * *
50576 CAACTGATAGTTTAGGTATTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGATA
63 AAACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGAC-GGGTACTAAAATGAAA
* *
50636 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGGTTAGGTACTAAAACAAACCAAAA
1 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
* * * * *
50701 TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACAACGGGTACTTAAATGAAA
66 CTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGACGGGTACTAAAATGAAA
*
50757 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACA
1 TGAAAACTAAACGTTAGGTATGATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAA
*
50822 ACTGATAGTTTAGGTACTAAATACATTAATTTTTTAACGACGAGGTACTAAAATGAAA
65 ACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGACG-GGTACTAAAATGAAA
** * * * * * *
50880 TGAAAACTAAACGTTAGACATGA-TTTAAAAAAAATAAAAGTTTAGGTACTAAAATAGACCGAAA
1 TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
* * *
50944 TTAATAATTTAGGTACTAAA
66 CTGATAGTTTAGGTACTAAA
50964 ACAAACTACA
Statistics
Matches: 615, Mismatches: 72, Indels: 16
0.87 0.10 0.02
Matches are distributed among these distances:
121 222 0.36
122 247 0.40
123 105 0.17
124 41 0.07
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (121 bp):
TGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAA
CTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGACGGGTACTAAAATGAAA
Found at i:50666 original size:245 final size:244
Alignment explanation
Indices: 50148--50963 Score: 1269
Period size: 245 Copynumber: 3.3 Consensus size: 244
50138 AGACCAAAAC
* * *
50148 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAA
1 TGAAAACTAAACGTTAGATATGGTTTTGAAAAAATTAAAAGTTTAGGTACTAAAACAGACCAAAA
* * *
50213 CTGATAGTTGAGGTACTAAACGCATTAAGTTTTTAACGACGAGTACTAAAATGAAATGAAAACTA
66 TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTA
*
50278 AATGTTAGGTATGATTTT-AAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGT
131 AACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGT
* * * *
50342 TTAGGTACTAAACACGTTAATTTTTTAACGGCGGGGTTCTAAAATAAAA
196 TTAGGTACTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGAAA
* * *
50391 TGAAAACTAAACATTAGATATGATTTTGAAAAACTTAAAAGTTTAGGTACTAAAACAGACCAAAA
1 TGAAAACTAAACGTTAGATATGGTTTTGAAAAAATTAAAAGTTTAGGTACTAAAACAGACCAAAA
* * *
50456 ATGATAGTTTAGGTATTAAACGCATTAAATTTTTAACGACGGGTACTAAAATGAAATGAAAACTA
66 TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTA
*
50521 AACGTTAAGTATGATTTTGAAAAAAAATT-AAATGTTTAGGTACTAAAACAAACCACAACTGATA
131 AACGTTAGGTATGATTTTG-AAAAAAATTGAAA-GTTTAGGTACTAAAACAAACCACAACTGATA
* *
50585 GTTTAGGTATTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGATA
194 GTTTAGGTACTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGAAA
* * * *
50636 TGAAAACTAAACGTTAGGTATGGTTTTGAAAAAATTGAAAGGTTAGGTACTAAAACAAACCAAAA
1 TGAAAACTAAACGTTAGATATGGTTTTGAAAAAATTAAAAGTTTAGGTACTAAAACAGACCAAAA
* *
50701 TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACAACGGGTACTTAAATGAAATGAAAACTA
66 TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTA
50766 AACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGT
131 AACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGT
* *
50831 TTAGGTACTAAATACATTAATTTTTTAACGACGAGGTACTAAAATGAAA
196 TTAGGTACTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGAAA
* * * * * *
50880 TGAAAACTAAACGTTAGACAT-GATTTAAAAAAAATAAAAGTTTAGGTACTAAAATAGACCGAAA
1 TGAAAACTAAACGTTAGATATGGTTTTGAAAAAATTAAAAGTTTAGGTACTAAAACAGACCAAAA
* *
50944 TTAATAATTTAGGTACTAAA
66 TTGATAGTTTAGGTACTAAA
50964 ACAAACTACA
Statistics
Matches: 521, Mismatches: 48, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
243 188 0.36
244 109 0.21
245 224 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (244 bp):
TGAAAACTAAACGTTAGATATGGTTTTGAAAAAATTAAAAGTTTAGGTACTAAAACAGACCAAAA
TTGATAGTTTAGGTACTAAACGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTA
AACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGT
TTAGGTACTAAACACATTAATTTTTTAACGACGGGGTACTAAAATGAAA
Found at i:63918 original size:62 final size:62
Alignment explanation
Indices: 63818--63954 Score: 231
Period size: 62 Copynumber: 2.2 Consensus size: 62
63808 TATATATATA
*
63818 TATATATATATATGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAACATAAAACCT
1 TATATATATATATGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAA-ACAAAACCT
* *
63881 TTTATATATATA-GATTTAAAAATGTGCATCACGTGAAGCCCACTCAATGAAAACAAAACCT
1 TATATATATATATGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAAACAAAACCT
63942 TATATATATATAT
1 TATATATATATAT
63955 ATATATACTT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
61 19 0.28
62 39 0.57
63 11 0.16
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (62 bp):
TATATATATATATGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAAACAAAACCT
Found at i:64843 original size:7 final size:7
Alignment explanation
Indices: 64831--64872 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
64821 TTTTATTTAT
64831 TTTTTTC
1 TTTTTTC
64838 TTTTTTC
1 TTTTTTC
64845 TTTTTT-
1 TTTTTTC
*
64851 TTTTCT-
1 TTTTTTC
64857 TTTTTTC
1 TTTTTTC
*
64864 TTCTTTC
1 TTTTTTC
64871 TT
1 TT
64873 CAGGAGAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:64852 original size:11 final size:11
Alignment explanation
Indices: 64833--64869 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
64823 TTATTTATTT
64833 TTTTCTTTTTTC
1 TTTT-TTTTTTC
64845 TTTTTTTTTTC
1 TTTTTTTTTTC
*
64856 TTTTTTTCTTC
1 TTTTTTTTTTC
64867 TTT
1 TTT
64870 CTTCAGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:64859 original size:26 final size:26
Alignment explanation
Indices: 64818--64872 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
64808 CTCGAATCCC
*
64818 CTTTTTTATTTATTTTTTTCTTTTTT
1 CTTTTTTATTTATTTTTTTCTTCTTT
* *
64844 CTTTTTTTTTTCTTTTTTTCTTCTTT
1 CTTTTTTATTTATTTTTTTCTTCTTT
64870 CTT
1 CTT
64873 CAGGAGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (26 bp):
CTTTTTTATTTATTTTTTTCTTCTTT
Found at i:64865 original size:19 final size:19
Alignment explanation
Indices: 64818--64861 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
64808 CTCGAATCCC
*
64818 CTTTTTTATTTATTTTTTT
1 CTTTTTTCTTTATTTTTTT
64837 CTTTTTTCTTT-TTTTTTT
1 CTTTTTTCTTTATTTTTTT
64855 CTTTTTT
1 CTTTTTT
64862 TCTTCTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (19 bp):
CTTTTTTCTTTATTTTTTT
Found at i:67759 original size:26 final size:27
Alignment explanation
Indices: 67726--67778 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
67716 CGAACCGGAT
*
67726 TTTAACCCGA-TTCGAAAG-CACCCGAA
1 TTTAACCCGACTT-GAAAGTAACCCGAA
67752 TTTAACCCGACTTGAAAGTAACCCGAA
1 TTTAACCCGACTTGAAAGTAACCCGAA
67779 CAAATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (27 bp):
TTTAACCCGACTTGAAAGTAACCCGAA
Found at i:68135 original size:19 final size:20
Alignment explanation
Indices: 68084--68135 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
68074 TTTTTTAAAA
68084 TTTAATAAAAAATATTAAATT
1 TTTAATAAAAAATA-TAAATT
* **
68105 TATAATTGAAAATA-AAATT
1 TTTAATAAAAAATATAAATT
68124 TTTAATAAAAAA
1 TTTAATAAAAAA
68136 ATTATTTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAATAAAAAATATAAATT
Found at i:69385 original size:32 final size:32
Alignment explanation
Indices: 69349--69428 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
69339 TTGACCTAAA
*
69349 CCGAAAATCAACCGATCTAATATTGACCCGAC
1 CCGAAAATCAACCGATCTAATATTAACCCGAC
** *
69381 CCG-AAATCTAACAAATCTGATATTAACCCGAC
1 CCGAAAATC-AACCGATCTAATATTAACCCGAC
*
69413 CCAAAAATCAA-CGATC
1 CCGAAAATCAACCGATC
69429 CTGTATTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
31 8 0.21
32 26 0.67
33 5 0.13
ACGTcount: A:0.41, C:0.30, G:0.10, T:0.19
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTAATATTAACCCGAC
Found at i:74397 original size:122 final size:121
Alignment explanation
Indices: 73864--75252 Score: 1674
Period size: 122 Copynumber: 11.5 Consensus size: 121
73854 TTCAAGTTAA
** *
73864 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAAAAAAAACTAATAGTTTAGGTACTAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
* * * *
73929 CATTAAGTTTTTAATGACGTGTACTAAAATGAAATGAAAACTAAACGTTATGTTTG
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * *
73985 ATTTTGAAAAAA-AGAAAGTTTAGGTACTAAAA-AAACCACAACTGATAGTTTAGGTACTAAACA
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
* ** *
74048 CATTAATTTTTTAACGGTGGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATG
66 CATTAAGTTTTTAAC-GACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* *
74105 ATTTTGAAAAAATTGAAAGTTTATGTACTAAAACATACCAAAACTGATAGTTTAGGTACTAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
* *
74170 CATTAAGTTTTTAATGACGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATG
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * **
74226 GTTTTGAAAAAAAATTGAAAGTTTAGGCACTAAAACAAACCACAACTGATAGTTTATATACTAAA
1 ATTTTG--AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAA
* * * * * * * *
74291 CACATTAATTTTTTAACGGCGGGGTTCTAAAATAAAATGAAAACTATACATTAGGTATT
64 CGCATTAAGTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
**** * *
74350 ATTTT-AATTTTTTTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAAT
1 ATTTTGAA-AAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * *
74414 GCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATCAAAACTAAACGTTATGTATG
65 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * *
74471 ATTTTGAAAAAAATTGAAAGTTTAGGTACCAAAACAAATCACAACTGATAGTTTGGGTACTAAAC
1 ATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * *
74536 GCGTTAATTTTTTAACG--GGATACTAAAATGAAATGAAAACTAAACGTTAGGTATG
65 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * *
74591 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAACTGATAGTTTAGGTACTAAACA
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
* *
74656 CAATAAATTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * *
74712 ATTTTGAAAAAAATTGAATGTTTAGGTACTAAAACAAACCACAATTGATAATTTAGGTACTAAAC
1 ATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
** * * * * *
74777 GTGTTAATTTTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGATAT-
65 GCATTAAGTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * *
74834 AGTTTTGAAAAACTTAAAAGTTTAGGTACTAAAACAGACCAAAATTGATAGTTTAGGTACTAAAC
1 A-TTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* *
74899 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGGAAACTAAACATTAGGTATG
65 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * *
74956 ATTTTGAAAAAAAATTGAAAG-TTAGGTACCAAAACAAATCACAATTGATAGTTCAGGTACTAAA
1 ATTTTG--AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAA
* * * ** *
75020 TGCGTTAATTTTTTAACGACAATGTACT---A--AAATGAAAACTAAATGTTAGGTATG
64 CGCATTAAGTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * *
75074 ATTTTGAAACAATTGAAAGTTTAGGTACTAAAACAAACTACAACTAATAGTTTAGGTACCAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
** * * *
75139 TGTT-AGTTATTTAAC-A-GTGGTATTAAAATGAAATGAAAACTAAACATTATGTATG
66 CATTAAGTT-TTTAACGACG-GGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * * *
75194 ATTTTGAAAAAAATTAAAAGTTTAAGTACTAAAACAGACTAAAACTAATAATTTAGGTA
1 ATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTA
75253 ATGAATTTTT
Statistics
Matches: 1084, Mismatches: 157, Indels: 54
0.84 0.12 0.04
Matches are distributed among these distances:
115 4 0.00
116 16 0.01
117 46 0.04
118 29 0.03
119 104 0.10
120 136 0.13
121 238 0.22
122 351 0.32
123 124 0.11
124 36 0.03
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (121 bp):
ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACG
CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
Found at i:74922 original size:244 final size:244
Alignment explanation
Indices: 73864--75252 Score: 1849
Period size: 241 Copynumber: 5.7 Consensus size: 244
73854 TTCAAGTTAA
* ** *
73864 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAAAAAAAAACTAATAGTTTAGGTACTAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAACG
* * * *
73929 CATTAAGTTTTTAATGACGTGTACTAAAATGAAATGAAAACTAAACGTTATGTTTGATTTTGAAA
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAA
* *
73994 AAAA--GAAAGTTTAGGTACTAAAA-AAACCACAACTGATAGTTTAGGTACTAAACACATTAATT
131 AAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAATT
*** * *
74056 TTTTAACGGTGGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATG
196 TTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
* *
74105 ATTTTGAAAAAATTGAAAGTTTATGTACTAAAACATACCAAAACTGATAGTTTAGGTACTAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAACG
* * *
74170 CATTAAGTTTTTAATGACGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATGGTTTTGAAA
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTG-AA
* ** * *
74235 AAAAATTGAAAGTTTAGGCACTAAAACAAACCACAACTGATAGTTTATATACTAAACACATTAAT
130 AAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAAT
** * * * *
74300 TTTTTAACGGCGGGGTTCTAAAATAAAATGAAAACTATACATTAGGTATT
195 TTTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
**** *
74350 ATTTT-AATTTTTTTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAAT
1 ATTTTGAA-AAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAAC
* * *
74414 GCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATCAAAACTAAACGTTATGTATGATTTTGAA
65 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAA
* * *
74479 AAAAATTGAAAGTTTAGGTACCAAAACAAATCACAACTGATAGTTTGGGTACTAAACGCGTTAAT
130 AAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAAT
* *
74544 TTTTTAACGG---GATACTAAAATGAAATGAAAACTAAACGTTAGGTATG
195 TTTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
* *
74591 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAACTGATAGTTTAGGTACTAAACA
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAACG
* *
74656 CAATAAATTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAA
66 CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAA
* * * *
74721 AAAATTGAATGTTTAGGTACTAAAACAAACCACAATTGATAATTTAGGTACTAAACGTGTTAATT
131 AAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAATT
*
74786 TTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGATAT-
196 TTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
* * *
74834 AGTTTTGAAAAACTTAAAAGTTTAGGTACTAAAACAGACCAAAATTGATAGTTTAGGTACTAAAC
1 A-TTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAAC
* *
74899 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGGAAACTAAACATTAGGTATGATTTTGAA
65 GCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTG-A
* * * * *
74964 AAAAAATTGAAAG-TTAGGTACCAAAACAAATCACAATTGATAGTTCAGGTACTAAATGCGTTAA
129 AAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAA
* * *
75028 TTTTTTAACGACAATGTAC-----TAAAATGAAAACTAAATGTTAGGTATG
194 TTTTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
* * * * * *
75074 ATTTTGAAACAATTGAAAGTTTAGGTACTAAAACAAACTACAACTAATAGTTTAGGTACCAAACG
1 ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAACG
** * * *
75139 TGTT-AGTTATTTAAC-A-GTGGTATTAAAATGAAATGAAAACTAAACATTATGTATGATTTTGA
66 CATTAAGTT-TTTAACGACG-GGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGA
* * * * * * *
75201 AAAAAATTAAAAGTTTAAGTACTAAAACAGACTAAAACTAATAATTTAGGTA
129 AAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTA
75253 ATGAATTTTT
Statistics
Matches: 1020, Mismatches: 113, Indels: 33
0.87 0.10 0.03
Matches are distributed among these distances:
237 14 0.01
238 73 0.07
239 87 0.09
240 1 0.00
241 330 0.32
242 9 0.01
243 1 0.00
244 301 0.30
245 204 0.20
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (244 bp):
ATTTTGAAAAAATTGAAAGTTTAGGTACTAAAACAGACCAAAACTGATAGTTTAGGTACTAAACG
CATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAA
AAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTAATT
TTTTAACGGCAAGGTACTAAAATAAAATGAAAACTAAACGTTAGGTATG
Found at i:75348 original size:2 final size:2
Alignment explanation
Indices: 75341--75379 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
75331 ATACATAAAT
75341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75380 TGTTTACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95387 original size:159 final size:159
Alignment explanation
Indices: 95092--95415 Score: 479
Period size: 159 Copynumber: 2.0 Consensus size: 159
95082 TGGATGCCAG
95092 AAATATTGACCTTTTATGAAATCACAAGAGTGATGTCATTACTTGACTTTTGAACTTTCAATTCA
1 AAATATTGACCTTTTATGAAATCACAAGAGTGATGTCATTACTTGACTTTTGAACTTTCAATTCA
* * *
95157 TCTACTTGTAGGAAGAACCTGCTGCTGTCAATTCCTACTGTGGCAACAGAAAAGTTGGATGCCAG
66 TCTACTTGTAGGAAGAACCTGCTGCTGTCAAGTCCTACTCTGGCAAAAGAAAAGTTGGATGCCAG
* *
95222 GAAGGTGAAGTCGGCACGTTTCTTTCAAC
131 GAAGGTGAAGGCGACACGTTTCTTTCAAC
* * ** *
95251 AAATATTGACCTTTTATGAATTCATAAGAGTGATGTCATTACTTGACTTTTGAGTTTTGAATTCA
1 AAATATTGACCTTTTATGAAATCACAAGAGTGATGTCATTACTTGACTTTTGAACTTTCAATTCA
* * *
95316 TCTGCTTGTAGGAAGAACCTGCTGTTGTCAAGTCCTACTCTGGCAAAAGAAAAGTTGGATGGGC-
66 TCTACTTGTAGGAAGAACCTGCTGCTGTCAAGTCCTACTCTGGCAAAAGAAAAGTTGGAT-GCCA
* * * *
95380 GGGAGGTGAAGGCGATATGTTTCTTTCATC
130 GGAAGGTGAAGGCGACACGTTTCTTTCAAC
95410 AAATAT
1 AAATAT
95416 CTGTTTCTTC
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
159 145 0.99
160 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (159 bp):
AAATATTGACCTTTTATGAAATCACAAGAGTGATGTCATTACTTGACTTTTGAACTTTCAATTCA
TCTACTTGTAGGAAGAACCTGCTGCTGTCAAGTCCTACTCTGGCAAAAGAAAAGTTGGATGCCAG
GAAGGTGAAGGCGACACGTTTCTTTCAAC
Found at i:109876 original size:25 final size:25
Alignment explanation
Indices: 109850--109896 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
109840 TTTAACACTT
*
109850 TTTTTTATTA-TTTT-ATTAATTAA
1 TTTTTTATTATTTTTGTTTAATTAA
109873 TTTTTTATTATTTTTGTTTAATTA
1 TTTTTTATTATTTTTGTTTAATTA
109897 TATAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTTTATTATTTTTGTTTAATTAA
Found at i:114466 original size:22 final size:22
Alignment explanation
Indices: 114441--114485 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
114431 ATTTATGGCG
114441 TGTTTTAACT-TAAAA-TATTACA
1 TGTTTT-ACTCTAAAACT-TTACA
114463 TGTTTTACTCTAAAACTTTACA
1 TGTTTTACTCTAAAACTTTACA
114485 T
1 T
114486 CACTGGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 17 0.81
23 1 0.05
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (22 bp):
TGTTTTACTCTAAAACTTTACA
Found at i:126211 original size:7 final size:7
Alignment explanation
Indices: 126199--126228 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
126189 AAAATCTTAT
126199 TTAAAAA
1 TTAAAAA
126206 TTAAAAA
1 TTAAAAA
126213 TT-AAAA
1 TTAAAAA
126219 TTAAAAA
1 TTAAAAA
126226 TTA
1 TTA
126229 CTTCAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
TTAAAAA
Found at i:126218 original size:13 final size:13
Alignment explanation
Indices: 126202--126228 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
126192 ATCTTATTTA
126202 AAAATTAAAAATT
1 AAAATTAAAAATT
126215 AAAATTAAAAATT
1 AAAATTAAAAATT
126228 A
1 A
126229 CTTCAAATAC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:130688 original size:22 final size:22
Alignment explanation
Indices: 130663--130706 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
130653 TTTATGGCGC
*
130663 GTTTTAATTTAAAATATTACAT
1 GTTTTAATCTAAAATATTACAT
* *
130685 GTTTTACTCTAAAATTTTACAT
1 GTTTTAATCTAAAATATTACAT
130707 CAATGATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
GTTTTAATCTAAAATATTACAT
Found at i:134683 original size:94 final size:94
Alignment explanation
Indices: 134567--134746 Score: 290
Period size: 95 Copynumber: 1.9 Consensus size: 94
134557 TGCTACAATT
* * *
134567 TTTTTGTAATTTTTTTAAATTCAAGTATATTAAATTACAAGATAGAT-AAAAATACATTGAAATT
1 TTTTTCTAATTTTTTAAAATTCAAGTAGATTAAATTACAAGATAGATAAAAAATACATTGAAATT
134631 AGATAAATAAACATACTAATTTTTTGTAA
66 AGATAAATAAACATACTAATTTTTTGTAA
* *
134660 TTTTTCTAATGTTTTTAAAATTCAAGTAGATTAAATTGCAAGATAGATAAAAAATACATTGACAT
1 TTTTTCTAAT-TTTTTAAAATTCAAGTAGATTAAATTACAAGATAGATAAAAAATACATTGAAAT
*
134725 TAGATAAATAAACATTCTAATT
65 TAGATAAATAAACATACTAATT
134747 CCGAGAATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 9 0.11
94 34 0.43
95 36 0.46
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (94 bp):
TTTTTCTAATTTTTTAAAATTCAAGTAGATTAAATTACAAGATAGATAAAAAATACATTGAAATT
AGATAAATAAACATACTAATTTTTTGTAA
Found at i:136707 original size:34 final size:34
Alignment explanation
Indices: 136664--136731 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
136654 CTCCTATTAA
* *
136664 CATCGAACTTTATTTTTCTATTAACATCAAAAAG
1 CATCGAACTTTATTCTCCTATTAACATCAAAAAG
*
136698 CATCGAACTTTATTCTCCTATTAACATTAAAAAG
1 CATCGAACTTTATTCTCCTATTAACATCAAAAAG
136732 GTGAAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (34 bp):
CATCGAACTTTATTCTCCTATTAACATCAAAAAG
Found at i:140843 original size:19 final size:19
Alignment explanation
Indices: 140819--140856 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
140809 TGTTAGTCAG
*
140819 TTAGGCATGCTGTTATGCA
1 TTAGGCATGCAGTTATGCA
*
140838 TTAGGCGTGCAGTTATGCA
1 TTAGGCATGCAGTTATGCA
140857 GACGGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (19 bp):
TTAGGCATGCAGTTATGCA
Found at i:145413 original size:19 final size:19
Alignment explanation
Indices: 145389--145426 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
145379 TGTTAGTCAG
*
145389 TTAGGCATGCTGTTATGCA
1 TTAGGCATGCAGTTATGCA
*
145408 TTAGGCGTGCAGTTATGCA
1 TTAGGCATGCAGTTATGCA
145427 GACGGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (19 bp):
TTAGGCATGCAGTTATGCA
Found at i:146866 original size:20 final size:20
Alignment explanation
Indices: 146825--147033 Score: 226
Period size: 20 Copynumber: 10.4 Consensus size: 20
146815 GATTTTCTAG
* *
146825 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
146845 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
*
146865 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
146885 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
146905 AATCGCAATGCGTATCCATA
1 AATCGCAACGCGTATCCGTA
*
146925 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
146945 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
146965 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
146985 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
147005 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
147025 AATCACAAC
1 AATCGCAAC
147034 ACTGAAATTT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 158 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:147765 original size:24 final size:24
Alignment explanation
Indices: 147726--147772 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
147716 AAATTTGGTC
147726 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
147750 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
147773 GATGTTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:147964 original size:12 final size:12
Alignment explanation
Indices: 147947--147971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
147937 ATATAATCCT
147947 GAAGAAGAAAAA
1 GAAGAAGAAAAA
147959 GAAGAAGAAAAA
1 GAAGAAGAAAAA
147971 G
1 G
147972 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:150302 original size:33 final size:34
Alignment explanation
Indices: 150251--150430 Score: 165
Period size: 33 Copynumber: 5.2 Consensus size: 34
150241 CGGAAATTAC
* *
150251 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
150284 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
* * *
150318 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AATGAAAATCGCAATGCGA-AAT-GAA
*
150357 AAT-GCGGA-AATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACAATGAAAATCGCAATGCGAAATGAA
* *
150390 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
150423 AATCGCAA
1 AATCGCAA
150431 TGCGAAATGA
Statistics
Matches: 121, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
32 2 0.02
33 57 0.47
34 35 0.29
36 1 0.01
38 4 0.03
39 21 0.17
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:150328 original size:53 final size:52
Alignment explanation
Indices: 150265--150487 Score: 367
Period size: 53 Copynumber: 4.2 Consensus size: 52
150255 GCAACGAGAG
* *
150265 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
150318 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
150371 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
150423 AATCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
150475 AATCGCATTGCGA
1 AATCGCAATGCGA
150488 TTCTCTCGTT
Statistics
Matches: 164, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
52 70 0.43
53 93 0.57
54 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:150334 original size:19 final size:19
Alignment explanation
Indices: 150265--150487 Score: 225
Period size: 19 Copynumber: 12.7 Consensus size: 19
150255 GCAACGAGAG
150265 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
150284 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
150298 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
150318 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
150337 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
150351 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
150371 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
150390 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
150404 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
150423 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
150442 AATCACAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
150456 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
150475 AATCGCATTGCGA
1 AATCGCAATGCGA
150488 TTCTCTCGTT
Statistics
Matches: 170, Mismatches: 12, Indels: 44
0.75 0.05 0.19
Matches are distributed among these distances:
14 41 0.24
15 3 0.02
16 6 0.04
17 8 0.05
18 2 0.01
19 81 0.48
20 29 0.17
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:150408 original size:86 final size:84
Alignment explanation
Indices: 150251--150430 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
150241 CGGAAATTAC
150251 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAA-GCGG-AATG
150316 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
150337 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAAGCGG
*
150400 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
150423 AATCGCAA
1 AATCGCAA
150431 TGCGAAATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 54 0.63
87 16 0.19
89 2 0.02
90 1 0.01
92 13 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:150460 original size:33 final size:33
Alignment explanation
Indices: 150318--150478 Score: 132
Period size: 33 Copynumber: 4.7 Consensus size: 33
150308 CGGAAATGAA
*
150318 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCACAACGAGAG
* *
150351 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCACAA--CG--A-GAG
* * * *
150390 AATCGCAACGAGAGAATCG-CAATGCGA-AATGA-A-
1 AATCGCAATGCGA-AAT-GAAAAT-C-ACAACGAGAG
150423 AATCGCAATGCGAAATGAAAATCACAACGAGAG
1 AATCGCAATGCGAAATGAAAATCACAACGAGAG
*
150456 AATCGCAATGCGAAATTAAAATC
1 AATCGCAATGCGAAATGAAAATC
150479 GCATTGCGAT
Statistics
Matches: 103, Mismatches: 11, Indels: 28
0.73 0.08 0.20
Matches are distributed among these distances:
30 1 0.01
31 6 0.06
32 7 0.07
33 44 0.43
34 17 0.17
36 3 0.03
38 4 0.04
39 17 0.17
40 4 0.04
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCACAACGAGAG
Found at i:150554 original size:50 final size:51
Alignment explanation
Indices: 150477--150590 Score: 196
Period size: 50 Copynumber: 2.2 Consensus size: 51
150467 GAAATTAAAA
150477 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
150530 T-GCATTGCGAT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
150579 TCGCATTGCGAT
1 TCGCATTGCGAT
150591 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
49 19 0.32
50 30 0.50
51 1 0.02
52 9 0.15
53 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (51 bp):
TCGCATTGCGATCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:150570 original size:19 final size:19
Alignment explanation
Indices: 150496--150590 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
150486 GATTCTCTCG
150496 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
150516 TTGCGATTTTCATTT-GCA
1 TTGCGATTTTCATTTCGCA
150534 TTGCGA--TTC---TCG--
1 TTGCGATTTTCATTTCGCA
150546 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
150565 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
150584 TTGCGAT
1 TTGCGAT
150591 AGTCATTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 17
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.09
13 1 0.01
14 4 0.06
16 3 0.04
17 3 0.04
18 9 0.13
19 26 0.39
20 15 0.22
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:150596 original size:19 final size:19
Alignment explanation
Indices: 150555--150598 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
150545 GTTGCGATTT
**
150555 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
150574 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
150593 TCATTT
1 TCATTT
150599 TTGCCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:150715 original size:14 final size:14
Alignment explanation
Indices: 150696--150732 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
150686 CATCAATTAC
150696 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
150710 ACAAATCATCTTTT
1 ACAAATCAACTTTT
150724 ACAAATCAA
1 ACAAATCAA
150733 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:150816 original size:12 final size:12
Alignment explanation
Indices: 150799--150834 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
150789 AACTTTTACA
150799 AATCAATTAAAC
1 AATCAATTAAAC
**
150811 AATCAAAAAAAC
1 AATCAATTAAAC
150823 AATCAATTAAAC
1 AATCAATTAAAC
150835 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:152697 original size:19 final size:19
Alignment explanation
Indices: 152655--152827 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
152645 TAGTTTACTT
* *
152655 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
152675 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
152694 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
152713 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
152732 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
152751 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
152765 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
152784 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
152798 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
152817 TCGCAATGCGA
1 TCGCAACGCGA
152828 TTTTGGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.05
17 7 0.05
18 1 0.01
19 82 0.64
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:152768 original size:14 final size:14
Alignment explanation
Indices: 152749--152805 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
152739 GCGAAATGAA
*
152749 AATCGCAACGACAG
1 AATCGCAACGAAAG
152763 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
152780 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
152796 AATCGCAACG
1 AATCGCAACG
152806 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:152776 original size:33 final size:33
Alignment explanation
Indices: 152730--152822 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
152720 GCGAAACCAA
152730 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
152763 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
152796 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
152823 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:152819 original size:52 final size:52
Alignment explanation
Indices: 152689--152827 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
152679 AACGCGAAAT
* * * *
152689 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * **
152741 GA-AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
152793 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
152828 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 43 0.63
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:152858 original size:14 final size:14
Alignment explanation
Indices: 152839--152897 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
152829 TTTGGTTTCG
152839 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
152853 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
152870 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
152886 CGTTGCGATTTT
1 CGTTGCGATTTT
152898 CATTTCACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:152865 original size:33 final size:33
Alignment explanation
Indices: 152823--152946 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
152813 AAAATCGCAA
*
152823 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
152856 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** * *
152889 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
152922 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
152947 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 70 0.86
34 11 0.14
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:152877 original size:19 final size:19
Alignment explanation
Indices: 152823--152881 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
152813 AAAATCGCAA
152823 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
152842 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
152856 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
152875 TGCGATT
1 TGCGATT
152882 CTGTCGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:152924 original size:14 final size:14
Alignment explanation
Indices: 152872--152928 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
152862 TTTGGTTTCG
*
152872 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
152886 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
152905 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
152919 CGTTGCGATT
1 CGTTGCGATT
152929 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:153203 original size:93 final size:93
Alignment explanation
Indices: 153044--153545 Score: 995
Period size: 93 Copynumber: 5.4 Consensus size: 93
153034 TCAGGGTATT
153044 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
153109 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
153137 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
153202 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
153230 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
153295 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
153323 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
153388 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
153416 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
153481 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
153509 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
153546 AAGCAATCTA
Statistics
Matches: 408, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 408 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:155277 original size:21 final size:21
Alignment explanation
Indices: 155223--155287 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
155213 TCTTTTGGTT
*
155223 GAAATAAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
155244 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
155264 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
155285 GAA
1 GAA
155288 TCACAACGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:155301 original size:33 final size:33
Alignment explanation
Indices: 155264--155345 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
155254 CGCAACGAGA
155264 GAAATGAAAATCGCAACGAGAGAATCA-CAACGC
1 GAAATGAAAATCGCAACGAGAGAAT-AGCAACGC
155297 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
155330 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
155346 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 1 0.02
33 47 0.98
ACGTcount: A:0.50, C:0.18, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATAGCAACGC
Found at i:155381 original size:14 final size:14
Alignment explanation
Indices: 155362--155418 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
155352 TTTGGTTTCG
155362 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
155376 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
155395 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
155409 CGTTGCGATT
1 CGTTGCGATT
155419 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:155394 original size:33 final size:33
Alignment explanation
Indices: 155346--155425 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
155336 AAAATCGCAA
**
155346 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
155379 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
155412 TGCGATTTTCATTT
1 TGCGATTTTCATTT
155426 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:155431 original size:21 final size:21
Alignment explanation
Indices: 155406--155479 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
155396 GTTGCGATTC
155406 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
155427 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
155448 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
155469 TCTCGTTGCGA
1 TCTCGTTGCGA
155480 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:155601 original size:33 final size:33
Alignment explanation
Indices: 155559--155629 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
155549 AATACTAACT
155559 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
155592 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
155625 TGAAA
1 TGAAA
155630 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:156172 original size:20 final size:20
Alignment explanation
Indices: 156005--156159 Score: 231
Period size: 20 Copynumber: 7.7 Consensus size: 20
155995 CTTTAAAAAT
156005 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
156025 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
156045 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
156066 CGCGTTGTGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
156086 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
156106 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
156126 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
156146 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
156160 TGTGTTCGCG
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
20 103 0.86
21 17 0.14
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:156172 original size:40 final size:40
Alignment explanation
Indices: 156004--156197 Score: 230
Period size: 40 Copynumber: 4.8 Consensus size: 40
155994 GCTTTAAAAA
*
156004 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGAT
* *
156045 T-GTCGTTGCGATTTACGGATACGCGTTGTGATATACGGAT
1 TCG-CGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
* *
156085 ACGCATTGCGATTTACGGATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
* * *
156125 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACG-GAT
* * ** *
156165 TCGCGTTGAGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
156198 CTGGAAAATC
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 103 0.77
41 30 0.23
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
Found at i:156192 original size:60 final size:60
Alignment explanation
Indices: 156005--156197 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
155995 CTTTAAAAAT
*
156005 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTGTTCG-CGTTGCGATTTACGGATA
* * * *
156066 CGCGTTGTGATATACGGATACGCATTGCGATTTACG-GATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTG-TTCGCGTTGCGATTTACGGATA
* * * * ** *
156126 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGAGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTGTTCGCGTTGCGATTTACGGATA
156186 CGCGTTGCGATT
1 CGCGTTGCGATT
156198 CTGGAAAATC
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
60 83 0.74
61 29 0.26
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTGTTCGCGTTGCGATTTACGGATA
Found at i:156698 original size:2 final size:2
Alignment explanation
Indices: 156691--156722 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
156681 CACATACAAT
156691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
156723 ATAAAGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165092 original size:25 final size:26
Alignment explanation
Indices: 165038--165101 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
165028 ATTTTACAAT
165038 TTTTTTTAAATTTTCGAAATAATTT-
1 TTTTTTTAAATTTTCGAAATAATTTG
** *
165063 TTTTTTTTGATTTTC-AAATTATTGTG
1 TTTTTTTAAATTTTCGAAATAATT-TG
*
165089 TTTTGATTAAATT
1 TTTT-TTTAAATT
165102 ATGTTGTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.23
25 14 0.47
26 4 0.13
27 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (26 bp):
TTTTTTTAAATTTTCGAAATAATTTG
Found at i:166904 original size:11 final size:11
Alignment explanation
Indices: 166888--166920 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
166878 GGAGAAGTGT
*
166888 GTGTGTTTTGA
1 GTGTGTTTTAA
166899 GTGTGTTTTAA
1 GTGTGTTTTAA
166910 GTGTGTTTTAA
1 GTGTGTTTTAA
166921 AATGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (11 bp):
GTGTGTTTTAA
Found at i:172221 original size:2 final size:2
Alignment explanation
Indices: 172214--172248 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
172204 GGGTAAACAA
172214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
172249 ATTTATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:172566 original size:92 final size:95
Alignment explanation
Indices: 172462--172647 Score: 245
Period size: 92 Copynumber: 2.0 Consensus size: 95
172452 TTTAGTACCT
172462 AAACTTTCAATTTTTTCAAAA-TCATACCTAACATTTAG-T-TTTCATTTTAGTA-TTTGTCGTT
1 AAACTTTCAATTTTTTCAAAACT-ATACCTAACATTTAGTTATTTCATTTTAGTACTTTGTCGTT
* * **
172523 AAAAATTTAATGTGTTTAGTACCTAAACTAC
65 AAAAAATTAACGCATTTAGTACCTAAACTAC
* * *
172554 AAACTTTTAATTTTTTCCAAACTATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCG
1 AAACTTTCAATTTTTTCAAAACTATACCTAACATTTAG--TT-ATTTCATTTTAGTACTTTGTCG
172619 TTAAAAAATTAACGCATTTAGTACCTAAA
63 TTAAAAAATTAACGCATTTAGTACCTAAA
172648 TTATCATTTG
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
92 33 0.41
93 1 0.01
95 1 0.01
97 13 0.16
98 32 0.40
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (95 bp):
AAACTTTCAATTTTTTCAAAACTATACCTAACATTTAGTTATTTCATTTTAGTACTTTGTCGTTA
AAAAATTAACGCATTTAGTACCTAAACTAC
Found at i:172707 original size:122 final size:120
Alignment explanation
Indices: 172554--173477 Score: 1008
Period size: 122 Copynumber: 7.6 Consensus size: 120
172544 CCTAAACTAC
* * * * * *
172554 AAACTTTTAATTTTTTCCAAACTATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCG
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTCG
* * * * *
172619 TTAAAAAATTAACGCATTTAGTACCTAAATTATCATTTGTGATTTGTCTTGGTACCT
65 TTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTGGTACCT
* * * *
172676 AAAATTTTAATTTTTTCAAAATCATACCTAACGTTTAG-TTTCATTTCATTTTAGTAACT-GTTG
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTCGTCG
* **
172739 TTAAAAACTT-ACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTAAGTACCT
65 TTAAAAAATTAAC-GCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTGGTACCT
* * *
172796 AAACTTTTAAGTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTAC-CATGT
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTACTC--GT
* *
172859 CGTTAAAACATTAACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
63 CGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTGGTACCT
* * *
172918 AAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAG---T--TTTCATTTTAGTACTCGTTGT
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGT
* * * * ** *
172978 TAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAATATCT
66 TAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTGGTACCT
* * * *
173034 AAACTTCCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTC
1 AAACTTTCAA-TTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTC
* * * * * *
173099 GTT-AAAAATTAACGCATTTAGTACCTAAACTATTATTGTGATTTGTTTTGATACCT
64 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTGGTACCT
* * *
173155 AAACTTTCATTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCGTCT
1 AAACTTTCAATTTTTTCAAAACCATA-CCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCG
* * *
173219 TTAAAAATTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTGGTACCT
65 TTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTGGTACCT
***** * *
173276 AAACTTTCAAAAAAAAAAATCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCAC
1 AAACTTTC----AATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTC
* * * *
173341 GCCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCT
61 GTCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTGGTACCT
* * *
173402 AAACATTCATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGT
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGT
*
173467 TAAAAACTTAA
66 TAAAAAATTAA
173478 TGGGAGAATG
Statistics
Matches: 678, Mismatches: 95, Indels: 59
0.81 0.11 0.07
Matches are distributed among these distances:
116 63 0.09
117 35 0.05
118 4 0.01
119 8 0.01
120 156 0.23
121 100 0.15
122 202 0.30
123 8 0.01
124 2 0.00
125 39 0.06
126 60 0.09
127 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (120 bp):
AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGT
TAAAAAATTAACGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTGGTACCT
Found at i:172715 original size:214 final size:215
Alignment explanation
Indices: 172345--172770 Score: 554
Period size: 214 Copynumber: 2.0 Consensus size: 215
172335 TACTTAAAAT
* *
172345 TTTTAATTTTTTCAAAACCATACGTAACGTTTAATTTTCATTTTATTTTAATACCCACTGTTAAA
1 TTTTAATTTTTTCAAAACCATACGTAACATTTAATTTTCATTTCATTTTAATACCCACTGTTAAA
* * * *
172410 AAATTAACACGTTTAGTACCTAAATTATTAATTGTAGTTTGTTTTAGTACCTAAACTTTCAATTT
66 AAATTAACACATTTAGTACCTAAATTATCAATTGTAGTTTGTCTTAGTACCTAAAATTTCAATTT
** * *
172475 TTTCAAAATCATACCTAACATTTAG-T-TTTCATTTTAGTATTTGTCGTTAAAAATTTAATGTGT
131 TTTCAAAATCATACCTAACATTTAGTTATTTCATTTTAGTAACTGTCGTTAAAAACTTAATGCGT
172538 TTAGTACCTAAACTACAAAC
196 TTAGTACCTAAACTACAAAC
* * * * ****
172558 TTTTAATTTTTTCCAAACTATATC-TAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCGTTA
1 TTTTAATTTTTTCAAAACCATA-CGTAACATTTAATTTTCATTTCATTTTAATACCCACT-GTTA
* * * *
172622 AAAAATTAACGCATTTAGTACCTAAATTATCATTTGT-GATTTGTCTTGGTACCTAAAATTTTAA
64 AAAAATTAACACATTTAGTACCTAAATTATCAATTGTAG-TTTGTCTTAGTACCTAAAATTTCAA
* * *
172686 TTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAAACTTAC
128 TTTTTTCAAAATCATACCTAACATTTAG-TT-ATTTCATTTTAGTAACTGTCGTTAAAAACTTAA
172751 TGCGTTTAGTACCTAAACTA
191 TGCGTTTAGTACCTAAACTA
172771 TCAATTTTGG
Statistics
Matches: 181, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
213 48 0.27
214 86 0.48
216 1 0.01
218 46 0.25
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (215 bp):
TTTTAATTTTTTCAAAACCATACGTAACATTTAATTTTCATTTCATTTTAATACCCACTGTTAAA
AAATTAACACATTTAGTACCTAAATTATCAATTGTAGTTTGTCTTAGTACCTAAAATTTCAATTT
TTTCAAAATCATACCTAACATTTAGTTATTTCATTTTAGTAACTGTCGTTAAAAACTTAATGCGT
TTAGTACCTAAACTACAAAC
Found at i:173260 original size:242 final size:242
Alignment explanation
Indices: 172562--173479 Score: 1140
Period size: 242 Copynumber: 3.8 Consensus size: 242
172552 ACAAACTTTT
* * **
172562 AATTTTTTCCAAACTATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCGTTAAAAAA
1 AATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCGTTAAAAAA
* * * * * *
172627 TTAACGCATTTAGTACCTAAATTATCATTTGTGATTTGTCTTGGTACCTAAAATTTTAATTTTTT
66 TTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTCAATTTTTT
* * * *
172692 CAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAAACTTACTGCGTT
131 CAAAACCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTTGTTAAAAACTTAATGCGTT
* * **
172757 TAGTACCTAAACTATCAATTTTGGTCTG-TTTAAGTACCTAAACTTTT
196 TAGTACCTAAACTATCAGTTTTGGTCAGTTTTAA-TACCTAAACTTCA
* * *
172804 AAGTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTACCATGTCGTTAAAAC
1 AATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTC-ATTTTAGTACCATGTCGTTAAAAA
* * * * *
172868 ATTAACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTT-AGTACCTAAACTTCCAATTTT
65 ATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGA-TACCTAAACTTTCAATTTT
* * * *
172932 TTCAAAATCATACCTAACGTTTAG--T--TTTCATTTTAGTACTCGTTGTTAAAAATTTAATGTG
129 TTCAAAACCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTTGTTAAAAACTTAATGCG
*
172993 TTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAATATCTAAACTTCCA
194 TTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAATACCTAAACTT-CA
* **
173043 ATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCGTT-AAAAA
1 AATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCGTTAAAAAA
* *
173107 TTAACGCATTTAGTACCTAAACTATTA-TTGTGATTTGTTTTGATACCTAAACTTTCATTTTTTT
66 TTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTCAATTTTTT
*
173171 CAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCGTCT-TTAAAAATTTAATGC
131 CAAAACCATA-CCTAACGTTTAG-TTTCATTTCATTTTAGTACCCGT-TGTTAAAAACTTAATGC
**
173234 GTTTAGTACCTAAACTATCAGTTTTGGTCTA-TTTTGGTACCTAAACTTTCAAAA
193 GTTTAGTACCTAAACTATCAGTTTTGGTC-AGTTTTAATACCTAAAC-TTC---A
***** * * * * *
173288 AAAAAAATCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACGCCGTTAAAAAA
1 AATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCGTTAAAAAA
* * * * *
173353 TTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCTAAACATTCATTTTTTT
66 TTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTCAATTTTTT
*
173418 CAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAACTTAATG
131 CAAAACCATACCTAACGTTTAG-TTTCATTTCATTTTAGTACCCGTTGTTAAAAACTTAATG
173480 GGAGAATGAA
Statistics
Matches: 587, Mismatches: 67, Indels: 39
0.85 0.10 0.06
Matches are distributed among these distances:
237 48 0.08
238 100 0.17
239 55 0.09
240 5 0.01
241 3 0.01
242 202 0.34
243 4 0.01
245 47 0.08
246 32 0.05
247 91 0.16
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (242 bp):
AATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCGTTAAAAAA
TTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTCAATTTTTT
CAAAACCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTTGTTAAAAACTTAATGCGTT
TAGTACCTAAACTATCAGTTTTGGTCAGTTTTAATACCTAAACTTCA
Found at i:190314 original size:16 final size:15
Alignment explanation
Indices: 190282--190311 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
190272 GTTACAAACA
190282 AAAATATATTGACTT
1 AAAATATATTGACTT
190297 AAAATATATTGACTT
1 AAAATATATTGACTT
190312 TAATTTTGGT
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:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
AAAATATATTGACTT
Found at i:196431 original size:15 final size:15
Alignment explanation
Indices: 196393--196431 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
196383 TTAGATAAAA
* *
196393 AAAATTGGAAAGGCT
1 AAAATTGGGAAGACT
*
196408 AGAATTGGGAAGACT
1 AAAATTGGGAAGACT
196423 AAAATTGGG
1 AAAATTGGG
196432 TGTTTGGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (15 bp):
AAAATTGGGAAGACT
Found at i:201269 original size:15 final size:15
Alignment explanation
Indices: 201249--201284 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
201239 TTAGATGAAA
* *
201249 AAAATTGGGAAGGCT
1 AAAATTGGAAAGACT
201264 AAAATTGGAAAGACT
1 AAAATTGGAAAGACT
201279 AAAATT
1 AAAATT
201285 TGGTGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (15 bp):
AAAATTGGAAAGACT
Found at i:202307 original size:16 final size:16
Alignment explanation
Indices: 202286--202319 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
202276 CAGATTTCCT
*
202286 CTTGCATACGCATCCC
1 CTTGCATACGCATACC
202302 CTTGCATACGCATACC
1 CTTGCATACGCATACC
202318 CT
1 CT
202320 AGAGAGAATT
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:0.21, C:0.41, G:0.12, T:0.26
Consensus pattern (16 bp):
CTTGCATACGCATACC
Found at i:203138 original size:21 final size:21
Alignment explanation
Indices: 203114--203153 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
203104 TTTTCAAAGG
203114 CATGCACCGATGCATCAATAT
1 CATGCACCGATGCATCAATAT
*
203135 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
203154 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAT
Found at i:203268 original size:64 final size:65
Alignment explanation
Indices: 203115--203323 Score: 194
Period size: 64 Copynumber: 3.2 Consensus size: 65
203105 TTTCAAAGGC
* * *
203115 ATGCACCGATGCATCAATATCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCAT
1 ATGCACCGATGCA-CAATA-CATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCAT
*
203179 TCA
63 TTA
** * * *
203182 ATGCACCGATGCACTCTCCATGCATCGATACACTC-TGATTTAATTAAAACATCGAATGCATTTG
1 ATGCACCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
* * * * *
203246 ATGCATCGATGCACAAGACATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCACT
1 ATGCACCGATGCACAATACATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCATT
*
203308 TC
64 TA
*
203310 ATGCATCGATGCAC
1 ATGCACCGATGCAC
203324 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
63 1 0.01
64 84 0.71
65 13 0.11
66 8 0.07
67 13 0.11
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (65 bp):
ATGCACCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
Found at i:203338 original size:19 final size:19
Alignment explanation
Indices: 203311--203362 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
203301 ATGCACTTCA
*
203311 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
203330 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
203349 TGCACCGATGCACT
1 TGCACCGATGCACT
203363 AGGAGTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:209180 original size:24 final size:22
Alignment explanation
Indices: 209148--209228 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 22
209138 GCACTTAACA
209148 ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCAT-CC-TTGAAT
*
209172 ATGCATCGATGCATCC--GCAT
1 ATGCATCGATGCATCCTTGAAT
*
209192 GATGCACCGATGCATGCCTTGAAT
1 -ATGCATCGATGCAT-CCTTGAAT
*
209216 GTGCATCGATGCA
1 ATGCATCGATGCA
209229 CAAGACCATG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.06
21 13 0.27
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGCATCGATGCATCCTTGAAT
Found at i:210571 original size:21 final size:21
Alignment explanation
Indices: 210547--210607 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
210537 TTTTCAAAGG
*
210547 CATGCACCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
210568 CATGCATCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
210589 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
210608 GAATAAATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:210722 original size:64 final size:64
Alignment explanation
Indices: 210569--210728 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
210559 CATCAATACC
* *
210569 ATGCATCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCATT
1 ATGCATCGATGCA-CAATA-CATGCATCGATACATC-ATGAATAAATTAAAACATCGAATGCATT
210634 CA
63 CA
* ** * * * **
210636 ATGCACCGATGCACTCTCCATGCATCGATACACTC-TGATTTAATTAAAACATCGAATGCATTTG
1 ATGCATCGATGCACAATACATGCATCGATACA-TCATGAATAAATTAAAACATCGAATGCATTCA
*
210700 ATGCATCGATGCACAAGACATGCATCGAT
1 ATGCATCGATGCACAATACATGCATCGAT
210729 GCACCAGGCT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
64 48 0.62
65 13 0.17
66 4 0.05
67 12 0.16
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACAATACATGCATCGATACATCATGAATAAATTAAAACATCGAATGCATTCA
Found at i:210777 original size:17 final size:19
Alignment explanation
Indices: 210750--210797 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
210740 TTTTTCAAAT
210750 ATCGAATGCACT-TCA-TGC
1 ATCG-ATGCACTCTCAGTGC
*
210768 ATCGATGCACTCTTAGTGC
1 ATCGATGCACTCTCAGTGC
*
210787 ACCGATGCACT
1 ATCGATGCACT
210798 AGGAGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 13 0.50
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (19 bp):
ATCGATGCACTCTCAGTGC
Found at i:212070 original size:24 final size:24
Alignment explanation
Indices: 212043--212112 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
212033 TCTTATAATT
212043 TGCACCAAAGTGCCACGTAGAATA
1 TGCACCAAAGTGCCACGTAGAATA
* * *
212067 TGCACCAAGGTGCCACATAG-ATT
1 TGCACCAAAGTGCCACGTAGAATA
212090 TGTC-CCAAAG-GACCACGTAGAAT
1 TG-CACCAAAGTG-CCACGTAGAAT
212113 TTGTCCCGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 16 0.42
24 21 0.55
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (24 bp):
TGCACCAAAGTGCCACGTAGAATA
Found at i:212152 original size:25 final size:25
Alignment explanation
Indices: 212087--212177 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
212077 TGCCACATAG
*
212087 ATTTGTCCCAAAGGACCACGTAG-A
1 ATTTGTCCCGAAGGACCACGTAGAA
*
212111 ATTTGTCCCGAATGACCACGTAGAA
1 ATTTGTCCCGAAGGACCACGTAGAA
** *
212136 ATTTGTCCTTAAGGACCAAGTAGAA
1 ATTTGTCCCGAAGGACCACGTAGAA
212161 ATTTGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
212178 GCATAGAACC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 21 0.36
25 37 0.64
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
ATTTGTCCCGAAGGACCACGTAGAA
Found at i:212184 original size:25 final size:25
Alignment explanation
Indices: 212079--212185 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
212069 CACCAAGGTG
*
212079 CCACATAG--ATTTGTCCCAAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
* *
212102 CCACGTAG-AATTTGTCCCGAATGA
1 CCACATAGAAATTTGTCCCGAAGGA
* **
212126 CCACGTAGAAATTTGTCCTTAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
212151 CCA-AGTAGAAATTTGTCCCGAAGGA
1 CCACA-TAGAAATTTGTCCCGAAGGA
*
212176 CCGCATAGAA
1 CCACATAGAA
212186 CCCTCGACTC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 7 0.10
24 21 0.30
25 41 0.59
26 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (25 bp):
CCACATAGAAATTTGTCCCGAAGGA
Found at i:212362 original size:16 final size:17
Alignment explanation
Indices: 212335--212371 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
212325 AGAACATTTT
212335 CATATAAAACATATTCA
1 CATATAAAACATATTCA
212352 CATAT-AAACATATTCA
1 CATATAAAACATATTCA
212368 CATA
1 CATA
212372 CCAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (17 bp):
CATATAAAACATATTCA
Found at i:219105 original size:2 final size:2
Alignment explanation
Indices: 219098--219143 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
219088 GGGTAAACAA
219098 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
219140 AT AT
1 AT AT
219144 GTGTTTGAAC
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:219440 original size:116 final size:120
Alignment explanation
Indices: 219217--219441 Score: 289
Period size: 116 Copynumber: 1.9 Consensus size: 120
219207 GGGTTACTCC
* ** *
219217 GTTTTAGTACTTAAAACTTTTAATTTTTTCAAAACCATATGTAACGTTTAATTTTCATTTCATTT
1 GTTTTAGTACCTAAAACTTTTAATTTTTTCAAAACCATACCTAACGTTTAA-TGT-ATTTCATTT
219282 TAATACTCACTGTTAAAAAATTAACACGTTTAGTACCTAAACTATTAGTTGTAGTTT
64 TAATACTCACTGTTAAAAAATTAACACGTTTAGTACCTAAACTATTAGTTGTAGTTT
*
219339 GTTTTAGTACCT-AAACTTTTAATTTTTTCAAAATCATACCTAACGTTT-A-GT-TTTCATTTTA
1 GTTTTAGTACCTAAAACTTTTAATTTTTTCAAAACCATACCTAACGTTTAATGTATTTCATTTTA
* * * ***
219400 GTACTC-GTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTA
66 ATACTCACT-GTTAAAAAATTAACACGTTTAGTACCTAAACTA
219442 CAAACTTTTA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
115 1 0.01
116 44 0.48
118 1 0.01
120 1 0.01
121 33 0.36
122 11 0.12
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (120 bp):
GTTTTAGTACCTAAAACTTTTAATTTTTTCAAAACCATACCTAACGTTTAATGTATTTCATTTTA
ATACTCACTGTTAAAAAATTAACACGTTTAGTACCTAAACTATTAGTTGTAGTTT
Found at i:219609 original size:213 final size:213
Alignment explanation
Indices: 219230--219659 Score: 580
Period size: 213 Copynumber: 2.0 Consensus size: 213
219220 TTAGTACTTA
* *
219230 AAACTTTTAATTTTTTCAAAACCATATGTAACGTTTAATTTTCATTTCATTTTAATACTCACTGT
1 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATACTCACTGT
* * * *
219295 TAAAAAATTAACACGTTTAGTACCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTTA
66 TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTCTTAGTACCTAAAATTTTA
*
219360 ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTAGT-ACTCGTCGTTAAAAATTTAATG
131 ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTAGTAACT-GTCGTTAAAAACTTAATG
*
219424 TGTTTAGTACCTAAACTAC
195 CGTTTAGTACCTAAACTAC
* * **
219443 AAACTTTTAA-TTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCT
1 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATAC--TCACT
* * * * *
219507 -TTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGT-GATTTGTCTTGGTACCTAAAATT
64 GTTAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAG-TTTGTCTTAGTACCTAAAATT
*
219570 TTAATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAAA
128 TTAA-TTTTTTCAAAATCATACCTAACGTTTAG--T--TTTCATTTTAGTAACTGTCGTTAAAAA
*
219635 CTTACTGCGTTTAGTACCTAAACTA
188 CTTAATGCGTTTAGTACCTAAACTA
219660 TCAATTTTGG
Statistics
Matches: 189, Mismatches: 19, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
212 44 0.23
213 66 0.35
214 31 0.16
216 1 0.01
218 44 0.23
219 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (213 bp):
AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATACTCACTGT
TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTCTTAGTACCTAAAATTTTA
ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTAGTAACTGTCGTTAAAAACTTAATGC
GTTTAGTACCTAAACTAC
Found at i:219620 original size:122 final size:121
Alignment explanation
Indices: 219453--220361 Score: 1049
Period size: 122 Copynumber: 7.5 Consensus size: 121
219443 AAACTTTTAA
* * * *
219453 TTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCTTTAAAAAATTA
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTCGTTAAAAAATTA
* * * * * * * * *
219518 ACGCATTTAGTGCCTAAATTATCATTTGTGATTTGTCTTGGTACCTAAAATTTTAATT
65 ACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAGTACCTAAACTTTCAATT
* *
219576 TTTTTCAAAATCATACCTAACGTTTAG-TTTCATTTCATTTTAGTAAC-TGTTGTTAAAAACTT-
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTTGTCGTTAAAAAATTA
* *
219638 ACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAGTACCTAAACTTTTAA-G
65 AC-GCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
* * * *
219696 TTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTACCATGTCGTTAAAACATT
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTA-CTTGTCGTTAAAAAATT
*
219760 AACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCTAAACTTCCAA-T
64 AACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
* *
219818 TTTTTCAAAATCATACCTAACGTTTAGTTTTC---T--TTTTAGTACTCGTCGTTAAAAATTTAA
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGTTAAAAAATTAA
* * * *
219878 TGTGTTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAGTATCTAAACTTTCAATT
66 CGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
* * *
219935 TTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCGTT-AAAAATTA
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTCGTTAAAAAATTA
* * * * * *
219999 ACGCATTTAGTACCTAAACTATCAGTTGTGATTTATTTT-GATACCTAAACTTTCATTTT
65 ACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAG-TACCTAAACTTTCA-ATT
* ** * *
220058 TTTTTCAAAATCATA-TTCAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCTTTAAAAATTTA
1 TTTTTCAAAATCATACCT-AACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGTTAAAAAATTA
* * *
220122 ATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCTAAACTTTCATTT
65 ACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
** *
220180 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACGCCGTTAAAAAATTA
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTTGTCGTTAAAAAATTA
* * * * * *
220245 ACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCTGAACATTC-ATT
65 ACGCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
*
220302 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-TCCGTCGTTAAAAA
1 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACT-TGTCGTTAAAAA
220362 CTAAATGGGA
Statistics
Matches: 684, Mismatches: 77, Indels: 52
0.84 0.09 0.06
Matches are distributed among these distances:
116 65 0.10
117 38 0.06
120 33 0.05
121 80 0.12
122 273 0.40
123 193 0.28
124 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (121 bp):
TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGTTAAAAAATTAA
CGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTAGTACCTAAACTTTCAATT
Found at i:231044 original size:14 final size:14
Alignment explanation
Indices: 231022--231074 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
231012 GCCCTCTGTT
231022 CGAACATAAATGAA
1 CGAACATAAATGAA
*
231036 CGAATATAAAT---
1 CGAACATAAATGAA
231047 -GAACATAAATGAA
1 CGAACATAAATGAA
* *
231060 CAAACATAAACGAA
1 CGAACATAAATGAA
231074 C
1 C
231075 ATATAATCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 9 0.29
14 22 0.71
ACGTcount: A:0.58, C:0.15, G:0.11, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:231052 original size:24 final size:24
Alignment explanation
Indices: 231022--231106 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
231012 GCCCTCTGTT
* *
231022 CGAACATAAATGAACGAATATAAA
1 CGAACATAAATGAACAAACATAAA
*
231046 TGAACATAAATGAACAAACATAAA
1 CGAACATAAATGAACAAACATAAA
**
231070 CGAACAT--AT-AATCAAACATTCA
1 CGAACATAAATGAA-CAAACATAAA
*
231092 CGAACGTAAATGAAC
1 CGAACATAAATGAAC
231107 GAACGAGCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 2 0.04
22 16 0.32
24 30 0.60
25 2 0.04
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (24 bp):
CGAACATAAATGAACAAACATAAA
Found at i:238244 original size:122 final size:121
Alignment explanation
Indices: 237995--238871 Score: 1122
Period size: 122 Copynumber: 7.2 Consensus size: 121
237985 TCAATACATG
* * *
237995 TAGTACTTAAACTTTCAATTATTTTTAAAATCATATCTAACGTTTAG---T--TTTCATTTTAGT
1 TAGTACCTAAACTTTCAATT-TTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGT
* * ** * *
238055 ACTCGTCATTAAAATTTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTT
65 ACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
* * * *
238112 TAGTATCTAAACTTTCAAATTTTTCAAAATCATATCTAACATTTAGTTTTCATTTCATTTTAGTA
1 TAGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
** * * * * * * *
238177 CATTGTCGTTAAAAAATCAACGCATTTAGTACTTAAACTATCAGTTGTGATTTGTGT
66 C-CCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
* *
238234 T-GATACCTAAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGT
1 TAG-TACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGT
*
238298 ACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
65 ACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
*
238355 TAGTACCTAAACTTTCAATTTTTTCAAAA-CAATACCTAACGTTTAGTTTTCATTTTATTTTAGT
1 TAGTACCTAAACTTTCAATTTTTTCAAAATC-ATACCTAACGTTTAGTTTTCATTTCATTTTAGT
* * * *
238419 ATCCCGCCGTTAAAAAATTAATGTGTTTAGTTCCTAAACTATCAGTTGTGGTTTGTTT
65 A-CCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
**** * * * *
238477 TAGTACCTAAACTTTCAAAAACAATTCAAAATTATGCCTAACGTTTAGTTTTTATTTCATTTTAA
1 TAGTACCTAAACTTTC--AATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAG
* * *
238542 TACCCGTCGTTAAAAACTTAATGCCTTTAGTACCTAAACTATCAGTTTTGGTCTGTATT
64 TACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGT-TT
* * * * *
238601 TAATACCTAAACTTTTAATTTTTTCGAAACCATACCTAACGCTTAGTTTTCATTTCATTTTAGTA
1 TAGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
* * * * *
238666 TCCCGCCGTTAAAAAATTAACGCTTTTAGTACCTAAACTGTCAGTTGTGGTTTGTTT
66 -CCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
238723 TAGTACCTAAACTTTC-ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
1 TAGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
* * * *
238787 CCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATTAGTTTTTGTCTGTTT
66 CCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
238843 TAGTACCTAAACTTTCAATTTTTTCAAAA
1 TAGTACCTAAACTTTCAATTTTTTCAAAA
238872 CTTAACTTTG
Statistics
Matches: 652, Mismatches: 92, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
116 24 0.04
117 17 0.03
119 1 0.00
120 64 0.10
121 175 0.27
122 222 0.34
123 94 0.14
124 55 0.08
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (121 bp):
TAGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
CCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTT
Found at i:238459 original size:243 final size:241
Alignment explanation
Indices: 237995--238872 Score: 1205
Period size: 243 Copynumber: 3.6 Consensus size: 241
237985 TCAATACATG
* * * *
237995 TAGTACTTAAACTTTCAATTATTTTTAAAATCATATCTAACGTTTAG----T-TTTCATTTTAGT
1 TAGTACCTAAACTTCCAATT-TTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGT
* * ** * *
238055 ACTCGTCATTAAAATTTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTATCT
65 ACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
* * * ** *
238120 AAACTTTCAAATTTTTCAAAATCATATCTAACATTTAGTTTTCATTTCATTTTAGTA-CATTGTC
130 AAACTTTCAATTTTTTCAAAA-CATACCTAACGTTTAGTTTTCATTTCATTTTAGTATC-CCGCC
* * * * *
238184 GTTAAAAAATCAACGCATTTAGTACTTAAACTATCAGTTGTGATTTGTGT
193 GTTAAAAAATTAACG-TTTTAGTACCTAAACTATCAGTTGTGGTTTGTTT
238234 T-GATACCTAAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGT
1 TAG-TACCTAAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGT
*
238298 ACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCT
65 ACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
*
238363 AAACTTTCAATTTTTTCAAAACAATACCTAACGTTTAGTTTTCATTTTATTTTAGTATCCCGCCG
130 AAACTTTCAATTTTTTCAAAAC-ATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCGCCG
* *
238428 TTAAAAAATTAATGTGTTTAGTTCCTAAACTATCAGTTGTGGTTTGTTT
194 TTAAAAAATTAACGT-TTTAGTACCTAAACTATCAGTTGTGGTTTGTTT
* **** * * *
238477 TAGTACCTAAACTTTCAAAAACAATTCAAAATTATGCCTAACGTTTAGTTTTTATTTCATTTTAA
1 TAGTACCTAAAC-TTC-CAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAG
* *
238542 TACCCGTCGTTAAAAACTTAATGCCTTTAGTACCTAAACTATCAGTTTTGGTCTGTATTTAATAC
64 TACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGT-TTTAGTAC
* * *
238607 CTAAACTTTTAATTTTTTCGAAACCATACCTAACGCTTAGTTTTCATTTCATTTTAGTATCCCGC
128 CTAAACTTTCAATTTTTTC-AAAACATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCGC
*
238672 CGTTAAAAAATTAACGCTTTTAGTACCTAAACTGTCAGTTGTGGTTTGTTT
192 CGTTAAAAAATTAACG-TTTTAGTACCTAAACTATCAGTTGTGGTTTGTTT
* *
238723 TAGTACCTAAACTTTC-ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA
1 TAGTACCTAAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGTA
* *
238787 CCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATTAGTTTTTGTCTGTTTTAGTACCTA
66 CCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCTA
238852 AACTTTCAATTTTTTCAAAAC
131 AACTTTCAATTTTTTCAAAAC
238873 TTAACTTTGA
Statistics
Matches: 565, Mismatches: 59, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
238 25 0.04
239 16 0.03
241 4 0.01
242 27 0.05
243 266 0.47
244 5 0.01
245 96 0.17
246 121 0.21
247 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (241 bp):
TAGTACCTAAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTTATTTCATTTTAGTA
CCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCTA
AACTTTCAATTTTTTCAAAACATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCGCCGTT
AAAAAATTAACGTTTTAGTACCTAAACTATCAGTTGTGGTTTGTTT
Found at i:243516 original size:21 final size:21
Alignment explanation
Indices: 243490--243536 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
243480 ATTAATTTTT
* *
243490 TTAAAAATAAAA-CTTATATTA
1 TTAAAAAAAAAATATTA-ATTA
243511 TTAAAAAAAAAATATTAATTA
1 TTAAAAAAAAAATATTAATTA
243532 TTAAA
1 TTAAA
243537 CATACAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAAAAAAAAAATATTAATTA
Done.