Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_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: 2099483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:641 original size:50 final size:53
Alignment explanation
Indices: 550--652 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 53
540 ATTTATAATA
* * * *
550 TAGTAAAACAATAATTAAAGTAATGATTAAAATATATTAAAATAATAA-AAAT
1 TAGTAAAACAATAACTAAAGCAATGACTAAAATATAATAAAATAATAATAAAT
602 TAGTAAAA-AATAACTAAA-CAATGACTATAAATA-AATAAAATAATAATAAAT
1 TAGTAAAACAATAACTAAAGCAATGACTA-AAATATAATAAAATAATAATAAAT
653 GTAAAATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
50 19 0.42
51 18 0.40
52 8 0.18
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (53 bp):
TAGTAAAACAATAACTAAAGCAATGACTAAAATATAATAAAATAATAATAAAT
Found at i:2076 original size:13 final size:13
Alignment explanation
Indices: 2037--2081 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
2027 TAATATTTAA
2037 ATAATAA-ATAAT
1 ATAATAATATAAT
* *
2049 AT--TACTATTAT
1 ATAATAATATAAT
2060 ATAATAATATAAT
1 ATAATAATATAAT
2073 ATAATAATA
1 ATAATAATA
2082 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
10 2 0.08
11 6 0.23
12 2 0.08
13 16 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:6998 original size:4 final size:4
Alignment explanation
Indices: 6981--7799 Score: 1458
Period size: 4 Copynumber: 208.8 Consensus size: 4
6971 TCTAAACTTA
*
6981 TATG TATAG TATG TATG TATG TATG TATG TATG TATG TATG TAGG TATG
1 TATG TAT-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7030 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7078 TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7124 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
7171 TATG TATG TAGG TATG TAATG TATG TAT- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG TATG
7219 TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7266 TA-- TATG TATG TATG -ATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7311 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7358 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7405 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7452 --TG TATG TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
7497 TATG TATG TATG TATG TATG T-TG TATG TATG TAGG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7544 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
7592 TATG TATG TATG TAGG TATG TATG -ATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7639 TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7686 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7733 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
7781 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
7800 TTTTTTTACA
Statistics
Matches: 787, Mismatches: 8, Indels: 40
0.94 0.01 0.05
Matches are distributed among these distances:
2 6 0.01
3 36 0.05
4 737 0.94
5 8 0.01
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:9357 original size:8 final size:8
Alignment explanation
Indices: 8430--9356 Score: 1428
Period size: 8 Copynumber: 117.9 Consensus size: 8
8420 TTTGGTATCT
*
8430 ATGTATGT
1 ATGTATGC
*
8438 ATGTATGT
1 ATGTATGC
8446 ATGTATGC
1 ATGTATGC
8454 ATGTATGC
1 ATGTATGC
8462 ATGTATGC
1 ATGTATGC
8470 ATGTATGC
1 ATGTATGC
8478 ATGTATGC
1 ATGTATGC
8486 ATGTATGC
1 ATGTATGC
8494 ATGTATGC
1 ATGTATGC
8502 ATGTATGC
1 ATGTATGC
8510 ATGTATGC
1 ATGTATGC
8518 ATGTATGC
1 ATGTATGC
8526 ATGTATG-
1 ATGTATGC
8533 ATGTATGC
1 ATGTATGC
8541 ATGTATGC
1 ATGTATGC
8549 ATGTATGC
1 ATGTATGC
8557 ATGTATGC
1 ATGTATGC
8565 ATGTTATGC
1 ATG-TATGC
8574 ATGTATGC
1 ATGTATGC
8582 ATGTTATGC
1 ATG-TATGC
8591 ATGTATGC
1 ATGTATGC
8599 ATGTATGC
1 ATGTATGC
8607 ATGTATGC
1 ATGTATGC
8615 ATGTATGC
1 ATGTATGC
8623 ATGTATGC
1 ATGTATGC
8631 ATGTATGC
1 ATGTATGC
8639 ATGTATGC
1 ATGTATGC
8647 ATGTATGC
1 ATGTATGC
8655 ATGTATGC
1 ATGTATGC
8663 ATGTATGC
1 ATGTATGC
8671 ATGTA-GC
1 ATGTATGC
8678 ATGTATGC
1 ATGTATGC
8686 A-GTATGC
1 ATGTATGC
8693 ATGTATGC
1 ATGTATGC
8701 A-GTATGC
1 ATGTATGC
8708 ATGTATGC
1 ATGTATGC
8716 ATGTATGC
1 ATGTATGC
8724 ATGTATGC
1 ATGTATGC
8732 -TGTATGC
1 ATGTATGC
8739 ATGTATGC
1 ATGTATGC
8747 ATGTATGC
1 ATGTATGC
8755 ATGTATGC
1 ATGTATGC
8763 ATGTATGC
1 ATGTATGC
8771 ATGTATGC
1 ATGTATGC
8779 ATGTATGC
1 ATGTATGC
8787 ATGTATGC
1 ATGTATGC
8795 ATGTATGC
1 ATGTATGC
8803 A-GTATGC
1 ATGTATGC
8810 ATGTATGC
1 ATGTATGC
8818 ATGTATGC
1 ATGTATGC
8826 ATGTATGC
1 ATGTATGC
8834 ATGTATGC
1 ATGTATGC
8842 ATGTATGC
1 ATGTATGC
8850 ATGTATGC
1 ATGTATGC
8858 A-GTATGC
1 ATGTATGC
8865 ATGTATGC
1 ATGTATGC
8873 ATGTATGC
1 ATGTATGC
8881 ATGTATGC
1 ATGTATGC
8889 ATGTATGC
1 ATGTATGC
8897 ATGTATGC
1 ATGTATGC
8905 ATGTATGC
1 ATGTATGC
8913 ATGTATGC
1 ATGTATGC
8921 ATGTATGC
1 ATGTATGC
8929 ATGTATGC
1 ATGTATGC
8937 ATG--TGC
1 ATGTATGC
8943 ATGTATGC
1 ATGTATGC
8951 A--TATGC
1 ATGTATGC
8957 ATGTATGC
1 ATGTATGC
8965 ATGTATGC
1 ATGTATGC
*
8973 CTGTATGC
1 ATGTATGC
8981 ATGTATGC
1 ATGTATGC
8989 ATGTATGC
1 ATGTATGC
8997 ATGTATGC
1 ATGTATGC
9005 ATGTATGC
1 ATGTATGC
9013 ATG-ATGC
1 ATGTATGC
9020 ATGTGTATGC
1 A--TGTATGC
9030 ATGTATGC
1 ATGTATGC
9038 ATGTATGC
1 ATGTATGC
9046 ATGTATGC
1 ATGTATGC
9054 ATGTATGC
1 ATGTATGC
9062 ATGTATGC
1 ATGTATGC
9070 -TGTATGC
1 ATGTATGC
9077 ATGTATGC
1 ATGTATGC
9085 ATGTATGC
1 ATGTATGC
*
9093 ATGTGTAGC
1 ATGTAT-GC
**
9102 ATACATGC
1 ATGTATGC
**
9110 ATACATGC
1 ATGTATGC
*
9118 ATGCAT--
1 ATGTATGC
9124 ATGTATGC
1 ATGTATGC
9132 ATGTATG-
1 ATGTATGC
9139 -TGTATGC
1 ATGTATGC
9146 ATGTATGC
1 ATGTATGC
9154 ATGTATGC
1 ATGTATGC
9162 ATGTATGC
1 ATGTATGC
*
9170 ATGTATGT
1 ATGTATGC
*
9178 ATGTATGT
1 ATGTATGC
9186 ATGTATGC
1 ATGTATGC
9194 ATGTATGC
1 ATGTATGC
9202 ATGTATGC
1 ATGTATGC
9210 ATGTATGC
1 ATGTATGC
*
9218 ATGTATGT
1 ATGTATGC
*
9226 ATGTATGT
1 ATGTATGC
*
9234 ATGTATGT
1 ATGTATGC
*
9242 ATGTATGT
1 ATGTATGC
*
9250 ATGTATGT
1 ATGTATGC
*
9258 ATGTATGT
1 ATGTATGC
*
9266 ATGTATGT
1 ATGTATGC
*
9274 ATGTATGT
1 ATGTATGC
*
9282 ATGTATGT
1 ATGTATGC
*
9290 ATGTATGT
1 ATGTATGC
*
9298 ATGTATGT
1 ATGTATGC
*
9306 ATGTATGT
1 ATGTATGC
9314 A-GTATGC
1 ATGTATGC
9321 ATG--TGC
1 ATGTATGC
*
9327 ATGTATGT
1 ATGTATGC
*
9335 A-GTATGT
1 ATGTATGC
*
9342 ATGTATGT
1 ATGTATGC
9350 ATGTATG
1 ATGTATG
9357 TGTTATTTTT
Statistics
Matches: 879, Mismatches: 14, Indels: 52
0.93 0.01 0.06
Matches are distributed among these distances:
6 29 0.03
7 74 0.08
8 748 0.85
9 23 0.03
10 5 0.01
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (8 bp):
ATGTATGC
Found at i:9815 original size:4 final size:4
Alignment explanation
Indices: 9806--9882 Score: 145
Period size: 4 Copynumber: 19.2 Consensus size: 4
9796 AGTGCATCTT
*
9806 TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9854 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
9883 GTTATTTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:10275 original size:529 final size:521
Alignment explanation
Indices: 9285--10334 Score: 1971
Period size: 529 Copynumber: 2.0 Consensus size: 521
9275 TGTATGTATG
9285 TATGTATGTATGTATGTATGTATGTATGTAGTATGCATGTGCATGTATGTAGTATGTATGTATGT
1 TATGTATGTATGTATGTATGTATGTATGTAGTATGCATGTGCATGTATGTAGTATGTATGTATGT
9350 ATGTATGTGTTATTTTTTTACACTTGCCCATTACCTTCCTCCATTAACTTAACGTTAGGTATGAT
66 ATGTATGTGTTATTTTTTTACACTTGCCCATTACCTTCCTCCATTAACTTAACGTTAGGTATGAT
9415 TTTGAAAAGAAAATAAATTGGGTATCAAAATGGAATAAAAGTGATAGTAAGAATACTAAATGTGC
131 TTTGAAAAGAAAATAAATTGGGTATCAAAATGGAATAAAAGTGATAGTAAGAATACTAAATGTGC
9480 AGTTTATCCTATTTTATATTACGAAGTAAAATAAGAGAAAATGGATCCATCATAAAGACTCAAGG
196 AGTTTATCCTATTTTATATTACGAAGTAAAATAAGAGAAAATGGATCCATCATAAAGACTCAAGG
9545 GAAAATCCTAACACAAACGCCAAAACCTAGTCTTCACTTGTCAACAAATACAAAGCAAATGCAAT
261 GAAAATCCTAACACAAACGCCAAAACCTAGTCTTCACTTGTCAACAAATACAAAGCAAATGCAAT
9610 GACAAAGCCTATGTCTTCCAATTGTCTCTCGTTTCCTTCTTCTTTCTCTCTAACCCTTGACCACT
326 GACAAAGCCTATGTCTTCCAATTGTCTCTCGTTTCCTTCTTCTTTCTCTCTAACCCTTGACCACT
9675 TTCTTTTTTTCTTTGAGGATGGAATCAGCCATGAAGCAACCGAGCTCCGATTCTTTGAGCGAAGA
391 TTCTTTTTTTCTTTGAGGATGGAATCAGCCATGAAGCAACCGAGCTCCGATTCTTTGAGCGAAGA
9740 AAACGATCCGGTCGATCGAGTCAAGTGCGACGCCGTGACCCCCAAACGCTCCTACGAGTGCATCT
456 AAACGATCCGGTCGATCGAGTCAAGTGCGACGCCGTGACCCCCAAACGCTCCTACGAGTGCATCT
9805 T
521 T
*
9806 TATGTATGTATGTATGTATGTATGTATGTATGTATGCATGTATGTATGTATGTATGTATGTATGT
1 TATGTATGTATGTATGTATGTATGTATGTA-GTATGCATG--TGCATGTATGTA-GTATGTATGT
9871 ATGTATGTATGTGTTATTTTTTTTACACTTGCCCATTACCTTCCTCCATTAACTTAACGTTAGGT
62 ATGTATGTATGTGTTA-TTTTTTTACACTTGCCCATTACCTTCCTCCATTAACTTAACGTTAGGT
9936 ATGATTTTGAAAAGAAAATAAATTGGGTATC-AAATGG-ATAAAAGTGATAGTAAGAATACTAAA
126 ATGATTTTGAAAAGAAAATAAATTGGGTATCAAAATGGAATAAAAGTGATAGTAAGAATACTAAA
9999 TGTGCAGTTTATCCTA-TTTATATTACGAAGTAAAATAAGAGAAAATGGATCCATCATAAAGCCG
191 TGTGCAGTTTATCCTATTTTATATTACGAAGTAAAATAAGAGAAAATGGATCCATCATAAA---G
10063 ACTCAAGGGAAAAATCCTAACACAAACGCCAAAACCTAGTCTTCACTTGTCAACAAATACAAAGC
253 ACTCAAGGG-AAAATCCTAACACAAACGCCAAAACCTAGTCTTCACTTGTCAACAAATACAAAGC
10128 AAATGCAATGACAAAGCCTATGTCTTCCAATTGTCTCCTCGTTTCCTTCTTCTTCTCTCTCTAAC
317 AAATGCAATGACAAAGCCTATGTCTTCCAATTGTCT-CTCGTTTCCTTCTTCTT-TCTCTCTAAC
10193 CCTTGACCACTTTCTTTTTTTCTTTGAGGATGGAATCAGCCATGAAGCAACCGAGCTCCGATTCT
380 CCTTGACCACTTTCTTTTTTTCTTTGAGGATGGAATCAGCCATGAAGCAACCGAGCTCCGATTCT
10258 TTGAGCGAAGAAAACGATCCGGTCGATCGAGTCAAGTGCGACGCCGTGACCCCCAAACGCTCCTA
445 TTGAGCGAAGAAAACGATCCGGTCGATCGAGTCAAGTGCGACGCCGTGACCCCCAAACGCTCCTA
10323 CGAGTGCATCTT
510 CGAGTGCATCTT
10335 CTGCAAACGA
Statistics
Matches: 517, Mismatches: 1, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
521 30 0.06
522 9 0.02
523 44 0.09
524 53 0.10
525 32 0.06
526 89 0.17
527 91 0.18
528 17 0.03
529 152 0.29
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (521 bp):
TATGTATGTATGTATGTATGTATGTATGTAGTATGCATGTGCATGTATGTAGTATGTATGTATGT
ATGTATGTGTTATTTTTTTACACTTGCCCATTACCTTCCTCCATTAACTTAACGTTAGGTATGAT
TTTGAAAAGAAAATAAATTGGGTATCAAAATGGAATAAAAGTGATAGTAAGAATACTAAATGTGC
AGTTTATCCTATTTTATATTACGAAGTAAAATAAGAGAAAATGGATCCATCATAAAGACTCAAGG
GAAAATCCTAACACAAACGCCAAAACCTAGTCTTCACTTGTCAACAAATACAAAGCAAATGCAAT
GACAAAGCCTATGTCTTCCAATTGTCTCTCGTTTCCTTCTTCTTTCTCTCTAACCCTTGACCACT
TTCTTTTTTTCTTTGAGGATGGAATCAGCCATGAAGCAACCGAGCTCCGATTCTTTGAGCGAAGA
AAACGATCCGGTCGATCGAGTCAAGTGCGACGCCGTGACCCCCAAACGCTCCTACGAGTGCATCT
T
Found at i:13629 original size:27 final size:27
Alignment explanation
Indices: 13599--13662 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
13589 TACAAGTAAG
*
13599 AACAATAATAAGCACAATACAACTAGA
1 AACAATAACAAGCACAATACAACTAGA
* *
13626 AACAATAGCAAGCACAATACAGCTAGA
1 AACAATAACAAGCACAATACAACTAGA
13653 AACAATAACA
1 AACAATAACA
13663 TTTAGGATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.58, C:0.20, G:0.09, T:0.12
Consensus pattern (27 bp):
AACAATAACAAGCACAATACAACTAGA
Found at i:15596 original size:14 final size:14
Alignment explanation
Indices: 15577--15603 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15567 CATCCAAGGC
15577 CATCCGACCGAGGG
1 CATCCGACCGAGGG
15591 CATCCGACCGAGG
1 CATCCGACCGAGG
15604 CTATCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.37, G:0.33, T:0.07
Consensus pattern (14 bp):
CATCCGACCGAGGG
Found at i:15609 original size:14 final size:13
Alignment explanation
Indices: 15577--15611 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
15567 CATCCAAGGC
15577 CATCCGACCGAGGG
1 CATCCGACCGA-GG
15591 CATCCGACCGAGG
1 CATCCGACCGAGG
15604 CTATCCGA
1 C-ATCCGA
15612 GCAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.23, C:0.37, G:0.29, T:0.11
Consensus pattern (13 bp):
CATCCGACCGAGG
Found at i:15682 original size:29 final size:29
Alignment explanation
Indices: 15640--15715 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
15630 GGAGCATGAG
*
15640 GGAGTGCATCGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
15669 GGAGTGCATGGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
* *
15698 GGAGGGCATGACGACCTA
1 GGAGTGCATGGCGACCTA
15716 TGCTTGGGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.22, C:0.30, G:0.34, T:0.13
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGGTCGCCC
Found at i:16713 original size:14 final size:14
Alignment explanation
Indices: 16674--16715 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16664 TTATTTTTAT
16674 TTATTTAATT-AAA
1 TTATTTAATTAAAA
*
16687 -TATTTAATGAAAA
1 TTATTTAATTAAAA
*
16700 TTATTAAATTAAAA
1 TTATTTAATTAAAA
16714 TT
1 TT
16716 TATACTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 8 0.33
13 3 0.12
14 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TTATTTAATTAAAA
Found at i:17308 original size:22 final size:19
Alignment explanation
Indices: 17280--17326 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
17270 ATTAGTTGAA
17280 TAAAATTAATTAAATAATAATT
1 TAAAATTAA--AAA-AATAATT
17302 TAAAATTAAAAAAATAATT
1 TAAAATTAAAAAAATAATT
*
17321 AAAAAT
1 TAAAAT
17327 GAATGGCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 3 0.12
22 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATTAAAAAAATAATT
Found at i:18387 original size:20 final size:20
Alignment explanation
Indices: 18362--18405 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
18352 TTTAAAGACC
18362 CATTTAGAACCATATAGATG
1 CATTTAGAACCATATAGATG
* * *
18382 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATATAGATG
18402 CATT
1 CATT
18406 GTCTGATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
CATTTAGAACCATATAGATG
Found at i:24895 original size:132 final size:133
Alignment explanation
Indices: 24648--24905 Score: 349
Period size: 132 Copynumber: 1.9 Consensus size: 133
24638 TGTTGAGTCC
* * * *
24648 CCGAATATTAAATGTTACATAATAGTAACCCAACTATTAATGTGTTCCAAATTCATCATTTTATG
1 CCGAATATTAAAGGTTACAAAACAGTAACCCAACTATTAATATGTTCCAAATTCATCATTTTATG
* * *
24713 TTAAAACATTGGCGGACGTTGGAGTTGGATTTTATTATACTGAATGTGATATGATAAAAAAATAG
66 TTAAAAAATTGGCGGACGTTGGAGTTGGATTTTATCATACTGAATATGATATGATAAAAAAATAG
24778 CCT
131 CCT
* * * *
24781 CCGACTATTAAAGGTTACAAAACAGTAA-CCAACTATTCATATGTTCCAAATTGATCATTTTCTG
1 CCGAATATTAAAGGTTACAAAACAGTAACCCAACTATTAATATGTTCCAAATTCATCATTTTATG
* * ** *
24845 TTAAAAAATTGGCGG-CTGTTTGAGTTGGATTTTATCGTGTTGACTATGATATGATAAAAAA
66 TTAAAAAATTGGCGGAC-GTTGGAGTTGGATTTTATCATACTGAATATGATATGATAAAAAA
24906 TGGTCCCCGA
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 1 0.01
132 83 0.77
133 24 0.22
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (133 bp):
CCGAATATTAAAGGTTACAAAACAGTAACCCAACTATTAATATGTTCCAAATTCATCATTTTATG
TTAAAAAATTGGCGGACGTTGGAGTTGGATTTTATCATACTGAATATGATATGATAAAAAAATAG
CCT
Found at i:25700 original size:33 final size:33
Alignment explanation
Indices: 25658--25732 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
25648 TTGGTAGCCA
* *
25658 AATA-AATAATAGTCCTTTATCTTTCAAGTAAT
1 AATATAATAATAGTCCTTTATATTTCAACTAAT
* *
25690 AATATAATAATATTCTTTTATATTTCAACTAAT
1 AATATAATAATAGTCCTTTATATTTCAACTAAT
25723 AATACTAATA
1 AATA-TAATA
25733 GCCTTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 4 0.11
33 28 0.76
34 5 0.14
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.43
Consensus pattern (33 bp):
AATATAATAATAGTCCTTTATATTTCAACTAAT
Found at i:26620 original size:3 final size:3
Alignment explanation
Indices: 26612--26697 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
26602 GAGTTCAGCA
26612 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26660 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26698 ATGTGTATGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29795 original size:28 final size:28
Alignment explanation
Indices: 29763--29818 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29753 GTTTAAGAGT
29763 TAGTTTGCTTAAGCATTAATTTACAATG
1 TAGTTTGCTTAAGCATTAATTTACAATG
29791 TAGTTTGCTTAAGCATTAATTTACAATG
1 TAGTTTGCTTAAGCATTAATTTACAATG
29819 ATTTAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (28 bp):
TAGTTTGCTTAAGCATTAATTTACAATG
Found at i:31963 original size:15 final size:15
Alignment explanation
Indices: 31945--32000 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
31935 TAACCGGTTT
31945 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
31960 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
31977 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
31992 CGATTTTAA
1 CGGTTTTAA
32001 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:31973 original size:17 final size:17
Alignment explanation
Indices: 31948--31998 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
31938 CCGGTTTCGG
31948 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
31965 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
31980 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
31997 TT
1 TT
31999 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:32419 original size:13 final size:13
Alignment explanation
Indices: 32398--32452 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
32388 AAGTTCGATA
*
32398 AATTTAAATACTT
1 AATTGAAATACTT
32411 AATTGAAATACTT
1 AATTGAAATACTT
* *
32424 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
32438 AATTGAAATACTT
1 AATTGAAATACTT
32451 AA
1 AA
32453 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:32483 original size:33 final size:33
Alignment explanation
Indices: 32438--32536 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
32428 AACTCAACAT
* *
32438 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
32471 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
*
32504 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
32536 A
1 A
32537 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTTGATA
Found at i:32555 original size:21 final size:21
Alignment explanation
Indices: 32531--32570 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32521 ACTTCAAGTT
32531 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
32552 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
32571 ATAAAATAAA
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:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:34884 original size:23 final size:24
Alignment explanation
Indices: 34858--34905 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
34848 AGACCGGTTT
* *
34858 TTTTTTTTCCGG-ATAAAAACCGG
1 TTTTTTATCCGGTAAAAAAACCGG
34881 TTTTTTATCCGGTAAAAAAACCGG
1 TTTTTTATCCGGTAAAAAAACCGG
34905 T
1 T
34906 CTAGGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TTTTTTATCCGGTAAAAAAACCGG
Found at i:39072 original size:31 final size:31
Alignment explanation
Indices: 39047--39187 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
39037 TCCATAGATT
* * *
39047 CCGAAGAACCTAGGTAAACAGTCCATATGTT
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
39078 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
39109 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
39140 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
39171 CCGAAGAACATAGGTAA
1 CCGAAGAACATAGGTAA
39188 CCCTCGACCC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCGTATGTC
Found at i:43446 original size:31 final size:31
Alignment explanation
Indices: 43421--43561 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
43411 TCCATAGATT
* * *
43421 CCGAAGAACCTAGGTAAACAGTCCATATGTT
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
43452 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
43483 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
43514 CCGAAGAACATAGGTAAACAGTCCGTATGTC
1 CCGAAGAACATAGGTAAACAGTCCGTATGTC
43545 CCGAAGAACATAGGTAA
1 CCGAAGAACATAGGTAA
43562 CCCTCGACCC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCGTATGTC
Found at i:44727 original size:13 final size:15
Alignment explanation
Indices: 44696--44731 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
44686 TTCACACGTG
44696 GAGAAGAGAAAATGA
1 GAGAAGAGAAAATGA
44711 -AGAAG-GAAAA-GA
1 GAGAAGAGAAAATGA
44723 GAGAAGAGA
1 GAGAAGAGA
44732 TTTTTCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.11
13 10 0.53
14 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (15 bp):
GAGAAGAGAAAATGA
Found at i:61469 original size:20 final size:21
Alignment explanation
Indices: 61441--61493 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
61431 ACAAGCCCGT
*
61441 CGATATACATG-CGAACCTTC
1 CGATTTACATGTCGAACCTTC
* *
61461 CGATTTACATGTTGAGCCTTC
1 CGATTTACATGTCGAACCTTC
*
61482 CAATTTACATGT
1 CGATTTACATGT
61494 TGAGCCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (21 bp):
CGATTTACATGTCGAACCTTC
Found at i:61482 original size:21 final size:21
Alignment explanation
Indices: 61456--61499 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
61446 TACATGCGAA
*
61456 CCTTCCGATTTACATGTTGAG
1 CCTTCCAATTTACATGTTGAG
61477 CCTTCCAATTTACATGTTGAG
1 CCTTCCAATTTACATGTTGAG
61498 CC
1 CC
61500 CCCATGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (21 bp):
CCTTCCAATTTACATGTTGAG
Found at i:62697 original size:56 final size:56
Alignment explanation
Indices: 62609--62761 Score: 200
Period size: 58 Copynumber: 2.7 Consensus size: 56
62599 TGGTAAATTT
* * *
62609 TTCTATGGTTCATCATCTAGTTTTCCTAGGAAAATTTTCCATTTCT-TATTCATATA
1 TTCTATGGTTCATCAACTAGTTTTCCTGGGAAAATTTTCCATTT-TATATTCAGATA
* *
62665 TTCTATGGATCATCAACTAGTTTTCCTGGGAAAAAATTTTCCGTTTTATATTCAGATA
1 TTCTATGGTTCATCAACTAGTTTTCCTGGG--AAAATTTTCCATTTTATATTCAGATA
* * *
62723 TTCCACGGTTCATCAACCAGTTTTCCTGGGAAAATTTTC
1 TTCTATGGTTCATCAACTAGTTTTCCTGGGAAAATTTTC
62762 GTTTTTGAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
56 36 0.42
57 1 0.01
58 48 0.56
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (56 bp):
TTCTATGGTTCATCAACTAGTTTTCCTGGGAAAATTTTCCATTTTATATTCAGATA
Found at i:65199 original size:21 final size:21
Alignment explanation
Indices: 65175--65235 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
65165 AACTTTGAAA
65175 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
65196 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
65210 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
65231 AAATG
1 AAATG
65236 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:65256 original size:36 final size:36
Alignment explanation
Indices: 65167--65285 Score: 188
Period size: 35 Copynumber: 3.3 Consensus size: 36
65157 TGGTAACCAA
65167 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
65204 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
65239 CTTTGAAAAATAGTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
65275 -GTTGAAAAATG
1 CTTTGAAAAATG
65286 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
35 44 0.57
36 28 0.36
37 5 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:65714 original size:16 final size:16
Alignment explanation
Indices: 65693--65726 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
65683 TTACTATTCA
*
65693 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
65709 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
65725 CG
1 CG
65727 GTCGGCGATA
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:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:69822 original size:21 final size:21
Alignment explanation
Indices: 69798--69858 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
69788 AACTTTGAAA
69798 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
69819 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
69833 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
69854 AAATG
1 AAATG
69859 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:69889 original size:37 final size:37
Alignment explanation
Indices: 69790--69908 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
69780 TGGTAACCAA
69790 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
69827 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
69862 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
69899 -GTTGAAAAAT
1 CTTTGAAAAAT
69909 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:75116 original size:2 final size:2
Alignment explanation
Indices: 75109--75134 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75099 TAATATTGAA
75109 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
75135 TTGGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75606 original size:14 final size:14
Alignment explanation
Indices: 75589--75617 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
75579 TACAAATGAA
75589 ATTAAATTTTCTTC
1 ATTAAATTTTCTTC
75603 ATTAAATTTTCTTC
1 ATTAAATTTTCTTC
75617 A
1 A
75618 CACATACGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTAAATTTTCTTC
Found at i:82475 original size:25 final size:26
Alignment explanation
Indices: 82447--82502 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
82437 TGAATATCTT
82447 AATAATTGCTT-ATATTTT-AAAATTA
1 AATAATTGCTTAAT-TTTTAAAAATTA
*
82472 AATAATTTCTTAATTTTTAAAAAATTA
1 AATAATTGCTTAATTTTT-AAAAATTA
82499 AATA
1 AATA
82503 GGTCCTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 14 0.52
26 2 0.07
27 11 0.41
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
AATAATTGCTTAATTTTTAAAAATTA
Found at i:83096 original size:20 final size:20
Alignment explanation
Indices: 83029--83139 Score: 100
Period size: 20 Copynumber: 5.5 Consensus size: 20
83019 GCGATTTTCC
*
83029 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
83049 GTA-AATCGCAATGCGAATAT
1 G-ACTATCGCAATGCGATTAT
* *
83069 GTA-AATCGCAATACGATTAT
1 G-ACTATCGCAATGCGATTAT
* *
83089 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
83109 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
*
83129 GACTGTCGCAA
1 GACTATCGCAA
83140 CACTGAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 79 0.98
21 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:84000 original size:24 final size:24
Alignment explanation
Indices: 83949--84002 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
83939 GTATTCGAAA
*
83949 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
83973 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
83997 TTTGAT
1 TTTGAT
84003 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:86548 original size:140 final size:140
Alignment explanation
Indices: 86296--86565 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
86286 AAACGTTGTA
86296 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATAAGTAACTTAAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATAAGTAACTTAAGTTTGAACATTGCTA
*
86361 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
86426 TATGTGTATT
131 TATGTGTATT
* *
86436 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATAAGTAACTTAAGTTTGAACATTGCTA
* * *
86501 TGATATGTTTAGTTGTTATCACTTATTACATATTTATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
86566 CGCAACGTGA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATAAGTAACTTAAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:86561 original size:20 final size:20
Alignment explanation
Indices: 86536--86780 Score: 235
Period size: 20 Copynumber: 12.8 Consensus size: 20
86526 TTACATATTT
*
86536 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
86556 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
86576 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
86595 A----A-AATCGCAACCCGA
1 ATTTGACTATCGCAACGCGA
* *
86610 ATTTAACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
86630 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
86650 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
86670 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
86690 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
**
86710 A----A--ATCGCAACATGA
1 ATTTGACTATCGCAACGCGA
86724 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
86744 ATTTGATTATTGCAACGGGT
1 ATTTGACTATCGCAACGCGA
86764 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
86781 AGAAAATCGC
Statistics
Matches: 184, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.11
15 3 0.02
16 1 0.01
18 1 0.01
19 3 0.02
20 156 0.85
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:86716 original size:74 final size:74
Alignment explanation
Indices: 86638--86820 Score: 303
Period size: 74 Copynumber: 2.5 Consensus size: 74
86628 GAATATGACT
86638 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
86703 AACGAGAAA
66 AACGAGAAA
** *
86712 ATCGCAACATGAATTTGACTATCGCAACGCGAATTTGATTATTGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
86777 AACGAGAAA
66 AACGAGAAA
* * * *
86786 ATCGCAAAGCGTATTAGACTATCGCAATGCGAATT
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATT
86821 GACTTTCGCG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 100 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
AACGAGAAA
Found at i:86806 original size:34 final size:34
Alignment explanation
Indices: 86678--86812 Score: 128
Period size: 34 Copynumber: 3.8 Consensus size: 34
86668 GAATTTGATT
*
86678 ATCGCAACGGGTATTTGACTATCGCAACGAGAAA
1 ATCGCAAAGGGTATTTGACTATCGCAACGAGAAA
* * *
86712 ATCGCAACA-TGAATTTGACTATCGCAACGCGAATTTGA
1 ATCGCAA-AGGGTATTTGACTATCGCAACGAGAA----A
* *
86750 TTATTGCAACGGGTATTTGACTATCGCAACGAGAAA
1 --ATCGCAAAGGGTATTTGACTATCGCAACGAGAAA
* *
86786 ATCGCAAAGCGTATTAGACTATCGCAA
1 ATCGCAAAGGGTATTTGACTATCGCAA
86813 TGCGAATTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
34 51 0.64
36 1 0.01
38 1 0.01
40 27 0.34
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (34 bp):
ATCGCAAAGGGTATTTGACTATCGCAACGAGAAA
Found at i:86810 original size:94 final size:94
Alignment explanation
Indices: 86536--86829 Score: 283
Period size: 94 Copynumber: 3.1 Consensus size: 94
86526 TTACATATTT
* * *
86536 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGCAACTCA-AAAAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAAC-GAGAAAAT
*
86600 CGCAACCCGAATTTA-ACTATCGCAACACGA
65 CGCAAACCGAA-TTAGACTATCGCAACACGA
* ** * *
86630 ATATGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG-GGTATTT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGAGAAAATC
* * ** ** *
86694 G-ACTATCGCAACGAGAAAATCGCAACATGA
66 GCA-AACCG-AATTAGACTATCGCAACACGA
* * * * *
86724 ATTTGACTATCGCAACGCGAATTTGATTATTGCAACGGGTATTTGACTATCGCAACGAGAAAATC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGAGAAAATC
* * **
86789 GCAAAGCGTATTAGACTATCGCAATGCGA
66 GCAAACCGAATTAGACTATCGCAACACGA
*
86818 A-TTGACTTTCGC
1 ATTTGACTATCGC
86830 GTTGCTATTT
Statistics
Matches: 157, Mismatches: 37, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
92 1 0.01
93 16 0.10
94 132 0.84
95 7 0.04
96 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (94 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGAGAAAATC
GCAAACCGAATTAGACTATCGCAACACGA
Found at i:86829 original size:19 final size:20
Alignment explanation
Indices: 86786--86829 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
86776 CAACGAGAAA
*
86786 ATCGCAAAGCGTATTAGACT
1 ATCGCAAAGCGAATTAGACT
*
86806 ATCGCAATGCGAATT-GACT
1 ATCGCAAAGCGAATTAGACT
*
86825 TTCGC
1 ATCGC
86830 GTTGCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAAAGCGAATTAGACT
Found at i:86848 original size:20 final size:21
Alignment explanation
Indices: 86819--86876 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
86809 GCAATGCGAA
*
86819 TTGA-CTTTCGCGTTGCTATT
1 TTGAGCTTTCGCGTTGCGATT
*
86839 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
86859 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
86877 AAGTGTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:87035 original size:14 final size:14
Alignment explanation
Indices: 86975--87036 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
86965 CACAAATAAA
*
86975 AATTATTTACACATC
1 AATT-TTTACAAATC
**
86990 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
87005 AACTTTTACAAATC
1 AATTTTTACAAATC
*
87019 AATTTTTATAAATC
1 AATTTTTACAAATC
87033 AATT
1 AATT
87037 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:89054 original size:18 final size:19
Alignment explanation
Indices: 89031--89075 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
89021 GAAACTTAAA
89031 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
89049 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
89069 ATCGCAA
1 ATCGCAA
89076 TGAGAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
20 14 0.58
ACGTcount: A:0.40, C:0.27, G:0.18, T:0.16
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:89143 original size:20 final size:20
Alignment explanation
Indices: 89118--89163 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
89108 ACGATTCTTT
89118 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
89138 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
89158 CGTTGC
1 CGTTGC
89164 AAAAGTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:89339 original size:18 final size:18
Alignment explanation
Indices: 89313--89362 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
89303 TTTACTAAGC
*
89313 AATCAAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
89331 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
89349 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
89363 TACGAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:91110 original size:20 final size:20
Alignment explanation
Indices: 91087--91127 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
91077 TTTGAAACTT
*
91087 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACAAAAATG
91107 AAAATCGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
91127 A
1 A
91128 CTATCACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:91137 original size:20 final size:20
Alignment explanation
Indices: 91087--91137 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
91077 TTTGAAACTT
* *
91087 AAAATCGCAACACGAAAATG
1 AAAATCACAACACAAAAATG
*
91107 AAAATCGCAACACAAAAATG
1 AAAATCACAACACAAAAATG
**
91127 ACTATCACAAC
1 AAAATCACAAC
91138 GTGAATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.24, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAATCACAACACAAAAATG
Found at i:91197 original size:20 final size:20
Alignment explanation
Indices: 91125--91201 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
91115 AACACAAAAA
* *
91125 TGACTATCACAACGTGAATT
1 TGACTATCGCAACGCGAATT
91145 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATT
*
91165 TGACTATCTCAACGCGAATT
1 TGACTATCGCAACGCGAATT
91185 TGACTAAT-GCAACGCGA
1 TGACT-ATCGCAACGCGA
91202 GAATCGCAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 50 0.96
21 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:94037 original size:18 final size:18
Alignment explanation
Indices: 94014--94050 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
94004 TGAGTAAACC
94014 TAGACACAGAAAATAAAT
1 TAGACACAGAAAATAAAT
* *
94032 TAGACATATAAAATAAAT
1 TAGACACAGAAAATAAAT
94050 T
1 T
94051 TTGAGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (18 bp):
TAGACACAGAAAATAAAT
Found at i:97446 original size:27 final size:26
Alignment explanation
Indices: 97407--97499 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 26
97397 GCCATACAAG
*
97407 CCTCCTGTCTATGAACCTCCAAAGAAA
1 CCTCCGGTCTATGAACCTCC-AAGAAA
*
97434 CCTCCGGTGTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* *
97455 CCACCAGT-TCATGAACCTCCGAAGAAA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
97482 CCTCCGGTCTATGAACCT
1 CCTCCGGTCTATGAACCT
97500 AAGCCACCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
20 1 0.02
21 14 0.27
24 6 0.12
27 30 0.58
28 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (26 bp):
CCTCCGGTCTATGAACCTCCAAGAAA
Found at i:97480 original size:48 final size:48
Alignment explanation
Indices: 97417--98152 Score: 1184
Period size: 48 Copynumber: 15.3 Consensus size: 48
97407 CCTCCTGTCT
*
97417 ATGAACCTCCAAAGAAACCTCCGGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
97465 ATGAACCTCCGAAGAAACCTCCGGTCTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
97513 ATGAACCTCCGAAGAGACCTCCAATGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
97561 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
97609 ATGAACCTCCGAAGAAACCTCCAGTTTATGAACCTAAGCCGCCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
97657 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
97705 ATGAACCTCCGAAGAAACCTCCAGTCTATGAACCTAAGCCGCCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
** * *
97753 ATGAATATCCGAAGAGACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
97801 ATGAACCTCCAAAGAGACCTCCAATGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
97849 ATGAACCTCCAAAGAAACCTCCGGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
97897 ATGAACCTCCGAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * * * *
97945 ATGAACATCCGAAGAGACCTCTAGTATATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
97993 ATGAACCTCTAAAGAAACCTCCAGTGTATGAACCTAAACCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
98041 ATGAACCTCCAAAGAAACCTCCAGTCTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
98089 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAACCACCAATTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
98137 ATGAACCTCCTAAGAA
1 ATGAACCTCCAAAGAA
98153 CTAAGCCACT
Statistics
Matches: 638, Mismatches: 50, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 638 1.00
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (48 bp):
ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
Found at i:98569 original size:95 final size:95
Alignment explanation
Indices: 98406--98593 Score: 297
Period size: 95 Copynumber: 2.0 Consensus size: 95
98396 CGAGGCAACG
* * *
98406 ATTAGACTGTTACAATGTCCAATCTTTGTACAACCCAACTTGTTTCATGCAATCATGAATATAAA
1 ATTAGACTGTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAAA
98471 ATAAATCTATAAAGTGGTTTCATGATAACA
66 ATAAATCTATAAAGTGGTTTCATGATAACA
* *
98501 ATTAGA-TCGTTATAATGTCCAATCTTTGCGCAACCCAACTTATTTCATGCAATAATGAATATAA
1 ATTAGACT-GTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAA
* *
98565 AATAAATCTTTCAAGTGGTTTCATGATAA
65 AATAAATCTATAAAGTGGTTTCATGATAA
98594 TAGAGAATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 84 0.99
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (95 bp):
ATTAGACTGTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAAA
ATAAATCTATAAAGTGGTTTCATGATAACA
Found at i:98840 original size:77 final size:78
Alignment explanation
Indices: 98748--98901 Score: 274
Period size: 78 Copynumber: 2.0 Consensus size: 78
98738 TGGGATTTTT
* * *
98748 TTGTGAAATTACAGAATTATACAAGCACCTATTAAA-GTATTCTAAAAAGAAAATAGTCCATGAT
1 TTGTAAAATTACAGAATTATACAAGCACCAATTAAAGGTATTCTAAAAAGAAAATAGTCCACGAT
98812 TTCTAGAACATGC
66 TTCTAGAACATGC
98825 TTGTAAAATTACAGAATTATACAAGCACCAATTAAAGGTATTCTAAAAAGAAAATAGTCCACGAT
1 TTGTAAAATTACAGAATTATACAAGCACCAATTAAAGGTATTCTAAAAAGAAAATAGTCCACGAT
98890 TTCTAGAACATG
66 TTCTAGAACATG
98902 AATAACGTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 34 0.47
78 39 0.53
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (78 bp):
TTGTAAAATTACAGAATTATACAAGCACCAATTAAAGGTATTCTAAAAAGAAAATAGTCCACGAT
TTCTAGAACATGC
Found at i:100221 original size:67 final size:66
Alignment explanation
Indices: 100143--100272 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 66
100133 TTAAATTTAG
*
100143 TTTTTATATTAATTACAATTCTTTATATTTTTATAATTC-T-TATTAT-AATTTGTATATTATAA
1 TTTTTATATTAATT-CAATTCTTTAT-TCTTTATAATTCTTATATTATAAATTT-TAT-TTATAA
100205 TCTGA
62 TCTGA
100210 TTTTTATATTAATTCAATTCTTTATTCTTTATAATTCTTATATTATAAATTTTATTTATAATC
1 TTTTTATATTAATTCAATTCTTTATTCTTTATAATTCTTATATTATAAATTTTATTTATAATC
100273 ACTAAATTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
65 11 0.19
66 20 0.34
67 23 0.39
68 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (66 bp):
TTTTTATATTAATTCAATTCTTTATTCTTTATAATTCTTATATTATAAATTTTATTTATAATCTG
A
Found at i:104510 original size:20 final size:20
Alignment explanation
Indices: 104487--104542 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
104477 TCTGAAACTT
104487 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
104507 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
104527 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
104543 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:104548 original size:20 final size:20
Alignment explanation
Indices: 104510--104601 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
104500 GAAAATGAAA
* **
104510 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
104530 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
104550 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
104570 ATCGCAACACGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
104590 ATTGCAACGCGA
1 ATCGCAACGCGA
104602 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:104598 original size:40 final size:40
Alignment explanation
Indices: 104490--104601 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
104480 GAAACTTAAA
** ** * **
104490 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACT
1 ATCGCAACACGAATTTGACTATCGCAACGCGAATTTGACT
*
104530 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACT
1 ATCGCAACACGAATTTGACTATCGCAACGCGAATTTGACT
*
104570 ATCGCAACACGAATTTGACTATTGCAACGCGA
1 ATCGCAACACGAATTTGACTATCGCAACGCGA
104602 GAATCGCAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACACGAATTTGACTATCGCAACGCGAATTTGACT
Found at i:105041 original size:22 final size:22
Alignment explanation
Indices: 105011--105066 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
105001 ATGGAGATAA
105011 ACGGATTTCGCCGGAGATGGGG
1 ACGGATTTCGCCGGAGATGGGG
* *
105033 ACTGATTTCGTCGGAGATGGGG
1 ACGGATTTCGCCGGAGATGGGG
*
105055 ACGGATGTCGCC
1 ACGGATTTCGCC
105067 TTAGAGAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.41, T:0.21
Consensus pattern (22 bp):
ACGGATTTCGCCGGAGATGGGG
Found at i:105256 original size:20 final size:20
Alignment explanation
Indices: 105231--105315 Score: 100
Period size: 20 Copynumber: 4.2 Consensus size: 20
105221 GCGCTTTGAA
*
105231 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* *
105251 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* *
105271 ATTCGCATTGCGATAGTCGG
1 AATCGCATTGCGATAGTCAG
*
105291 AATCGCAATGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
105311 AATCG
1 AATCG
105316 TGTTGCAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:110796 original size:27 final size:26
Alignment explanation
Indices: 110757--111041 Score: 81
Period size: 27 Copynumber: 11.7 Consensus size: 26
110747 GCCATACAAG
*
110757 CCTCCTGTCTATGAACCTCCAAAGAAA
1 CCTCCGGTCTATGAACCTCC-AAGAAA
*
110784 CCTCCGGTGTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* *
110805 CCACCAGT-TCATGAACCTCCGAAGAAA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
110832 CCTCCGGTCTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* * *
110853 CCACCAGT-TCATGAACCTCCGAAGAGA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
** *
110880 CCTCCAATGTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* *
110901 CCACCAGT-TCATGAACCTCCGAAGAAA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
*
110928 CCTCCAGTCTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* *
110949 CCGCCAGT-TCATGAACCTCCAAAGAAA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
* *
110976 CCTCCAGTGTATGAACCT--AAG---
1 CCTCCGGTCTATGAACCTCCAAGAAA
* *
110997 CCACCAGT-TCATGAACCTCCGAAGAAA
1 CCTCCGGTCT-ATGAACCTCC-AAGAAA
*
111024 CCTCCAGTCTATGAACCT
1 CCTCCGGTCTATGAACCT
111042 AAGCCGCCAG
Statistics
Matches: 201, Mismatches: 17, Indels: 80
0.67 0.06 0.27
Matches are distributed among these distances:
20 5 0.02
21 72 0.36
24 30 0.15
27 89 0.44
28 5 0.02
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (26 bp):
CCTCCGGTCTATGAACCTCCAAGAAA
Found at i:110830 original size:48 final size:48
Alignment explanation
Indices: 110767--111454 Score: 1088
Period size: 48 Copynumber: 14.3 Consensus size: 48
110757 CCTCCTGTCT
*
110767 ATGAACCTCCAAAGAAACCTCCGGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
110815 ATGAACCTCCGAAGAAACCTCCGGTCTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
110863 ATGAACCTCCGAAGAGACCTCCAATGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
110911 ATGAACCTCCGAAGAAACCTCCAGTCTATGAACCTAAGCCGCCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
110959 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * *
111007 ATGAACCTCCGAAGAAACCTCCAGTCTATGAACCTAAGCCGCCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
** * *
111055 ATGAATATCCGAAGAGACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
111103 ATGAACCTCCAAAGAGACCTCCAATGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
111151 ATGAACCTCCAAAGAAACCTCCGGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
111199 ATGAACCTCCGAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* * * * *
111247 ATGAACATCCGAAGAGACCTCTAGTATATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
111295 ATGAACCTCTAAAGAAACCTCCAGTGTATGAACCTAAACCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
111343 ATGAACCTCCAAAGAAACCTCCAGTCTATGAACCTAAGCCACCAGTTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
* *
111391 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAACCACCAATTC
1 ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
*
111439 ATGAACCTCCTAAGAA
1 ATGAACCTCCAAAGAA
111455 CTAAGCCACT
Statistics
Matches: 592, Mismatches: 48, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
48 592 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.19
Consensus pattern (48 bp):
ATGAACCTCCAAAGAAACCTCCAGTGTATGAACCTAAGCCACCAGTTC
Found at i:111880 original size:95 final size:95
Alignment explanation
Indices: 111713--111900 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 95
111703 CGAGGCAACG
* * *
111713 ATTAGACTGTTACAATGTCCAATCTTTGTACAACCCAACTTGTTTCATGCAATCATGAATATAAA
1 ATTAGACTGTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAAA
*
111778 ATTAATCTATAAAGTGGTTTCATGATAACA
66 ATAAATCTATAAAGTGGTTTCATGATAACA
* *
111808 ATTAGA-TCGTTATAATGTCCAATCTTTGCGCAACCCAACTTATTTCATGCAATAATGAATATAA
1 ATTAGACT-GTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAA
* *
111872 AATAAATCTTTCAAGTGGTTTCATGATAA
65 AATAAATCTATAAAGTGGTTTCATGATAA
111901 TAGAGAATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 1 0.01
95 83 0.99
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (95 bp):
ATTAGACTGTTACAATGTCCAATCTTTGCACAACCCAACTTATTTCATGCAATAATGAATATAAA
ATAAATCTATAAAGTGGTTTCATGATAACA
Found at i:112137 original size:77 final size:78
Alignment explanation
Indices: 112055--112208 Score: 274
Period size: 78 Copynumber: 2.0 Consensus size: 78
112045 TGGGAATTTT
* *
112055 TTGTAAAATTACAGAATTATACAAGCACCTATT-AACGTATTCTAAAAAGAAAATAGTCCATGAT
1 TTGTAAAATTACAGAATTATACAAGCACCAATTAAACGTATTCTAAAAAGAAAATAGTCCACGAT
112119 TTCTAGAACATGC
66 TTCTAGAACATGC
*
112132 TTGTAAAATTACAGAATTATACAAGCACCAATTAAAGGTATTCTAAAAAGAAAATAGTCCACGAT
1 TTGTAAAATTACAGAATTATACAAGCACCAATTAAACGTATTCTAAAAAGAAAATAGTCCACGAT
112197 TTCTAGAACATG
66 TTCTAGAACATG
112209 AATAACGTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 32 0.44
78 41 0.56
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (78 bp):
TTGTAAAATTACAGAATTATACAAGCACCAATTAAACGTATTCTAAAAAGAAAATAGTCCACGAT
TTCTAGAACATGC
Found at i:113520 original size:19 final size:19
Alignment explanation
Indices: 113496--113541 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
113486 AAATTTAGTT
113496 TTTATATTAATTACAATTC
1 TTTATATTAATTACAATTC
** *
113515 TTTATATTTTTTATAATTC
1 TTTATATTAATTACAATTC
113534 -TTATATTA
1 TTTATATTA
113542 TAATTTGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATTAATTACAATTC
Found at i:113544 original size:14 final size:14
Alignment explanation
Indices: 113525--113558 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
113515 TTTATATTTT
113525 TTATAATTCT-TATA
1 TTATAATT-TGTATA
113539 TTATAATTTGTATA
1 TTATAATTTGTATA
113553 TTATAA
1 TTATAA
113559 ATATGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAATTTGTATA
Found at i:113572 original size:71 final size:70
Alignment explanation
Indices: 113494--113628 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 70
113484 ATAAATTTAG
*
113494 TTTTTATATTAATT-ACAATTCTTTATATTTTTTATAATTCTTATATTAT-AATTTGTATATTAT
1 TTTTTATATTAATTCA-AATTCTTTATATTCTTTATAATTCTTATATTATAAATTT-TAT-TTAT
113557 AAATATGA
63 AAATATGA
113565 TTTTTATATTAATTCAAATTCTTTATATTCTTTATAATTCTTATATTATAAATTTTATTTATAA
1 TTTTTATATTAATTCAAATTCTTTATATTCTTTATAATTCTTATATTATAAATTTTATTTATAA
113629 TCACTAAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
70 6 0.10
71 49 0.80
72 6 0.10
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (70 bp):
TTTTTATATTAATTCAAATTCTTTATATTCTTTATAATTCTTATATTATAAATTTTATTTATAAA
TATGA
Found at i:113618 original size:34 final size:34
Alignment explanation
Indices: 113510--113618 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 34
113500 TATTAATTAC
*
113510 AATTCTTTATATTTTTTATAATTCTTATATTAT-
1 AATTCTTTATATTATTTATAATTCTTATATTATA
* * * *
113543 AATT-TGTATATTATAAATATGATTTTTATATTAATTCA
1 AATTCTTTATATTAT--TTATAATTCTTATATT-A-T-A
*
113581 AATTCTTTATATTCTTTATAATTCTTATATTATA
1 AATTCTTTATATTATTTATAATTCTTATATTATA
113615 AATT
1 AATT
113619 TTATTTATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
32 8 0.14
33 4 0.07
34 18 0.31
35 2 0.03
36 2 0.03
37 13 0.22
38 4 0.07
39 8 0.14
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (34 bp):
AATTCTTTATATTATTTATAATTCTTATATTATA
Found at i:116816 original size:61 final size:61
Alignment explanation
Indices: 116680--116821 Score: 180
Period size: 61 Copynumber: 2.3 Consensus size: 61
116670 CCTTAGTTTT
* * ** *
116680 AAATTTATTCAATTTAGTTTAAATTTAATGATTTAATATATTAATTTAAGCTTCATATTTC
1 AAATTTTTTCAATTTAATCCAAATTTAATGATTTAATATATTAATTTAAGCTTCATATTTA
* *
116741 AACTTTTTTCAATTTAATCCAAATTTAATG-TTATAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTTTTCAATTTAATCCAAATTTAATGATT-TAATATATTAATTTAAGCTTCATATTTA
*
116802 AAATTTGTTT-AATTTGATCC
1 AAATTT-TTTCAATTTAATCC
116822 TTATATATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 2 0.03
61 65 0.93
62 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (61 bp):
AAATTTTTTCAATTTAATCCAAATTTAATGATTTAATATATTAATTTAAGCTTCATATTTA
Found at i:116897 original size:18 final size:18
Alignment explanation
Indices: 116876--117141 Score: 139
Period size: 18 Copynumber: 15.1 Consensus size: 18
116866 AATAAATTAA
116876 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
116894 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
116912 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
* *
116927 TATATAGTTTGTATCTAC
1 TATATAGTTTATATATAC
* * *
116945 CATATACTATATAGGTTATAC
1 TATATAGTTTATA---TATAC
* ** *
116966 -ATACTAATGAACTATATAA
1 TATA-TAGTTTA-TATATAC
116985 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
117003 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
*
117018 TATATAGGTTATATATAC
1 TATATAGTTTATATATAC
* *
117036 TA-AT-G--AACTATATAG
1 TATATAGTTTA-TATATAC
117051 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
117069 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
*
117086 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* * *
117104 CATATAGTCTATATATAT
1 TATATAGTTTATATATAC
117122 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
117140 TA
1 TA
117142 ATAAATTATA
Statistics
Matches: 183, Mismatches: 41, Indels: 48
0.67 0.15 0.18
Matches are distributed among these distances:
14 3 0.02
15 24 0.13
16 10 0.05
17 20 0.11
18 99 0.54
19 11 0.06
20 6 0.03
21 8 0.04
22 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:116907 original size:51 final size:51
Alignment explanation
Indices: 116850--117004 Score: 116
Period size: 51 Copynumber: 2.9 Consensus size: 51
116840 TTTCAATTAA
*
116850 TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAG
1 TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
* * * * * * * *
116901 TTTATATATACTA-ATGAACTATA-TAATATATAGTTTGTATCTACCATATAC
1 TATATATGT-TTATATTAA-TAAATTAATATATAGTTTATATATACTATATAC
* *
116952 TATATAGGTTATACATACTAATGAACTATATAATATATAGTTTATATATACTA
1 TATATATGTT-T--ATATTAAT-AA--AT-TAATATATAGTTTATATATACTA
117005 ATGAACTATA
Statistics
Matches: 74, Mismatches: 19, Indels: 15
0.69 0.18 0.14
Matches are distributed among these distances:
51 42 0.57
52 5 0.07
53 2 0.03
54 4 0.05
56 1 0.01
58 20 0.27
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (51 bp):
TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
Found at i:116931 original size:33 final size:33
Alignment explanation
Indices: 116887--117165 Score: 315
Period size: 33 Copynumber: 8.5 Consensus size: 33
116877 ATATAGTTTA
*
116887 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
116920 TATATAATATATAG-TT-TGTAT-C---T--AC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * * *
116945 CATATACTATATAGGTTATACATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
116978 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
117011 TATATAATATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
117044 TATATAGTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
117077 TATATATAATGTATAGTTTATATATACCATAT-AGTC
1 --TATATAATATATAGTTTATATATACTA-ATGA-AC
* *
117113 TATATATATTATATAGTTTATATATACTAATAAAT
1 TATATA-A-TATATAGTTTATATATACTAATGAAC
*
117148 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
117166 GGGTTTAGAA
Statistics
Matches: 209, Mismatches: 22, Indels: 30
0.80 0.08 0.11
Matches are distributed among these distances:
25 14 0.07
26 2 0.01
27 4 0.02
28 1 0.00
30 1 0.00
31 5 0.02
32 2 0.01
33 117 0.56
34 7 0.03
35 34 0.16
36 22 0.11
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:116989 original size:91 final size:97
Alignment explanation
Indices: 116886--117139 Score: 297
Period size: 91 Copynumber: 2.6 Consensus size: 97
116876 TATATAGTTT
* *
116886 ATATATACTATATAGTTTATATATACTAATGAACTATATAATATATA-GTT-TGTAT-C-T-ACC
1 ATATATAATATATAGTTTATATATACTAATGAACTATATAATATATAGGTTATATATACATAACC
116946 ATATACTATATAGGTTATACATACTAATGAAC
66 ATATACTATATAGGTTATACATACTAATGAAC
116978 -TATATAATATATAGTTTATATATACTAATGAACTATATAATATATAGGTTATATATACTAATGA
1 ATATATAATATATAGTTTATATATACTAATGAACTATATAATATATAGGTTATATATAC--AT-A
* * * *
117042 ACTATATAGTATATAGTTTATATATACTAATGAAC
63 ACCATATACTATATAGGTTATACATACTAATGAAC
* * * *
117077 TATATATAATGTATAGTTTATATATACCATAT-AGTCTATATATATTATATAGTTTATATATAC
1 -ATATATAATATATAGTTTATATATACTA-ATGA-ACTATATA-A-TATATAGGTTATATATAC
117140 TAATAAATTA
Statistics
Matches: 138, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
91 45 0.33
92 3 0.02
93 4 0.03
94 1 0.01
97 1 0.01
99 31 0.22
101 26 0.19
102 9 0.07
103 1 0.01
104 17 0.12
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (97 bp):
ATATATAATATATAGTTTATATATACTAATGAACTATATAATATATAGGTTATATATACATAACC
ATATACTATATAGGTTATACATACTAATGAAC
Found at i:117214 original size:2 final size:2
Alignment explanation
Indices: 117202--117318 Score: 112
Period size: 2 Copynumber: 56.0 Consensus size: 2
117192 ATATGTAAAT
* *
117202 TA TA CTA TA TA TA TA GTA TA GTT TA TA TA TA TA TA AA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
** *
117245 TA TA TA GG TA TA TG TA TA CTA TA TA GTA TA TA GTA TA -A CTA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA -TA TA
117287 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
117319 GGTCATATGT
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.02
2 82 0.85
3 12 0.12
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:117337 original size:62 final size:60
Alignment explanation
Indices: 117211--117340 Score: 154
Period size: 62 Copynumber: 2.1 Consensus size: 60
117201 TTATACTATA
* * * * *
117211 TATATAGTATAGTTTATATATATATAAATATATATATATAGGTATATGTATACTATATAG
1 TATATAGTATACTTTATATATATATAAATATATATATATAGATATAGGTATACTATAAAC
* * *
117271 TATATAGTATAACTATTATATATATATATATATATATATATATATATAGGTCATA-TGTAAAC
1 TATATAGTAT-ACT-TTATATATATATAAATATATATATATAGATATAGGT-ATACTATAAAC
117333 TATATAGT
1 TATATAGT
117341 TTATATATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 10 0.17
61 2 0.03
62 44 0.75
63 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (60 bp):
TATATAGTATACTTTATATATATATAAATATATATATATAGATATAGGTATACTATAAAC
Found at i:117349 original size:31 final size:30
Alignment explanation
Indices: 117303--117367 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 30
117293 TATATATATA
117303 TATATATATATATATAGGTCATATGTAAAC
1 TATATATATATATATAGGTCATATGTAAAC
* *
117333 TATATAGTTTATATATAGTTCATATGTAAAC
1 TATATA-TATATATATAGGTCATATGTAAAC
117364 TATA
1 TATA
117368 GTTCATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (30 bp):
TATATATATATATATAGGTCATATGTAAAC
Found at i:117369 original size:18 final size:18
Alignment explanation
Indices: 117346--117455 Score: 122
Period size: 18 Copynumber: 6.2 Consensus size: 18
117336 ATAGTTTATA
117346 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
117364 TATAGTTCATATGTAAA-
1 TATAGTTCATATGTAAAC
117381 TATAGTT--TATGTAAAC
1 TATAGTTCATATGTAAAC
*
117397 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
*
117415 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
* *
117435 TATATTTCATATATAAA-
1 TATAGTTCATATGTAAAC
117452 TATA
1 TATA
117456 AACCTTAGTA
Statistics
Matches: 81, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
15 8 0.10
16 7 0.09
17 11 0.14
18 39 0.48
20 15 0.19
21 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:118123 original size:38 final size:38
Alignment explanation
Indices: 118072--118167 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
118062 CTCGTATAAA
*
118072 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
118110 TGTCCCGAAGGACCTGTCATCCTGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
118148 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
118168 ATGTCTTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:118373 original size:46 final size:46
Alignment explanation
Indices: 118316--118466 Score: 268
Period size: 46 Copynumber: 3.3 Consensus size: 46
118306 ATGTGTAACC
118316 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
118361 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
* *
118407 ATGTCATTTCATATCATATCACATGTATCAAGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
118453 ATATCATTTCATAT
1 ATGTCATTTCATAT
118467 AGTCACATAG
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 4 0.04
46 98 0.96
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:119772 original size:9 final size:9
Alignment explanation
Indices: 119758--119808 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
119748 ACCCTAAACC
119758 ATATATACT-
1 ATATATA-TA
119767 ATATATATA
1 ATATATATA
*
119776 A-CTATATA
1 ATATATATA
*
119784 ATTTATATA
1 ATATATATA
119793 ATATATATA
1 ATATATATA
*
119802 ATGTATA
1 ATATATA
119809 CATAAATGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 8 0.22
9 28 0.78
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (9 bp):
ATATATATA
Found at i:120898 original size:10 final size:10
Alignment explanation
Indices: 120883--120908 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
120873 AACTTTAATC
120883 ATATTTTTAA
1 ATATTTTTAA
120893 ATATTTTTAA
1 ATATTTTTAA
120903 ATATTT
1 ATATTT
120909 AAAGTGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:122208 original size:20 final size:21
Alignment explanation
Indices: 122183--122223 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
122173 TGTTGCCCCA
*
122183 ATTCATC-CAGTATCGATACT
1 ATTCATCTCAATATCGATACT
122203 ATTCATCTCAATATCGATACT
1 ATTCATCTCAATATCGATACT
122224 TGAACCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTCATCTCAATATCGATACT
Found at i:123997 original size:7 final size:7
Alignment explanation
Indices: 123985--124011 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
123975 TTACAGTAAA
123985 TCCCAAC
1 TCCCAAC
123992 TCCCAAC
1 TCCCAAC
123999 TCCCAAC
1 TCCCAAC
124006 TCCCAA
1 TCCCAA
124012 GTGGAGAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCAAC
Found at i:128684 original size:34 final size:33
Alignment explanation
Indices: 128615--128699 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
128605 GTAGAACCTC
* *
128615 TTGGTTGGTGATCAATTTATTAGAAATTTCATT
1 TTGGTTGGTGATCAACTTATTAAAAATTTCATT
* *
128648 TTGGTTGGTGGTTAACTTATTGAAAAATTT-ATTT
1 TTGGTTGGTGATCAACTTATT-AAAAATTTCA-TT
*
128682 TTGGTAT-GTGACCAACTT
1 TTGGT-TGGTGATCAACTT
128700 TGCACATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
33 19 0.45
34 22 0.52
35 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGGTTGGTGATCAACTTATTAAAAATTTCATT
Found at i:130675 original size:33 final size:33
Alignment explanation
Indices: 130638--130719 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
130628 ATTTGGCAAG
130638 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
* *
130671 TTGGAAATTTCATATTGGTTGGTGGCCAACTTA
1 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
*
130704 TTAGAAAATTCATCTT
1 TTGGAAAATTCATCTT
130720 TGATAGGTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (33 bp):
TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
Found at i:132637 original size:23 final size:23
Alignment explanation
Indices: 132611--132679 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
132601 CACCACAGCT
* *
132611 CATATAAATGTACCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* * *
132634 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
* * *
132657 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
132680 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:132866 original size:103 final size:103
Alignment explanation
Indices: 132699--132912 Score: 383
Period size: 103 Copynumber: 2.1 Consensus size: 103
132689 GTCCATAAGG
* *
132699 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
132764 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
* *
132802 ACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
*
132867 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
132905 ACCACATA
1 ACCACATA
132913 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
Found at i:134474 original size:21 final size:21
Alignment explanation
Indices: 134450--134494 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
134440 TTTTGTTCGT
* * *
134450 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGAGTACCGATTCCCC
*
134471 TTGAATGAGTACCGATTCCCC
1 TTGAAGGAGTACCGATTCCCC
134492 TTG
1 TTG
134495 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGAAGGAGTACCGATTCCCC
Found at i:137222 original size:28 final size:28
Alignment explanation
Indices: 137179--137233 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
137169 ATGCCGTTAT
*
137179 TTTCAAGCATTGGCTCAACAACATAATA
1 TTTCAAGCATTAGCTCAACAACATAATA
* * *
137207 TTTCAAGTATTAGCTCGACGACATAAT
1 TTTCAAGCATTAGCTCAACAACATAAT
137234 GTAAACAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (28 bp):
TTTCAAGCATTAGCTCAACAACATAATA
Found at i:137928 original size:6 final size:6
Alignment explanation
Indices: 137880--137918 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
137870 CCTTCCCCTT
137880 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCC
1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCC
137919 CACCTCCACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCTCC
Found at i:140678 original size:61 final size:61
Alignment explanation
Indices: 140613--140738 Score: 200
Period size: 61 Copynumber: 2.1 Consensus size: 61
140603 TAAAGTATAC
* *
140613 AATGGTCCTCTTACTATAGGGAAGCAACTTTATCAACTTCATT-GATTATTAAAAGTTACAA
1 AATGGTCCTCTGACTATAGGGAAGCAACTTTATCAACTTC-TTCAATTATTAAAAGTTACAA
* *
140674 AATGGTCCTCTGACTATAGGGAAGCAACTTTATCAAGTTCTTCAATTATTAAAAGTTACCA
1 AATGGTCCTCTGACTATAGGGAAGCAACTTTATCAACTTCTTCAATTATTAAAAGTTACAA
140735 AATG
1 AATG
140739 ATCTCCCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (61 bp):
AATGGTCCTCTGACTATAGGGAAGCAACTTTATCAACTTCTTCAATTATTAAAAGTTACAA
Found at i:141005 original size:61 final size:61
Alignment explanation
Indices: 140891--141011 Score: 147
Period size: 61 Copynumber: 2.0 Consensus size: 61
140881 AATAGTAGGG
* * *
140891 TGACCATTTTATAACTTTTAATAGTCAAGAGACTTAAATAAAGCAACATTCTATAGTCAAA
1 TGACCATTTTATAACTTTTAATAGTAAAGAGACTTAAATAAAACAACACTCTATAGTCAAA
* * **
140952 TGACCATTTTTTTAACTTTTAATAGTTAAAG-GACTT-AATAAAATAGTACTCTATAGTCAA
1 TGACCA-TTTTATAACTTTTAATAG-TAAAGAGACTTAAATAAAACAACACTCTATAGTCAA
141012 GGGACAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
61 25 0.49
62 22 0.43
63 4 0.08
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (61 bp):
TGACCATTTTATAACTTTTAATAGTAAAGAGACTTAAATAAAACAACACTCTATAGTCAAA
Found at i:147510 original size:25 final size:24
Alignment explanation
Indices: 147473--147529 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
147463 GTCCAGAAGC
*
147473 TTATTTAATTTTAAAAAATAAAAA
1 TTATTTAAATTTAAAAAATAAAAA
* *
147497 TTATTTCAAATTTAAAATATACAAA
1 TTATTT-AAATTTAAAAAATAAAAA
147522 -TATTTAAA
1 TTATTTAAA
147530 AAAAACTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.10
24 11 0.38
25 15 0.52
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TTATTTAAATTTAAAAAATAAAAA
Found at i:147513 original size:24 final size:25
Alignment explanation
Indices: 147473--147529 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
147463 GTCCAGAAGC
*
147473 TTATTTAATTTTAAAAA-ATAAAAA
1 TTATTTAAATTTAAAAATATAAAAA
*
147497 TTATTTCAAATTT-AAAATATACAAA
1 TTATTT-AAATTTAAAAATATAAAAA
147522 -TATTTAAA
1 TTATTTAAA
147530 AAAAACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 3 0.10
24 15 0.52
25 11 0.38
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATTTAAATTTAAAAATATAAAAA
Found at i:147560 original size:26 final size:26
Alignment explanation
Indices: 147511--147560 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
147501 TTCAAATTTA
* *
147511 AAATATACAAATATTTAAAAAAAACT
1 AAATATACAAATAATAAAAAAAAACT
147537 AAATATA-AAATAATAAAAATAAAA
1 AAATATACAAATAATAAAAA-AAAA
147561 ATTAAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATATACAAATAATAAAAAAAAACT
Found at i:147672 original size:18 final size:17
Alignment explanation
Indices: 147639--147671 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
147629 TTCTAAAATG
*
147639 ATAAATTATTAAAAAAC
1 ATAAAATATTAAAAAAC
147656 ATAAAATATTAAAAAA
1 ATAAAATATTAAAAAA
147672 AGTATATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAAATATTAAAAAAC
Found at i:149037 original size:13 final size:13
Alignment explanation
Indices: 148998--149040 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
148988 TGTTAACTAG
148998 ATAACATT-AAAC
1 ATAACATTAAAAC
* *
149010 ATTAATATAAAAAC
1 A-TAACATTAAAAC
149024 ATAACATTAAAAC
1 ATAACATTAAAAC
149037 ATAA
1 ATAA
149041 TATTCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 1 0.04
13 19 0.76
14 5 0.20
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAACATTAAAAC
Found at i:149066 original size:14 final size:13
Alignment explanation
Indices: 149006--149044 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
148996 AGATAACATT
*
149006 AAACATTAATATAA
1 AAACA-TAATATTA
*
149020 AAACATAACATTA
1 AAACATAATATTA
149033 AAACATAATATT
1 AAACATAATATT
149045 CAATTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
AAACATAATATTA
Found at i:149073 original size:19 final size:19
Alignment explanation
Indices: 149026--149073 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
149016 ATAAAAACAT
*
149026 AACATTAAAACATAATATTC
1 AACA-TAAAACATAATATTA
*
149046 AA-TTAAAAACATAATATTA
1 AACAT-AAAACATAATATTA
149065 AACATAAAA
1 AACATAAAA
149074 ACTAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (19 bp):
AACATAAAACATAATATTA
Found at i:150157 original size:21 final size:20
Alignment explanation
Indices: 150133--150182 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
150123 GCTCAAAAGT
*
150133 ATCGATCCCTTAAAGCAAATG
1 ATCGATCCCTT-AACCAAATG
* **
150154 ATCGATCTCTTCCCCAAATG
1 ATCGATCCCTTAACCAAATG
150174 ATCGATCCC
1 ATCGATCCC
150183 AAACTTACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (20 bp):
ATCGATCCCTTAACCAAATG
Found at i:152106 original size:64 final size:64
Alignment explanation
Indices: 151986--152130 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 64
151976 ATTCACATGA
* ** * * *
151986 AGTGTATCGATGCACTTCTTTAAAATAAAAACATCGAATGTCATTAGTGTATCGATGCACAAG-T
1 AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTAGTGTACCGATGCA-AAGAT
* * *
152050 AGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTTA-TGTACCGATGCATAGAT
1 AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCA-TTAGTGTACCGATGCAAAGAT
*
152114 TGTGCATCGATGCACCC
1 AGTGCATCGATGCACCC
152131 GTCAAGGGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.03
64 64 0.93
65 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTAGTGTACCGATGCAAAGAT
Found at i:153014 original size:2 final size:2
Alignment explanation
Indices: 153007--153047 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
152997 AATGCATTAT
153007 TA 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 TA T
153048 TATGCCTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:157334 original size:64 final size:63
Alignment explanation
Indices: 157247--157404 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 63
157237 TTCAATGTGC
* * * * * *
157247 ATCGATGCACATGAAGTGTATCGATGCACTTCTTTAAAATAAAAACATCGAATGTCA-TTAGTGT
1 ATCGATGCACAAGTAGTGCATCGATGCAC-CCCTTAAAATAAAAACATCGAATGGCATTTA-TGT
* *
157311 ATCGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATACAAACATCGAATGGGATTTATGT
1 ATCGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGGCATTTATGT
* * *
157374 ACCGATGCA-TAGATTGTGCATCGATGCACCC
1 ATCGATGCACAAG-TAGTGCATCGATGCACCC
157405 GTCAAGGGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 2 0.02
63 50 0.62
64 29 0.36
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (63 bp):
ATCGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGGCATTTATGT
Found at i:157998 original size:18 final size:18
Alignment explanation
Indices: 157975--158047 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
157965 AGGGATTATC
*
157975 AGTGGTCCTTCGGGACGT
1 AGTGGTCCTTCGGGACAT
* *
157993 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
158012 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
158031 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
158048 AATATTCAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 3 0.06
20 14 0.29
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:158023 original size:38 final size:38
Alignment explanation
Indices: 157972--158048 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
157962 TCGAGGGATT
* *
157972 ATCAGTGGTCCTTCGGGACGTAGTGGTTCTTCGGAACA
1 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
*
158010 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
158048 A
1 A
158049 ATATTCAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.27
Consensus pattern (38 bp):
ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
Found at i:162603 original size:19 final size:19
Alignment explanation
Indices: 162579--162618 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
162569 ATGGAATACA
162579 ATGTATTTGTACATTATTG
1 ATGTATTTGTACATTATTG
162598 ATGTATTTGTACATTATTG
1 ATGTATTTGTACATTATTG
162617 AT
1 AT
162619 CTTTGTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (19 bp):
ATGTATTTGTACATTATTG
Found at i:167958 original size:9 final size:8
Alignment explanation
Indices: 167936--168020 Score: 50
Period size: 9 Copynumber: 10.4 Consensus size: 8
167926 CGAACCCGAA
*
167936 AATATTAT
1 AATATAAT
167944 ATATATAATT
1 A-ATATAA-T
*
167954 AATATAAA
1 AATATAAT
*
167962 AATGTAA-
1 AATATAAT
*
167969 AATATTAT
1 AATATAAT
167977 ATATATAATT
1 A-ATATAA-T
*
167987 AATATAAA
1 AATATAAT
167995 AATATAA-
1 AATATAAT
*
168002 AATATTAT
1 AATATAAT
168010 -ATATATAT
1 AATATA-AT
168018 AAT
1 AAT
168021 CGGGGCGGGG
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
7 15 0.25
8 17 0.28
9 24 0.40
10 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (8 bp):
AATATAAT
Found at i:168020 original size:35 final size:33
Alignment explanation
Indices: 167934--168016 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
167924 CCCGAACCCG
*
167934 AAAATATTATATATATAATTAATATAAAAATGT
1 AAAATATTATATATATAATTAATATAAAAATAT
167967 AAAATATTATATATATAATTAATATAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAATAT
168000 AAAATATTATATATATA
1 AAAATATTATATATATA
168017 TAATCGGGGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAAAATAT
Found at i:168189 original size:13 final size:13
Alignment explanation
Indices: 168171--168196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
168161 CTAATCTTAG
168171 CTTATAGTATCAA
1 CTTATAGTATCAA
168184 CTTATAGTATCAA
1 CTTATAGTATCAA
168197 AGCTAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
CTTATAGTATCAA
Found at i:173958 original size:30 final size:30
Alignment explanation
Indices: 173924--173981 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
173914 CACTAATTGG
*
173924 TCACTAATATTATCATTTGTTACAAAATGA
1 TCACTAACATTATCATTTGTTACAAAATGA
* **
173954 TCACTAACGTTATTGTTTGTTACAAAAT
1 TCACTAACATTATCATTTGTTACAAAAT
173982 TGTCACTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (30 bp):
TCACTAACATTATCATTTGTTACAAAATGA
Found at i:174004 original size:30 final size:30
Alignment explanation
Indices: 173939--174010 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
173929 AATATTATCA
* *
173939 TTTGTTACAAAATGATCACTAACGTTATTG
1 TTTGTTACAAAATGATCACTAACGTAATAG
*
173969 TTTGTTACAAAATTG-TCACTCAATGTAATAG
1 TTTGTTACAAAA-TGATCACT-AACGTAATAG
174000 -TTGTTAACAAA
1 TTTGTT-ACAAA
174011 TCGTTACTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
TTTGTTACAAAATGATCACTAACGTAATAG
Found at i:174094 original size:3 final size:3
Alignment explanation
Indices: 174086--174123 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
174076 ATCCTTTGAC
*
174086 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
174124 AATATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:175150 original size:64 final size:65
Alignment explanation
Indices: 175061--175241 Score: 262
Period size: 64 Copynumber: 2.8 Consensus size: 65
175051 TTTAAAAAAT
*
175061 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATACC-ATTAATAATGA-
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATACCTAGTAATAAT-AC
175124 A
65 A
175125 ACATCGAATGCAATTCGA-GCATCGATGCATAAGTAGTGCATCGATGCAT-CCTAGTAATAATAC
1 ACATCGAATGCAATTC-ATGCATCGATGCATAAGTAGTGCATCGATGCATACCTAGTAATAATAC
175188 A
65 A
* * * * *
175189 ACATCGAATACATTTTATGCACCGATGCATCAGTAGTGCATCGATGCATACCT
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATACCT
175242 TCATTAAAAG
Statistics
Matches: 106, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
63 4 0.04
64 98 0.92
65 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (65 bp):
ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATACCTAGTAATAATACA
Found at i:175902 original size:31 final size:31
Alignment explanation
Indices: 175864--175926 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
175854 AGGGTCGAGG
*
175864 GTTTACCTATGTTCTTC-GGAACATATGGACT
1 GTTTACCTAGGTTCTTCGGGAAC-TATGGACT
*
175895 GTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTAGGTTCTTCGGGAACTATGGACT
175926 G
1 G
175927 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGAACTATGGACT
Found at i:179195 original size:60 final size:62
Alignment explanation
Indices: 179047--179197 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 62
179037 GAAGGTGTAT
** * *
179047 CGATGCATTGGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGTAATTCGTGCAT
1 CGATGCATAAGTAGTGCATCGATGCATCCCA-TAATAATGAAACATCGAA-GTAATTCATGCAC
* *
179111 CGATGCATAAGTAGTGCATCGATGCAT-CC-TAGTAAT-ACAACATCGAA-TACATTTATGCAC
1 CGATGCATAAGTAGTGCATCGATGCATCCCATAATAATGA-AACATCGAAGTA-ATTCATGCAC
*
179171 CGATGCATCAGTAGTGCATCGATGCAT
1 CGATGCATAAGTAGTGCATCGATGCAT
179198 ACCTTCATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
59 2 0.03
60 34 0.44
61 15 0.19
63 2 0.03
64 25 0.32
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (62 bp):
CGATGCATAAGTAGTGCATCGATGCATCCCATAATAATGAAACATCGAAGTAATTCATGCAC
Found at i:186985 original size:21 final size:21
Alignment explanation
Indices: 186948--187030 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
186938 TTTTGGTGCA
*
186948 GAGGGAATCGA-TCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
**
186968 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCCT
*
186989 GAAGGGGAACCGATTCCCCCCACA
1 G-A-GGGAACCGATTCCCCCC-CT
187013 G-GGGAACCGATTCCCCCC
1 GAGGGAACCGATTCCCCCC
187031 ACAGGGGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 10 0.19
21 25 0.47
22 1 0.02
23 16 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Done.