Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006072.1 Hibiscus syriacus cultivar Beakdansim tig00014376_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: 145821
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:8466 original size:21 final size:21
Alignment explanation
Indices: 8440--8543 Score: 73
Period size: 21 Copynumber: 4.7 Consensus size: 21
8430 AGTATTAAAA
* *
8440 TAAAAATATTATTAAAAATTT
1 TAAAAATATAATTAAAAATAT
* *
8461 TAAAAATAAAATTAAAGATAT
1 TAAAAATATAATTAAAAATAT
*
8482 TAAAAATATAAAATGTTAAAATAT
1 TAAAAATAT--AAT-TAAAAATAT
* * * *
8506 TGAAAATACAAAATAAAAATGT
1 TAAAAATA-TAATTAAAAATAT
8528 TAAAAATCATATATTA
1 TAAAAAT-ATA-ATTA
8544 TATATTTTCA
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
21 25 0.40
22 14 0.23
23 9 0.15
24 14 0.23
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAAATATAATTAAAAATAT
Found at i:8511 original size:24 final size:25
Alignment explanation
Indices: 8472--8519 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
8462 AAAAATAAAA
*
8472 TTAAAGATATTAAAAATATAAAATG
1 TTAAAGATATTAAAAATACAAAATG
*
8497 TTAAA-ATATTGAAAATACAAAAT
1 TTAAAGATATTAAAAATACAAAAT
8520 AAAAATGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAAGATATTAAAAATACAAAATG
Found at i:8803 original size:21 final size:20
Alignment explanation
Indices: 8779--8830 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8769 ATACGTGAAT
* *
8779 TATCACATCAGTATCGTAGAA
1 TATCACATCAATATAGTA-AA
*
8800 TATCATATCAATATAGTAAA
1 TATCACATCAATATAGTAAA
8820 TCATCACATCA
1 T-ATCACATCA
8831 TCACAAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (20 bp):
TATCACATCAATATAGTAAA
Found at i:8832 original size:8 final size:8
Alignment explanation
Indices: 8819--8853 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
8809 AATATAGTAA
8819 ATCATCAC
1 ATCATCAC
8827 ATCATCAC
1 ATCATCAC
8835 AAATCATCAC
1 --ATCATCAC
8845 ATCATCAC
1 ATCATCAC
8853 A
1 A
8854 GTTAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (8 bp):
ATCATCAC
Found at i:8838 original size:18 final size:18
Alignment explanation
Indices: 8817--8853 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8807 TCAATATAGT
8817 AAATCATCACATCATCAC
1 AAATCATCACATCATCAC
8835 AAATCATCACATCATCAC
1 AAATCATCACATCATCAC
8853 A
1 A
8854 GTTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATCATCACATCATCAC
Found at i:9091 original size:27 final size:27
Alignment explanation
Indices: 9060--9112 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
9050 TTTCTCCTAA
9060 GTTATTTTTTATGATTATTCTATGTGG
1 GTTATTTTTTATGATTATTCTATGTGG
9087 GTTATTTTTTATGATTATTCTATGTG
1 GTTATTTTTTATGATTATTCTATGTG
9113 AGAATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.60
Consensus pattern (27 bp):
GTTATTTTTTATGATTATTCTATGTGG
Found at i:10466 original size:19 final size:20
Alignment explanation
Indices: 10411--10522 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 20
10401 CACAGAAGTC
* *
10411 AAATTCGCAA-TGCGATTTCC
1 AAATTCGCAACT-CAATTTCT
*
10431 ACATTCGCAACACTCAATTTC-
1 AAATTCGC-A-ACTCAATTTCT
*
10452 AAATTCGTAACTCAATTTCT
1 AAATTCGCAACTCAATTTCT
* *
10472 GAATTCGCAACTCGATTT-T
1 AAATTCGCAACTCAATTTCT
* *
10491 CGAATTCGCAACACAAATTT-T
1 -AAATTCGCAACTC-AATTTCT
*
10512 AATTTCGCAAC
1 AAATTCGCAAC
10523 AGGTTTTATT
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
19 11 0.15
20 44 0.59
21 12 0.16
22 7 0.09
23 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATTCGCAACTCAATTTCT
Found at i:10478 original size:20 final size:20
Alignment explanation
Indices: 10442--10502 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
10432 CATTCGCAAC
* *
10442 ACTCAATTTC-AAATTCGTA
1 ACTCAATTTCTGAATTCGCA
10461 ACTCAATTTCTGAATTCGCA
1 ACTCAATTTCTGAATTCGCA
*
10481 ACTCGATTT-TCGAATTCGCA
1 ACTCAATTTCT-GAATTCGCA
10501 AC
1 AC
10503 ACAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.30
20 26 0.70
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (20 bp):
ACTCAATTTCTGAATTCGCA
Found at i:10518 original size:20 final size:20
Alignment explanation
Indices: 10495--10546 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
10485 GATTTTCGAA
10495 TTCGCAACACAAATTTTAAT
1 TTCGCAACACAAATTTTAAT
** *
10515 TTCGC-A-ACAGGTTTTATT
1 TTCGCAACACAAATTTTAAT
10533 TTCGCAACACAAAT
1 TTCGCAACACAAAT
10547 ATTTTGGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 9 0.36
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
TTCGCAACACAAATTTTAAT
Found at i:11507 original size:24 final size:24
Alignment explanation
Indices: 11454--11499 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11444 GTATTCAAAA
*
11454 TTTGATCTTGGCCAATACCCGGAC
1 TTTGATCTTGGCCAATACACGGAC
**
11478 TTTGATCTTGGTTAATACACGG
1 TTTGATCTTGGCCAATACACGG
11500 TTTTTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (24 bp):
TTTGATCTTGGCCAATACACGGAC
Found at i:15553 original size:21 final size:21
Alignment explanation
Indices: 15528--15579 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
15518 GTGAATCGGG
*
15528 CTCTTGAACGGTGTGAGGGAC
1 CTCTTGAACGGTGGGAGGGAC
*
15549 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGAC
15570 CTCTTGAACG
1 CTCTTGAACG
15580 ATGACAGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.38, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGAC
Found at i:15954 original size:21 final size:21
Alignment explanation
Indices: 15903--15956 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
15893 AGTAGATACC
*
15903 TCACCACGTAAAACACCATTG
1 TCACCACGTAAAACACCACTG
* * *
15924 TCATCGCGTAAAACATCTACT-
1 TCACCACGTAAAACA-CCACTG
15945 TCACCACGTAAA
1 TCACCACGTAAA
15957 GACCGTACCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.22
Consensus pattern (21 bp):
TCACCACGTAAAACACCACTG
Found at i:16020 original size:21 final size:21
Alignment explanation
Indices: 15996--16036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15986 GTCGTCATGT
*
15996 AAAGTACCGACCTCATCACGC
1 AAAGCACCGACCTCATCACGC
*
16017 AAAGCACTGACCTCATCACG
1 AAAGCACCGACCTCATCACG
16037 TAACTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACGC
Found at i:17559 original size:22 final size:22
Alignment explanation
Indices: 17529--17576 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17519 GATGGAGATA
*
17529 GACGTATTTCACCAGAGATGGG
1 GACGAATTTCACCAGAGATGGG
* *
17551 GACGAATTTCGCCGGAGATGGG
1 GACGAATTTCACCAGAGATGGG
17573 GACG
1 GACG
17577 GATGTCGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.38, T:0.19
Consensus pattern (22 bp):
GACGAATTTCACCAGAGATGGG
Found at i:21097 original size:21 final size:21
Alignment explanation
Indices: 21071--21170 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
21061 ATCAGTTCCC
21071 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
* *
21092 AGAATCACAATGCGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
21112 CA-AATTCGCATTGCGATTTTTC
1 -AGAA-TCGCAACGCGATTATGA
*
21134 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
21155 A-AATCGCAACGCGATT
1 AGAATCGCAACGCGATT
21171 CTTTCTATCG
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
19 1 0.02
20 19 0.32
21 36 0.61
22 3 0.05
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:21161 original size:20 final size:20
Alignment explanation
Indices: 21136--21370 Score: 163
Period size: 20 Copynumber: 11.7 Consensus size: 20
21126 GATTTTTCAG
* *
21136 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* * *
21156 AATCGCAACGCG-ATTCTTTC
1 AATCGCAACGCGAATAC-GTA
* * * * *
21176 TATCGCAACGAGTATCCATAA
1 AATCGCAACGCGAATACGT-A
** *
21197 AATCGCAACGCGTGTCCGTA
1 AATCGCAACGCGAATACGTA
*
21217 AATCGCAACGAGAATACGTAA
1 AATCGCAACGCGAATACGT-A
* *
21238 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
21258 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * *
21278 AATCACAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
21298 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
21319 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
21339 AATCACAACGCG-AT-CGATA
1 AATCGCAACGCGAATACG-TA
*
21358 ATTCGCAACGCGA
1 AATCGCAACGCGA
21371 TCTCCGGTAT
Statistics
Matches: 168, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
18 2 0.01
19 16 0.10
20 98 0.58
21 52 0.31
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:21199 original size:41 final size:41
Alignment explanation
Indices: 21177--21348 Score: 229
Period size: 41 Copynumber: 4.2 Consensus size: 41
21167 GATTCTTTCT
* *
21177 ATCGCAACGAGTATCCATAAAATCGCAACGCGTGTCCGTAA
1 ATCGCAACGAGAATACATAAAATCGCAACGCGTGTCCGTAA
* *
21218 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACATAAAATCGCAACGCGTGTCCGTAA
* * * *
21259 ATCGCAACGAGAATACGT-AAATCACAATGCGTATCCGTAA
1 ATCGCAACGAGAATACATAAAATCGCAACGCGTGTCCGTAA
* * *
21299 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACATAAAATCGCAACGCGTGTCCGTAA
*
21340 ATCACAACG
1 ATCGCAACG
21349 CGATCGATAA
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 37 0.31
41 83 0.69
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATACATAAAATCGCAACGCGTGTCCGTAA
Found at i:21232 original size:81 final size:81
Alignment explanation
Indices: 21136--21348 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 81
21126 GATTTTTCAG
* * ** ** * *
21136 AATCGCAACGCGAATATG-AAAATCGCAACGCG-ATTCTTTCTATCGCAACGAGTATCCATAAAA
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGTA-TCCGTAAATCGCAACGAGAATACAT-AAA
* *
21199 TCGCAACGCGTGTCCGTA
64 TCACAACGCGTATCCGTA
*
21217 AATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATC
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACATAAATC
*
21282 ACAATGCGTATCCGTA
66 ACAACGCGTATCCGTA
* *
21298 AATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCACAACG
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
21349 CGATCGATAA
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 83 0.72
82 32 0.28
83 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (81 bp):
AATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACATAAATC
ACAACGCGTATCCGTA
Found at i:21432 original size:20 final size:20
Alignment explanation
Indices: 21407--21614 Score: 213
Period size: 20 Copynumber: 10.2 Consensus size: 20
21397 GATTCGCAAC
21407 GCGATTTACGGATACGCGTT
1 GCGATTTACGGATACGCGTT
* *
21427 GCGATTTTACGTAT-TGTCGTT
1 GCGA-TTTACGGATACG-CGTT
*
21448 GCGATTTACGGATACGCATT
1 GCGATTTACGGATACGCGTT
* * *
21468 GCGATTTACGTATTCTCGTT
1 GCGATTTACGGATACGCGTT
*
21488 GCGATTTACAGATACGCGTT
1 GCGATTTACGGATACGCGTT
* * * *
21508 GCGATTTACGTATTCTCATT
1 GCGATTTACGGATACGCGTT
21528 GCGATTTACGGATACGCGTT
1 GCGATTTACGGATACGCGTT
* * *
21548 GCGATTTTATGTAT-TGTCGTT
1 GCGA-TTTACGGATACG-CGTT
*
21569 GCGATTTACAGATACGCGTT
1 GCGATTTACGGATACGCGTT
*
21589 GCGATTTTACGGATACTCGTT
1 GCGA-TTTACGGATACGCGTT
21610 GCGAT
1 GCGAT
21615 AGTCAGAATA
Statistics
Matches: 150, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
20 99 0.66
21 51 0.34
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GCGATTTACGGATACGCGTT
Found at i:21487 original size:40 final size:41
Alignment explanation
Indices: 21407--21614 Score: 321
Period size: 41 Copynumber: 5.1 Consensus size: 41
21397 GATTCGCAAC
*
21407 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTT
1 GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
*
21448 GCGATTTACGGATACGCATTGCGA-TTTACGTATTCTCGTT
1 GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
* *
21488 GCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCATT
1 GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
* *
21528 GCGATTTACGGATACGCGTTGCGATTTTATGTATTGTCGTT
1 GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
* * *
21569 GCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTT
1 GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
21610 GCGAT
1 GCGAT
21615 AGTCAGAATA
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
40 75 0.49
41 77 0.51
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
GCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
Found at i:21638 original size:81 final size:81
Alignment explanation
Indices: 21407--21671 Score: 331
Period size: 81 Copynumber: 3.3 Consensus size: 81
21397 GATTCGCAAC
* * *
21407 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGA
1 GCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGA
* *
21472 TTTACGTATTCTCGTT
66 TTTATGTATTGTCGTT
*
21488 GCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCATTGCGATTTACGGATACGCGTTGCGA
1 GCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGA
21552 TTTTATGTATTGTCGTT
66 -TTTATGTATTGTCGTT
* * * *
21569 GCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAATA-GCGTTGC
1 GCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGAT-TTAC-GGATACGCGTTGC
* *
21632 GATTTATATGTTCG-CGTT
64 GATTTATGTATT-GTCGTT
* * *
21650 GCGATTTTCATATTCGCGTTGC
1 GCGATTTACAGATACGCGTTGC
21672 TATTCTGGAA
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
80 37 0.23
81 92 0.56
82 29 0.18
83 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (81 bp):
GCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGA
TTTATGTATTGTCGTT
Found at i:21648 original size:20 final size:20
Alignment explanation
Indices: 21625--21671 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
21615 AGTCAGAATA
*
21625 GCGTTGCGATTTAT-ATGTTC
1 GCGTTGCGATTT-TCATATTC
21645 GCGTTGCGATTTTCATATTC
1 GCGTTGCGATTTTCATATTC
21665 GCGTTGC
1 GCGTTGC
21672 TATTCTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATTTTCATATTC
Found at i:21669 original size:40 final size:39
Alignment explanation
Indices: 21407--21671 Score: 214
Period size: 40 Copynumber: 6.6 Consensus size: 39
21397 GATTCGCAAC
* * *
21407 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTT
1 GCGATTTACAGATACGCGTTGCGATTTTATGT-TCG-CGTT
* * * *
21448 GCGATTTACGGATACGCATTGCGA-TTTACGTATTCTCGTT
1 GCGATTTACAGATACGCGTTGCGATTTTA--TGTTCGCGTT
* * *
21488 GCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCATT
1 GCGATTTACAGATACGCGTTGCGATTTTA--TGTTCGCGTT
* *
21528 GCGATTTACGGATACGCGTTGCGATTTTATGTATTGTCGTT
1 GCGATTTACAGATACGCGTTGCGATTTTATGT-TCG-CGTT
* * *
21569 GCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTT
1 GCGATTTACAGATACGCGTTGCGATTTTA-TG-TTCGCGTT
*
21610 GCGATAGT-CAGAATA-GCGTTGCGATTTATATGTTCGCGTT
1 GCGAT-TTACAG-ATACGCGTTGCGATTT-TATGTTCGCGTT
* * *
21650 GCGATTTTCATATTCGCGTTGC
1 GCGATTTACAGATACGCGTTGC
21672 TATTCTGGAA
Statistics
Matches: 187, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
39 5 0.03
40 89 0.48
41 84 0.45
42 8 0.04
43 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (39 bp):
GCGATTTACAGATACGCGTTGCGATTTTATGTTCGCGTT
Found at i:25848 original size:75 final size:75
Alignment explanation
Indices: 25764--25917 Score: 308
Period size: 75 Copynumber: 2.1 Consensus size: 75
25754 CGTTGAGGTA
25764 AATGCCAAAGTTAAGACTTGAAAGCAATTTACTGAGAAAACTAAAATATGATTTCAATGAATTGA
1 AATGCCAAAGTTAAGACTTGAAAGCAATTTACTGAGAAAACTAAAATATGATTTCAATGAATTGA
25829 TCCTAAAATG
66 TCCTAAAATG
25839 AATGCCAAAGTTAAGACTTGAAAGCAATTTACTGAGAAAACTAAAATATGATTTCAATGAATTGA
1 AATGCCAAAGTTAAGACTTGAAAGCAATTTACTGAGAAAACTAAAATATGATTTCAATGAATTGA
25904 TCCTAAAATG
66 TCCTAAAATG
25914 AATG
1 AATG
25918 ACAGGTGGAC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (75 bp):
AATGCCAAAGTTAAGACTTGAAAGCAATTTACTGAGAAAACTAAAATATGATTTCAATGAATTGA
TCCTAAAATG
Found at i:27003 original size:29 final size:29
Alignment explanation
Indices: 26971--27031 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
26961 TGTTACCAAC
*
26971 CGTCAATTGATTTTGATTATGACAGACCA
1 CGTCAATTAATTTTGATTATGACAGACCA
* *
27000 CGTCAATTAATTTTGATTCTGACAGATCA
1 CGTCAATTAATTTTGATTATGACAGACCA
27029 CGT
1 CGT
27032 GTTGTCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (29 bp):
CGTCAATTAATTTTGATTATGACAGACCA
Found at i:27145 original size:12 final size:12
Alignment explanation
Indices: 27128--27154 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27118 AACAAAGCTA
27128 ATCAAATAGACT
1 ATCAAATAGACT
27140 ATCAAATAGACT
1 ATCAAATAGACT
27152 ATC
1 ATC
27155 TGTATCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (12 bp):
ATCAAATAGACT
Found at i:28879 original size:14 final size:14
Alignment explanation
Indices: 28860--28889 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28850 ATCAAAGTCC
28860 CTGACTTTGTATCT
1 CTGACTTTGTATCT
*
28874 CTGACTTTGTGTCT
1 CTGACTTTGTATCT
28888 CT
1 CT
28890 CTTGATCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (14 bp):
CTGACTTTGTATCT
Found at i:40340 original size:30 final size:29
Alignment explanation
Indices: 40294--40352 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
40284 TAGTGCATGG
*
40294 GGAAGCCAACCGGAGCA-TCTGACGTCTTCA
1 GGAAACCAACCGGAGCACTC-GAC-TCTTCA
*
40324 GGAAACCAATCGGAGCACTCGACTCTTCA
1 GGAAACCAACCGGAGCACTCGACTCTTCA
40353 AGCTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 18 0.69
31 2 0.08
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.17
Consensus pattern (29 bp):
GGAAACCAACCGGAGCACTCGACTCTTCA
Found at i:46258 original size:56 final size:56
Alignment explanation
Indices: 46197--46339 Score: 216
Period size: 58 Copynumber: 2.5 Consensus size: 56
46187 TTGTATTAAG
*
46197 TAATTTATTTATTGAACATGATTAATTAAATTAATTATAATCATTACAAA-TTAAAA
1 TAATTTATTTATTGAATATGATTAATTAAATTAATTATAATCATTA-AAAGTTAAAA
* *
46253 TAATTTATTGGAATTGAATATGAATAATTAAATTAATTATAATCATTAAAAGTTAAAA
1 TAATTTATT--TATTGAATATGATTAATTAAATTAATTATAATCATTAAAAGTTAAAA
*
46311 CAATTTATTTATTGAATATGATTAATTAA
1 TAATTTATTTATTGAATATGATTAATTAA
46340 CTAATTAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
56 27 0.35
57 3 0.04
58 48 0.62
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (56 bp):
TAATTTATTTATTGAATATGATTAATTAAATTAATTATAATCATTAAAAGTTAAAA
Found at i:46500 original size:24 final size:23
Alignment explanation
Indices: 46469--46514 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
46459 TTTACTTGAT
46469 ATTGAAAATATGAATAACATAAG
1 ATTGAAAATATGAATAACATAAG
* *
46492 ATTGAAAAATTTGAATAATATAA
1 ATTG-AAAATATGAATAACATAA
46515 AACTTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (23 bp):
ATTGAAAATATGAATAACATAAG
Found at i:47597 original size:22 final size:23
Alignment explanation
Indices: 47572--47623 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
47562 TTCTGGGGGA
*
47572 AAATAAAGAAAACAAAAT-AATT
1 AAATAAAGAAAACAAAATAAAAT
* * *
47594 AAATTATGAAAACATAATAAAAT
1 AAATAAAGAAAACAAAATAAAAT
47617 AAATAAA
1 AAATAAA
47624 ATTGAATATG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
AAATAAAGAAAACAAAATAAAAT
Found at i:47890 original size:2 final size:2
Alignment explanation
Indices: 47885--48105 Score: 127
Period size: 2 Copynumber: 107.0 Consensus size: 2
47875 ACTTTGAATT
* * *
47885 TA TA TA GTA TA TA AA TA TA AA CTA TA GTT TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA
47928 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA CTA TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA
* * * *
47971 AA TA -A TT TA TA TA GTT TA TA T- TA -A TA AA CTA TA TA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
48011 TA TA TA GT- TCA TA TG TA AA CTA TA TA -A TA TA TA TA -A TA TA
1 TA TA TA -TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
48051 TA TA TA TA GT- TCA TA TG TA AA CTA TA TA GTA TA TA TA GA T- TA
1 TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
48093 TA TA TA GTA TA TA
1 TA TA TA -TA TA TA
48106 GAGAAAATAA
Statistics
Matches: 170, Mismatches: 24, Indels: 50
0.70 0.10 0.20
Matches are distributed among these distances:
1 9 0.05
2 139 0.82
3 22 0.13
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:47961 original size:20 final size:19
Alignment explanation
Indices: 47885--48105 Score: 151
Period size: 20 Copynumber: 11.7 Consensus size: 19
47875 ACTTTGAATT
*
47885 TATATAGTATATAAATATA
1 TATATAGTATATATATATA
*
47904 AACTATAGT-T-TATATATA
1 TA-TATAGTATATATATATA
47922 TATATA-TATATATATATA
1 TATATAGTATATATATATA
*
47940 TATATA-TATAGTATATA-C
1 TATATAGTATA-TATATATA
* *
47958 TATATAGTATATAAATAATT
1 TATATAGTATATATAT-ATA
47978 TATATAGT-T-TATAT-TA
1 TATATAGTATATATATATA
* *
47994 -ATAAACTATATAT-TATA
1 TATATAGTATATATATATA
* *
48011 TATATAGTTCATATGTAAACTA
1 TATATAG-T-ATATATATA-TA
48033 TATAATA-TATATAATATATA
1 TAT-ATAGTATAT-ATATATA
* *
48053 TATATAGT-TCATATGTAAA
1 TATATAGTAT-ATATATATA
*
48072 CTATATAGTATATATAGATTA
1 -TATATAGTATATATATA-TA
48093 TATATAGTATATA
1 TATATAGTATATA
48106 GAGAAAATAA
Statistics
Matches: 159, Mismatches: 21, Indels: 43
0.71 0.09 0.19
Matches are distributed among these distances:
15 5 0.03
16 4 0.03
17 10 0.06
18 44 0.28
19 24 0.15
20 57 0.36
21 7 0.04
22 5 0.03
23 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
TATATAGTATATATATATA
Found at i:47962 original size:42 final size:42
Alignment explanation
Indices: 47885--48105 Score: 142
Period size: 42 Copynumber: 5.3 Consensus size: 42
47875 ACTTTGAATT
* *
47885 TATATAGTATATAAATATAAAC--TATAGT-T-TATATATATA
1 TATATA-TATATATATATATACTATATAGTATATATATATATA
47924 TATATATATATATATATATA-TATATAGTATATACTATATAGTA
1 TATATATATATATATATATACTATATAGTATATA-TATATA-TA
* * * * *
47967 TATA-A-ATA-ATTTATATAGTTTATATTA-ATAAACTATATA
1 TATATATATATATATATATACTATATAGTATATATA-TATATA
* * *
48006 TTATATATATAGTTCATATGTAAACTATATAATATATATA-ATATA
1 -TATATATATA--T-ATATATATACTATATAGTATATATATATATA
* * *
48051 TATATATAGT-TCATATGTAAACTATATAGTATATATAGAT-TA
1 TATATATA-TAT-ATATATATACTATATAGTATATATATATATA
48093 TATATAGTATATA
1 TATATA-TATATA
48106 GAGAAAATAA
Statistics
Matches: 148, Mismatches: 14, Indels: 37
0.74 0.07 0.19
Matches are distributed among these distances:
38 12 0.08
39 15 0.10
40 20 0.14
41 13 0.09
42 46 0.31
43 11 0.07
44 8 0.05
45 6 0.04
46 13 0.09
47 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (42 bp):
TATATATATATATATATATACTATATAGTATATATATATATA
Found at i:48213 original size:19 final size:19
Alignment explanation
Indices: 48189--48225 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48179 ATGACCAACA
* *
48189 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
48208 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
48226 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:48235 original size:20 final size:20
Alignment explanation
Indices: 48210--48365 Score: 79
Period size: 20 Copynumber: 7.8 Consensus size: 20
48200 CGATCTCTAA
*
48210 ATCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATTTCCAGT
**
48230 ATCGCAAATC-AGTTTCCAG-
1 ATCGCAACGCGA-TTTCCAGT
** *
48249 ATTCGCAACGCGATTTTGACT
1 A-TCGCAACGCGATTTCCAGT
** *
48270 ATCGCATTGCGATTTTCCA-A
1 ATCGCAACGCGA-TTTCCAGT
* *
48290 ATTCGCAACGCGA-TTCTGACT
1 A-TCGCAACGCGATTTC-CAGT
* *
48311 ATCGCAACACGATCTCCAGT
1 ATCGCAACGCGATTTCCAGT
**
48331 ATCGCAAATC-AGTTTCCAGT
1 ATCGCAACGCGA-TTTCCAGT
*
48351 TTCGCAACGCGATTT
1 ATCGCAACGCGATTT
48366 TGACTATCGC
Statistics
Matches: 98, Mismatches: 27, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
19 6 0.06
20 73 0.74
21 19 0.19
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGATTTCCAGT
Found at i:48302 original size:21 final size:21
Alignment explanation
Indices: 48242--48304 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
48232 CGCAAATCAG
*
48242 TTTCCAGATTCGCAACGCGAT
1 TTTCCAAATTCGCAACGCGAT
* * **
48263 TTT--GACTATCGCATTGCGAT
1 TTTCCAAAT-TCGCAACGCGAT
48283 TTTCCAAATTCGCAACGCGAT
1 TTTCCAAATTCGCAACGCGAT
48304 T
1 T
48305 CTGACTATCG
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.43
21 14 0.47
22 2 0.07
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (21 bp):
TTTCCAAATTCGCAACGCGAT
Found at i:48385 original size:101 final size:101
Alignment explanation
Indices: 48210--48395 Score: 354
Period size: 101 Copynumber: 1.8 Consensus size: 101
48200 CGATCTCTAA
*
48210 ATCGCAACGCGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAACGCGATTTTGACTATCGC
1 ATCGCAACACGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAACGCGATTTTGACTATCGC
48275 ATTGCGATTTTCCAAATTCGCAACGCGATTCTGACT
66 ATTGCGATTTTCCAAATTCGCAACGCGATTCTGACT
*
48311 ATCGCAACACGATCTCCAGTATCGCAAATCAGTTTCCAGTTTCGCAACGCGATTTTGACTATCGC
1 ATCGCAACACGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAACGCGATTTTGACTATCGC
48376 ATTGCGATTTTCCAAATTCG
66 ATTGCGATTTTCCAAATTCG
48396 AGTTACGATT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (101 bp):
ATCGCAACACGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAACGCGATTTTGACTATCGC
ATTGCGATTTTCCAAATTCGCAACGCGATTCTGACT
Found at i:49218 original size:16 final size:17
Alignment explanation
Indices: 49197--49234 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
49187 TACTACTATG
49197 TATAA-ACTATATAGTT
1 TATAACACTATATAGTT
49213 TATAAACACTATATAGTT
1 TAT-AACACTATATAGTT
49231 TATA
1 TATA
49235 CATAGTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 3 0.15
18 14 0.70
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (17 bp):
TATAACACTATATAGTT
Found at i:49274 original size:11 final size:11
Alignment explanation
Indices: 49258--49452 Score: 91
Period size: 11 Copynumber: 17.4 Consensus size: 11
49248 AAATATAAAC
49258 TATATAATTTA
1 TATATAATTTA
*
49269 TATATAGTTTA
1 TATATAATTTA
**
49280 TAT-TAATAAA
1 TATATAATTTA
49290 CTATATAATTTA
1 -TATATAATTTA
* *
49302 TACAT-A-GTA
1 TATATAATTTA
49311 TATATAATTTA
1 TATATAATTTA
*
49322 TAATTATACA-TAA
1 T-A-TATA-ATTTA
49335 TATATAAATATAGTA
1 TATAT-AAT-T--TA
*
49350 TATATAGTTTA
1 TATATAATTTA
* *
49361 TATATAGTTCA
1 TATATAATTTA
49372 TATATACA---A
1 TATATA-ATTTA
* *
49381 GATATAGTTTA
1 TATATAATTTA
*
49392 TATATGTAGTTTA
1 TATA--TAATTTA
49405 TATAT-ATATTA
1 TATATAAT-TTA
*
49416 TATATACTTTA
1 TATATAATTTA
*
49427 TATATACTTTA
1 TATATAATTTA
*
49438 TATATAAATTA
1 TATATAATTTA
49449 TATA
1 TATA
49453 GTTTATACAT
Statistics
Matches: 142, Mismatches: 22, Indels: 40
0.70 0.11 0.20
Matches are distributed among these distances:
9 12 0.08
10 7 0.05
11 85 0.60
12 9 0.06
13 20 0.14
14 3 0.02
15 6 0.04
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (11 bp):
TATATAATTTA
Found at i:49294 original size:33 final size:35
Alignment explanation
Indices: 49220--49317 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 35
49210 GTTTATAAAC
*
49220 ACTATATAGTTTATACATAGTAGTATATAAATATAA
1 ACTATATAATTTATACATAGTA-TATATAAATATAA
* * *
49256 ACTATATAATTTATATATAGTTTATAT-TA-ATAA
1 ACTATATAATTTATACATAGTATATATAAATATAA
49289 ACTATATAATTTATACATAGTATATATAA
1 ACTATATAATTTATACATAGTATATATAA
49318 TTTATAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 29 0.54
34 1 0.02
35 5 0.09
36 19 0.35
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (35 bp):
ACTATATAATTTATACATAGTATATATAAATATAA
Found at i:49334 original size:17 final size:17
Alignment explanation
Indices: 49294--49346 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
49284 AATAAACTAT
*
49294 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
49314 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
49331 ATAATATATAAATATA
1 ATAATTTATAATTATA
49347 GTATATATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:49355 original size:26 final size:26
Alignment explanation
Indices: 49291--49346 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
49281 ATTAATAAAC
*
49291 TATATAATTTATACATAGTATATATAA
1 TATATAA-TTATACATAATATATATAA
*
49318 TTTATAATTATACATAATATATA-AA
1 TATATAATTATACATAATATATATAA
49343 TATA
1 TATA
49347 GTATATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 15 0.58
27 6 0.23
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
TATATAATTATACATAATATATATAA
Found at i:49386 original size:31 final size:30
Alignment explanation
Indices: 49204--49472 Score: 163
Period size: 31 Copynumber: 8.5 Consensus size: 30
49194 ATGTATAAAC
*
49204 TATATAGTTTATA-A-ACACTATATAGTTTA
1 TATATAGTTTATATATA-AATATATAGTTTA
* *
49233 TACATAGTAGTATATAAATATAAACTATATAATTTA
1 T--ATA-TAGT-T-TATATATAAA-TATATAGTTTA
*
49269 TATATAGTTTATATTAATAAACTATATAATTTA
1 TATATAGTTTATA-T-ATAAA-TATATAGTTTA
* * *
49302 TACATAG--TATATAT-AATTTATAATTATA
1 TATATAGTTTATATATAAATATATAGTT-TA
* * * *
49330 CATAATA-TATAAATATAGTATATATAGTTTA
1 TAT-ATAGTTTATATATA-AATATATAGTTTA
* *
49361 TATATAGTTCATATATACAAGATATAGTTTA
1 TATATAGTTTATATATA-AATATATAGTTTA
*
49392 TATATGTAGTTTATATATATATTATATATACTTTA
1 TATA--TAGTTTATATATA-A--ATATATAGTTTA
*
49427 TATATACTTTATATATAAATTATATAGTTTA
1 TATATAGTTTATATATAAA-TATATAGTTTA
* *
49458 TACATAGTATATATA
1 TATATAGTTTATATA
49473 GTTTGTACAT
Statistics
Matches: 190, Mismatches: 28, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
27 8 0.04
28 5 0.03
29 6 0.03
30 11 0.06
31 58 0.31
32 15 0.08
33 53 0.28
34 6 0.03
35 16 0.08
36 12 0.06
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (30 bp):
TATATAGTTTATATATAAATATATAGTTTA
Found at i:49464 original size:11 final size:11
Alignment explanation
Indices: 49348--49476 Score: 101
Period size: 11 Copynumber: 12.1 Consensus size: 11
49338 ATAAATATAG
49348 TATATATAGTT
1 TATATATAGTT
49359 TATATATAGTT
1 TATATATAGTT
* *
49370 CATATATA--C
1 TATATATAGTT
* *
49379 AAGATATAGTT
1 TATATATAGTT
49390 TATATATGTAGTT
1 TATATA--TAGTT
49403 TATATATA-TAT
1 TATATATAGT-T
*
49414 TATATATACTT
1 TATATATAGTT
*
49425 TATATATACTT
1 TATATATAGTT
**
49436 TATATATA-AA
1 TATATATAGTT
49446 T-TATATAGTT
1 TATATATAGTT
*
49456 TATACATAG--
1 TATATATAGTT
49465 TATATATAGTT
1 TATATATAGTT
49476 T
1 T
49477 GTACATAATA
Statistics
Matches: 95, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
9 20 0.21
10 3 0.03
11 60 0.63
12 1 0.01
13 11 0.12
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (11 bp):
TATATATAGTT
Found at i:49473 original size:20 final size:19
Alignment explanation
Indices: 49390--49492 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
49380 AGATATAGTT
*
49390 TATATATGTAGTTTAT--A
1 TATATATATAGTTTATACA
*
49407 TATATAT-TA-TATATAC-
1 TATATATATAGTTTATACA
* * *
49423 TTTATATATACTTTATATA
1 TATATATATAGTTTATACA
*
49442 TAAATTATATAGTTTATACA
1 TATA-TATATAGTTTATACA
*
49462 TAGTATATATAGTTTGTACA
1 TA-TATATATAGTTTATACA
49482 TAATATATATA
1 T-ATATATATA
49493 CTTTCCATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
15 4 0.06
16 8 0.12
17 9 0.13
18 5 0.07
19 2 0.03
20 38 0.56
21 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (19 bp):
TATATATATAGTTTATACA
Found at i:55268 original size:35 final size:35
Alignment explanation
Indices: 55222--55291 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
55212 AGGCGGAGTT
*
55222 ATTCTAGTTAGCAAAACTACAAGACTAAAAGAAAC
1 ATTCTACTTAGCAAAACTACAAGACTAAAAGAAAC
* *
55257 ATTCTACTTAGCAAAATTTCAAGACTAAAAGAAAC
1 ATTCTACTTAGCAAAACTACAAGACTAAAAGAAAC
55292 GGTTACTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (35 bp):
ATTCTACTTAGCAAAACTACAAGACTAAAAGAAAC
Found at i:55421 original size:19 final size:19
Alignment explanation
Indices: 55397--55434 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
55387 TCTATCAAGA
55397 CAAAGGAAATGGTTTTTAT
1 CAAAGGAAATGGTTTTTAT
55416 CAAAGGAAATGGTTTTTAT
1 CAAAGGAAATGGTTTTTAT
55435 TACTACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
CAAAGGAAATGGTTTTTAT
Found at i:58652 original size:18 final size:17
Alignment explanation
Indices: 58613--58655 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
58603 ATCATATGGA
58613 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
58629 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
58647 TATTATTAT
1 TATTATTAT
58656 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:61563 original size:8 final size:8
Alignment explanation
Indices: 61550--61588 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
61540 GAACATTTCA
*
61550 TGCATTCT
1 TGCATTTT
61558 TGCA-TTT
1 TGCATTTT
61565 TGCATTTT
1 TGCATTTT
*
61573 TGCCTTTT
1 TGCATTTT
61581 TGCATTTT
1 TGCATTTT
61589 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:62740 original size:22 final size:22
Alignment explanation
Indices: 62717--62778 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
62707 CAAAAAGGGC
62717 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
62740 AAAAAGGAAAAAATAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
62761 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
62779 TAAAAAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:64498 original size:36 final size:36
Alignment explanation
Indices: 64390--64513 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
64380 ATTGAAAACA
* * *
64390 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
64426 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
64463 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
64499 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
64514 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:64607 original size:67 final size:68
Alignment explanation
Indices: 64489--64645 Score: 205
Period size: 68 Copynumber: 2.4 Consensus size: 68
64479 TTTCGTCTAT
* **
64489 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTT-TT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
64550 CTCC
66 -TCC
* * *
64554 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
64619 TCC
66 TCC
* *
64622 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
64646 ACAGATATCT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 28 0.35
68 30 0.38
69 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
TCC
Found at i:65469 original size:105 final size:105
Alignment explanation
Indices: 65285--66000 Score: 1032
Period size: 105 Copynumber: 7.0 Consensus size: 105
65275 GCACTCGAGG
* * ** *
65285 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
65350 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
65391 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
65456 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65496 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65561 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
65601 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65666 GCCAATTTCAACTTCACAACGAAGGATATTGTACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
65706 CAATGCAAGTTCAACTTCACGACGAAGGGA-----------CAACAACAACTTCCCAATCTAAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
65760 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
65800 CAACGCAAATTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
65860 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
65900 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* * *
65965 AACCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
66001 TGGAACAATG
Statistics
Matches: 558, Mismatches: 35, Indels: 34
0.89 0.06 0.05
Matches are distributed among these distances:
94 90 0.16
100 81 0.15
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 299 0.54
106 75 0.13
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:65733 original size:43 final size:43
Alignment explanation
Indices: 65672--65827 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
65662 CAGAGCCAAT
* * *
65672 TTCAACTTCACAACGAAGGATATTGTACTCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGAACTCCAGACAAAGCAAA
* * *** *
65715 TTCAACTTCACGACGAAGGGACAACAACAACTTCCCA-ATCTAAGAGCCAAT
1 TTCAACTTCACAACGAA-GGA-TA-TTGAAC-T-CCAGA-C-AA-AG-CAAA
* *
65766 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAA
1 TTCAACTTCACAACGAAGGATATTGAACTCCAGACAAAGCAAA
*
65809 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
65828 GACCGCTGCT
Statistics
Matches: 86, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
43 37 0.43
44 4 0.05
45 3 0.03
46 6 0.07
47 4 0.05
48 6 0.07
49 3 0.03
50 4 0.05
51 19 0.22
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGAACTCCAGACAAAGCAAA
Found at i:65751 original size:94 final size:94
Alignment explanation
Indices: 65642--65830 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
65632 CGCTGCTTGT
* *
65642 CAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGTACTCCAGAC
1 CAACAACAACTTCCCAATCTAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
* *
65707 AATGCAAGTTCAACTTCACGACGAAGGGA
66 AACGCAAATTCAACTTCACGACGAAGGGA
65736 CAACAACAACTTCCCAATCTAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
1 CAACAACAACTTCCCAATCTAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
65801 AACGCAAATTCAACTTCACGACGAAGGGA
66 AACGCAAATTCAACTTCACGACGAAGGGA
65830 C
1 C
65831 CGCTGCTTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (94 bp):
CAACAACAACTTCCCAATCTAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
AACGCAAATTCAACTTCACGACGAAGGGA
Found at i:65864 original size:94 final size:90
Alignment explanation
Indices: 65665--65947 Score: 282
Period size: 100 Copynumber: 3.0 Consensus size: 90
65655 CCAATCTCAG
* *
65665 AGCC-AATTTCAACTTCACAACGAAGGATATTGTACTCCAGACAATGCAAGTTCAACTTCACGAC
1 AGCCAAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* ** ** *
65729 GAAGGGACAACAACAACTTCCCAATCTAAG
66 GAAGGGAC--C-GCTGCTTGTCAA-C-AAA
*
65759 AGCC-AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAATTCAACTTCACGAC
1 AGCCAAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
65823 GAAGGGACCGCTGCTTGTCAACAAA
66 GAAGGGACCGCTGCTTGTCAACAAA
* * *
65848 ATTTCATTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCA
1 A--GC---C--A---AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
* * *
65913 ACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA
56 ACTTCACGACGAAGGGACCGCTGCTTGTCAACAAA
65948 CAATTTCCCG
Statistics
Matches: 162, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
89 3 0.02
90 1 0.01
91 8 0.05
92 1 0.01
94 70 0.43
100 79 0.49
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (90 bp):
AGCCAAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGCTTGTCAACAAA
Found at i:66592 original size:34 final size:36
Alignment explanation
Indices: 66548--66649 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
66538 TTTCGTCCTA
66548 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
66583 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
66618 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
66650 GTTCTACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:67079 original size:18 final size:17
Alignment explanation
Indices: 67040--67082 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
67030 ATCATATGGA
67040 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
67056 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
67074 TATTATTAT
1 TATTATTAT
67083 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:67135 original size:17 final size:16
Alignment explanation
Indices: 67113--67165 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
67103 AATTATTTTC
67113 ATTTATTTTTTTACTAT
1 ATTTATTTTTTTA-TAT
*
67130 ATTTATTATTATTATAT
1 ATTTATT-TTTTTATAT
* *
67147 ATATATTTCTTTA-AT
1 ATTTATTTTTTTATAT
67162 ATTT
1 ATTT
67166 TACTTATAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 4 0.13
17 16 0.53
18 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATTTTTTTATAT
Found at i:67195 original size:22 final size:24
Alignment explanation
Indices: 67136--67196 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 24
67126 CTATATTTAT
*
67136 TATTATTATATATATATTTCTTTAA
1 TATTATTATATATATATGTC-TTAA
*
67161 TATT-TTA-CT-TATA-GTC-TAA
1 TATTATTATATATATATGTCTTAA
67180 TATTATTATATATATAT
1 TATTATTATATATATAT
67197 ATGTAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 3 0.10
22 8 0.28
23 1 0.03
24 3 0.10
25 4 0.14
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTATTATATATATATGTCTTAA
Found at i:70349 original size:21 final size:21
Alignment explanation
Indices: 70323--70364 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
70313 CATTATGGTG
*
70323 AAATAATAATGTTTTAGGTAT
1 AAATAATAATATTTTAGGTAT
70344 AAATAATAATATTTTAGGTAT
1 AAATAATAATATTTTAGGTAT
70365 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (21 bp):
AAATAATAATATTTTAGGTAT
Found at i:70625 original size:21 final size:21
Alignment explanation
Indices: 70599--70639 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
70589 AAATTGTTAA
70599 AAATAATAATATTTTAGGTAG
1 AAATAATAATATTTTAGGTAG
*
70620 AAATAATAATGTTTTAGGTA
1 AAATAATAATATTTTAGGTA
70640 ATTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (21 bp):
AAATAATAATATTTTAGGTAG
Found at i:80154 original size:20 final size:21
Alignment explanation
Indices: 80129--80180 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
80119 TTTTCCCAAT
*
80129 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
80149 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
80170 TCGCAATGCGA
1 TCGCAATGCGA
80181 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:80198 original size:20 final size:20
Alignment explanation
Indices: 80173--80242 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
80163 GGGAAAATCG
80173 CAATGCGATACTGACTATCA
1 CAATGCGATACTGACTATCA
80193 CAATGCGATACTGACTATCA
1 CAATGCGATACTGACTATCA
* *
80213 CAATGCGATACTTACTATCG
1 CAATGCGATACTGACTATCA
80233 CAATGCGATA
1 CAATGCGATA
80243 ATACAAAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (20 bp):
CAATGCGATACTGACTATCA
Found at i:80840 original size:19 final size:19
Alignment explanation
Indices: 80802--80857 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
80792 TTCGAGAATG
80802 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
80822 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
80841 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
80858 CCAAATCGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:80890 original size:19 final size:19
Alignment explanation
Indices: 80863--81041 Score: 118
Period size: 19 Copynumber: 10.1 Consensus size: 19
80853 CGAAACCAAA
*
80863 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
80882 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
80896 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
80915 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
80934 TTGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
80948 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
80967 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
80981 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
81000 TCCACGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
81020 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
81040 TC
1 TC
81042 AACCAAAAGA
Statistics
Matches: 125, Mismatches: 18, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
14 29 0.23
16 7 0.06
17 7 0.06
19 50 0.40
20 31 0.25
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:80946 original size:52 final size:52
Alignment explanation
Indices: 80863--80979 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
80853 CGAAACCAAA
* **
80863 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
* *
80915 TCGCGTTGCGATTTTTATTTTGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
80967 TCGCGTTGCGATT
1 TCGCGTTGCGATT
80980 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.45
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:80954 original size:14 final size:14
Alignment explanation
Indices: 80937--80992 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
80927 TTTTATTTTG
80937 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
80951 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
80970 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
80984 CGTTGCGAT
1 CGTTGCGAT
80993 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:80955 original size:33 final size:33
Alignment explanation
Indices: 80931--81016 Score: 145
Period size: 33 Copynumber: 2.6 Consensus size: 33
80921 TGCGATTTTT
*
80931 ATTTTGCGTTGCGATTCTCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTTGCGATAGTC
80964 ATTTCGCGTTGCGATTCTCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTTGCGATAGTC
*
80997 ATTTCCACGTTGCGATTCTC
1 ATTT-CGCGTTGCGATTCTC
81017 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTTGCGATAGTC
Found at i:80990 original size:52 final size:52
Alignment explanation
Indices: 80884--80990 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
80874 TTTTCATTTC
** * **
80884 GCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATTTT
1 GCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATTTCTACGTT
80936 GCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATTCTCT-CGTT
1 GCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATT-TCTACGTT
80988 GCG
1 GCG
80991 ATAGTCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 47 0.96
53 2 0.04
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.44
Consensus pattern (52 bp):
GCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATTTCTACGTT
Found at i:81018 original size:20 final size:20
Alignment explanation
Indices: 80984--81041 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
80974 GCGATTCTCT
**
80984 CGTTGCGATAGTCATTTCCA
1 CGTTGCGATTCTCATTTCCA
*
81004 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCA
*
81024 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
81042 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCA
Found at i:83209 original size:21 final size:21
Alignment explanation
Indices: 83185--83335 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
83175 TCATTCCTCG
83185 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
83206 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
83227 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** *
83248 AGAGGCCCCTATCATTCC--TCG
1 AGAGTCCCCTCCCA--CCGTTCA
83269 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
83290 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
83311 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
83332 AGAG
1 AGAG
83336 CCCGATTCAC
Statistics
Matches: 86, Mismatches: 37, Indels: 15
0.62 0.27 0.11
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 78 0.91
22 3 0.03
23 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:83209 original size:42 final size:42
Alignment explanation
Indices: 83163--83335 Score: 197
Period size: 42 Copynumber: 4.1 Consensus size: 42
83153 CCTATCATTG
*
83163 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
* * * * * * *
83205 AAGAGGCCACTGTCATCCCTCAAGAGTCCACTCCTATCGTTG
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
*
83247 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
* * * *
83289 AAGAGGCCACTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTC
1 AAGAGGCCACTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTC
83331 AAGAG
1 AAGAG
83336 CCCGATTCAC
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 4 0.04
42 102 0.94
43 2 0.02
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (42 bp):
AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
Found at i:83314 original size:84 final size:84
Alignment explanation
Indices: 83130--83305 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
83120 CCCGACTCGC
83130 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
83195 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
83214 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
83279 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
83298 CTGTCATC
1 CTGTCATC
83306 GTTGAAGAGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:83335 original size:84 final size:84
Alignment explanation
Indices: 83130--83335 Score: 315
Period size: 84 Copynumber: 2.5 Consensus size: 84
83120 CCCGACTCGC
* *
83130 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
83195 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * *
83214 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
83279 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** * *
83298 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTGAAGAG
83336 CCCGATTCAC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
84 109 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:84869 original size:14 final size:14
Alignment explanation
Indices: 84850--84902 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
84840 AATGAAAATT
84850 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
84864 GCAACGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
84883 GCAACGAGAGAATC
1 GCAACGAGAGAATC
84897 GCAACG
1 GCAACG
84903 CAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:84878 original size:33 final size:33
Alignment explanation
Indices: 84836--84917 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
84826 CTATCAAAAT
*
84836 GCGAAATGAAAATTGCAACGAGAGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
84869 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
* * *
84902 GCAAAATTAAATTCGC
1 GCGAAATGAAAATCGC
84918 GTTGCGGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
Found at i:84967 original size:33 final size:32
Alignment explanation
Indices: 84917--85043 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
84907 ATTAAATTCG
*
84917 CGTTGCGGTTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
84950 CGTCGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
84983 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
85016 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
85044 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:84995 original size:66 final size:66
Alignment explanation
Indices: 84910--85042 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
84900 ACGCAAAATT
* *
84910 AAATTCGCGTTGCGGTTTTCATTTCGCATTGCGATTCCCTCGTCGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTCGCGATTTTCATTTCGCATTGC
84975 G
66 G
* *
84976 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTCGCGATTTTCATTTCGCATTGC
85041 G
66 G
85042 A
1 A
85043 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTCGCGATTTTCATTTCGCATTGC
G
Found at i:85009 original size:19 final size:19
Alignment explanation
Indices: 84913--85043 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
84903 CAAAATTAAA
* *
84913 TTCGCGTTGCGGTTTTCAT
1 TTCGCATTGCGATTTTCAT
*
84932 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
* *
84948 CTCG--TCGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
84965 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
84979 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
84998 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
85014 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
85031 TTCGCATTGCGAT
1 TTCGCATTGCGAT
85044 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 16, Indels: 30
0.64 0.13 0.24
Matches are distributed among these distances:
14 22 0.27
16 13 0.16
17 13 0.16
19 33 0.41
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:85780 original size:19 final size:20
Alignment explanation
Indices: 85725--85771 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
85715 GAAACTTAAA
*
85725 ATCGCAACACGAAAATGACT
1 ATCGCAACACGGAAATGACT
*
85745 ATCGCAACACGGAAATGGCT
1 ATCGCAACACGGAAATGACT
85765 ATCGCAA
1 ATCGCAA
85772 TGCGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGGAAATGACT
Found at i:85800 original size:14 final size:14
Alignment explanation
Indices: 85781--85837 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
85771 ATGCGAAATG
85781 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
85795 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
85814 AAAATCGCAACGAC
1 AAAATCGCAACGAC
85828 AAAATCGCAA
1 AAAATCGCAA
85838 TGCGAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:85853 original size:19 final size:18
Alignment explanation
Indices: 85765--85861 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
85755 GGAAATGGCT
*
85765 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAA-CAAA
85784 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAACAAA
*
85798 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAA-CAAA
85817 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAACAAA
85831 ATCGCAATGCGAAACACAA
1 ATCGCAATGCGAAACA-AA
*
85850 ATCGCATTGCGA
1 ATCGCAATGCGA
85862 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 4 0.06
19 30 0.47
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAACAAA
Found at i:85855 original size:33 final size:33
Alignment explanation
Indices: 85765--85844 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
85755 GGAAATGGCT
85765 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
85798 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
85831 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
85845 CACAAATCGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:85892 original size:14 final size:14
Alignment explanation
Indices: 85873--85930 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
85863 TTTCATTTCG
*
85873 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
85887 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
85903 CGTATTGCGATTTTGT
1 CG--TTGCGATTTTGT
85919 CGTTGCGATTTT
1 CGTTGCGATTTT
85931 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:85937 original size:33 final size:33
Alignment explanation
Indices: 85856--85946 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
85846 ACAAATCGCA
* *
85856 TTGCGATTTTCATTTCGCGTTGCAATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
85889 TTGCGA-TTTCATTTCGTATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
85921 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
85947 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:85953 original size:19 final size:20
Alignment explanation
Indices: 85931--85974 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
85921 TTGCGATTTT
85931 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
** *
85950 CATTTCCGTGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
85970 CATTT
1 CATTT
85975 TCGTGTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:85965 original size:20 final size:20
Alignment explanation
Indices: 85940--85983 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
85930 TCATTTCGCA
85940 TTGCGATAGCCATTTCCGTG
1 TTGCGATAGCCATTTCCGTG
* *
85960 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGTG
85980 TTGC
1 TTGC
85984 TCAAGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGTG
Found at i:86493 original size:18 final size:18
Alignment explanation
Indices: 86467--86511 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
86457 GTCGATCAGA
*
86467 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
86485 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
86503 TGATGGCTC
1 TGATGGCTC
86512 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:87871 original size:20 final size:20
Alignment explanation
Indices: 87823--87881 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
87813 AATAGTTTCT
** *
87823 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
87843 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
87863 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
87882 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:88171 original size:22 final size:22
Alignment explanation
Indices: 88144--88187 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
88134 GATGGAGATA
*
88144 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
*
88166 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
88188 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:88401 original size:20 final size:20
Alignment explanation
Indices: 88376--88427 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
88366 ATTATGTATT
88376 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
88396 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
88416 ATCTCGTTGCGA
1 ATCGCGTTGCGA
88428 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:88491 original size:19 final size:20
Alignment explanation
Indices: 88450--88496 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
88440 GCAATGCGAT
*
88450 ATTGCGATAGTAAGTATCGC
1 ATTGCGATAGTAAGTATCAC
*
88470 ATTGCGATAGTCA-TATCAC
1 ATTGCGATAGTAAGTATCAC
88489 ATTGCGAT
1 ATTGCGAT
88497 TTTCCCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (20 bp):
ATTGCGATAGTAAGTATCAC
Found at i:90800 original size:2 final size:2
Alignment explanation
Indices: 90793--90848 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
90783 ATCACGTATG
90793 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
90835 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
90849 GGTCAGTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94584 original size:24 final size:22
Alignment explanation
Indices: 94544--94620 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
94534 ATGCAATTAA
94544 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
94563 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
94586 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
94607 TGCATCGATGCACT
1 TGCATCGATGCACT
94621 TCAAAGGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:95354 original size:2 final size:2
Alignment explanation
Indices: 95347--95412 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
95337 AAATTAAGTA
95347 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
95389 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
95413 GTTTATAAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96205 original size:23 final size:23
Alignment explanation
Indices: 96172--96239 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
96162 CATCTTATAT
96172 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
96195 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
96218 GGCACTCCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
96240 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:96554 original size:55 final size:55
Alignment explanation
Indices: 96488--96602 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
96478 TTACTTGAAT
96488 TATATGATGATATGGGTATTTCTTTGTGAAGCAATATGTATGTACTTGATATATA
1 TATATGATGATATGGGTATTTCTTTGTGAAGCAATATGTATGTACTTGATATATA
96543 TATATGATGATATGGGTATTTCTTTGTGAAGCAATATGTATGTACTTGATATATA
1 TATATGATGATATGGGTATTTCTTTGTGAAGCAATATGTATGTACTTGATATATA
96598 TATAT
1 TATAT
96603 ATATATTTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.44
Consensus pattern (55 bp):
TATATGATGATATGGGTATTTCTTTGTGAAGCAATATGTATGTACTTGATATATA
Found at i:98360 original size:40 final size:40
Alignment explanation
Indices: 98316--98397 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
98306 TGCATGTTTA
* *
98316 TAATACACTTCGGTGTATATAGTGGACACGACCTTATGTG
1 TAATACACTTCAGTATATATAGTGGACACGACCTTATGTG
* * *
98356 TAATACACTTCAGTATATATGGTGGGCACGACTTTATGTG
1 TAATACACTTCAGTATATATAGTGGACACGACCTTATGTG
98396 TA
1 TA
98398 GCACTACGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
TAATACACTTCAGTATATATAGTGGACACGACCTTATGTG
Found at i:98594 original size:47 final size:46
Alignment explanation
Indices: 98495--98653 Score: 164
Period size: 47 Copynumber: 3.5 Consensus size: 46
98485 GTAAGCATAC
* * * * * *
98495 AAATAAGCTTAC-AGGCTTTTGGAA-T-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGA-GCTTATGAAATTAAATGGTAAGTATTTTGATA
98539 AAATAAGCTTACGAGCTTAT-AAGATTAAATGGTAAGTATTTTGTATA
1 AAATAAGCTTACGAGCTTATGAA-ATTAAATGGTAAGTATTTTG-ATA
* * * *
98586 AAATAAGCTTATGAGCTTATGGAATTTAAATGGTAATTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GAAATTAAATGGTAAGTATTTTGATA
98633 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
98654 TGATAAAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 18 0.19
45 2 0.02
46 14 0.14
47 42 0.43
48 18 0.19
49 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGAAATTAAATGGTAAGTATTTTGATA
Found at i:101312 original size:7 final size:7
Alignment explanation
Indices: 101300--101362 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
101290 CGGATTAAGA
101300 GTTTAGG
1 GTTTAGG
101307 GTTTAGG
1 GTTTAGG
*
101314 GTTTAGT
1 GTTTAGG
*
101321 GTTTATG
1 GTTTAGG
* *
101328 ATTTAAG
1 GTTTAGG
101335 GTTTA-G
1 GTTTAGG
**
101341 GTTTATA
1 GTTTAGG
101348 GTTTAGG
1 GTTTAGG
101355 GTTTAGG
1 GTTTAGG
101362 G
1 G
101363 CTCATTACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:101346 original size:20 final size:20
Alignment explanation
Indices: 101307--101361 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
101297 AGAGTTTAGG
101307 GTTTAGGGTTTAGTGTTTAT-
1 GTTTAGGGTTTAG-GTTTATA
*
101327 GATTTAAGGTTTAGGTTTATA
1 G-TTTAGGGTTTAGGTTTATA
101348 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
101362 GCTCATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
GTTTAGGGTTTAGGTTTATA
Found at i:101857 original size:11 final size:11
Alignment explanation
Indices: 101815--101905 Score: 61
Period size: 11 Copynumber: 8.7 Consensus size: 11
101805 CATATTTTTA
*
101815 TTTTATTATAT
1 TTTTAATATAT
101826 TTTTAA-A-A-
1 TTTTAATATAT
*
101834 TTTT-ATAGAAT
1 TTTTAATA-TAT
101845 TTTTAATATAT
1 TTTTAATATAT
101856 TTTTAA-A-AT
1 TTTTAATATAT
101865 TTTATAAT-TAT
1 TTT-TAATATAT
*** *
101876 CAATAATGTAT
1 TTTTAATATAT
101887 TTTTAATATAT
1 TTTTAATATAT
101898 TTTTAATA
1 TTTTAATA
101906 ATGTAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 6 0.10
10 10 0.16
11 37 0.60
12 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:101872 original size:21 final size:21
Alignment explanation
Indices: 101813--101872 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
101803 ATCATATTTT
* *
101813 TATTTTATTATATTTTTAA-A
1 TATTTTATAAAATTTTTAATA
*
101833 -ATTTTATAGAATTTTTAATA
1 TATTTTATAAAATTTTTAATA
101853 TATTTT-TAAAATTTTATAAT
1 TATTTTATAAAATTTT-TAAT
101873 TATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 15 0.45
20 9 0.27
21 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATAAAATTTTTAATA
Found at i:101880 original size:28 final size:29
Alignment explanation
Indices: 101821--101880 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
101811 TTTATTTTAT
* *
101821 TATATTTTTAAAATTTTATAGAATTTTTAA
1 TATATTTTTAAAATTTTATA-AATTATCAA
101851 TATATTTTTAAAATTTTAT-AATTATCAA
1 TATATTTTTAAAATTTTATAAATTATCAA
101879 TA
1 TA
101881 ATGTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.32
30 19 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTTTTAAAATTTTATAAATTATCAA
Found at i:114298 original size:25 final size:25
Alignment explanation
Indices: 114264--114311 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
114254 GAATTGCTCA
114264 TTATATTTCACAAAAACATTTGGGT
1 TTATATTTCACAAAAACATTTGGGT
114289 TTATATTTCACAAAAACATTTGG
1 TTATATTTCACAAAAACATTTGG
114312 AATAAGGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
TTATATTTCACAAAAACATTTGGGT
Found at i:117672 original size:58 final size:58
Alignment explanation
Indices: 117603--117719 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
117593 TCGGGTCGGA
**
117603 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCGGTTTTTTTAAGTGTGATATTCAGG
1 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
* * *
117661 TCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAATTTTTTTAAGTGTGATATTTAGG
1 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
117719 T
1 T
117720 TGAGTTCGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.19, C:0.09, G:0.29, T:0.43
Consensus pattern (58 bp):
TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
Found at i:122349 original size:21 final size:21
Alignment explanation
Indices: 122325--122375 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
122315 GCAGAATCCT
*
122325 TTTGCATCAGCTCGGGCATAA
1 TTTGTATCAGCTCGGGCATAA
122346 TTTGTATCAGCTCGGGCATAA
1 TTTGTATCAGCTCGGGCATAA
122367 TTTGTATCA
1 TTTGTATCA
122376 TTAGTCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (21 bp):
TTTGTATCAGCTCGGGCATAA
Found at i:124046 original size:7 final size:7
Alignment explanation
Indices: 124036--124099 Score: 74
Period size: 7 Copynumber: 9.1 Consensus size: 7
124026 TTAATTTTAA
124036 TTAAAAT
1 TTAAAAT
124043 TTAAAAT
1 TTAAAAT
*
124050 TCAAAAT
1 TTAAAAT
*
124057 TCAAAAT
1 TTAAAAT
**
124064 AAAAAAT
1 TTAAAAT
124071 TTAAAAT
1 TTAAAAT
*
124078 TCAAAAT
1 TTAAAAT
*
124085 TAAAAAT
1 TTAAAAT
124092 TTAAAAT
1 TTAAAAT
124099 T
1 T
124100 CAAATTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (7 bp):
TTAAAAT
Found at i:124063 original size:21 final size:21
Alignment explanation
Indices: 124034--124103 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
124024 TATTAATTTT
* *
124034 AATT-AAAATTTAAAATTCAA
1 AATTCAAAATTAAAAATTTAA
*
124054 AATTCAAAATAAAAAATTTAA
1 AATTCAAAATTAAAAATTTAA
124075 AATTCAAAATTAAAAATTTAA
1 AATTCAAAATTAAAAATTTAA
124096 AATTCAAA
1 AATTCAAA
124104 TTTATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 4 0.09
21 41 0.91
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTCAAAATTAAAAATTTAA
Found at i:126216 original size:12 final size:12
Alignment explanation
Indices: 126199--126223 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126189 TTTTTCTAAC
126199 AGAGCGCAAGTA
1 AGAGCGCAAGTA
126211 AGAGCGCAAGTA
1 AGAGCGCAAGTA
126223 A
1 A
126224 ATATTAGAAA
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:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (12 bp):
AGAGCGCAAGTA
Found at i:131767 original size:32 final size:31
Alignment explanation
Indices: 131725--131825 Score: 112
Period size: 32 Copynumber: 3.2 Consensus size: 31
131715 AAGAGTCGAG
* *
131725 GGTTACCTATGTCTTTCGAGACATATGGATA
1 GGTTACCTATGTCCTTCGAGACATATGGACA
*
131756 GTGTTACCTATGTCCTTCGGGACATATGGACA
1 G-GTTACCTATGTCCTTCGAGACATATGGACA
* ** *
131788 GGATTACCTATGTTCTAAGAAACATATGGACA
1 GG-TTACCTATGTCCTTCGAGACATATGGACA
*
131820 GTTTAC
1 GGTTAC
131826 TTAGGTTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 6 0.10
32 53 0.90
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGAGACATATGGACA
Found at i:132690 original size:32 final size:32
Alignment explanation
Indices: 132648--132725 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
132638 TTGAGGGTGT
*
132648 TACACGTGACATGTGCCACATCATCATTTATG
1 TACACGTGACATGTGCAACATCATCATTTATG
* * *
132680 TACACATGACATGTGCAACATCATTATTTGTG
1 TACACGTGACATGTGCAACATCATCATTTATG
*
132712 TACATGTGACATGT
1 TACACGTGACATGT
132726 ACCATGTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (32 bp):
TACACGTGACATGTGCAACATCATCATTTATG
Found at i:133641 original size:19 final size:19
Alignment explanation
Indices: 133586--133632 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
133576 TTAGTTTACT
133586 ATTATAATTGTAAATTTTC
1 ATTATAATTGTAAATTTTC
133605 ATTATAATTGTAAATTTTC
1 ATTATAATTGTAAATTTTC
133624 ATTATAATT
1 ATTATAATT
133633 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
ATTATAATTGTAAATTTTC
Found at i:135789 original size:62 final size:62
Alignment explanation
Indices: 135690--135814 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 62
135680 AGAGTCGAGG
**** *
135690 GTTTACCTATGTTCTTCGGGACATATGGATTGTTTACCTATG-TTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACAAATTACCTA-GATTCTTCAGGATC-TATGGACT
135752 GTTTACCTATGTTCTTCGGGACATATGGACAAATTACCTAGATTCTTCAGGATCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACAAATTACCTAGATTCTTCAGGATCTATGGACT
135814 G
1 G
135815 GTCATTCGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 1 0.02
62 54 0.96
63 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACAAATTACCTAGATTCTTCAGGATCTATGGACT
Found at i:135799 original size:31 final size:31
Alignment explanation
Indices: 135690--135781 Score: 175
Period size: 31 Copynumber: 3.0 Consensus size: 31
135680 AGAGTCGAGG
*
135690 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
135721 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
135752 GTTTACCTATGTTCTTCGGGACATATGGAC
1 GTTTACCTATGTTCTTCGGGACATATGGAC
135782 AAATTACCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:135810 original size:31 final size:31
Alignment explanation
Indices: 135692--135812 Score: 120
Period size: 31 Copynumber: 3.9 Consensus size: 31
135682 AGTCGAGGGT
* ****
135692 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTCAGGACATATGGACAAA
* ***
135723 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCAGGACATATGGACAAA
*
135754 TTACCTATGTTCTTCGGGACATATGGACAAA
1 TTACCTATGTTCTTCAGGACATATGGACAAA
135785 TTACCTA-GATTCTTCAGGATC-TATGGAC
1 TTACCTATG-TTCTTCAGGA-CATATGGAC
135813 TGGTCATTCG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
30 1 0.01
31 81 0.98
32 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCAGGACATATGGACAAA
Found at i:136698 original size:22 final size:22
Alignment explanation
Indices: 136633--136683 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
136623 TAAAATTCGG
* *
136633 TACTATTCACAGTATTGTTCAT
1 TACTGTTCACGGTATTGTTCAT
*
136655 TACTGTTCACGGTATTGCTCAT
1 TACTGTTCACGGTATTGTTCAT
136677 TACTGTT
1 TACTGTT
136684 TATGGTTCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (22 bp):
TACTGTTCACGGTATTGTTCAT
Found at i:137028 original size:61 final size:61
Alignment explanation
Indices: 136927--137063 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
136917 GAACATATCG
* * * * * *
136927 TCATCCGTGCCTTCGATGGGTTCTGTTTGAGCTGGCGCCACGTAAGGAAAGACGTGGATCA
1 TCATCCGCGCCTTCGATGGGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
* * * *
136988 TCATCCGCGCCTTTG-TGAGGTTCTATCTGAGATGGTGCCACATAAGGAAAGGCATTGATCA
1 TCATCCGCGCCTTCGATG-GGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
*
137049 TCATCTGCGCCTTCG
1 TCATCCGCGCCTTCG
137064 CGGGGTTTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
60 2 0.03
61 61 0.97
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (61 bp):
TCATCCGCGCCTTCGATGGGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
Done.