Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000787.1 Hibiscus syriacus cultivar Beakdansim tig00001525_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: 129779
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2690 original size:29 final size:28
Alignment explanation
Indices: 2656--2711 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2646 TTAAATATGT
*
2656 TTTATTCTTAATTTAATTTTAAAAATATA
1 TTTATT-TTAATTTAATTCTAAAAATATA
* *
2685 TTTATTTTTATTTTATTCTAAAAATAT
1 TTTATTTTAATTTAATTCTAAAAATAT
2712 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTATTTTAATTTAATTCTAAAAATATA
Found at i:2721 original size:30 final size:28
Alignment explanation
Indices: 2630--2731 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 28
2620 TAAACAAATT
* * *
2630 TTTTTATTTAAATCTATTAAATATGTTTTA
1 TTTTTATTTTATTCTA-AAAATAT-TTTTA
* * * *
2660 TTCTTAATTTAATTTTAAAAATATATTTA
1 TT-TTTATTTTATTCTAAAAATATTTTTA
2689 TTTTTATTTTATTCTAAAAATATTTTTTTA
1 TTTTTATTTTATTCTAAAAATA--TTTTTA
*
2719 TTTTTATCTTATT
1 TTTTTATTTTATT
2732 TTAATTTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 17 0.29
29 6 0.10
30 25 0.42
31 11 0.19
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTTATTTTATTCTAAAAATATTTTTA
Found at i:3962 original size:19 final size:19
Alignment explanation
Indices: 3926--3969 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3916 ATACCATTTG
**
3926 GTATCGGTACTCACATAGA
1 GTATCGGTACAAACATAGA
* *
3945 GTATCGGTACAAAGATAGG
1 GTATCGGTACAAACATAGA
3964 GTATCG
1 GTATCG
3970 ATACTCTCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (19 bp):
GTATCGGTACAAACATAGA
Found at i:10684 original size:4 final size:4
Alignment explanation
Indices: 10660--10705 Score: 65
Period size: 4 Copynumber: 11.0 Consensus size: 4
10650 GCTATAACAA
*
10660 GTTT GTTTT GTCTT GTGT GTTT GTTT GTTT GTTT GTTT GTTT GTTT
1 GTTT G-TTT GT-TT GTTT GTTT GTTT GTTT GTTT GTTT GTTT GTTT
10706 TTCTTTGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 30 0.79
5 8 0.21
ACGTcount: A:0.00, C:0.02, G:0.26, T:0.72
Consensus pattern (4 bp):
GTTT
Found at i:16702 original size:31 final size:29
Alignment explanation
Indices: 16664--16743 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 29
16654 TTAGTCAGAC
*
16664 TTTTAAATAAATTTTAATATAAAATATATAT
1 TTTTAAATAAA--TTAATATAAAATAAATAT
16695 TTTTAAATAAA--AATA-AAAATAAATAT
1 TTTTAAATAAATTAATATAAAATAAATAT
*
16721 TTTTAAAATAAGTTAATATAAAA
1 TTTT-AAATAAATTAATATAAAA
16744 AACTTTAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
26 14 0.33
27 10 0.23
29 4 0.09
30 4 0.09
31 11 0.26
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (29 bp):
TTTTAAATAAATTAATATAAAATAAATAT
Found at i:22391 original size:3 final size:3
Alignment explanation
Indices: 22377--22433 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
22367 CACCAAACAC
* *
22377 TCT TCG TCT TCT TCT TCT TCT TCT TCT TCAT T-T TCAT TC- TCC TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TC-T TCT TCT TCT
22422 CTCT TCT TCT TC
1 -TCT TCT TCT TC
22434 ATTGCAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 4 0.09
3 34 0.74
4 8 0.17
ACGTcount: A:0.04, C:0.35, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:24189 original size:16 final size:16
Alignment explanation
Indices: 24168--24198 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24158 TATTTTAAAA
24168 CCTATAAGAACTCAAC
1 CCTATAAGAACTCAAC
24184 CCTATAAGAACTCAA
1 CCTATAAGAACTCAA
24199 GAGTCTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (16 bp):
CCTATAAGAACTCAAC
Found at i:25037 original size:28 final size:27
Alignment explanation
Indices: 24958--25061 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 27
24948 TAAACATATA
* *
24958 TATTTTTATTTCAATCTATTAAATATGTTT
1 TATTTTTATTT-TAT-TATAAAATAT-TTT
*
24988 TATTCTTAATTTTATTATAAAATATTTT
1 TATT-TTTATTTTATTATAAAATATTTT
25016 TATTTTTATTTTAATTCA-AAAATGTATTTTT
1 TATTTTTATTTT-ATT-ATAAAA--TA-TTTT
*
25047 TATTTTTATCTTATT
1 TATTTTTATTTTATT
25062 TTAATTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
27 7 0.11
28 14 0.22
29 10 0.16
30 11 0.17
31 21 0.33
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTTTATTTTATTATAAAATATTTT
Found at i:28505 original size:16 final size:16
Alignment explanation
Indices: 28484--28527 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
28474 ACCCGACTTG
28484 TTTTCAACCTGACCTA
1 TTTTCAACCTGACCTA
*
28500 TTTTCAACCTGACCTG
1 TTTTCAACCTGACCTA
*
28516 TTTTTAACCTGA
1 TTTTCAACCTGA
28528 TCTGATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (16 bp):
TTTTCAACCTGACCTA
Found at i:28542 original size:32 final size:30
Alignment explanation
Indices: 28472--28544 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
28462 ATAACTGGTA
* *
28472 TTACCCGACTTGTTTTCAACCTGACCTATT
1 TTACCTGACCTGTTTTCAACCTGACCTATT
* *
28502 TTCAACCTGACCTGTTTTTAACCTGATCTGATAT
1 TT--ACCTGACCTGTTTTCAACCTGACCT-AT-T
28536 TTACCTGAC
1 TTACCTGAC
28545 TTATATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 2 0.06
32 28 0.80
33 2 0.06
34 3 0.09
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (30 bp):
TTACCTGACCTGTTTTCAACCTGACCTATT
Found at i:28806 original size:20 final size:20
Alignment explanation
Indices: 28783--28832 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
28773 CTCAGTTTTG
28783 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
*
28803 AAATTCGCAACACATAAGTC
1 AAATTCGCAACACAGAAGTC
28823 AAATTCGCAA
1 AAATTCGCAA
28833 AGCACGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (20 bp):
AAATTCGCAACACAGAAGTC
Found at i:29367 original size:20 final size:20
Alignment explanation
Indices: 29344--29382 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29334 TTTGAAACTT
* *
29344 AAATTCTCAACATGAAAATG
1 AAATTCGCAACACGAAAATG
29364 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
29383 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:29412 original size:20 final size:20
Alignment explanation
Indices: 29389--29432 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
29379 AAATCGCAAC
29389 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
29409 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
29429 GCGA
1 GCGA
29433 ATTTAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:29443 original size:20 final size:20
Alignment explanation
Indices: 29400--29443 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
29390 CGATTTTCAT
* * *
29400 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
29420 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
29440 TTTC
1 TTTC
29444 AAAAACTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:30989 original size:42 final size:42
Alignment explanation
Indices: 30926--31022 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
30916 CCCCACTTCG
* * * * * *
30926 AGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACACCC
1 AGAGCCATCACTTGATCGAGCCAATTATACACCTCCACAACC
* * *
30968 AGAGCCATTACTTGATTGAGCCAATTATACACCTCCACAACG
1 AGAGCCATCACTTGATCGAGCCAATTATACACCTCCACAACC
31010 AGAGCCATCACTT
1 AGAGCCATCACTT
31023 ATTCCATCAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (42 bp):
AGAGCCATCACTTGATCGAGCCAATTATACACCTCCACAACC
Found at i:31186 original size:21 final size:21
Alignment explanation
Indices: 31137--31186 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
31127 GTTAGGGGAG
* *
31137 TTACGTGATGAGGTTAGTGCT
1 TTACGTGATGAGGTCAGTACT
** *
31158 TTGTGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
31179 TTACGTGA
1 TTACGTGA
31187 CGACAATGGT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.34, T:0.38
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:31227 original size:21 final size:22
Alignment explanation
Indices: 31203--31298 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 22
31193 TGGTGCATAG
31203 CGTGATGAGGTACGGT-CTTTA
1 CGTGATGAGGTACGGTACTTTA
* * **
31224 CGTGGTGAGGTA-GATGTTTTA
1 CGTGATGAGGTACGGTACTTTA
* ** * *
31245 CGCGATGA-CAATGGTGCTTTA
1 CGTGATGAGGTACGGTACTTTA
*
31266 CGTGGTGAGGTATC--TACTTTA
1 CGTGATGAGGTA-CGGTACTTTA
31287 CGTGATGAGGTA
1 CGTGATGAGGTA
31299 GTCGATCTAC
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
20 3 0.05
21 51 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.33
Consensus pattern (22 bp):
CGTGATGAGGTACGGTACTTTA
Found at i:31245 original size:63 final size:63
Alignment explanation
Indices: 31178--31299 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 63
31168 AGGTCGGTAC
* *
31178 TTTACGTGACGACAATGGTGC-ATAGCGTGATGAGGTA-CGGT-CTTTACGTGGTGAGGTAGATG
1 TTTACGCGACGACAATGGTGCTATA-CGTGATGAGGTATC--TACTTTACGTGATGAGGTAGATG
31240 T
63 T
* * *
31241 TTTACGCGATGACAATGGTGCTTTACGTGGTGAGGTATCTACTTTACGTGATGAGGTAG
1 TTTACGCGACGACAATGGTGCTATACGTGATGAGGTATCTACTTTACGTGATGAGGTAG
31300 TCGATCTACG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 1 0.02
63 47 0.92
64 3 0.06
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.32
Consensus pattern (63 bp):
TTTACGCGACGACAATGGTGCTATACGTGATGAGGTATCTACTTTACGTGATGAGGTAGATGT
Found at i:31630 original size:21 final size:21
Alignment explanation
Indices: 31600--31712 Score: 140
Period size: 21 Copynumber: 5.4 Consensus size: 21
31590 CCTATCATCA
31600 TTCAAGAGGCCCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
*
31621 TTCAAAAGGCCCCT-CTCATCG
1 TTCAAGAGGCCCCTCCT-ATCG
*
31642 TTCAAGAGGCACCT-CTCATCG
1 TTCAAGAGGCCCCTCCT-ATCG
* *
31663 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCTATCG
* *
31684 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCTATCG
31705 TTCAAGAG
1 TTCAAGAG
31713 CCCGATTCAC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
20 2 0.02
21 81 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:31687 original size:63 final size:63
Alignment explanation
Indices: 31588--31712 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 63
31578 AAGCCTGATT
* * * *
31588 CACCTATCATCATTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCTCATCGTTCAAGAGG
1 CACCTATCATCATTCAAGAGGCCCCTCCCACCGTTCAAAAGGCCCCTCCCACCGTTCAAGAGG
* * *
31651 CACCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTCCCACCGTTCAAGAG
1 CACCTATCATCATTCAAGAGGCCCCTCCCACCGTTCAAAAGGCCCCTCCCACCGTTCAAGAG
31713 CCCGATTCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (63 bp):
CACCTATCATCATTCAAGAGGCCCCTCCCACCGTTCAAAAGGCCCCTCCCACCGTTCAAGAGG
Found at i:31710 original size:42 final size:42
Alignment explanation
Indices: 31600--31712 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
31590 CCTATCATCA
* * * *
31600 TTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTCCCACCG
* *
31642 TTCAAGAGGCACCTCTCATCGTTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTCCCACCG
*
31684 TTCAAGAGGCCCCTCCCACCGTTCAAGAG
1 TTCAAGAGGCCCCTCCCATCGTTCAAGAG
31713 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTCCCACCG
Found at i:32463 original size:13 final size:13
Alignment explanation
Indices: 32445--32471 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32435 CCCATCCATG
32445 AAGACGATAGTAT
1 AAGACGATAGTAT
32458 AAGACGATAGTAT
1 AAGACGATAGTAT
32471 A
1 A
32472 TGACAGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (13 bp):
AAGACGATAGTAT
Found at i:33335 original size:29 final size:29
Alignment explanation
Indices: 33278--33338 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
33268 TTCGCATTAC
33278 GAATTTGACTTTCACAACAATCGCAACGT
1 GAATTTGACTTTCACAACAATCGCAACGT
*
33307 GAATTTGACTTTCGCAACAATCGCAACGT
1 GAATTTGACTTTCACAACAATCGCAACGT
33336 GAA
1 GAA
33339 AATCACAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (29 bp):
GAATTTGACTTTCACAACAATCGCAACGT
Found at i:36895 original size:20 final size:20
Alignment explanation
Indices: 36851--37018 Score: 71
Period size: 20 Copynumber: 8.5 Consensus size: 20
36841 CAAAACATTT
*
36851 GTGTTGCGAAAATAAAA--C
1 GTGTTGCGAAATTAAAATTC
*
36869 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
*
36889 GTGTTGCG-AATTCAAAAATC
1 GTGTTGCGAAATT-AAAATTC
* * **
36909 GAGTTGCAAAAACAAAATTC
1 GTGTTGCGAAATTAAAATTC
* * * *
36929 GTATTCCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
* *
36949 TTGTTGCGAAA--AGGAA-TC
1 GTGTTGCGAAATTA-AAATTC
* * * *
36967 GAGTTGCGAATTTGAAATTTT
1 GTGTTGCGAAATT-AAAATTC
* *
36988 GTGTTGCGAATTTGAAATTCC
1 GTGTTGCGAAATTAAAATT-C
37009 GTGTTGCGAA
1 GTGTTGCGAA
37019 TTTGGAAATC
Statistics
Matches: 107, Mismatches: 32, Indels: 19
0.68 0.20 0.12
Matches are distributed among these distances:
18 25 0.23
19 10 0.09
20 45 0.42
21 27 0.25
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:36995 original size:21 final size:21
Alignment explanation
Indices: 36969--37027 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
36959 AAGGAATCGA
**
36969 GTTGCGAATTTGAAATTTTGT
1 GTTGCGAATTTGAAATTCCGT
36990 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAATTCCGT
37011 GTTGCGAATTTGGAAAT
1 GTTGCGAATTT-GAAAT
37028 CGCGTTGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGT
Found at i:37036 original size:20 final size:20
Alignment explanation
Indices: 36963--37102 Score: 94
Period size: 20 Copynumber: 6.9 Consensus size: 20
36953 TGCGAAAAGG
*
36963 AATCGAGTTGCGAATTT-GA
1 AATCGTGTTGCGAATTTGGA
*
36982 AATTTTGTGTTGCGAATTT-GA
1 AA--TCGTGTTGCGAATTTGGA
37003 AATTCCGTGTTGCGAATTTGGA
1 AA-T-CGTGTTGCGAATTTGGA
*
37025 AATCGCGTTGCG-A-TTGCAGA
1 AATCGTGTTGCGAATTTG--GA
*
37045 AA-CTGAGTTGCGAATTTGGA
1 AATC-GTGTTGCGAATTTGGA
*
37065 AA-CTGTGTTGCGAAATTGGA
1 AATC-GTGTTGCGAATTTGGA
** *
37085 GTTCGCGTTGCGAATTTG
1 AATCGTGTTGCGAATTTG
37103 TTGGTCATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 53 0.53
21 33 0.33
22 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (20 bp):
AATCGTGTTGCGAATTTGGA
Found at i:37243 original size:13 final size:13
Alignment explanation
Indices: 37227--37253 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37217 GACTTATTAT
37227 ATAAAATTATTTA
1 ATAAAATTATTTA
37240 ATAAAATTATTTA
1 ATAAAATTATTTA
37253 A
1 A
37254 ATGTATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:37326 original size:23 final size:24
Alignment explanation
Indices: 37292--37341 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
37282 ATGCAAAGGA
*
37292 AAATTAATATAGTTTAGTTTATAT
1 AAATTAATATAGTTTAATTTATAT
37316 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
37339 AAA
1 AAA
37342 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:37533 original size:21 final size:20
Alignment explanation
Indices: 37508--37574 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
37498 TTTACATTAG
*
37508 GGTTTAAGATTTAGTGTTTA
1 GGTTTAAGATTTAGGGTTTA
37528 TGGTTTAA-AGTTTAGGGTTTA
1 -GGTTTAAGA-TTTAGGGTTTA
*
37549 GAGTTTATGA-TTAGGGTTTAA
1 G-GTTTAAGATTTAGGGTTT-A
37570 GGTTT
1 GGTTT
37575 CTATAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 15 0.38
21 24 0.60
22 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (20 bp):
GGTTTAAGATTTAGGGTTTA
Found at i:37534 original size:14 final size:14
Alignment explanation
Indices: 37517--37557 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37507 GGGTTTAAGA
*
37517 TTTAGTGTTTATGG
1 TTTAGAGTTTATGG
* *
37531 TTTAAAGTTTAGGG
1 TTTAGAGTTTATGG
37545 TTTAGAGTTTATG
1 TTTAGAGTTTATG
37558 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TTTAGAGTTTATGG
Found at i:37667 original size:13 final size:13
Alignment explanation
Indices: 37649--37693 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
37639 TAATTTACTT
37649 TATATAGTTTATATA
1 TATATAG-TT-TATA
*
37664 TATATAGGTTATA
1 TATATAGTTTATA
37677 TATATAGTTTATA
1 TATATAGTTTATA
37690 TATA
1 TATA
37694 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 20 0.71
14 1 0.04
15 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:37669 original size:15 final size:15
Alignment explanation
Indices: 37649--37698 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
37639 TAATTTACTT
37649 TATATAGTTTATATA
1 TATATAGTTTATATA
*
37664 TATATAG-GT-TATA
1 TATATAGTTTATATA
37677 TATATAGTTTATATA
1 TATATAGTTTATATA
37692 TACTATA
1 TA-TATA
37699 CATGGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 11 0.37
14 2 0.07
15 13 0.43
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:37698 original size:20 final size:21
Alignment explanation
Indices: 37674--37724 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
37664 TATATAGGTT
*
37674 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
37695 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
37715 ATATTATATA
1 ATA-TATATA
37725 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:38192 original size:7 final size:7
Alignment explanation
Indices: 38180--38251 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
38170 TCTATTTATA
38180 TTAGGGT
1 TTAGGGT
38187 TTAGGGT
1 TTAGGGT
*
38194 TTAGTGT
1 TTAGGGT
* *
38201 GTATGGT
1 TTAGGGT
**
38208 TTAAAGT
1 TTAGGGT
38215 TTAGGGT
1 TTAGGGT
38222 TTAGGGT
1 TTAGGGT
* *
38229 TTATGTT
1 TTAGGGT
*
38236 TTAAGGT
1 TTAGGGT
*
38243 TTAAGGT
1 TTAGGGT
38250 TT
1 TT
38252 TTTTTAATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:38216 original size:28 final size:28
Alignment explanation
Indices: 38185--38251 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
38175 TTATATTAGG
*
38185 GTTTAGGGTTTAGTGTGTATGGTTTAAA
1 GTTTAGGGTTTAGGGTGTATGGTTTAAA
* * *
38213 GTTTAGGGTTTAGGGTTTATGTTTTAAG
1 GTTTAGGGTTTAGGGTGTATGGTTTAAA
*
38241 GTTTAAGGTTT
1 GTTTAGGGTTT
38252 TTTTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.49
Consensus pattern (28 bp):
GTTTAGGGTTTAGGGTGTATGGTTTAAA
Found at i:38312 original size:2 final size:2
Alignment explanation
Indices: 38305--38352 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
38295 ATAGTATTTC
38305 TA TA TA TA TA 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 TA TA TA TA TA
38347 TA TA TA
1 TA TA TA
38353 ATCTATAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38599 original size:2 final size:2
Alignment explanation
Indices: 38592--38680 Score: 53
Period size: 2 Copynumber: 45.5 Consensus size: 2
38582 TTATACATAC
* * *
38592 AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT A- AT TT AT AA ACT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
38632 AT AT AT -T TT AT AT AGT TT AT AT AC AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
38674 AT AT AT A
1 AT AT AT A
38681 GAAAATTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
1 5 0.08
2 57 0.86
3 4 0.06
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38903 original size:19 final size:20
Alignment explanation
Indices: 38890--38934 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
38880 AATTTTTCTA
38890 TTCCCTCTAAATTTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
*
38910 TTCCCTCTAAA-TTCTCAAT
1 TTCCCTCTAAATTTCCCAAT
38929 TTCCCT
1 TTCCCT
38935 ATATTCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (20 bp):
TTCCCTCTAAATTTCCCAAT
Found at i:38929 original size:27 final size:27
Alignment explanation
Indices: 38899--38958 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
38889 ATTCCCTCTA
*
38899 AATTTCCCAAT-TTCCCTCTAAA-TTCTC
1 AATTTCCCAATATT--CTCAAAATTTCTC
*
38926 AATTTCCCTATATTCTCAAAATTTCTC
1 AATTTCCCAATATTCTCAAAATTTCTC
38953 AATTTC
1 AATTTC
38959 TCTCTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 21 0.72
28 2 0.07
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTTCCCAATATTCTCAAAATTTCTC
Found at i:39051 original size:2 final size:2
Alignment explanation
Indices: 39044--39290 Score: 126
Period size: 2 Copynumber: 125.0 Consensus size: 2
39034 ACTTTGAATA
39044 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
* * * *
39086 AT AT AT AT AT AT AT A- AT -T AT AGT TT AA ACT AT ACT TT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT
* * * *
39127 AGT -T AT AC AT AT AT AT AGT TT AC AT AT AT AGT TT AT AT AT AT
1 A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT
* * * * *
39169 AGT -T CAT AT AA AC AT A- AT TT AT AT AT AT AG CT -T AT A- AT A-
1 A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
39208 AT -T AT AT AGT TT AT A- AT AT AA AT AT AGT TT AT AT AT AT A- AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
39249 TT AA AT AT AT AA AGT -T AT AT -T AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39289 AT
1 AT
39291 TTTTTTCAAT
Statistics
Matches: 186, Mismatches: 34, Indels: 50
0.69 0.13 0.19
Matches are distributed among these distances:
1 14 0.08
2 162 0.87
3 10 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39150 original size:15 final size:14
Alignment explanation
Indices: 39124--39276 Score: 89
Period size: 13 Copynumber: 10.3 Consensus size: 14
39114 CTATACTTTT
39124 TATAGTTATACATATA
1 TATAGTT-TA-ATATA
*
39140 TATAGTTT-ACATA
1 TATAGTTTAATATA
39153 TATAGTTT-ATATA
1 TATAGTTTAATATA
* *
39166 TATAGTTCATATAAA
1 TATAGTTTA-ATATA
* *
39181 CATAATTT-ATATA
1 TATAGTTTAATATA
39194 TATAGCTTATAATAATTA
1 TATAG-TT-TAAT-A-TA
39212 TATAGTTTATAATATAAA
1 TATAG-TT-TAATAT--A
39230 TATAGTTT-ATATA
1 TATAGTTTAATATA
*
39243 TATAATTTAAATATA
1 TATAGTTT-AATATA
* *
39258 TAAAGTTATATTATA
1 TATAGTT-TAATATA
39273 TATA
1 TATA
39277 TATATATATT
Statistics
Matches: 109, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
13 38 0.35
14 2 0.02
15 33 0.30
16 12 0.11
17 4 0.04
18 20 0.18
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (14 bp):
TATAGTTTAATATA
Found at i:39276 original size:49 final size:48
Alignment explanation
Indices: 39174--39290 Score: 116
Period size: 49 Copynumber: 2.5 Consensus size: 48
39164 TATATAGTTC
* * *
39174 ATATAAACATAATTTATATATATAGCTTATAATAATTATATAGTTTATA
1 ATATAAATAT-ATTTATATATATAACTTATAATAATTATAAAGTTTATA
*
39223 ATATAAATATAGTTTATATATATAATTTA-AAT-A-TATAAAG-TTATA
1 ATATAAATATA-TTTATATATATAACTTATAATAATTATAAAGTTTATA
* * *
39268 TTATATATATATATATATTATAT
1 ATATAAATATATTTATA-TATAT
39291 TTTTTTCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
44 5 0.08
45 19 0.32
46 6 0.10
47 1 0.02
48 4 0.07
49 24 0.41
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (48 bp):
ATATAAATATATTTATATATATAACTTATAATAATTATAAAGTTTATA
Found at i:42353 original size:26 final size:26
Alignment explanation
Indices: 42324--42374 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
42314 GCAGCTTCCT
*
42324 TTTTTACTCCACAATTCGGTGGATTA
1 TTTTAACTCCACAATTCGGTGGATTA
* **
42350 TTTTAATTCCACCTTTCGGTGGATT
1 TTTTAACTCCACAATTCGGTGGATT
42375 TAATATTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.45
Consensus pattern (26 bp):
TTTTAACTCCACAATTCGGTGGATTA
Found at i:44437 original size:38 final size:39
Alignment explanation
Indices: 44355--44512 Score: 145
Period size: 38 Copynumber: 4.2 Consensus size: 39
44345 ATATATACAC
* ** * *
44355 ATATATATTATATAGTTTGCAAA-TTGTTTTTGAAAATAC
1 ATATATAATATATAGTTTTAAAACAT-TTTTTGAAAATAT
44394 ATATATAATATATAG-TTTAAAACATTTTTTGAAAATAT
1 ATATATAATATATAGTTTTAAAACATTTTTTGAAAATAT
* *
44432 GTATAT--TATATAGTTTTTAAA-ATATTTTTG-AAA-AT
1 ATATATAATATATAGTTTTAAAACAT-TTTTTGAAAATAT
*
44467 -TATATAATATATAGTTTTTGAAAACGTTTTTT-AAAATAT
1 ATATATAATATATAG-TTTT-AAAACATTTTTTGAAAATAT
44506 ATATATA
1 ATATATA
44513 TACTTTTGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
34 5 0.05
35 2 0.02
36 19 0.19
37 16 0.16
38 33 0.33
39 18 0.18
40 6 0.06
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (39 bp):
ATATATAATATATAGTTTTAAAACATTTTTTGAAAATAT
Found at i:44478 original size:36 final size:36
Alignment explanation
Indices: 44381--44578 Score: 160
Period size: 36 Copynumber: 5.4 Consensus size: 36
44371 TTGCAAATTG
44381 TTTTTGAAAATACATATATAATATATAG--TTTAAAACA
1 TTTTTGAAAAT---TATATAATATATAGTTTTTAAAACA
* * *
44418 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 -TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
*
44456 TTTTTGAAAATTATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATTATATAATATATAGTTTTT-AAAACA
* * *
44493 TTTTTTAAAA-TATAT-ATATATACTTTTGAAAAC-
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
* * *
44526 GTTATGAAACATT-TATATATATATAATTTTTAAAAACCA
1 TTTTTGAAA-ATTATATA-ATATATAGTTTTT-AAAA-CA
44565 -TTTTGAAAA-TATAT
1 TTTTTGAAAATTATAT
44579 TTTTTGAAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
33 6 0.05
34 9 0.07
35 12 0.09
36 47 0.35
37 32 0.24
38 27 0.20
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:44544 original size:38 final size:37
Alignment explanation
Indices: 44420--44770 Score: 166
Period size: 36 Copynumber: 9.1 Consensus size: 37
44410 TTAAAACATT
* * **
44420 TTTTGAAAATATGTATAT-TATATAGTTTTT-AAAATAT
1 TTTTGAAAATTTATATATATATATA-TTTTTGAAAA-CG
44457 TTTTGAAAA-TTATATA-ATATATAGTTTTTGAAAACG
1 TTTTGAAAATTTATATATATATATA-TTTTTGAAAACG
** *
44493 TTTTTTAAA---ATATATATATATACTTTTGAAAACG
1 TTTTGAAAATTTATATATATATATATTTTTGAAAACG
* * *
44527 TTATGAAACATTTATATATATATA-ATTTTTAAAAACCA
1 TTTTGAAA-ATTTATATATATATATATTTTTGAAAA-CG
* * *
44565 TTTTGAAAATATATTTTTTGAAAATTATATAATATATAGTTTTTGAAAACG
1 TTTTG--AA-A-A---TTT--ATA-TATAT-ATATAT-TTTTG--AAAACG
* * **
44616 TTTTTAAAATATATATA-ATATATACCTTTGAAAACG
1 TTTTGAAAATTTATATATATATATATTTTTGAAAACG
* * *
44652 TTATGAAAACATTTATATA-ATATATAATTTTTAAAAACCA
1 TTTTG-AAA-ATTTATATATATATAT-ATTTTTGAAAA-CG
* * * *
44692 TTTTGAAAATATATATAATATATAGTTTTTTTAAAAACA
1 TTTTGAAAATTTATAT-ATATATA-TATTTTTGAAAACG
* *
44731 TTTTAAAAATTTATATAT-TATATGTTTTTGAAAACG
1 TTTTGAAAATTTATATATATATATATTTTTGAAAACG
44767 TTTT
1 TTTT
44771 TATATAATAT
Statistics
Matches: 245, Mismatches: 40, Indels: 59
0.71 0.12 0.17
Matches are distributed among these distances:
34 21 0.09
35 8 0.03
36 48 0.20
37 29 0.12
38 42 0.17
39 33 0.13
40 24 0.10
41 5 0.02
42 2 0.01
44 5 0.02
46 2 0.01
47 6 0.02
48 4 0.02
49 4 0.02
50 3 0.01
51 5 0.02
52 4 0.02
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTGAAAATTTATATATATATATATTTTTGAAAACG
Found at i:44585 original size:15 final size:16
Alignment explanation
Indices: 44565--44594 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44555 TTAAAAACCA
44565 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
44580 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
44595 AATATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:44646 original size:36 final size:36
Alignment explanation
Indices: 44579--44782 Score: 176
Period size: 38 Copynumber: 5.4 Consensus size: 36
44569 GAAAATATAT
44579 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTT-AAAATATATATAATATATA-TTTTTGAAAACG
**
44616 TTTTTAAAATATATATAATATATACCTTTGAAAACG
1 TTTTTAAAATATATATAATATATATTTTTGAAAACG
** * * *
44652 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TT-TTTAAA-ATATATATAATATAT-ATTTTTGAAAA-CG
* * *
44692 TTTTGAAAATATATATAATATATAGTTTTTTTAAAAACA
1 TTTTTAAAATATATATAATATATA---TTTTTGAAAACG
* * * *
44731 TTTTAAAAATTTATATATTATATGTTTTTGAAAACG
1 TTTTTAAAATATATATAATATATATTTTTGAAAACG
44767 TTTTTATATAATATAT
1 TTTTTA-A-AATATAT
44783 TATTATTATT
Statistics
Matches: 137, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
36 32 0.23
37 24 0.18
38 34 0.25
39 34 0.25
40 13 0.09
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTTAAAATATATATAATATATATTTTTGAAAACG
Found at i:46006 original size:11 final size:11
Alignment explanation
Indices: 45990--46034 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
45980 ATATTTTTCT
45990 TATTTATTTAA
1 TATTTATTTAA
*
46001 TATTTATTTAT
1 TATTTATTTAA
46012 TATTTATTTAA
1 TATTTATTTAA
46023 T-TTTAATTTAA
1 TATTT-ATTTAA
46034 T
1 T
46035 TTCTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 3 0.10
11 28 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:46017 original size:22 final size:22
Alignment explanation
Indices: 45989--46032 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45979 AATATTTTTC
45989 TTATTTATTTAATATTT-ATTTA
1 TTATTTATTTAAT-TTTAATTTA
46011 TTATTTATTTAATTTTAATTTA
1 TTATTTATTTAATTTTAATTTA
46033 ATTTCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTATTTAATTTTAATTTA
Found at i:47181 original size:17 final size:17
Alignment explanation
Indices: 47161--47193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47151 CTCACTAACC
*
47161 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
47178 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
47194 ATCGTTTGCA
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:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:47850 original size:19 final size:19
Alignment explanation
Indices: 47816--47860 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
47806 ATTTAGACAT
47816 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
47834 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
47853 TTTGCATT
1 TTTGCATT
47861 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:51497 original size:84 final size:84
Alignment explanation
Indices: 51265--52053 Score: 720
Period size: 84 Copynumber: 9.5 Consensus size: 84
51255 TAAACAAACT
* * * * * * * *
51265 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCCAC-CAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
51329 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
51348 ATTTGCAGTATAGCTTAA-GTTGAGAAGAGCTATCTG-C--C-AAAGACCCTTAAGTTCGATTAC
1 ATTTGCAGCATAACTTAAGGCT-AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * *
51408 ACTCAGCTTCAAGGGCATAAC
65 GCTCAGCTCCAA-GGCACATC
* * ** *
51429 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
51493 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
51512 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
51573 TTCAGCTTCGAAGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * *
51593 ATTTGCAGTACAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
51658 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
51677 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
51742 CTCAGCTTCAAGGGCATATC
66 CTCAGCTCCAA-GGCACATC
* * * * *
51762 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACTAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
*
51826 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * * * * *
51845 ATTTGCGGCACAGCTTAAGTCTATAAGGTTTGTCTGCCAACAAAAGACCTTGGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
***
51910 CTCAGCTTCGGGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * ** * * *
51930 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCGAAAGACCTTTGAGTTAGACTACG
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
*
51995 CTCAGCTCCAAGGTACATC
66 CTCAGCTCCAAGGCACATC
* * * * *
52014 ATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAA
52054 AGACTCCCGA
Statistics
Matches: 568, Mismatches: 124, Indels: 27
0.79 0.17 0.04
Matches are distributed among these distances:
80 55 0.10
81 75 0.13
82 4 0.01
83 99 0.17
84 206 0.36
85 129 0.23
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:51549 original size:164 final size:164
Alignment explanation
Indices: 51307--52127 Score: 1038
Period size: 168 Copynumber: 4.9 Consensus size: 164
51297 TCTGCCCACC
* * *
51307 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * *
51372 AAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
51437 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTA-CAA
*
51471 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * ** * *
51536 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAA-GGCACATCATTTGCA
66 AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTC-AAGGGCATATCATTTACA
* * * * * *
51600 GTACAACTTAAGTCAAGAAGGGTTATCTGCTAACAA
130 GCATAACTCAAGGCTAGAAGGGTTATCTG-TTACAA
*
51636 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* *
51701 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTT
66 AAGGGCTATCTG-C--C-AAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTT
* *
51766 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACTA
127 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACAA
* * * * * *
51804 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCGGCACAGCTTAAGTCTAT
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
** * * ** *
51869 AAGGTTTGTCTGCCAACAAAAGA-CCTTGGAGTTTGATTACACTCAGCTTCGGGGGCACATCATT
66 AAGGGCTATCTG-C--C-AAAGACCCTT-GAGTTCGATTACACTCAGCTTCAAGGGCATATCATT
* *
51933 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCGA
126 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTA-CAA
* * *
51973 AAGACCTTTGAGTTAGACTACGCTCAGCTCCAAGGTACATCATATGCAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * *
52038 AAGGGCTATCTGCCAAAGACTCC-CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACA
66 AAGGGCTATCTGCCAAAGAC-CCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
* * * *
52102 ACATAACTCATGGCGAGAAAGGTTAT
130 GCATAACTCAAGGCTAGAAGGGTTAT
52128 TTGTCAATAA
Statistics
Matches: 571, Mismatches: 74, Indels: 23
0.85 0.11 0.03
Matches are distributed among these distances:
164 139 0.24
165 141 0.25
166 2 0.00
167 6 0.01
168 152 0.27
169 131 0.23
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTTACAA
Found at i:52069 original size:333 final size:329
Alignment explanation
Indices: 51278--52154 Score: 1118
Period size: 333 Copynumber: 2.6 Consensus size: 329
51268 TGCAGCTTAG
* * ** * *
51278 CTCAAGGCCAGAAGGGCTATCTGCCCAC-CAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* * *
51342 CACATCATTTGCAGTATAGCTTAAGTTGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
* *
51407 CACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
131 CACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA-CTA
* *
51471 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
195 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAACAGCTTAAGTCGAG
** *
51536 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAG
260 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAG
*
51601 TACAA
325 CACAA
* *
51606 CTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* *
51671 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCG
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGTTCG
51736 ATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
127 ATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
* * *
51801 CTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCGGCACAGCTTAAGTC
192 CTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAACAGCTTAAGTC
* * ** * * * * * **
51866 TATAAGGTTTGTCTGCCAACAAAAGACCTTGGAGTTTGATTACACTCAGCTTCGGGGGCACATCA
257 GAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCA
*
51931 TTTACAGCATAA
318 TTTACAGCACAA
* * * *
51943 CTCAAGGCTAGAAGGGTTATCTG-TGACCGAAAGACCTTTGAGTTAGACTACGCTCAGCTCCAAG
1 CTCAAGGCAAGAAGGGTTATCTGCT-AACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAG
* * **
52007 GTACATCATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCC-CGAGTTCGAT
65 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCTTAAGTTCGAT
* * * * * * * * *
52071 TACACTCAACTTCGAGGTCATATCATTTACAACATAACTCATGGCGAGAAAGGTTATTTGTCAAT
129 TACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACT
*
52136 AAA-A-TTGTCGAGTTCGACT
194 AAAGACCT-TCGAGTTCGACT
52155 CTATTCAGCT
Statistics
Matches: 478, Mismatches: 58, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
328 22 0.05
329 71 0.15
330 1 0.00
331 1 0.00
332 15 0.03
333 221 0.46
334 4 0.01
336 3 0.01
337 140 0.29
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (329 bp):
CTCAAGGCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
CACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACTAA
AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAACAGCTTAAGTCGAGA
AGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAGC
ACAA
Found at i:52771 original size:38 final size:37
Alignment explanation
Indices: 52690--52969 Score: 177
Period size: 38 Copynumber: 7.5 Consensus size: 37
52680 TATATACACA
* *** *
52690 TATATATTATATAGTTTGCAAATTGTTTTTGAAAATACA
1 TATATAATATATAGTTTG-AAAACATTTTTGAAAATA-T
52729 TATATAATATATAGTTT-AAAACATTTTTTGAAAATAT
1 TATATAATATATAGTTTGAAAACA-TTTTTGAAAATAT
* *
52766 GTATAT--TATATAGTTTTTAAAATATTTTTG-AAA-AT
1 -TATATAATATATAG-TTTGAAAACATTTTTGAAAATAT
*
52801 TATATAATATATAGTTTTTGAAAACGTTTTT-AAAATA-
1 TATATAATATATAG--TTTGAAAACATTTTTGAAAATAT
* * * *
52838 TATATAATATATACTTTTGAAAAC-GTTATGAAAACATT
1 TATATAATATATA-GTTTGAAAACATTTTTGAAAATA-T
* * * * *
52876 TATATAATATATAATTTTTAAAA-ACGTTATGAAAACATT
1 TATATAATATAT-AGTTTGAAAACA-TTTTTGAAAATA-T
* *
52915 TATATAATATATAATTTTTAAAAACCA-TTTTGAAAATA-
1 TATATAATATAT-A-GTTTGAAAA-CATTTTTGAAAATAT
52953 TATATAATATATAGTTT
1 TATATAATATATAGTTT
52970 TTTTAAAAAC
Statistics
Matches: 204, Mismatches: 18, Indels: 41
0.78 0.07 0.16
Matches are distributed among these distances:
34 5 0.02
35 5 0.02
36 34 0.17
37 42 0.21
38 55 0.27
39 45 0.22
40 17 0.08
42 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (37 bp):
TATATAATATATAGTTTGAAAACATTTTTGAAAATAT
Found at i:52825 original size:75 final size:73
Alignment explanation
Indices: 52689--53014 Score: 252
Period size: 75 Copynumber: 4.3 Consensus size: 73
52679 ATATATACAC
** **
52689 ATATATATTATATAGTTTGCAAATTGTTTTTGAAAATACATATATAATATATAG--TTTAAAACA
1 ATATATATTATATAGTTTTTAAA-AATTTTTGAAAAT--ATATATAATATATAGTTTTTAAAACA
52752 TTTTTTGAAAAT
63 -TTTTTGAAAAT
* *
52764 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACGT
1 ATATATATTATATAGTTTTTAAAA-ATTTTTGAAAATATATATAATATATAGTTTTT-AAAACAT
52828 TTTT-AAAAT
64 TTTTGAAAAT
* * * ** * * *
52837 ATATATAATATATACTTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAA-AC
1 ATATATATTATATAGTTTTTAAAAATTTTTG-AAA-ATATATATAATATATAGTTTTTAAAACA-
* *
52901 GTTATGAAAACAT
63 TTTTTG-AAA-AT
* * * *
52914 TTATATAATATATAATTTTTAAAAACCATTTTGAAAATATATATAATATATAGTTTTTTTAAAAA
1 ATATATATTATATAGTTTTTAAAAA--TTTTTGAAAATATATATAATATATAG--TTTTT-AAAA
*
52979 CA-TTTTAAAAAT
61 CATTTTTGAAAAT
* *
52991 TTATATATTATAT-GTTTTTGAAAA
1 ATATATATTATATAGTTTTTAAAAA
53015 CGTTTATATA
Statistics
Matches: 204, Mismatches: 30, Indels: 33
0.76 0.11 0.12
Matches are distributed among these distances:
72 18 0.09
73 28 0.14
74 17 0.08
75 54 0.26
76 12 0.06
77 52 0.25
78 6 0.03
79 12 0.06
80 4 0.02
81 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (73 bp):
ATATATATTATATAGTTTTTAAAAATTTTTGAAAATATATATAATATATAGTTTTTAAAACATTT
TTGAAAAT
Found at i:52971 original size:38 final size:37
Alignment explanation
Indices: 52716--53015 Score: 263
Period size: 39 Copynumber: 8.0 Consensus size: 37
52706 TGCAAATTGT
52716 TTTTGAAAATACATATATAATATATAG--TTT-AAAACA
1 TTTTGAAAAT--ATATATAATATATAGTTTTTAAAAACA
* * *
52752 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAATA-T
1 --TTTTGAAAATATATATAATATATAGTTTTTAAAA-ACA
* *
52791 TTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAGTTTTTAAAAACA
* * * *
52827 TTTTTAAAATATATATAATATATA-CTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAGTTTTTAAAAACA
* * * *
52863 TTATGAAAACATTTATATAATATATAATTTTTAAAAACG
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAAAAACA
* * *
52902 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAAAAA-CA
52942 TTTTGAAAATATATATAATATATAGTTTTTTTAAAAACA
1 TTTTGAAAATATATATAATATATAG--TTTTTAAAAACA
* * * *
52981 TTTTAAAAATTTATATATTATAT-GTTTTTGAAAAC
1 TTTTGAAAATATATATAATATATAGTTTTTAAAAAC
53016 GTTTATATAT
Statistics
Matches: 228, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
35 1 0.00
36 66 0.29
37 26 0.11
38 44 0.19
39 75 0.33
40 16 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAAACA
Found at i:53014 original size:25 final size:26
Alignment explanation
Indices: 52981--53030 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
52971 TTTAAAAACA
*
52981 TTTTAAAAA-TTTATATATTATATGT
1 TTTTAAAAACTTTATATATAATATGT
*
53006 TTTTGAAAACGTTTATATATAATAT
1 TTTTAAAAAC-TTTATATATAATAT
53031 ATTATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
27 13 0.62
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTTAAAAACTTTATATATAATATGT
Found at i:53032 original size:77 final size:74
Alignment explanation
Indices: 52714--53021 Score: 252
Period size: 77 Copynumber: 4.1 Consensus size: 74
52704 TTTGCAAATT
* ** * * * *
52714 GTTTTTGAAAATACATATATAATATATAG--TTTAAAACATTTTTTGAAAATATGTATATTATAT
1 GTTTATGAAAAT--ATATATAATATATAGTTTTTAAAA-ACGTTTTAAAAATTTATATAATATAT
*
52777 AGTTTTT-AAAAT
63 A-TTTTTGAAAAC
* * * * * *
52789 ATTTTTGAAAATTATAT--AATATATAGTTTTTGAAAACGTTTTTAAAATATATATAATATATAC
1 GTTTATGAAAA-TATATATAATATATAGTTTTTAAAAACGTTTTAAAAATTTATATAATATATAT
52852 TTTTGAAAAC
65 TTTTGAAAAC
* * *
52862 G-TTATGAAAACATTTATATAATATATAATTTTTAAAAACGTTATGAAAACATTTATATAATATA
1 GTTTATG-AAA-ATATATATAATATATAGTTTTTAAAAACGTT-TTAAAA-ATTTATATAATATA
*
52926 TAATTTTTAAAAACC
62 T-ATTTTTGAAAA-C
* * * *
52941 ATTT-TGAAAATATATATAATATATAGTTTTTTTAAAAACATTTTAAAAATTTATATATTATATG
1 GTTTATGAAAATATATATAATATATAG--TTTTTAAAAACGTTTTAAAAATTTATATAATATATA
53005 TTTTTGAAAAC
64 TTTTTGAAAAC
53016 GTTTAT
1 GTTTAT
53022 ATATAATATA
Statistics
Matches: 189, Mismatches: 28, Indels: 31
0.76 0.11 0.12
Matches are distributed among these distances:
72 17 0.09
73 33 0.17
74 11 0.06
75 35 0.19
76 15 0.08
77 43 0.23
78 17 0.09
79 16 0.08
80 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (74 bp):
GTTTATGAAAATATATATAATATATAGTTTTTAAAAACGTTTTAAAAATTTATATAATATATATT
TTTGAAAAC
Found at i:54259 original size:11 final size:11
Alignment explanation
Indices: 54243--54287 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
54233 ATATTTTTCT
54243 TATTTATTTAA
1 TATTTATTTAA
*
54254 TATTTATTTAT
1 TATTTATTTAA
54265 TATTTATTTAA
1 TATTTATTTAA
54276 T-TTTAATTTAA
1 TATTT-ATTTAA
54287 T
1 T
54288 TTCTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 3 0.10
11 28 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:54270 original size:22 final size:22
Alignment explanation
Indices: 54242--54285 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
54232 AATATTTTTC
54242 TTATTTATTTAATATTT-ATTTA
1 TTATTTATTTAAT-TTTAATTTA
54264 TTATTTATTTAATTTTAATTTA
1 TTATTTATTTAATTTTAATTTA
54286 ATTTCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTATTTAATTTTAATTTA
Found at i:57122 original size:35 final size:35
Alignment explanation
Indices: 57079--57158 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
57069 TCGATCGACC
*
57079 AAGGAGAAAATAATGATAATTCTCTCTTGATAAAA
1 AAGGAGAAAATAATGATAATTATCTCTTGATAAAA
*
57114 AAGGAGAAAATGATGATAATTATCTCTTGATAAAA
1 AAGGAGAAAATAATGATAATTATCTCTTGATAAAA
*
57149 AAAGAGAAAA
1 AAGGAGAAAA
57159 CAACTCTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (35 bp):
AAGGAGAAAATAATGATAATTATCTCTTGATAAAA
Found at i:58877 original size:29 final size:29
Alignment explanation
Indices: 58808--58879 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
58798 CACTATTCTG
*
58808 TTATATTATTTATTGCATATTAACCATTGA
1 TTAT-TTATTTATTGCATACTAACCATTGA
* *
58838 TT-TTTATTTTATTGCACT-CTAACCTTTGT
1 TTATTTA-TTTATTGCA-TACTAACCATTGA
58867 TTATTTATTTATT
1 TTATTTATTTATT
58880 TATTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.08
29 26 0.72
30 7 0.19
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (29 bp):
TTATTTATTTATTGCATACTAACCATTGA
Found at i:59208 original size:135 final size:133
Alignment explanation
Indices: 58839--59239 Score: 375
Period size: 142 Copynumber: 2.9 Consensus size: 133
58829 AACCATTGAT
* *
58839 TTTTATTTTATTGCACTCTAACC----TTTGTTTATTTATTTATTTATTATTTTTATTATTCGAT
1 TTTTATTTTATTGCACTCTAACCATTGTTTGTTTATTTATTTATTTATTGTTTATATTATTCGAT
* ** * * *
58900 T-TGATCTTGTGGTGATTGGATCTGGGGTATGATCTATATTATTATGGTTCGGATTCTACTAACT
66 TCGGAT-TTGTGGTGATTCAATCT--GGTATGATCTGTATTATTATGGTTCGGACTCTGCTAACT
*
58964 ACTGAC
128 ACTAAC
** * *
58970 TTTT-TTAAATTACACTCTAA-CATTTGTTTGTTTATTTATTTATGTATTTATTTATTGTTGATA
1 TTTTATTTTATTGCACTCTAACCA-TTGTTTG----TTTA--T-T-TATTTATTTATTGTTTATA
* * * *
59033 TTATTCGATTCGGTTTTATGGTGACTCAATCTGGAATATGATCCGTATTATTATGGTTCGGACTC
57 TTATTCGATTCGGATTTGTGGTGATTCAATCTGG--TATGATCTGTATTATTATGGTTCGGACTC
*
59098 TGCTAATTACTAAC
120 TGCTAACTACTAAC
* * * *
59112 TTTTATTTTATTGCATTCTAACCATTGTTTGTTTGTTTATTTATTTATTGTTTCTATTATTTGAT
1 TTTTATTTTATTGCACTCTAACCATTGTTTGTTTATTTATTTATTTATTGTTTATATTATTCGAT
* * * *
59177 TCGGGTTTGTGGTGATTTAATCCTAGGTATGATTTGTATTATTATAGTTCGGACTCTGCTAAC
66 TCGGATTTGTGGTGATTCAAT-CT-GGTATGATCTGTATTATTATGGTTCGGACTCTGCTAAC
59240 CGTTAACTTT
Statistics
Matches: 216, Mismatches: 34, Indels: 36
0.76 0.12 0.13
Matches are distributed among these distances:
129 1 0.00
130 13 0.06
131 4 0.02
134 4 0.02
135 74 0.34
136 3 0.01
137 3 0.01
138 4 0.02
139 3 0.01
140 3 0.01
141 1 0.00
142 80 0.37
143 21 0.10
144 2 0.01
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (133 bp):
TTTTATTTTATTGCACTCTAACCATTGTTTGTTTATTTATTTATTTATTGTTTATATTATTCGAT
TCGGATTTGTGGTGATTCAATCTGGTATGATCTGTATTATTATGGTTCGGACTCTGCTAACTACT
AAC
Found at i:61261 original size:100 final size:100
Alignment explanation
Indices: 61088--61288 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
61078 TAATTCATTC
61088 ATGGCATCCATCATTTTCATGCATTGAAGCACAAAATTCATAGAAAGTTTCTCTTATTAGCATAT
1 ATGGCATCCATCATTTTCATGCATTGAAGCACAAAATTCATAGAAAGTTTCTCTTATTAGCATAT
61153 AGAAAGTGAATAAAAACTTGCTATTGAACCAAGGT
66 AGAAAGTGAATAAAAACTTGCTATTGAACCAAGGT
61188 ATGGCATCCATCATTTTCATGCATTGAAGCACAAAATTCATAGAAAGTTTCTCTTATTAGCATAT
1 ATGGCATCCATCATTTTCATGCATTGAAGCACAAAATTCATAGAAAGTTTCTCTTATTAGCATAT
61253 AGAAAGTGAATAAAAACTTGCTATTGAACCAAGGT
66 AGAAAGTGAATAAAAACTTGCTATTGAACCAAGGT
61288 A
1 A
61289 GTAGAAAGAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (100 bp):
ATGGCATCCATCATTTTCATGCATTGAAGCACAAAATTCATAGAAAGTTTCTCTTATTAGCATAT
AGAAAGTGAATAAAAACTTGCTATTGAACCAAGGT
Found at i:64007 original size:17 final size:17
Alignment explanation
Indices: 63985--64017 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63975 TACTACCATA
*
63985 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
64002 ATATTATATTTTATAT
1 ATATTATATTTTATAT
64018 AAATAAATAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:64086 original size:20 final size:19
Alignment explanation
Indices: 64050--64101 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
64040 CATTATTTAA
64050 AAATATA-AATTTAATATACT
1 AAATATATAA-TT-ATATACT
* *
64070 AATTATATTAATTATATATT
1 AAATATA-TAATTATATACT
64090 AAATATATAATT
1 AAATATATAATT
64102 TCTCTTCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 18 0.67
21 2 0.07
22 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATATATAATTATATACT
Found at i:64476 original size:15 final size:15
Alignment explanation
Indices: 64456--64492 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
64446 CATGCTTAAG
*
64456 GGGACCACTGGATGT
1 GGGACCACTGGACGT
64471 GGGACCACTGGACGT
1 GGGACCACTGGACGT
64486 GGGACCA
1 GGGACCA
64493 ATGTTGGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.14
Consensus pattern (15 bp):
GGGACCACTGGACGT
Found at i:66646 original size:3 final size:3
Alignment explanation
Indices: 66594--66627 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
66584 ATTGAATGTT
66594 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
66628 CATTAGAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:67878 original size:21 final size:21
Alignment explanation
Indices: 67854--67897 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
67844 GTTTGATGCT
67854 TTCTCT-TTGATTCTCTCTTGA
1 TTCTCTCTTGATTCT-TCTTGA
*
67875 TTCTCTCTTGATTCTTGTTGA
1 TTCTCTCTTGATTCTTCTTGA
67896 TT
1 TT
67898 GTTGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTGATTCTTCTTGA
Found at i:67897 original size:10 final size:11
Alignment explanation
Indices: 67854--67889 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
67844 GTTTGATGCT
67854 TTCTCT-TTGA
1 TTCTCTCTTGA
67864 TTCTCTCTTGA
1 TTCTCTCTTGA
67875 TTCTCTCTTGA
1 TTCTCTCTTGA
67886 TTCT
1 TTCT
67890 TGTTGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:68127 original size:17 final size:17
Alignment explanation
Indices: 68107--68151 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
68097 ATCGTTGGAA
* *
68107 CACTTAGTGCATTGGTG
1 CACTAAGTGCATCGGTG
68124 CACTAAGTGTGCATCGGTG
1 CACTAA--GTGCATCGGTG
68143 CACTAAGTG
1 CACTAAGTG
68152 TGCATCGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (17 bp):
CACTAAGTGCATCGGTG
Found at i:68137 original size:19 final size:19
Alignment explanation
Indices: 68113--68163 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
68103 GGAACACTTA
*
68113 GTGCATTGGTGCACTAAGT
1 GTGCATCGGTGCACTAAGT
68132 GTGCATCGGTGCACTAAGT
1 GTGCATCGGTGCACTAAGT
*
68151 GTGCATCGATGCA
1 GTGCATCGGTGCA
68164 TAAAATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (19 bp):
GTGCATCGGTGCACTAAGT
Found at i:68309 original size:65 final size:64
Alignment explanation
Indices: 68151--68310 Score: 212
Period size: 65 Copynumber: 2.5 Consensus size: 64
68141 TGCACTAAGT
* * * *
68151 GTGCATCGATGCATAAAATGCATTCGATGTTTTTAATAAGCCTAACTGAATCGATGCATGGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAACTGAATCGATGCATGGAGA
* * * * *
68215 GTGCATCGATGCATAAAATGCAATCGATGTTTTCATTAAAACCTGAGTGCATCGATGCATGGAGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAACTGAATCGATGCATGGAGA
* *
68280 GTGCATCGATGCATAAACTGCATTTGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
68311 CAATTTATTC
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
64 34 0.41
65 49 0.59
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAACTGAATCGATGCATGGAGA
Found at i:68346 original size:20 final size:20
Alignment explanation
Indices: 68321--68358 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68311 CAATTTATTC
*
68321 ATTGGTTCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
68341 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
68359 TCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:76805 original size:65 final size:64
Alignment explanation
Indices: 76661--76820 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 64
76651 TGCACTATGT
* * * *
76661 GTGCATCGATGCATAAAAG-GCATTCGATGTTTTTAATAAGCCTAACTGAATCGATGCATGGTGT
1 GTGCATCGATGCAT-AAAGTGCATTCGATGTTTTCAATAAACCTAACTGAATCGATGCATGGAGA
* * * * *
76725 GTGCATCGATGCATAAAGTGCAATCGATGTTTTCATTAAAACCTGAGTGCATCGATGCATGGAGA
1 GTGCATCGATGCATAAAGTGCATTCGATGTTTTCAAT-AAACCTAACTGAATCGATGCATGGAGA
* * *
76790 GTGCATCGATACATAAACTACATTCGATGTT
1 GTGCATCGATGCATAAAGTGCATTCGATGTT
76821 CAATTTATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
63 4 0.05
64 29 0.36
65 48 0.59
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAGTGCATTCGATGTTTTCAATAAACCTAACTGAATCGATGCATGGAGA
Found at i:77457 original size:46 final size:46
Alignment explanation
Indices: 77377--77467 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
77367 TGTCTTCAAG
* * * * *
77377 TATCTTCTTCATTCTCGAGAGATTATCTTGTTTGAAAATGGTTTTC
1 TATCTCCTTCATTCTCAAGAGATTACCCTATTTGAAAATGGTTTTC
* *
77423 TATCTCCTTCATTCTCAAGAGATTGCCCTATTTGAAAATGTTTTT
1 TATCTCCTTCATTCTCAAGAGATTACCCTATTTGAAAATGGTTTT
77468 TTCTTCTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (46 bp):
TATCTCCTTCATTCTCAAGAGATTACCCTATTTGAAAATGGTTTTC
Found at i:82397 original size:16 final size:16
Alignment explanation
Indices: 82376--82408 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
82366 TAATAAATAG
82376 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
82392 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
82408 A
1 A
82409 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:82489 original size:10 final size:10
Alignment explanation
Indices: 82474--82548 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
82464 CATTTAATAA
82474 ATAAACGAAC
1 ATAAACGAAC
82484 ATAAACGAAC
1 ATAAACGAAC
82494 ----ACGAAC
1 ATAAACGAAC
82500 ATAAACGAAC
1 ATAAACGAAC
** *
82510 ACGAAC-ATAA
1 ATAAACGA-AC
82520 ATGAACACGAAC
1 AT-AA-ACGAAC
82532 ATAAACGAAC
1 ATAAACGAAC
82542 ATAAACG
1 ATAAACG
82549 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:82499 original size:16 final size:16
Alignment explanation
Indices: 82478--82542 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
82468 TAATAAATAA
82478 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
82494 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
82510 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
82526 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
82542 A
1 A
82543 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:83316 original size:24 final size:24
Alignment explanation
Indices: 83275--83344 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
83265 AGATTGGGTT
*
83275 AAACATAAAT-GAATGAACATAAAC
1 AAACAT-AATCGAACGAACATAAAC
83299 AAACATAATCGAACGAACATAAAC
1 AAACATAATCGAACGAACATAAAC
* *
83323 GAACATAACCGAACGAACATAA
1 AAACATAATCGAACGAACATAA
83345 CCGAACGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 3 0.07
24 39 0.93
ACGTcount: A:0.59, C:0.19, G:0.10, T:0.13
Consensus pattern (24 bp):
AAACATAATCGAACGAACATAAAC
Found at i:83319 original size:14 final size:14
Alignment explanation
Indices: 83300--83351 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
83290 AACATAAACA
*
83300 AACATAATCGAACG
1 AACATAACCGAACG
83314 AACAT-A---AACG
1 AACATAACCGAACG
83324 AACATAACCGAACG
1 AACATAACCGAACG
83338 AACATAACCGAACG
1 AACATAACCGAACG
83352 TTCACGAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 23 0.68
ACGTcount: A:0.52, C:0.25, G:0.13, T:0.10
Consensus pattern (14 bp):
AACATAACCGAACG
Found at i:86409 original size:73 final size:72
Alignment explanation
Indices: 86327--86570 Score: 282
Period size: 73 Copynumber: 3.4 Consensus size: 72
86317 TTCGAAAATG
* *
86327 TATAATATATGGTTTTAAAAACATTTTTTTGAAAAAGTATAATATATGTTTTTGAAAATATTTTT
1 TATAATATATAGTTTTAAAAACATTTTTTT-AAAAAGTATAATATATGGTTTTGAAAATATTTTT
*
86392 GAAAAACG
65 GAAAAACA
* * * *
86400 TATAATATATGGTTTTAAAAACA--TTTTTAAAATTGTATAATATGTGGTTTTAAAAATATTTTT
1 TATAATATATAGTTTTAAAAACATTTTTTTAAAA-AGTATAATATATGGTTTTGAAAATATTTTT
86463 GAAAAACATA
65 GAAAAAC--A
* * * * ** *
86473 TATAATATATAGTTTTGAAAATATTTTTTT-AAACGTATAGTATATGGTTTTGAAAA-CGTTATG
1 TATAATATATAGTTTTAAAAACATTTTTTTAAAAAGTATAATATATGGTTTTGAAAATATTTTTG
86536 -AAAACA
66 AAAAACA
*
86542 TATAATATATAGTTTTAAAAACATATTTT
1 TATAATATATAGTTTTAAAAACATTTTTT
86571 GGAAACATAT
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
69 27 0.18
70 4 0.03
71 43 0.29
72 4 0.03
73 62 0.42
74 3 0.02
75 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (72 bp):
TATAATATATAGTTTTAAAAACATTTTTTTAAAAAGTATAATATATGGTTTTGAAAATATTTTTG
AAAAACA
Found at i:86448 original size:35 final size:35
Alignment explanation
Indices: 86303--86571 Score: 229
Period size: 35 Copynumber: 7.5 Consensus size: 35
86293 ATATATAGTT
*
86303 TTTTAAAAA-ATAATTTCGAAAATGTATAATATATGG
1 TTTTAAAAACAT--TTTTGAAAATGTATAATATATGG
* *
86339 TTTTAAAAACATTTTTTTGAAAAAGTATAATATATGT
1 TTTTAAAAACA--TTTTTGAAAATGTATAATATATGG
* * *
86376 TTTTGAAAATATTTTTGAAAAACGTATAATATATGG
1 TTTTAAAAACATTTTTG-AAAATGTATAATATATGG
*
86412 TTTTAAAAACATTTTT-AAAATTGTATAATATGTGG
1 TTTTAAAAACATTTTTGAAAA-TGTATAATATATGG
* * *
86447 TTTTAAAAATATTTTTGAAAAACATATATAATATATAG
1 TTTTAAAAACATTTTTG--AAA-ATGTATAATATATGG
* * ** * *
86485 TTTTGAAAATATTTTTTTAAACGTATAGTATATGG
1 TTTTAAAAACATTTTTGAAAATGTATAATATATGG
* * * ** *
86520 TTTTGAAAAC-GTTATGAAAACATATAATATATAG
1 TTTTAAAAACATTTTTGAAAATGTATAATATATGG
86554 TTTTAAAAACATATTTTG
1 TTTTAAAAACAT-TTTTG
86572 GAAACATATA
Statistics
Matches: 189, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
34 30 0.16
35 53 0.28
36 45 0.24
37 30 0.16
38 29 0.15
39 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (35 bp):
TTTTAAAAACATTTTTGAAAATGTATAATATATGG
Found at i:86449 original size:108 final size:108
Alignment explanation
Indices: 86320--86581 Score: 320
Period size: 108 Copynumber: 2.4 Consensus size: 108
86310 AAATAATTTC
* *
86320 GAAAATGTATAATATATGGTTTTAAAAACATTTTTTTGAAAA-A-GTATAATATAT-GTTTTTGA
1 GAAAATGTATAATATATGGTTTTAAAAACATATTTTTGAAAACATATATAATATATAG-TTTTGA
*
86382 AAATATTTTTGAAAAACGTATAATATATGGTTTTAAAAACATTTT
65 AAATATTTTT-AAAAACGTATAATATATGGTTTTAAAAACATTAT
* *
86427 TAAAATTGTATAATATGTGGTTTT-AAAA-ATATTTTTGAAAAACATATATAATATATAGTTTTG
1 GAAAA-TGTATAATATATGGTTTTAAAAACATATTTTTG-AAAACATATATAATATATAGTTTTG
** * * *
86490 AAAATATTTTTTTAAACGTATAGTATATGGTTTTGAAAACGTTAT
64 AAAATATTTTTAAAAACGTATAATATATGGTTTTAAAAACATTAT
** * *
86535 GAAAACATATAATATATAGTTTTAAAAACATA-TTTTGGAAACATATA
1 GAAAATGTATAATATATGGTTTTAAAAACATATTTTTGAAAACATATA
86582 CGTGTGTTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
106 8 0.06
107 35 0.27
108 59 0.45
109 29 0.22
110 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (108 bp):
GAAAATGTATAATATATGGTTTTAAAAACATATTTTTGAAAACATATATAATATATAGTTTTGAA
AATATTTTTAAAAACGTATAATATATGGTTTTAAAAACATTAT
Found at i:86675 original size:5 final size:5
Alignment explanation
Indices: 86665--86711 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
86655 TTAATATTAT
* * * *
86665 TTTTA TTTTA TTTTA TTTTA -TTTA TTATA TTATA TTATA TTATA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
86712 ATTATTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:86695 original size:24 final size:24
Alignment explanation
Indices: 86668--86721 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
86658 ATATTATTTT
* *
86668 TATTTTATTTTATTTTATTTATTA
1 TATTTTATTATATTATATTTATTA
*
86692 TATTATATTATATTATATTTATTA
1 TATTTTATTATATTATATTTATTA
*
86716 TTTTTT
1 TATTTT
86722 CAAGTCCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTTATTATATTATATTTATTA
Found at i:87911 original size:6 final size:6
Alignment explanation
Indices: 87902--87965 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
87892 TTATTTTAGA
* * * *
87902 TTTATT TTTATTT ATTTAAT TCTATT TTATATT TTT-CT TATATT TTTA-T
1 TTTATT TTTA-TT -TTTATT TTTATT TT-TATT TTTATT TTTATT TTTATT
87951 TTTATT TTTATT TTT
1 TTTATT TTTATT TTT
87966 TTTCAAATCT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
5 8 0.18
6 24 0.53
7 9 0.20
8 4 0.09
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:87961 original size:19 final size:19
Alignment explanation
Indices: 87904--87966 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
87894 ATTTTAGATT
*
87904 TATTTTTA-TTTATTTAATTC
1 TATTTTTATTTTATTT--TTA
*
87924 TA-TTTTATATTT-TTCTTA
1 TATTTTTAT-TTTATTTTTA
87942 TATTTTTATTTTATTTTTA
1 TATTTTTATTTTATTTTTA
87961 T-TTTTT
1 TATTTTT
87967 TTCAAATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 12 0.33
19 17 0.47
20 4 0.11
21 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTATTTTATTTTTA
Found at i:87963 original size:11 final size:11
Alignment explanation
Indices: 87890--87968 Score: 58
Period size: 11 Copynumber: 7.3 Consensus size: 11
87880 AATTTAATAC
*
87890 TTTTATTTTAG
1 TTTTATTTTAT
*
87901 ATTTATTTT-T
1 TTTTATTTTAT
* *
87911 ATTTA-TTTAA
1 TTTTATTTTAT
*
87921 TTCTATTTTAT
1 TTTTATTTTAT
87932 ATTTT-TCTTATAT
1 -TTTTAT-TT-TAT
87945 TTTTATTTTAT
1 TTTTATTTTAT
87956 TTTTATTTT-T
1 TTTTATTTTAT
87966 TTT
1 TTT
87969 CAAATCTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
9 3 0.05
10 12 0.22
11 25 0.45
12 11 0.20
13 4 0.07
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:87978 original size:29 final size:29
Alignment explanation
Indices: 87924--87981 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
87914 TATTTAATTC
* *
87924 TATTTTATATTTTTCTTATATTTTTATTT
1 TATTTTATATTTTTCTTAAATCTTTATTT
*
87953 TATTTT-TATTTTTTTTCAAATCTTTATTT
1 TATTTTATATTTTTCTT-AAATCTTTATTT
87982 ACTTTATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (29 bp):
TATTTTATATTTTTCTTAAATCTTTATTT
Found at i:89081 original size:19 final size:18
Alignment explanation
Indices: 89046--89084 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
89036 TGGGGTAGGA
*
89046 ATTTTTACTTTCGTTTTT
1 ATTTTTACTTTAGTTTTT
*
89064 ATTTTTACTATTATTTTTT
1 ATTTTTACT-TTAGTTTTT
89083 AT
1 AT
89085 CTTACTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTTACTTTAGTTTTT
Found at i:99393 original size:32 final size:32
Alignment explanation
Indices: 99352--99467 Score: 90
Period size: 32 Copynumber: 3.5 Consensus size: 32
99342 CAATACAGAC
*
99352 TCAACTTCACGACGAATGAGTCACCCACGATT
1 TCAACTTCACAACGAATGAGTCACCCACGATT
* * * **
99384 TCAACTTCACAACGAAGGATATCGTACCTAAAAGTT
1 TCAACTTCACAACGAATGA-GTC--ACCCACGA-TT
** *
99420 TTGAC-TCAACGACGAATGAGTCACCCACGATT
1 TCAACTTC-ACAACGAATGAGTCACCCACGATT
*
99452 TTAACTTCACAACGAA
1 TCAACTTCACAACGAA
99468 CTATATCGTA
Statistics
Matches: 62, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
32 30 0.48
33 9 0.15
35 9 0.15
36 14 0.23
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (32 bp):
TCAACTTCACAACGAATGAGTCACCCACGATT
Found at i:99463 original size:68 final size:70
Alignment explanation
Indices: 99354--99556 Score: 243
Period size: 68 Copynumber: 2.9 Consensus size: 70
99344 ATACAGACTC
*
99354 AACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCTAAAAG-
1 AACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGT
99418 TT-TT
66 TTATT
* * ** *
99422 GAC-TCAACGACGAATGAGTCACCCACGATTTTAACTTCACAACGAACTATATCGTACCCAAATG
1 AACTTC-ACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAG
99486 TTTCAACTT
65 TTT--A-TT
* * *
99495 AACTTCACGACGAAGGAGTTACTCC-CTGATTTCAACTTCACAACGAAGGATATCGTGCCCAA
1 AACTTCACGACGAATGAGTCAC-CCAC-GATTTCAACTTCACAACGAAGGATATCGTACCCAA
99557 TATATCGACT
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
67 2 0.02
68 55 0.49
69 2 0.02
73 19 0.17
74 35 0.31
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (70 bp):
AACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGT
TTATT
Found at i:99465 original size:35 final size:35
Alignment explanation
Indices: 99360--99466 Score: 89
Period size: 35 Copynumber: 3.1 Consensus size: 35
99350 ACTCAACTTC
*
99360 ACGACGAATGAGTCACCCACGATTTCAACTTCACA
1 ACGACGAATGAGTCACCCACGATTTTAACTTCACA
* * * ** *
99395 ACGAAGGAT-A-TCGTACCTAAAAGTTTTGAC-T--CA
1 ACGACGAATGAGTC--ACCCACGA-TTTTAACTTCACA
99428 ACGACGAATGAGTCACCCACGATTTTAACTTCACA
1 ACGACGAATGAGTCACCCACGATTTTAACTTCACA
99463 ACGA
1 ACGA
99467 ACTATATCGT
Statistics
Matches: 51, Mismatches: 13, Indels: 16
0.64 0.16 0.20
Matches are distributed among these distances:
32 6 0.12
33 17 0.33
34 2 0.04
35 21 0.41
36 5 0.10
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (35 bp):
ACGACGAATGAGTCACCCACGATTTTAACTTCACA
Found at i:100280 original size:37 final size:36
Alignment explanation
Indices: 100226--100345 Score: 154
Period size: 37 Copynumber: 3.3 Consensus size: 36
100216 GTTTTTGGAA
*
100226 ATTTTTGAAAACATATAATATATGGTTTTAAAAAAAC
1 ATTTTTGAAAACGTATAATATATGGTTTT-AAAAAAC
* *
100263 ATTTTTGAAAACGTATAAGATATGGTTTTTAAAATA-
1 ATTTTTGAAAACGTATAATATATGG-TTTTAAAAAAC
* **
100299 TTTTTTGAAAACGTATAATATAT-GTTTTTGAAAAC
1 ATTTTTGAAAACGTATAATATATGGTTTTAAAAAAC
100334 ATTTTTGAAAAC
1 ATTTTTGAAAAC
100346 ATTTTTGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
34 7 0.10
35 12 0.17
36 21 0.29
37 28 0.39
38 4 0.06
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (36 bp):
ATTTTTGAAAACGTATAATATATGGTTTTAAAAAAC
Found at i:100311 original size:36 final size:35
Alignment explanation
Indices: 100205--100572 Score: 218
Period size: 35 Copynumber: 10.7 Consensus size: 35
100195 TTTTAAAATA
* ** *
100205 TATAATATATAGTTTTT-GGAAATTTTTGAAAACA
1 TATAATATATGGTTTTTAAAAAATTTTTGAAAACG
*
100239 TATAATATATGGTTTTAAAAAAACATTTTTGAAAACG
1 TATAATATATGGTTTT-TAAAAA-ATTTTTGAAAACG
* *
100276 TATAAGATATGGTTTTTAAAATATTTTTTGAAAACG
1 TATAATATATGGTTTTTAAAA-AATTTTTGAAAACG
*
100312 TATAATATAT-GTTTTTGAAAACATTTTTGAAAAC-
1 TATAATATATGGTTTTT-AAAAAATTTTTGAAAACG
* * *
100346 --------AT--TTTTGAAAACATTTTTGAAAAATG
1 TATAATATATGGTTTTTAAAAAATTTTTG-AAAACG
*
100372 TATAATATATGG-TTTTAAAAACCTTTTTGAAAACG
1 TATAATATATGGTTTTTAAAAA-ATTTTTGAAAACG
* * *
100407 TATAATATGTTG-TTTTAAAAACATTTTTGAAAAACACA
1 TATAATATATGGTTTTTAAAAA-ATTTTTG--AAA-ACG
* * * *
100445 TATAATATATAGTTTTGAAAATATTTTTTTGAAAGCG
1 TATAATATATGGTTTTTAAAA-A-ATTTTTGAAAACG
* * * ** *
100482 TATAGTACATGG-TTTTGAAAACGTTTTGAAAACA
1 TATAATATATGGTTTTTAAAAAATTTTTGAAAACG
*
100516 TATAATATATAG-TTTTAAAAACATATTTTGAAAAC-
1 TATAATATATGGTTTTTAAAAA-AT-TTTTGAAAACG
*
100551 -AT-ATACATGTGTTTTTAAAAAA
1 TATAATATATG-GTTTTTAAAAAA
100573 AATGATTTTT
Statistics
Matches: 262, Mismatches: 45, Indels: 54
0.73 0.12 0.15
Matches are distributed among these distances:
24 12 0.05
25 8 0.03
26 2 0.01
33 5 0.02
34 47 0.18
35 65 0.25
36 53 0.20
37 41 0.16
38 15 0.06
39 7 0.03
40 7 0.03
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (35 bp):
TATAATATATGGTTTTTAAAAAATTTTTGAAAACG
Found at i:100339 original size:71 final size:70
Alignment explanation
Indices: 100226--100555 Score: 274
Period size: 71 Copynumber: 4.7 Consensus size: 70
100216 GTTTTTGGAA
*
100226 ATTTTTGAAAACATATAATATATGGTTTTAAAAAAACATTTTTGAAAACGTATAAGATATGGTTT
1 ATTTTTGAAAACATATAATATATAGTTTT--AAAAACATTTTTGAAAACGTATAAGATATGGTTT
*
100291 TTAAAAT
64 TTAAAAC
* *
100298 ATTTTTTGAAAACGTATAATATAT-GTTTTTGAAAACATTTTTGAAAAC---------AT--TTT
1 A-TTTTTGAAAACATATAATATATAG-TTTTAAAAACATTTTTGAAAACGTATAAGATATGGTTT
*
100351 TGAAAAC
64 TTAAAAC
** * * * * *
100358 ATTTTTGAAAAATGTATAATATATGGTTTTAAAAACCTTTTTGAAAACGTATAATATGTTGTTTT
1 ATTTTTG-AAAACATATAATATATAGTTTTAAAAACATTTTTGAAAACGTATAAGATATGGTTTT
*
100423 AAAAAC
65 TAAAAC
** * *
100429 ATTTTTGAAAAACACATATAATATATAGTTTTGAAAATATTTTTTTGAAAGCGTAT-AGTACATG
1 ATTTTTG--AAA-ACATATAATATATAGTTTT-AAAA-ACATTTTTGAAAACGTATAAG-ATATG
*
100493 GTTTTGAAAAC
60 GTTTTTAAAAC
* *
100504 -GTTTTGAAAACATATAATATATAGTTTTAAAAACATATTTTGAAAACATATA
1 ATTTTTGAAAACATATAATATATAGTTTTAAAAACAT-TTTTGAAAACGTATA
100556 CATGTGTTTT
Statistics
Matches: 211, Mismatches: 25, Indels: 45
0.75 0.09 0.16
Matches are distributed among these distances:
59 6 0.03
60 44 0.21
61 1 0.00
62 2 0.01
69 3 0.01
70 16 0.08
71 52 0.25
72 9 0.04
73 41 0.19
74 10 0.05
75 27 0.13
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (70 bp):
ATTTTTGAAAACATATAATATATAGTTTTAAAAACATTTTTGAAAACGTATAAGATATGGTTTTT
AAAAC
Found at i:100340 original size:12 final size:12
Alignment explanation
Indices: 100323--100368 Score: 92
Period size: 12 Copynumber: 3.8 Consensus size: 12
100313 ATAATATATG
100323 TTTTTGAAAACA
1 TTTTTGAAAACA
100335 TTTTTGAAAACA
1 TTTTTGAAAACA
100347 TTTTTGAAAACA
1 TTTTTGAAAACA
100359 TTTTTGAAAA
1 TTTTTGAAAA
100369 ATGTATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:100365 original size:95 final size:95
Alignment explanation
Indices: 100258--100439 Score: 271
Period size: 95 Copynumber: 1.9 Consensus size: 95
100248 TGGTTTTAAA
*
100258 AAAACATTTTTG-AAAACGTATAAGATATGGTTTTTAAAATA-TTTTTTGAAAACGTATAATATA
1 AAAACATTTTTGAAAAACGTATAAGATATGG-TTTTAAAA-ACCTTTTTGAAAACGTATAATATA
*
100321 -TGTTTTTGAAAACATTTTTGAAAACATTTTTG
64 TTG-TTTTAAAAACATTTTTGAAAACATTTTTG
* * *
100353 AAAACATTTTTGAAAAATGTATAATATATGGTTTTAAAAACCTTTTTGAAAACGTATAATATGTT
1 AAAACATTTTTGAAAAACGTATAAGATATGGTTTTAAAAACCTTTTTGAAAACGTATAATATATT
100418 GTTTTAAAAACATTTTTGAAAA
66 GTTTTAAAAACATTTTTGAAAA
100440 ACACATATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
94 1 0.01
95 60 0.76
96 18 0.23
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (95 bp):
AAAACATTTTTGAAAAACGTATAAGATATGGTTTTAAAAACCTTTTTGAAAACGTATAATATATT
GTTTTAAAAACATTTTTGAAAACATTTTTG
Found at i:100422 original size:35 final size:35
Alignment explanation
Indices: 100348--100555 Score: 195
Period size: 36 Copynumber: 5.8 Consensus size: 35
100338 TTGAAAACAT
* *
100348 TTTTGAAAACATTTTTGAAAA-ATGTATAATATATGG
1 TTTTAAAAACATTTTTGAAAACA--TATAATATATAG
* * * *
100384 TTTTAAAAACCTTTTTGAAAACGTATAATATGTTG
1 TTTTAAAAACATTTTTGAAAACATATAATATATAG
100419 TTTTAAAAACATTTTTGAAAAACACATATAATATATAG
1 TTTTAAAAACATTTTTG--AAA-ACATATAATATATAG
** * * * * *
100457 TTTTGAAAATATTTTTTTGAAAGCGTATAGTACATGG
1 TTTT-AAAA-ACATTTTTGAAAACATATAATATATAG
* *
100494 TTTTGAAAAC-GTTTTGAAAACATATAATATATAG
1 TTTTAAAAACATTTTTGAAAACATATAATATATAG
100528 TTTTAAAAACATATTTTGAAAACATATA
1 TTTTAAAAACAT-TTTTGAAAACATATA
100556 CATGTGTTTT
Statistics
Matches: 138, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
34 27 0.20
35 27 0.20
36 37 0.27
37 17 0.12
38 19 0.14
39 4 0.03
40 7 0.05
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.40
Consensus pattern (35 bp):
TTTTAAAAACATTTTTGAAAACATATAATATATAG
Found at i:100471 original size:109 final size:109
Alignment explanation
Indices: 100348--100549 Score: 273
Period size: 109 Copynumber: 1.8 Consensus size: 109
100338 TTGAAAACAT
* * * *
100348 TTTTGAAAACA-TTTTTGAAAAATGTATAATATATGGTTTTAAAAACCTTTTTGAAAACGTATAA
1 TTTTGAAAACATTTTTTG-AAAACGTATAATACATGGTTTTAAAAA-CGTTTTGAAAACATATAA
* *
100412 TATGTTGTTTTAAAAACAT-TTTTGAAAAACACATATAATATATAG
64 TATATAGTTTTAAAAACATATTTTGAAAAACACATATAATATATAG
* * * *
100457 TTTTGAAAATATTTTTTTGAAAGCGTATAGTACATGGTTTTGAAAACGTTTTGAAAACATATAAT
1 TTTTGAAAACA-TTTTTTGAAAACGTATAATACATGGTTTTAAAAACGTTTTGAAAACATATAAT
100522 ATATAGTTTTAAAAACATATTTTGAAAA
65 ATATAGTTTTAAAAACATATTTTGAAAA
100550 CATATACATG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
109 43 0.54
110 31 0.39
111 6 0.08
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (109 bp):
TTTTGAAAACATTTTTTGAAAACGTATAATACATGGTTTTAAAAACGTTTTGAAAACATATAATA
TATAGTTTTAAAAACATATTTTGAAAAACACATATAATATATAG
Found at i:100639 original size:6 final size:7
Alignment explanation
Indices: 100623--100705 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
100613 ATTTCGTCAC
100623 ATTATAT
1 ATTATAT
100630 ATTA-AT
1 ATTATAT
100636 ATTAT-T
1 ATTATAT
100642 -TT-TAT
1 ATTATAT
* *
100647 TTTATTT
1 ATTATAT
100654 ATTATAT
1 ATTATAT
100661 -TTATTAT
1 ATTA-TAT
100668 ATTATATT
1 ATTATA-T
*
100676 ATAATAT
1 ATTATAT
100683 ATTATAT
1 ATTATAT
*
100690 -TTATTT
1 ATTATAT
*
100696 ATTATTT
1 ATTATAT
100703 ATT
1 ATT
100706 TTGTTTATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 17 0.27
7 32 0.52
8 9 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
ATTATAT
Found at i:100647 original size:9 final size:9
Alignment explanation
Indices: 100635--100719 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 9
100625 TATATATTAA
100635 TATTATTTT
1 TATTATTTT
100644 TATT-TTATT
1 TATTATT-TT
*
100653 TATTATATT
1 TATTATTTT
*
100662 TATTATATTA
1 TATTAT-TTT
* *
100672 TATTATAATA
1 TATTAT-TTT
*
100682 TATTATATT
1 TATTATTTT
100691 TATTTATTATT
1 TA-TTATT-TT
100702 TATT-TTGTT
1 TATTATT-TT
100711 TATT-TTTT
1 TATTATTTT
100719 T
1 T
100720 TTCAGGTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.08
9 32 0.50
10 23 0.36
11 4 0.06
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (9 bp):
TATTATTTT
Found at i:100656 original size:4 final size:4
Alignment explanation
Indices: 100642--100706 Score: 51
Period size: 4 Copynumber: 14.8 Consensus size: 4
100632 TAATATTATT
*
100642 TTTA TTTTA TTTA TTATA TTTA TTATA TTATA TTATAA TATA TTATA TTTA
1 TTTA -TTTA TTTA TT-TA TTTA TT-TA TT-TA TT-T-A TTTA TT-TA TTTA
100693 TTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTT
100707 TGTTTATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.06
4 24 0.45
5 24 0.45
6 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:100676 original size:5 final size:5
Alignment explanation
Indices: 100627--100704 Score: 78
Period size: 5 Copynumber: 16.6 Consensus size: 5
100617 CGTCACATTA
* *
100627 TATAT TAATAT TAT-T TTTAT TTTAT T-TAT TATAT T-TAT TATAT TATAT
1 TATAT T-ATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
100675 TATAA TATAT TATAT T-TAT T-TAT TAT-T TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
100705 TTTGTTTATT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
4 23 0.35
5 37 0.57
6 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:100705 original size:20 final size:20
Alignment explanation
Indices: 100635--100715 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
100625 TATATATTAA
100635 TATTATTT-TTAT-TTTATT
1 TATTATTTATTATATTTATT
100653 TATTATATTTATTATA-TTATAT
1 TA-T-TATTTATTATATTTAT-T
* *
100675 TATAATATATTATATTTATT
1 TATTATTTATTATATTTATT
* *
100695 TATTATTTATTTTGTTTATT
1 TATTATTTATTATATTTATT
100715 T
1 T
100716 TTTTTTCAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 32 0.63
21 13 0.25
22 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (20 bp):
TATTATTTATTATATTTATT
Found at i:101918 original size:5 final size:5
Alignment explanation
Indices: 101904--101958 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
101894 ATTTCCTTTT
*
101904 ATTT- ATTTA ATTTA ATTTA ATTTA ATTTA ATTT- TTTTA TATTTA TATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA -ATTTA -ATTTA
101954 TATTT
1 -ATTT
101959 TTCAAATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 7 0.15
5 24 0.52
6 15 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
ATTTA
Found at i:102154 original size:29 final size:29
Alignment explanation
Indices: 102121--102179 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
102111 TTTTAATTTA
102121 ACCTTTAATTTTCACAATTAAGACAACCG
1 ACCTTTAATTTTCACAATTAAGACAACCG
*
102150 ACCTTTAATTTTCATAATTAAGACAACCG
1 ACCTTTAATTTTCACAATTAAGACAACCG
102179 A
1 A
102180 GAAGTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (29 bp):
ACCTTTAATTTTCACAATTAAGACAACCG
Found at i:102894 original size:15 final size:15
Alignment explanation
Indices: 102874--102924 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
102864 TTTCGGAAAA
102874 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
102889 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
*
102904 TGAATTACTGGAATT
1 TGAATTACTGAAATT
102919 TGAATT
1 TGAATT
102925 CTGGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.77
16 4 0.13
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:102938 original size:29 final size:30
Alignment explanation
Indices: 102868--102940 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
102858 TTGGTTTTTC
102868 GGAAAATGAATTACTGAAATTTGAATTACT
1 GGAAAATGAATTACTGAAATTTGAATTACT
*
102898 GGAAAATGAATTACTGGAATTTGAATT-CT
1 GGAAAATGAATTACTGAAATTTGAATTACT
102927 GGAAAATGAATTAC
1 GGAAAATGAATTAC
102941 ATTTCTGGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
GGAAAATGAATTACTGAAATTTGAATTACT
Found at i:103128 original size:19 final size:20
Alignment explanation
Indices: 103101--103139 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
103091 TATTTTAAAA
103101 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
103121 TATT-AAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
103140 AATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:103321 original size:28 final size:27
Alignment explanation
Indices: 103281--103361 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 27
103271 CTTTACTAAA
103281 ATATTATTTAAATATATAAATAATATTAT
1 ATATTA-TTAAATATATAAA-AATATTAT
103310 -TCATTATTAAATATATAAAAAAAGTATTAT
1 AT-ATTATTAAATATAT--AAAAA-TATTAT
103340 ATATTATTAAA-ATA-AAAAATAT
1 ATATTATTAAATATATAAAAATAT
103362 AATAATATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
25 3 0.06
26 5 0.11
28 11 0.23
29 9 0.19
30 18 0.38
31 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
ATATTATTAAATATATAAAAATATTAT
Found at i:103338 original size:30 final size:29
Alignment explanation
Indices: 103281--103358 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 29
103271 CTTTACTAAA
*
103281 ATATTATTTAAATATAT-AAATAATATTAT
1 ATATTA-TTAAATATATAAAAAAATATTAT
103310 -TCATTATTAAATATATAAAAAAAGTATTAT
1 AT-ATTATTAAATATATAAAAAAA-TATTAT
103340 ATATTATTAAA-ATA-AAAAA
1 ATATTATTAAATATATAAAAA
103359 TATAATAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 16 0.36
29 12 0.27
30 15 0.34
31 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAATATTAT
Found at i:103465 original size:24 final size:23
Alignment explanation
Indices: 103422--103514 Score: 66
Period size: 24 Copynumber: 3.8 Consensus size: 23
103412 AATATAATAT
103422 TATATTATTATAAATATTAATAAA
1 TATATT-TTATAAATATTAATAAA
*
103446 TATATTTT-TAAATATTTTAATAAT
1 TATATTTTATAAATA--TTAATAAA
*
103470 TAATATTTTGATGAAA-ATGATATTAAA
1 T-ATATTTT-AT-AAATAT--TAATAAA
*
103497 -ATATTTTATTAATATTAA
1 TATATTTTATAAATATTAA
103515 ATTCATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
22 8 0.15
23 4 0.07
24 18 0.33
25 15 0.27
27 7 0.13
28 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATTTTATAAATATTAATAAA
Found at i:103857 original size:38 final size:37
Alignment explanation
Indices: 103780--103855 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 37
103770 ACACACCCTT
* *
103780 AATTTATATATTTTCTTTAAAAAATTTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAAATTGAAATACATAA
* * *
103817 AATTTATATAATTTTTTTTACAAAATTGAAA-AGATAA
1 AATTTATAT-ATTTTCTTTAAAAAATTGAAATACATAA
103854 AA
1 AA
103856 ATAGGCTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
AATTTATATATTTTCTTTAAAAAATTGAAATACATAA
Found at i:105051 original size:33 final size:34
Alignment explanation
Indices: 105014--105077 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
105004 ATTTACAACT
105014 TCGATGACATTGTTAATTGGTTTTCA-TTAAACA
1 TCGATGACATTGTTAATTGGTTTTCACTTAAACA
105047 TCGATGACATTGTTAATTGGTTTTCACTTAA
1 TCGATGACATTGTTAATTGGTTTTCACTTAA
105078 TCTTTGTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
TCGATGACATTGTTAATTGGTTTTCACTTAAACA
Found at i:105596 original size:33 final size:33
Alignment explanation
Indices: 105554--105620 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
105544 GTTTTACTGA
*
105554 TTCCCATGTCTATTCCTGTCCTGTAACCAGGTT
1 TTCCCATGTCTATGCCTGTCCTGTAACCAGGTT
105587 TTCCCATGTCTATGCCTGTCCTGTAACCAGGTT
1 TTCCCATGTCTATGCCTGTCCTGTAACCAGGTT
105620 T
1 T
105621 GCCAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.39
Consensus pattern (33 bp):
TTCCCATGTCTATGCCTGTCCTGTAACCAGGTT
Found at i:106524 original size:161 final size:160
Alignment explanation
Indices: 106259--106592 Score: 560
Period size: 161 Copynumber: 2.1 Consensus size: 160
106249 TTACATTTAG
* *
106259 GGTTTAGGGTTGATGATTAGTCAAAATAATTAAAATGTTCATTCTTTAATTTGGGAGTTTAGGGT
1 GGTTTAGGGTTTATGATTAGTCAAAATAATTAAAATGTTCATTCTTCAATTTGGGAGTTTAGGGT
*
106324 TTATGGTTAGTCAAAATCTAATAAGGAAATATGGTTAGTCAAAATAGTCAACCAGAAAAACAGTT
66 TTATGGTTAGTCAAAATCCAATAAGGAAATATGGTTAGTCAAAATAGTCAACCA-AAAAACAGTT
*
106389 GAAATGTTCATTCATCAGTTTGGGAGTGTAT
130 GAAATGTTCATTCATCAGTTCGGGAGTGTAT
* *
106420 GGTTTAGGGTTTATGATTAGTCAAAATAATTGAAATGTTCATTCTTCATTTTGGGAGTTTAGGGT
1 GGTTTAGGGTTTATGATTAGTCAAAATAATTAAAATGTTCATTCTTCAATTTGGGAGTTTAGGGT
* *
106485 TTATGGTTAGTCAAAATCCAATCAGGAAATATGGTTAGTCAAAATAGTCAACCAAAAAATAGTTG
66 TTATGGTTAGTCAAAATCCAATAAGGAAATATGGTTAGTCAAAATAGTCAACCAAAAAACAGTTG
* *
106550 AAATGTTCATTCATCAGTTCGTGAGTTTAT
131 AAATGTTCATTCATCAGTTCGGGAGTGTAT
*
106580 GATTTAGGGTTTA
1 GGTTTAGGGTTTA
106593 GAGTTTATGT
Statistics
Matches: 162, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
160 49 0.30
161 113 0.70
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (160 bp):
GGTTTAGGGTTTATGATTAGTCAAAATAATTAAAATGTTCATTCTTCAATTTGGGAGTTTAGGGT
TTATGGTTAGTCAAAATCCAATAAGGAAATATGGTTAGTCAAAATAGTCAACCAAAAAACAGTTG
AAATGTTCATTCATCAGTTCGGGAGTGTAT
Done.