Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 65 of 120
Found at i:7411657 original size:34 final size:34
Alignment explanation
Indices: 7411594--7411659 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
7411584 AATAATAATT
*
7411594 AGATAAATAAAAGAAATAGATAAATAAAAAAAGC
1 AGATAAATAAAAGAAATAGATAAAGAAAAAAAGC
*
7411628 AGATAAATAATAA-AAATA-TTAATAGAAAAAAA
1 AGATAAATAA-AAGAAATAGATAA-AGAAAAAAA
7411660 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 3 0.11
34 23 0.82
35 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (34 bp):
AGATAAATAAAAGAAATAGATAAAGAAAAAAAGC
Found at i:7411703 original size:5 final size:6
Alignment explanation
Indices: 7411630--7411703 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
7411620 AAAAAAGCAG
** * * *
7411630 ATAAATA ATAAAA ATATTA ATAGAA A-AAAA ATAAAA ATAAAT ATATATA
1 ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA
* *
7411679 TTAAATA ATGAAA ATAAAA ATAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA
7411704 GCCCATTCGG
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
5 4 0.08
6 35 0.69
7 12 0.24
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (6 bp):
ATAAAA
Found at i:7413155 original size:19 final size:20
Alignment explanation
Indices: 7413125--7413163 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7413115 AGTTTCTATG
7413125 TTAGGATTTAAGTTTATGGA
1 TTAGGATTTAAGTTTATGGA
*
7413145 TTAGG-TTTAAGTTTTTGGA
1 TTAGGATTTAAGTTTATGGA
7413164 AAGATCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (20 bp):
TTAGGATTTAAGTTTATGGA
Found at i:7413567 original size:13 final size:13
Alignment explanation
Indices: 7413551--7413600 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
7413541 TTCCTTTTCC
7413551 ATTTTATTTTTTG
1 ATTTTATTTTTTG
7413564 A-TTTATTTTATTG
1 ATTTTATTTT-TTG
*
7413577 -TCTTAATTTTTT-
1 AT-TTTATTTTTTG
7413589 ATTTTATTTTTT
1 ATTTTATTTTTT
7413601 ACTCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 17 0.55
13 7 0.23
14 7 0.23
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (13 bp):
ATTTTATTTTTTG
Found at i:7413606 original size:26 final size:26
Alignment explanation
Indices: 7413556--7413611 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
7413546 TTTCCATTTT
*
7413556 ATTTTTTGATTTATTTTATTGTCTTA
1 ATTTTTTGATTTATTTTATTCTCTTA
*
7413582 ATTTTTT-ATTTTATTTT-TTACTCTTT
1 ATTTTTTGA-TTTATTTTATT-CTCTTA
7413608 ATTT
1 ATTT
7413612 AATTTCACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (26 bp):
ATTTTTTGATTTATTTTATTCTCTTA
Found at i:7413651 original size:15 final size:15
Alignment explanation
Indices: 7413631--7413661 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7413621 TTTTTTCCTC
*
7413631 TAAAAAAATAATAAA
1 TAAAAAAATAAAAAA
7413646 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
7413661 T
1 T
7413662 CTTTTCTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:7414594 original size:46 final size:46
Alignment explanation
Indices: 7414497--7414586 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
7414487 ATGTTTTCTT
* * * * *
7414497 TTCATTGCTTATACTTGCTTAATTATTTATTTATTTTTTATTTCTG
1 TTCATTGCTTATACTTGCTCAATTATTTATTTATATTGTATGTATG
*
7414543 TTCATTTCTTATACTTGCTCAATTATTTATTT-TATTGTATGTAT
1 TTCATTGCTTATACTTGCTCAATTATTTATTTATATTGTATGTAT
7414587 TTATCATTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
45 8 0.21
46 30 0.79
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.61
Consensus pattern (46 bp):
TTCATTGCTTATACTTGCTCAATTATTTATTTATATTGTATGTATG
Found at i:7418497 original size:120 final size:120
Alignment explanation
Indices: 7417702--7418508 Score: 392
Period size: 120 Copynumber: 6.7 Consensus size: 120
7417692 CGACTCTAGT
* * * * * *
7417702 CAGATCATTTCTTTGACTCGTGATTCCATCTCGATTAGTCATCTTTGACCTCGACTTAGTCTT-G
1 CAGATCATTTC-TTGACTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCAATCTTAG
** * ** * *
7417766 ATTACTTTATCTATTCGACTTGC-GATTTCATCCTAATCATTTGATCTCAGCTCCGAC
65 -TCGCTTTATCTATTTGACTCACAG-TTTCATCCTAGTCATTCGATCTCAGCTCCGAC
* * ** * * * ** *
7417823 CAGATCATTTCTTGACTTGTGA-TTCTGTCTTAATCAATTATTTTTTATTTCAACTCAATCTTGG
1 CAGATCATTTCTTGACTCGTGATTTC-ATCTCGATCAGTCATTTTTGACCTCAACTCAATCTTAG
* * * * * **
7417887 TCACTTTATCTATTTGACTCACAATTTCATCC-AGGTTATTCTATTTCAGCTCCGGT
65 TCGCTTTATCTATTTGACTCACAGTTTCATCCTA-GTCATTCGATCTCAGCTCCGAC
* * * * * * * ** *
7417943 CATATCATTTCTCTAACTCGCGATTTCATCTTGGTCAGACATCTTCAACCTCGACTCAATCTTAG
1 CAGATCATTTCT-TGACTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCAATCTTAG
* * * ** * * *
7418008 TCGCTTTATCTATTCT-ACGCGA-TGTTTTATCCCGGTCATTCAATCTC-GACTCTGGC
65 TCGCTTTATCTATT-TGACTC-ACAGTTTCATCCTAGTCATTCGATCTCAG-CTCCGAC
* * * * * * * * *
7418064 TAGATGATTTCTTAACTCGTGGTTTCATCCCAATCAGTTATCTTTGACATCAACT-AGATCTTAG
1 CAGATCATTTCTTGACTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCA-ATCTTAG
* * *** * * * ** *
7418128 TTGCTTTATCTATTCGACT-TGTGATTTCAT-CTCGGTTATTTGATCTTGGCT-CTAGC
65 TCGCTTTATCTATTTGACTCACAG-TTTCATCCT-AGTCATTCGATCTCAGCTCCGA-C
* * * * * * *
7418184 CAAATCATTTCTCTGACTCATGA-TTCTGTTTCGATCAGTCATTTTCGACCTTC-ACTTAATCCT
1 CAGATCATTTCT-TGACTCGTGATTTC-ATCTCGATCAGTCATTTTTGACC-TCAACTCAATCTT
** * * * * *
7418247 AGTCATTTTATCTATTCGACTCGCAGTTTCAT-CTCGGTCATT-AATCT-AGGCT-CTAGC
63 AGTCGCTTTATCTATTTGACTCACAGTTTCATCCT-AGTCATTCGATCTCA-GCTCCGA-C
* ** * * * * ***
7418304 CAAATCATTTCTCT-ATCTCGCAATTCCATCTCAATCAATCATTTTAGACCTCAACTTGGT-TCT
1 CAGATCATTTCT-TGA-CTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCAATCT-T
* *
7418367 AGTTGCTTTATCTATTTGACTCACAGTTTCATCCTAATCATTCGATCTCAGCTCCGAC
63 AGTCGCTTTATCTATTTGACTCACAGTTTCATCCTAGTCATTCGATCTCAGCTCCGAC
* * *
7418425 CAGATCATTTCTTGACTCGTGATTTCATCTCGATCAGTCATTTTTTACCTAAACTCAATCTTGGT
1 CAGATCATTTCTTGACTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCAATCTTAGT
* *
7418490 CGTTTTATCAATTTGACTC
66 CGCTTTATCTATTTGACTC
7418509 GTAATTTTGT
Statistics
Matches: 509, Mismatches: 144, Indels: 67
0.71 0.20 0.09
Matches are distributed among these distances:
119 10 0.02
120 308 0.61
121 179 0.35
122 12 0.02
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (120 bp):
CAGATCATTTCTTGACTCGTGATTTCATCTCGATCAGTCATTTTTGACCTCAACTCAATCTTAGT
CGCTTTATCTATTTGACTCACAGTTTCATCCTAGTCATTCGATCTCAGCTCCGAC
Found at i:7418648 original size:121 final size:121
Alignment explanation
Indices: 7418397--7418697 Score: 261
Period size: 121 Copynumber: 2.5 Consensus size: 121
7418387 TCACAGTTTC
* * * * *
7418397 ATCCTAATCATTCGATCTCAG-CTCC-GACCAGATCATTTCT-TGACTCGTGATT-TCATCTCGA
1 ATCCTAGTCATTCGATCT-AGACTCCAG-CTAGATCATTTCTCTGAATCGCGGTTCT-ATCTCGA
* * *** * * *
7418458 TC-AGTCATTTTTTACCTAAACTCAATCTTGGTCGTTTTATCAATTTGACTCGTAATTTT
63 TCGA-TCATCTTTGACCTTGGCTCAATCTTGATCGCTTTATCAATTCGACTCGTAATTTT
* * * * *** * *
7418517 GTCCTAGTCATTTGATCTTGGCTTTGGCTAGATCATTTTTCTTAATCGCGGTTCTATCTCGATCG
1 ATCCTAGTCATTCGATCTAGACTCCAGCTAGATCATTTCTCTGAATCGCGGTTCTATCTCGATCG
* * **
7418582 ATCATCTTTGACCTTGGCTCAATTTTGATCGCTTTATCTATTCGACTCGTGGTTTT
66 ATCATCTTTGACCTTGGCTCAATCTTGATCGCTTTATCAATTCGACTCGTAATTTT
* * * *
7418638 ATCTTGGTCATTCGATCTAGACTCCAGCTAGATCATTTCTCTGACTCGCGGTTCTGTCTC
1 ATCCTAGTCATTCGATCTAGACTCCAGCTAGATCATTTCTCTGAATCGCGGTTCTATCTC
7418698 AGTCAATCAT
Statistics
Matches: 139, Mismatches: 37, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
119 1 0.01
120 28 0.20
121 108 0.78
122 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (121 bp):
ATCCTAGTCATTCGATCTAGACTCCAGCTAGATCATTTCTCTGAATCGCGGTTCTATCTCGATCG
ATCATCTTTGACCTTGGCTCAATCTTGATCGCTTTATCAATTCGACTCGTAATTTT
Found at i:7419379 original size:3 final size:3
Alignment explanation
Indices: 7419371--7419501 Score: 77
Period size: 3 Copynumber: 46.3 Consensus size: 3
7419361 TATACTATAG
* *
7419371 TAT TAT TAT CA- TAT TAT TAT TAT TAG TA- TAT TA- TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
7419415 AAT ATAT TAT GGTAC TA- TAT TA- TAC TA- TAT CA- TAT TAT TAT TAT
1 TAT -TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
7419459 TAT TAT TAT TA- CAT TAT AAT TAT TAT TGT TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7419502 TTCTTTCTTC
Statistics
Matches: 100, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
2 19 0.19
3 77 0.77
4 2 0.02
5 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:7419401 original size:46 final size:46
Alignment explanation
Indices: 7419338--7419485 Score: 135
Period size: 46 Copynumber: 3.2 Consensus size: 46
7419328 GAATCATGTT
* * *
7419338 TTATTATT-TTTGTTATATCATATTATACTATAGTATTATTATCATA
1 TTATTATTATTAG-TATATCATATTATATTATAATATTATTATCATA
* **
7419384 TTATTATTATTAGTATATTATATTATATTATAATA-TATTATGGTA
1 TTATTATTATTAGTATATCATATTATATTATAATATTATTATCATA
* * *
7419429 CTA-TATTA-TACTATATCATATTATTATTATTATTATTATTA-CATTA
1 TTATTATTATTAGTATATCATATTA-TATTA-TAATATTATTATCA-TA
*
7419475 TAATTATTATT
1 TTATTATTATT
7419486 GTTATTTTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
43 13 0.16
44 10 0.12
45 14 0.17
46 35 0.43
47 8 0.10
48 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (46 bp):
TTATTATTATTAGTATATCATATTATATTATAATATTATTATCATA
Found at i:7419407 original size:5 final size:5
Alignment explanation
Indices: 7419350--7419481 Score: 75
Period size: 5 Copynumber: 23.8 Consensus size: 5
7419340 ATTATTTTTG
* * *
7419350 TTATA TCATA TTATA CTATAGTA TTATTA TCATA TTATTA TTATTA GTATA
1 TTATA TTATA TTATA -T-TA-TA TTA-TA TTATA TTA-TA TTA-TA TTATA
* * * *
7419401 TTATA TTATA TTATA ATATA TTATGGTA CTATA TTATA CTATA TCATA
1 TTATA TTATA TTATA TTATA TTA---TA TTATA TTATA TTATA TTATA
*
7419449 TTATTA TTATTA TTATTA TTACA TTATAA TTAT
1 TTA-TA TTA-TA TTA-TA TTATA TTAT-A TTAT
7419482 TATTGTTATT
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
5 53 0.52
6 39 0.39
7 3 0.03
8 6 0.06
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:7420373 original size:12 final size:12
Alignment explanation
Indices: 7420313--7420379 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
7420303 TTTTCATTTC
*
7420313 ATTTTATTTTTCC
1 ATTTTATTTTT-T
*
7420326 ATTTAATTTTTT
1 ATTTTATTTTTT
7420338 A-TTTATTTTATT
1 ATTTTATTTT-TT
* *
7420350 GTCTTAATTTTTT
1 AT-TTTATTTTTT
7420363 ATTTTATTTTTT
1 ATTTTATTTTTT
*
7420375 GTTTT
1 ATTTT
7420380 TTATTTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
11 7 0.16
12 16 0.37
13 13 0.30
14 7 0.16
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:7420385 original size:26 final size:25
Alignment explanation
Indices: 7420328--7420376 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7420318 ATTTTTCCAT
7420328 TTAATTTTTTATTTATTTTATTGTC
1 TTAATTTTTTATTTATTTTATTGTC
7420353 TTAATTTTTTATTTTATTTT-TTGT
1 TTAATTTTTTA-TTTATTTTATTGT
7420377 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (25 bp):
TTAATTTTTTATTTATTTTATTGTC
Found at i:7432148 original size:22 final size:22
Alignment explanation
Indices: 7432122--7432165 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7432112 TAGTATATTT
7432122 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCTCTAGAATTAA
7432144 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCTCTAGAATTAA
7432166 GGACAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (22 bp):
ATATTTGTATCTCTAGAATTAA
Found at i:7432358 original size:24 final size:24
Alignment explanation
Indices: 7432309--7432358 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
7432299 AATATACATT
7432309 CAGTTTTACTCTTAGTTTTTCACA
1 CAGTTTTACTCTTAGTTTTTCACA
*
7432333 CAGTTTTATTTCTTAGTTTTTC-CA
1 CAGTTTTA-CTCTTAGTTTTTCACA
7432357 CA
1 CA
7432359 AAAACTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (24 bp):
CAGTTTTACTCTTAGTTTTTCACA
Found at i:7445587 original size:22 final size:22
Alignment explanation
Indices: 7445561--7445604 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7445551 TGTATATTTA
*
7445561 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7445583 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7445605 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7455900 original size:16 final size:17
Alignment explanation
Indices: 7455876--7455908 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7455866 AATTTCTAGC
*
7455876 TTTATTTTTAT-TAAAA
1 TTTAATTTTATATAAAA
7455892 TTTAATTTTATATAAAA
1 TTTAATTTTATATAAAA
7455909 GAAATAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAATTTTATATAAAA
Found at i:7457557 original size:51 final size:51
Alignment explanation
Indices: 7457502--7457599 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
7457492 TATTCCTATC
*
7457502 TAAAAATTCAAATAATCGTATTTGAAATTTTAGATATTTTCATTTAAAACT
1 TAAAAATTCAAATAATCGTATTTCAAATTTTAGATATTTTCATTTAAAACT
*
7457553 TAAAAATTCAAATAGTCGTATTTCAAATTTTAGATATTTTCATTTAA
1 TAAAAATTCAAATAATCGTATTTCAAATTTTAGATATTTTCATTTAA
7457600 GTGGTGTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (51 bp):
TAAAAATTCAAATAATCGTATTTCAAATTTTAGATATTTTCATTTAAAACT
Found at i:7458349 original size:18 final size:19
Alignment explanation
Indices: 7458326--7458363 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7458316 CATGATATTA
*
7458326 AACTT-GTTTGAATGATTG
1 AACTTGGTTTCAATGATTG
*
7458344 AACTTGGTTTCCATGATTG
1 AACTTGGTTTCAATGATTG
7458363 A
1 A
7458364 TATGTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AACTTGGTTTCAATGATTG
Found at i:7458750 original size:161 final size:158
Alignment explanation
Indices: 7458284--7458863 Score: 449
Period size: 161 Copynumber: 3.6 Consensus size: 158
7458274 TGTCTGAATG
* * * *
7458284 TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTGTTTGAATGATTGAACTT
1 TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTATCTAAATGTTTGAACTT
* ** * * ** * * *
7458349 GGTT-TC-CATGA-TTGATATGTGTAAACAAGTTGTTGTTTATGTCTGTTTAGAATTTTTT-ATA
66 GATTGTCAC-T-ACTTGATATGCATGAATAAGTT-ACGTTTATGTTTGTTTAGACTTTTTTGACA
* *
7458410 TTATTAAAAGGTAAAAATGTAATTTTGTAGTTGTA
128 -TA--AAAA-GTAAAAATGTAATTTTGTAATTTTA
* * * ** * *
7458445 TTTCTATTGTAACAATTTAGATAACTCCAATACATGATATTAAACTTATATGAATGTTTGGAA-T
1 TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTATCTAAATGTTT-GAACT
* * ** * * * * *
7458509 TGGTTTTCAC-ACTTGATATTTATGAAAAAGTTACTTTTTATGGTTGTTTAGCACTCTTTATGCC
65 TGATTGTCACTACTTGATATGCATGAATAAGTTAC-GTTTATGTTTGTTTAG-ACT-TTTTTGAC
* * * *
7458573 GTTAAAGGATAAAAATGTAATTTTATAATTTTA
127 ATAAAAAG-TAAAAATGTAATTTTGTAATTTTA
* * *
7458606 TTTTTGTTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTCTAAATGTTTGACCTT
1 TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTATCTAAATGTTTGAACTT
*
7458671 GATTGTCACT-CTTAATATGCATGAATAAGTTACGATTTATGTTTGTTTAAGACTTTTTGTGACA
66 GATTGTCACTACTTGATATGCATGAATAAGTTACG-TTTATGTTTGTTT-AGACTTTTT-TGACA
* * *
7458735 TCAAAAAGCAAAAATGCAAATTTGTAATTATT-
128 T-AAAAAGTAAAAATGTAATTTTGTAATT-TTA
* * * * ** ** *
7458767 GTTTTGTTTTGACAATTTAAATATCTGCAATACATGATGCTAAACTTATCTAAATGTTTTAACTT
1 TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTATCTAAATGTTTGAACTT
* * *
7458832 GATTGCCA-TACTTGATATGCTTGATTAAGTTA
66 GATTGTCACTACTTGATATGCATGAATAAGTTA
7458864 TGGTTGATGT
Statistics
Matches: 333, Mismatches: 69, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
160 8 0.02
161 304 0.91
162 15 0.05
163 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (158 bp):
TTTTTGTTTTAACAATTTAGATAACTTAAATACATGATATTAAACTTATCTAAATGTTTGAACTT
GATTGTCACTACTTGATATGCATGAATAAGTTACGTTTATGTTTGTTTAGACTTTTTTGACATAA
AAAGTAAAAATGTAATTTTGTAATTTTA
Found at i:7462564 original size:26 final size:26
Alignment explanation
Indices: 7462534--7462586 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
7462524 TCTAAAAAAA
* *
7462534 TAAAAAT-TAATTTAATTGATTTTTT
1 TAAAAATATAATTAAATTGATTTATT
7462559 TAAAAATATAATTAAATTGATTTATT
1 TAAAAATATAATTAAATTGATTTATT
7462585 TA
1 TA
7462587 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TAAAAATATAATTAAATTGATTTATT
Found at i:7462696 original size:24 final size:24
Alignment explanation
Indices: 7462651--7462696 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
7462641 AAATAATATT
* *
7462651 TTTTCATAATTTTCTTACCATTAA
1 TTTTAATAATTTTCTAACCATTAA
* *
7462675 TTTTAATAATTTTGTAATCATT
1 TTTTAATAATTTTCTAACCATT
7462697 TTCATTCAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAATAATTTTCTAACCATTAA
Found at i:7463183 original size:24 final size:24
Alignment explanation
Indices: 7463138--7463184 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7463128 AAATATAATT
**
7463138 ATTATTAATTATTTTTTCAAAAAA
1 ATTATTAATTATTTTTGAAAAAAA
*
7463162 ATTATTATTTATTTTTGAAAAAA
1 ATTATTAATTATTTTTGAAAAAA
7463185 TCATAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTATTAATTATTTTTGAAAAAAA
Found at i:7465015 original size:123 final size:123
Alignment explanation
Indices: 7464796--7465041 Score: 411
Period size: 123 Copynumber: 2.0 Consensus size: 123
7464786 ACTGTGATTC
*
7464796 AGGTGAGTGTGAGAAGAAAAAGGACAAGAAGTCAAAGCGAAGGTCGAAGAGACGAGCATTAGGCT
1 AGGTGAGTGTGAGAAGAAAAAGGACAAGAAGTCAAAGCGAAGGTCGAAGAGACGAGCATCAGGCT
* * *
7464861 CTGATGATGATAGCAGTGATGAGTACAATAGTGGTTCTGAAGAAGAGAGGAGGAAGAA
66 CTGATAATGATAGCAGTGATGAATACAATAGTGGTTCTGAAGAAGAAAGGAGGAAGAA
* *
7464919 AGGTGAGTGTGAGAAGAAAAAGGACAAGAAGTCAAAGCGATGGTCGAAGAGACGATCATCAGGCT
1 AGGTGAGTGTGAGAAGAAAAAGGACAAGAAGTCAAAGCGAAGGTCGAAGAGACGAGCATCAGGCT
* **
7464984 CTGGTAATGATAGCAGTGATGAATATGATAGTGGTTCTGAAGAAGAAAGGAGGAAGAA
66 CTGATAATGATAGCAGTGATGAATACAATAGTGGTTCTGAAGAAGAAAGGAGGAAGAA
7465042 GCCAAGCCAC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 114 1.00
ACGTcount: A:0.40, C:0.09, G:0.34, T:0.17
Consensus pattern (123 bp):
AGGTGAGTGTGAGAAGAAAAAGGACAAGAAGTCAAAGCGAAGGTCGAAGAGACGAGCATCAGGCT
CTGATAATGATAGCAGTGATGAATACAATAGTGGTTCTGAAGAAGAAAGGAGGAAGAA
Found at i:7469156 original size:16 final size:17
Alignment explanation
Indices: 7469123--7469160 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7469113 CAATAGAGGA
7469123 TATTTTTTTAAATATTT
1 TATTTTTTTAAATATTT
* *
7469140 TATTTTTTTAATTTTTT
1 TATTTTTTTAAATATTT
7469157 TATT
1 TATT
7469161 AGATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTTAAATATTT
Found at i:7469248 original size:17 final size:17
Alignment explanation
Indices: 7469223--7469256 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7469213 ATTTTATTTA
7469223 TTTGCTTTTGTATTTTT
1 TTTGCTTTTGTATTTTT
* *
7469240 TTTGTTTTTGTGTTTTT
1 TTTGCTTTTGTATTTTT
7469257 AATTTGATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (17 bp):
TTTGCTTTTGTATTTTT
Found at i:7470275 original size:20 final size:20
Alignment explanation
Indices: 7470237--7470275 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7470227 TAATTATTTT
*
7470237 ATATTTAAATCAATTTAGAG
1 ATATTTAAATCAATATAGAG
7470257 ATATTTAAAAT-AATATAGA
1 ATATTT-AAATCAATATAGA
7470276 ATAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATTTAAATCAATATAGAG
Found at i:7477209 original size:23 final size:23
Alignment explanation
Indices: 7477179--7477226 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
7477169 ATCAATTCAA
7477179 GGCTAACAAAACCCATTATAGGC
1 GGCTAACAAAACCCATTATAGGC
*
7477202 GGCTAACAAAGCCCATTATAGGC
1 GGCTAACAAAACCCATTATAGGC
7477225 GG
1 GG
7477227 TTATTCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (23 bp):
GGCTAACAAAACCCATTATAGGC
Found at i:7479138 original size:59 final size:59
Alignment explanation
Indices: 7479062--7479190 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
7479052 ATTTGTTGAA
* *
7479062 GTTTAGGTTTTGGTTACCAATGTATTAAGTTTTTGTTGGTTATT-TATTTGTTAAAATTT
1 GTTTGGGTTTTGATTACCAATGTATTAAGTTTTTGTTGGTT-TTATATTTGTTAAAATTT
* * * * *
7479121 GTTTGGGTTTTGATTACCAATTTGTTGAGTTTTTGTTGGTTTTATATTTGTTGAGATTT
1 GTTTGGGTTTTGATTACCAATGTATTAAGTTTTTGTTGGTTTTATATTTGTTAAAATTT
*
7479180 ATTTGGGTTTT
1 GTTTGGGTTTT
7479191 AGTTATATAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 2 0.03
59 59 0.97
ACGTcount: A:0.18, C:0.03, G:0.22, T:0.57
Consensus pattern (59 bp):
GTTTGGGTTTTGATTACCAATGTATTAAGTTTTTGTTGGTTTTATATTTGTTAAAATTT
Found at i:7479185 original size:26 final size:27
Alignment explanation
Indices: 7479140--7479191 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
7479130 TTGATTACCA
*
7479140 ATTTGTTGAGTTTTTGTT-GGTTTTAT
1 ATTTGTTGAGTTTATGTTGGGTTTTAT
7479166 ATTTGTTGAGATTTAT-TTGGGTTTTA
1 ATTTGTTGAG-TTTATGTTGGGTTTTA
7479192 GTTATATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (27 bp):
ATTTGTTGAGTTTATGTTGGGTTTTAT
Found at i:7479575 original size:22 final size:22
Alignment explanation
Indices: 7479550--7479622 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
7479540 TATATATTAC
7479550 TAATTTATATATTGTTTTGAAG
1 TAATTTATATATTGTTTTGAAG
*
7479572 TAATTTATATA-T-TATT-AAG
1 TAATTTATATATTGTTTTGAAG
7479591 --ATTTATAT-TTGTTTTGAAG
1 TAATTTATATATTGTTTTGAAG
*
7479610 TGATTTATATATT
1 TAATTTATATATT
7479623 TGATAGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
17 9 0.21
18 3 0.07
19 6 0.14
20 3 0.07
21 9 0.21
22 13 0.30
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (22 bp):
TAATTTATATATTGTTTTGAAG
Found at i:7479580 original size:37 final size:38
Alignment explanation
Indices: 7479538--7479622 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
7479528 GAGATTATAG
7479538 TTTATATATTACT-A-ATTTATATATTGTTTTGAAGTAA
1 TTTATATATTACTAAGATTTATAT-TTGTTTTGAAGTAA
* *
7479575 TTTATATATTATTAAGATTTATATTTGTTTTGAAGTGA
1 TTTATATATTACTAAGATTTATATTTGTTTTGAAGTAA
7479613 TTTATATATT
1 TTTATATATT
7479623 TGATAGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 12 0.27
38 24 0.55
39 8 0.18
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATATATTACTAAGATTTATATTTGTTTTGAAGTAA
Found at i:7485792 original size:16 final size:17
Alignment explanation
Indices: 7485773--7485806 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7485763 TTATTTTTTC
7485773 TCTTTTAGTT-TTTAGT
1 TCTTTTAGTTCTTTAGT
*
7485789 TCTTTTATTTCTTTAGT
1 TCTTTTAGTTCTTTAGT
7485806 T
1 T
7485807 TAGTTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (17 bp):
TCTTTTAGTTCTTTAGT
Found at i:7488478 original size:24 final size:25
Alignment explanation
Indices: 7488450--7488505 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
7488440 GAGGTATTTG
*
7488450 ATGGATGGATGCTATA-GATGTTTT
1 ATGGATGGATACTATATGATGTTTT
* *
7488474 ATGGATGGATATTTTATGATGTTTT
1 ATGGATGGATACTATATGATGTTTT
7488499 ATGGATG
1 ATGGATG
7488506 TTATGGATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.45
Consensus pattern (25 bp):
ATGGATGGATACTATATGATGTTTT
Found at i:7488507 original size:11 final size:11
Alignment explanation
Indices: 7488478--7488555 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
7488468 TGTTTTATGG
*
7488478 ATGGATATTTT
1 ATGGATGTTTT
7488489 AT-GATGTTTT
1 ATGGATGTTTT
7488499 ATGGATG--TT
1 ATGGATGTTTT
*
7488508 ATGGATGTTTG
1 ATGGATGTTTT
*
7488519 ATAGATGTTTT
1 ATGGATGTTTT
7488530 AT-GATGTATTT
1 ATGGATGT-TTT
* *
7488541 GATGAATGTTAT
1 -ATGGATGTTTT
7488553 ATG
1 ATG
7488556 AATTTGATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 9 0.16
10 14 0.25
11 24 0.44
12 4 0.07
13 4 0.07
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (11 bp):
ATGGATGTTTT
Found at i:7488525 original size:20 final size:19
Alignment explanation
Indices: 7488487--7488527 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
7488477 GATGGATATT
* *
7488487 TTATGATGTTTTATGGATG
1 TTATGATGTTTGATAGATG
7488506 TTATGGATGTTTGATAGATG
1 TTAT-GATGTTTGATAGATG
7488526 TT
1 TT
7488528 TTATGATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (19 bp):
TTATGATGTTTGATAGATG
Found at i:7488760 original size:12 final size:12
Alignment explanation
Indices: 7488740--7488774 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7488730 ATTTTTATCA
* *
7488740 TTACTGACGGAT
1 TTACCGACGAAT
7488752 TTACCGACGAAT
1 TTACCGACGAAT
7488764 TTACCGACGAA
1 TTACCGACGAA
7488775 ATAAATCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (12 bp):
TTACCGACGAAT
Found at i:7488941 original size:26 final size:26
Alignment explanation
Indices: 7488907--7488958 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7488897 ACCGACGAAT
* * *
7488907 TTACTAATGGAAAATTTCATAGGTAA
1 TTACAAATGAAAAATTCCATAGGTAA
7488933 TTACAAATGAAAAATTCCATAGGTAA
1 TTACAAATGAAAAATTCCATAGGTAA
7488959 AACCATTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (26 bp):
TTACAAATGAAAAATTCCATAGGTAA
Found at i:7499743 original size:68 final size:67
Alignment explanation
Indices: 7499644--7499819 Score: 237
Period size: 68 Copynumber: 2.6 Consensus size: 67
7499634 TTCGAATGCA
* *
7499644 AATATTTGAATTTTAGATGTGAATATCTAAAATTTTTAAATAAGAACCTTTAAAATTTTCAAATG
1 AATATTTGAATTTTAGATGTGAATCTCTAAAATTTTCAAATAAGAACCTTTAAAATTTTCAAATG
7499709 TG
66 TG
* * * ** *
7499711 AATTTTTGAAATTTTGGATGTGAATC-CTTAAAATTTTCAAAAAAGAATTTTTAAACTTTTCAAA
1 AATATTTG-AATTTTAGATGTGAATCTC-TAAAATTTTCAAATAAGAACCTTTAAAATTTTCAAA
7499775 TGTG
64 TGTG
* *
7499779 AATATTTGAATTTTTGATGTAAATCTCTAAAATTTTCAAAT
1 AATATTTGAATTTTAGATGTGAATCTCTAAAATTTTCAAAT
7499820 GTAAATATTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
67 36 0.38
68 58 0.62
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (67 bp):
AATATTTGAATTTTAGATGTGAATCTCTAAAATTTTCAAATAAGAACCTTTAAAATTTTCAAATG
TG
Found at i:7499818 original size:44 final size:45
Alignment explanation
Indices: 7499762--7499870 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
7499752 AAAGAATTTT
* * *
7499762 TAAACTTTTCAAATGTGAATATTTG-AATTTTTGATGTAAA-TCTC
1 TAAAATTTTCAAATGTGAATATTTGAAAATTTGGATGTAAATTC-C
* *
7499806 TAAAATTTTCAAATGTAAATATTTGAAAATTTGGATGTGAATTCC
1 TAAAATTTTCAAATGTGAATATTTGAAAATTTGGATGTAAATTCC
* *
7499851 TAAAAGTTTCAAATGAGAAT
1 TAAAATTTTCAAATGTGAAT
7499871 CTTTTAACCT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 23 0.42
45 30 0.55
46 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (45 bp):
TAAAATTTTCAAATGTGAATATTTGAAAATTTGGATGTAAATTCC
Found at i:7499831 original size:112 final size:111
Alignment explanation
Indices: 7499694--7499959 Score: 306
Period size: 112 Copynumber: 2.4 Consensus size: 111
7499684 TAAGAACCTT
* *
7499694 TAAAATTTTCAAATGTGAATTTTTGAAATTTTGGATGTGAATCCTTAAAATTTTCAAAAAAGAAT
1 TAAAATTTTCAAATGT-AAATTTTGAAATTTTGGATGTGAATCC-TAAAAGTTTCAAAAAAGAAT
* * **
7499759 -TTTTAAACTTTTCA-AATGTGAATATTTG-AATTTTTGATGTAAATCTC
64 CTTTT-AACCTTT-AGAATGTGAATATTTGAAATTTTGGACATAAATCTC
* **
7499806 TAAAATTTTCAAATGTAAATATTTGAAAATTTGGATGTGAATTCCTAAAAGTTTCAAATGAGAAT
1 TAAAATTTTCAAATGTAAAT-TTTGAAATTTTGGATGTGAA-TCCTAAAAGTTTCAAAAAAGAAT
* * *
7499871 CTTTTAACCTTTAGAATGTGAATCTTTGAAATTTTGGACATGAATCTT
64 CTTTTAACCTTTAGAATGTGAATATTTGAAATTTTGGACATAAATCTC
* * *
7499919 TGAGATTTTCAAATGTAAACTTTTG-AATCTTGGATGTGAAT
1 TAAAATTTTCAAATGTAAA-TTTTGAAATTTTGGATGTGAAT
7499960 TTATAAGATT
Statistics
Matches: 132, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
111 5 0.04
112 84 0.64
113 42 0.32
114 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (111 bp):
TAAAATTTTCAAATGTAAATTTTGAAATTTTGGATGTGAATCCTAAAAGTTTCAAAAAAGAATCT
TTTAACCTTTAGAATGTGAATATTTGAAATTTTGGACATAAATCTC
Found at i:7499969 original size:44 final size:44
Alignment explanation
Indices: 7499921--7500015 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
7499911 TGAATCTTTG
* * * *
7499921 AGATTTTCAAATGTA-AACTTTTGAATCTTGGATGTGAATTTATA
1 AGATTTTCAAAT-AAGAACCTTTGAATCTTGGATGTAAATCTATA
* *
7499965 AGATTTTCGAATAAGAACCTTTGAATCTTGGATGTAAATCTCTA
1 AGATTTTCAAATAAGAACCTTTGAATCTTGGATGTAAATCTATA
7500009 AGATTTT
1 AGATTTT
7500016 TGAATGTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (44 bp):
AGATTTTCAAATAAGAACCTTTGAATCTTGGATGTAAATCTATA
Found at i:7500143 original size:18 final size:18
Alignment explanation
Indices: 7500123--7500438 Score: 151
Period size: 17 Copynumber: 17.6 Consensus size: 18
7500113 GAATTTTTTT
*
7500123 AAATCTTGAATCTTTTGTA
1 AAATCTTGAATCTTTTG-C
* *
7500142 AAATTTTGAATCTTCATG-
1 AAATCTTGAATCTT-TTGC
*
7500160 -AATCTTGAATCTTTTGT
1 AAATCTTGAATCTTTTGC
* * * *
7500177 GAATCTTTAAATTTCTTTGT
1 AAATC-TTGAATCT-TTTGC
*
7500197 GAATCTTGAATCTTTTGC
1 AAATCTTGAATCTTTTGC
* *
7500215 AAATATTTGAATCATTATG-
1 AAAT-CTTGAATC-TTTTGC
*
7500234 -AATCTTAAATCTTTTG-
1 AAATCTTGAATCTTTTGC
* *
7500250 -AATCTTTAAATC-TTTAC
1 AAATC-TTGAATCTTTTGC
7500267 AAATCTTGAATCTTTTG-
1 AAATCTTGAATCTTTTGC
* *
7500284 AGAATTTTTGAA-CTTTTAC
1 A-AA-TCTTGAATCTTTTGC
* *
7500303 AAATTTTGAATC-CTTGC
1 AAATCTTGAATCTTTTGC
*
7500320 GAATCTTGAATCTTTGTG-
1 AAATCTTGAATCTTT-TGC
* *
7500338 -AATTTTGAATCTTTTGTG
1 AAATCTTGAATCTTTTG-C
7500356 AATAT-TTGAATC-TTTGC
1 AA-ATCTTGAATCTTTTGC
**
7500373 AAATCTTGAATCTTTTAT
1 AAATCTTGAATCTTTTGC
* *
7500391 GAATCTTTGAATC-CTTGC
1 AAATC-TTGAATCTTTTGC
*
7500409 AAATCTTGTA-CATTTTGC
1 AAATCTTGAATC-TTTTGC
7500427 AAATCTTTGAAT
1 AAATC-TTGAAT
7500439 TTCTTTACAA
Statistics
Matches: 232, Mismatches: 37, Indels: 55
0.72 0.11 0.17
Matches are distributed among these distances:
16 18 0.08
17 78 0.34
18 58 0.25
19 60 0.26
20 18 0.08
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.47
Consensus pattern (18 bp):
AAATCTTGAATCTTTTGC
Found at i:7500270 original size:52 final size:54
Alignment explanation
Indices: 7500160--7500278 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 54
7500150 AATCTTCATG
* * * *
7500160 AATCTTGAATCTTTTGTGAATCTTTAAATTTCTTTGTGAATCTTGAATCTTTTGCA
1 AATCTTGAATC-ATTATGAATCTTTAAA-TTCTTTGTGAATCTTAAATCTTTTACA
*
7500216 AATATTTGAATCATTATGAATC-TTAAA-TCTTT-TGAATCTTTAAATC-TTTACA
1 AAT-CTTGAATCATTATGAATCTTTAAATTCTTTGTGAATC-TTAAATCTTTTACA
7500268 AATCTTGAATC
1 AATCTTGAATC
7500279 TTTTGAGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
51 7 0.13
52 14 0.25
53 11 0.20
55 5 0.09
56 11 0.20
57 7 0.13
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (54 bp):
AATCTTGAATCATTATGAATCTTTAAATTCTTTGTGAATCTTAAATCTTTTACA
Found at i:7500327 original size:53 final size:55
Alignment explanation
Indices: 7500266--7500403 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 55
7500256 TAAATCTTTA
7500266 CAAATCTTGAATCTTTTGAGAATTTTTGAA-CTTTTACAAAT-TTTGAATCCTTG
1 CAAATCTTGAATCTTTTGAGAATTTTTGAATCTTTTACAAATATTTGAATCCTTG
* * *** *
7500319 CGAATCTTGAATC-TTTGTGAA-TTTTGAATCTTTTGTGAATATTTGAATCTTTG
1 CAAATCTTGAATCTTTTGAGAATTTTTGAATCTTTTACAAATATTTGAATCCTTG
*
7500372 CAAATCTTGAATCTTTT-ATGAATCTTTGAATC
1 CAAATCTTGAATCTTTTGA-GAATTTTTGAATC
7500404 CTTGCAAATC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
51 7 0.10
52 15 0.21
53 35 0.49
54 6 0.08
55 8 0.11
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.46
Consensus pattern (55 bp):
CAAATCTTGAATCTTTTGAGAATTTTTGAATCTTTTACAAATATTTGAATCCTTG
Found at i:7500394 original size:36 final size:36
Alignment explanation
Indices: 7500123--7500579 Score: 312
Period size: 36 Copynumber: 12.7 Consensus size: 36
7500113 GAATTTTTTT
*
7500123 AAATCTTGAATCTTTTGTAAAAT-TTTGAATC-TT-C
1 AAATCTTGAATCTTTTGT-GAATCTTTGAATCTTTGC
* *
7500157 ATGAATCTTGAATCTTTTGTGAATCTTTAAATTTCTTTGT
1 A--AATCTTGAATCTTTTGTGAATCTTTGAA--TCTTTGC
* ** *
7500197 GAATCTTGAATCTTTTGCAAATATTTGAATCATTATG-
1 AAATCTTGAATCTTTTGTGAATCTTTGAATC-TT-TGC
* * *
7500234 -AATCTTAAATC-TTT-TGAATCTTTAAATCTTTAC
1 AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
* * *
7500267 AAATCTTGAATCTTTTGAGAATTTTTGAA-CTTTTAC
1 AAATCTTGAATCTTTTGTGAATCTTTGAATC-TTTGC
* * * *
7500303 AAATTTTGAATC-CTTGCGAATC-TTGAATCTTTGT
1 AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
* * *
7500337 GAATTTTGAATCTTTTGTGAATATTTGAATCTTTGC
1 AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
* *
7500373 AAATCTTGAATCTTTTATGAATCTTTGAATCCTTGC
1 AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
* ** *
7500409 AAATCTTGTA-CATTTTGCAAATCTTTGAATTTCTTTAC
1 AAATCTTGAATC-TTTTGTGAATCTTTGAA--TCTTTGC
* * ** * *
7500447 AAAT-TTTAAGTATTTTACGAACCTTTGAATCTTTGT
1 AAATCTTGAA-TCTTTTGTGAATCTTTGAATCTTTGC
* * * *
7500483 GAATTTTGAATCTTTTGTGAACCTTTGAATCTTTAC
1 AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
* * * * *
7500519 AAATCTT-AAGTTTTTTATGAACCTAT-AAGTCTTTAC
1 AAATCTTGAA-TCTTTTGTGAATCTTTGAA-TCTTTGC
*
7500555 AAGTCTTGAATCTTTTGTGAATCTT
1 AAATCTTGAATCTTTTGTGAATCTT
7500580 ATGTCTTTGC
Statistics
Matches: 332, Mismatches: 65, Indels: 50
0.74 0.15 0.11
Matches are distributed among these distances:
32 1 0.00
33 2 0.01
34 40 0.12
35 30 0.09
36 195 0.59
37 11 0.03
38 51 0.15
39 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (36 bp):
AAATCTTGAATCTTTTGTGAATCTTTGAATCTTTGC
Found at i:7500473 original size:74 final size:72
Alignment explanation
Indices: 7500198--7500571 Score: 203
Period size: 70 Copynumber: 5.2 Consensus size: 72
7500188 TTTCTTTGTG
** * ** * *
7500198 AATCTTGAATCTTTTGCAAATATTTGAATCATTATGAATCTTAA--ATCTTT-TGAATCTTTAAA
1 AATCTTGAATCTTTTGCAAACCTTTGAATCTTTACAAATCTTAAGTAT-TTTATGAACCTTTGAA
* *
7500260 TCTTTACA
65 TCCTTGCA
** * ** ** *
7500268 AATCTTGAATCTTTTG-AGAATTTTTGAA-CTTTTACAAATTTTGAA-T-CCTTGCGAATC-TTG
1 AATCTTGAATCTTTTGCA-AACCTTTGAATC-TTTACAAATCTT-AAGTATTTTATGAACCTTTG
* **
7500328 AATCTTTGTG
63 AATCCTTGCA
* ** ** * * *
7500338 AATTTTGAATCTTTTGTGAATATTTGAATCTTTGCAAATCTTGAA-TCTTTTATGAATCTTTGAA
1 AATCTTGAATCTTTTGCAAACCTTTGAATCTTTACAAATCTT-AAGTATTTTATGAACCTTTGAA
7500402 TCCTTGCA
65 TCCTTGCA
* * * *
7500410 AATCTTGTA-CATTTTGCAAATCTTTGAATTTCTTTACAAATTTTAAGTATTTTACGAACCTTTG
1 AATCTTGAATC-TTTTGCAAACCTTTGAA--TCTTTACAAATCTTAAGTATTTTATGAACCTTTG
* **
7500474 AATCTTTGTG
63 AATCCTTGCA
* ** * *
7500484 AATTTTGAATCTTTTGTGAACCTTTGAATCTTTACAAATCTTAAGTTTTTTATGAACCTAT-AAG
1 AATCTTGAATCTTTTGCAAACCTTTGAATCTTTACAAATCTTAAGTATTTTATGAACCTTTGAA-
* *
7500548 TCTTTACA
65 TCCTTGCA
*
7500556 AGTCTTGAATCTTTTG
1 AATCTTGAATCTTTTG
7500572 TGAATCTTAT
Statistics
Matches: 238, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
69 2 0.01
70 82 0.34
71 18 0.08
72 79 0.33
73 2 0.01
74 54 0.23
75 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (72 bp):
AATCTTGAATCTTTTGCAAACCTTTGAATCTTTACAAATCTTAAGTATTTTATGAACCTTTGAAT
CCTTGCA
Found at i:7501241 original size:7 final size:7
Alignment explanation
Indices: 7501224--7501283 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 7
7501214 TCAACCGCAG
7501224 ATTTTTCT
1 ATTTTT-T
7501232 ATTTTTT
1 ATTTTTT
7501239 A-TTTTT
1 ATTTTTT
7501245 A-TTTTT
1 ATTTTTT
*
7501251 ACTTTTT
1 ATTTTTT
*
7501258 ATTTCTT
1 ATTTTTT
7501265 -TTTTTT
1 ATTTTTT
*
7501271 -TTGTTT
1 ATTTTTT
7501277 ATTTTTT
1 ATTTTTT
7501284 CTCATTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
6 22 0.49
7 17 0.38
8 6 0.13
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:7501258 original size:19 final size:17
Alignment explanation
Indices: 7501234--7501283 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
7501224 ATTTTTCTAT
7501234 TTTTTATTTTTATTTTTAC
1 TTTTTATTTTT-TTTTT-C
*
7501253 TTTTTATTTCTTTTTTTT
1 TTTTTATTT-TTTTTTTC
7501271 TTGTTTATTTTTT
1 TT-TTTATTTTTT
7501284 CTCATTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 21 0.75
20 2 0.07
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTATTTTTTTTTTC
Found at i:7501441 original size:49 final size:47
Alignment explanation
Indices: 7501382--7501573 Score: 151
Period size: 49 Copynumber: 4.0 Consensus size: 47
7501372 TTATATTTAT
*
7501382 TTGCGTGATTTTTATTATATTTATTTGCATGATATTTTTGTATGATTAC
1 TTGCATGATTTTTATTATATTTA-TTGCATGATATTTTTGTATGATT-C
*
7501431 TTGCATGATTTTTATTATATTTCATTGCATGAT-TTATTATG-AT-ATTT
1 TTGCATGATTTTTATTATATTT-ATTGCATGATATT-TT-TGTATGATTC
* * * * * *
7501478 TTTCATAGTATTATTATTATATTTTTTGTAGGATTATTTTTGCATGA-TC
1 TTGCAT-G-ATTTTTATTATATTTATTGCATGA-TATTTTTGTATGATTC
* * *
7501527 TTTGCATG-TTTTAATTATAATATTATTACATGATATTTTTCTATGAT
1 -TTGCATGATTTTTATTAT-AT-TTATTGCATGATATTTTTGTATGAT
7501574 ATTTTGATAA
Statistics
Matches: 113, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
47 13 0.12
48 27 0.24
49 62 0.55
50 11 0.10
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (47 bp):
TTGCATGATTTTTATTATATTTATTGCATGATATTTTTGTATGATTC
Found at i:7501475 original size:25 final size:24
Alignment explanation
Indices: 7501369--7501505 Score: 133
Period size: 24 Copynumber: 5.7 Consensus size: 24
7501359 ATGATTTTTA
*
7501369 TTATTATATTTATTTGCGTGATTT
1 TTATTATATTTATTTGCATGATTT
7501393 TTATTATATTTATTTGCATGATATT
1 TTATTATATTTATTTGCATGAT-TT
*
7501418 TT-TGTATGA-TTACTTGCATGATTT
1 TTAT-TAT-ATTTATTTGCATGATTT
7501442 TTATTATATTTCA-TTGCATGATTT
1 TTATTATATTT-ATTTGCATGATTT
* *
7501466 ATTATGATATTT-TTT-CATAGTATTA
1 -TTATTATATTTATTTGCAT-G-ATTT
7501491 TTATTATATTT-TTTG
1 TTATTATATTTATTTG
7501506 TAGGATTATT
Statistics
Matches: 97, Mismatches: 5, Indels: 21
0.79 0.04 0.17
Matches are distributed among these distances:
23 4 0.04
24 58 0.60
25 34 0.35
26 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (24 bp):
TTATTATATTTATTTGCATGATTT
Found at i:7501513 original size:23 final size:23
Alignment explanation
Indices: 7501437--7501515 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
7501427 TTACTTGCAT
* * * *
7501437 GATTTTTATTATATTTCATTGCAT
1 GATTATTATTATATTT-TTTGTAG
* *
7501461 GATTTATTATGATATTTTTTCATAG
1 GA-TTATTATTATATTTTTT-GTAG
*
7501486 TATTATTATTATATTTTTTGTAG
1 GATTATTATTATATTTTTTGTAG
7501509 GATTATT
1 GATTATT
7501516 TTTGCATGAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 9 0.21
24 20 0.47
25 14 0.33
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.59
Consensus pattern (23 bp):
GATTATTATTATATTTTTTGTAG
Found at i:7502782 original size:25 final size:26
Alignment explanation
Indices: 7502754--7502815 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
7502744 GCCCTTTGAA
7502754 CATGATTGGGTAATGCCCCTTA-A-AG
1 CATGATTGGGTAATG-CCCTTAGAGAG
* ***
7502779 CATGCTCCAGTAATGCCCTTAGAGAG
1 CATGATTGGGTAATGCCCTTAGAGAG
7502805 CATGATTGGGT
1 CATGATTGGGT
7502816 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
24 6 0.22
25 12 0.44
26 9 0.33
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (26 bp):
CATGATTGGGTAATGCCCTTAGAGAG
Found at i:7509845 original size:30 final size:30
Alignment explanation
Indices: 7509804--7509861 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7509794 AAAATGAACT
7509804 ATTGTCGAGAAAAATTATAACAAACTTACA
1 ATTGTCGAGAAAAATTATAACAAACTTACA
* ** *
7509834 ATTGTCTAGAAATTTTATATCAAACTTA
1 ATTGTCGAGAAAAATTATAACAAACTTA
7509862 GGATCAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
ATTGTCGAGAAAAATTATAACAAACTTACA
Found at i:7514986 original size:87 final size:87
Alignment explanation
Indices: 7514840--7515011 Score: 317
Period size: 87 Copynumber: 2.0 Consensus size: 87
7514830 TCATCCTTCT
*
7514840 CGAGAGTAAATCCTAAAACTCACAATATGAAGGATAAAACTTAGCCACATAGTTCAAGTCACTTG
1 CGAGAGTAAATCCTAAAACTCACAATATGAAGGATAAAACTTAGCCACACAGTTCAAGTCACTTG
*
7514905 TCAACTTTCTAATGGACACTCC
66 TCAACTTTCTAATGAACACTCC
*
7514927 CGAGAGTAAATCCTGAAACTCACAATATGAAGGATAAAACTTAGCCACACAGTTCAAGTCACTTG
1 CGAGAGTAAATCCTAAAACTCACAATATGAAGGATAAAACTTAGCCACACAGTTCAAGTCACTTG
7514992 TCAACTTTCTAATGAACACT
66 TCAACTTTCTAATGAACACT
7515012 AAGTTACTTG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (87 bp):
CGAGAGTAAATCCTAAAACTCACAATATGAAGGATAAAACTTAGCCACACAGTTCAAGTCACTTG
TCAACTTTCTAATGAACACTCC
Found at i:7519954 original size:13 final size:13
Alignment explanation
Indices: 7519936--7519961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7519926 ATCATCAACA
7519936 AATTAATTACTTT
1 AATTAATTACTTT
7519949 AATTAATTACTTT
1 AATTAATTACTTT
7519962 CATGCAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTAATTACTTT
Found at i:7521263 original size:21 final size:21
Alignment explanation
Indices: 7521225--7521446 Score: 118
Period size: 21 Copynumber: 10.8 Consensus size: 21
7521215 AACAATATTA
*
7521225 AATATTAATACATTAATTTAAC
1 AATATTAA-ATATTAATTTAAC
* *
7521247 AAAATTAAATTTTAATTT-AC
1 AATATTAAATATTAATTTAAC
* * *
7521267 TATTATTAAATATTTATTTAAT
1 -AATATTAAATATTAATTTAAC
* *
7521289 AATATTAAATATTCATTTAAT
1 AATATTAAATATTAATTTAAC
*
7521310 AATATTAAATATTCATTT---
1 AATATTAAATATTAATTTAAC
* **
7521328 AATA--ATAT-TTAATTTAGT
1 AATATTAAATATTAATTTAAC
* * *
7521346 ATTGTTAAATATTAATTTAAT
1 AATATTAAATATTAATTTAAC
* * * * *
7521367 ATTATTGAATATGAATTTCAT
1 AATATTAAATATTAATTTAAC
* * *
7521388 AATATTGAATATTAAATTTCAT
1 AATATTAAATATT-AATTTAAC
* *
7521410 AATATAAAATATTCATTTAA-
1 AATATTAAATATTAATTTAAC
* *
7521430 AATATTTAACATTAATT
1 AATATTAAATATTAATT
7521447 AATAATACGT
Statistics
Matches: 161, Mismatches: 30, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
15 6 0.04
16 3 0.02
18 6 0.04
20 18 0.11
21 101 0.63
22 27 0.17
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
AATATTAAATATTAATTTAAC
Found at i:7521289 original size:11 final size:10
Alignment explanation
Indices: 7521261--7521547 Score: 88
Period size: 10 Copynumber: 27.8 Consensus size: 10
7521251 TTAAATTTTA
*
7521261 ATTTACTATT
1 ATTTAATATT
*
7521271 ATTAAATATTT
1 ATTTAATA-TT
*
7521282 ATTTAATAAT
1 ATTTAATATT
*
7521292 ATTAAATATT
1 ATTTAATATT
*
7521302 CATTTAATAAT
1 -ATTTAATATT
*
7521313 ATTAAATATT
1 ATTTAATATT
*
7521323 CATTTAATAAT
1 -ATTTAATATT
*
7521334 ATTTAATTTAGT
1 ATTTAA--TATT
7521346 ATTGTTAAATATT
1 A-T-TT-AATATT
7521359 AATTTAATATT
1 -ATTTAATATT
* *
7521370 ATTGAATATGA
1 ATTTAATAT-T
* *
7521381 ATTTCATAAT
1 ATTTAATATT
*
7521391 ATTGAATATT
1 ATTTAATATT
* *
7521401 AAATTTCATAAT
1 --ATTTAATATT
**
7521413 ATAAAATATT
1 ATTTAATATT
*
7521423 CATTTAA-AAT
1 -ATTTAATATT
*
7521433 ATTTAACATT
1 ATTTAATATT
* *
7521443 AATTAATAAT
1 ATTTAATATT
* *
7521453 ACGTTAATATG
1 A-TTTAATATT
7521464 ATTT-A-ATT
1 ATTTAATATT
* * *
7521472 AGTTGAAAAAT
1 A-TTTAATATT
7521483 ATTTTAATATT
1 A-TTTAATATT
* *
7521494 ATTCAAT-TA
1 ATTTAATATT
7521503 ATTTTAATATT
1 A-TTTAATATT
*
7521514 GTTTAATATT
1 ATTTAATATT
7521524 A---AATCA--
1 ATTTAAT-ATT
7521530 ATTTAATATT
1 ATTTAATATT
7521540 ATTTAATA
1 ATTTAATA
7521548 GCTCTAAATA
Statistics
Matches: 197, Mismatches: 54, Indels: 52
0.65 0.18 0.17
Matches are distributed among these distances:
6 1 0.01
7 3 0.02
8 5 0.03
9 14 0.07
10 92 0.47
11 59 0.30
12 13 0.07
13 5 0.03
14 3 0.02
15 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (10 bp):
ATTTAATATT
Found at i:7521296 original size:42 final size:42
Alignment explanation
Indices: 7521225--7521453 Score: 141
Period size: 42 Copynumber: 5.6 Consensus size: 42
7521215 AACAATATTA
* * * * *
7521225 AATATTAATACATTAATTTAACAAAATTAAATTTTAATTTACT
1 AATATTAA-ATATTCATTTAATAATATTAAATTTTAATTTAAT
* * * *
7521268 ATTATTAAATATTTATTTAATAATATTAAATATTCATTTAAT
1 AATATTAAATATTCATTTAATAATATTAAATTTTAATTTAAT
*
7521310 AATATTAAATATTCATTTAAT-A-A-T--A-TTTAATTTAGT
1 AATATTAAATATTCATTTAATAATATTAAATTTTAATTTAAT
* * * * * * * *
7521346 ATTGTTAAATATTAATTTAATATTATTGAATATGAATTTCAT
1 AATATTAAATATTCATTTAATAATATTAAATTTTAATTTAAT
* * * * * *
7521388 AATATTGAATATTAAATTTCATAATATAAAATATTCATTTAA-
1 AATATTAAATATT-CATTTAATAATATTAAATTTTAATTTAAT
* * *
7521430 AATATTTAACATT-AATTAATAATA
1 AATATTAAATATTCATTTAATAATA
7521454 CGTTAATATG
Statistics
Matches: 144, Mismatches: 35, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
36 26 0.18
37 1 0.01
38 1 0.01
39 2 0.01
40 10 0.07
41 2 0.01
42 74 0.51
43 28 0.19
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (42 bp):
AATATTAAATATTCATTTAATAATATTAAATTTTAATTTAAT
Found at i:7521339 original size:78 final size:79
Alignment explanation
Indices: 7521257--7521414 Score: 210
Period size: 78 Copynumber: 2.0 Consensus size: 79
7521247 AAAATTAAAT
* **
7521257 TTTAATTTACTATTATTAAATATTTATTTAATAATATTAAATATTCATTTAATAATATTAAATAT
1 TTTAATTTACTATTATTAAATATTAATTTAATAATATTAAATATGAATTTAATAATATTAAATAT
*
7521322 T-CATTTAATAATA
66 TAAATTTAATAATA
* * * * * *
7521335 TTTAATTTAGTATTGTTAAATATTAATTTAATATTATTGAATATGAATTTCATAATATTGAATAT
1 TTTAATTTACTATTATTAAATATTAATTTAATAATATTAAATATGAATTTAATAATATTAAATAT
*
7521400 TAAATTTCATAATA
66 TAAATTTAATAATA
7521414 T
1 T
7521415 AAAATATTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 57 0.84
79 11 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (79 bp):
TTTAATTTACTATTATTAAATATTAATTTAATAATATTAAATATGAATTTAATAATATTAAATAT
TAAATTTAATAATA
Found at i:7521343 original size:99 final size:99
Alignment explanation
Indices: 7521237--7521438 Score: 253
Period size: 99 Copynumber: 2.0 Consensus size: 99
7521227 TATTAATACA
* * **
7521237 TTAATTTAACAAAATTAAATTTTAATTTACTATTATTAAATATTTATTTAATAATATTAAATATT
1 TTAATTTAACAAAATTAAATATTAATTTAATATTATTAAATATGAATTTAATAATATTAAATATT
* *
7521302 -CATTTAATAATATTAAATATTCATTTAATAATAT
66 AAATTTAATAATATAAAATATTCATTTAA-AATAT
** *** * * *
7521336 TTAATTTAGTATTGTTAAATATTAATTTAATATTATTGAATATGAATTTCATAATATTGAATATT
1 TTAATTTAACAAAATTAAATATTAATTTAATATTATTAAATATGAATTTAATAATATTAAATATT
*
7521401 AAATTTCATAATATAAAATATTCATTTAAAATAT
66 AAATTTAATAATATAAAATATTCATTTAAAATAT
7521435 TTAA
1 TTAA
7521439 CATTAATTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 62 0.71
100 25 0.29
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (99 bp):
TTAATTTAACAAAATTAAATATTAATTTAATATTATTAAATATGAATTTAATAATATTAAATATT
AAATTTAATAATATAAAATATTCATTTAAAATAT
Found at i:7521364 original size:57 final size:56
Alignment explanation
Indices: 7521275--7521393 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 56
7521265 ACTATTATTA
* **
7521275 AATATTTATTTAATAATATTAAATATTCATTTAATAATATTAAATATTCATTTAAT
1 AATATTTATTTAATAATATTAAATATTAATTTAATAATATTAAATATGAATTTAAT
* * * * * *
7521331 AATATTTAATTTAGTATTGTTAAATATTAATTTAATATTATTGAATATGAATTTCAT
1 AATATTT-ATTTAATAATATTAAATATTAATTTAATAATATTAAATATGAATTTAAT
7521388 AATATT
1 AATATT
7521394 GAATATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 7 0.13
57 46 0.87
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (56 bp):
AATATTTATTTAATAATATTAAATATTAATTTAATAATATTAAATATGAATTTAAT
Found at i:7521414 original size:57 final size:57
Alignment explanation
Indices: 7521295--7521414 Score: 127
Period size: 57 Copynumber: 2.1 Consensus size: 57
7521285 TAATAATATT
* ** * * *
7521295 AAATATTCATTTAATAATATTAAATATTCATTTAATAATATTTAATTTAGTATTGTT
1 AAATATTAATTTAATAATATTAAATATGAATTTAATAATATTGAATTTAGAATTGTC
* * *
7521352 AAATATTAATTTAATATTATTGAATATGAATTTCATAATATTGAATATTA-AATT-TC
1 AAATATTAATTTAATAATATTAAATATGAATTTAATAATATTGAAT-TTAGAATTGTC
7521408 ATAATAT
1 A-AATAT
7521415 AAAATATTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 2 0.04
57 47 0.90
58 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (57 bp):
AAATATTAATTTAATAATATTAAATATGAATTTAATAATATTGAATTTAGAATTGTC
Found at i:7521605 original size:21 final size:21
Alignment explanation
Indices: 7521581--7521680 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
7521571 ATTGAAGAAT
*
7521581 AATTTAATAATATTTAATATG
1 AATTTAATAATATTAAATATG
* * *
7521602 AA-TTAAGTATTAAATAAATATTA
1 AATTTAA-TAAT-ATTAAATA-TG
* *
7521625 AACTTAATAATATTAAATATT
1 AATTTAATAATATTAAATATG
* *
7521646 AATTTAACAAT-TATGAATATG
1 AATTTAATAATAT-TAAATATG
7521667 AATTTAATAATATT
1 AATTTAATAATATT
7521681 GAGTATTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.08
21 32 0.52
22 14 0.23
23 6 0.10
24 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AATTTAATAATATTAAATATG
Found at i:7521779 original size:41 final size:42
Alignment explanation
Indices: 7521742--7521821 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
7521732 AATATTTTTG
*
7521742 TATTATATAATTAATTT-AATAATATTTTAATAGTATTTGAA
1 TATTATATAATTAATTTAAATAATATGTTAATAGTATTTGAA
* * * *
7521783 TATTATTTATTTAATTTAAATATTATGTTAATATTATTT
1 TATTATATAATTAATTTAAATAATATGTTAATAGTATTT
7521822 AATTAATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (42 bp):
TATTATATAATTAATTTAAATAATATGTTAATAGTATTTGAA
Found at i:7521817 original size:11 final size:10
Alignment explanation
Indices: 7521742--7521824 Score: 64
Period size: 11 Copynumber: 8.1 Consensus size: 10
7521732 AATATTTTTG
*
7521742 TATTATATAA
1 TATTATTTAA
*
7521752 T-TAATTTAA
1 TATTATTTAA
*
7521761 TAATATTTTAA
1 TATTA-TTTAA
*
7521772 TAGTATTTGAA
1 TATTATTT-AA
7521783 TATTATTT-A
1 TATTATTTAA
7521792 T-TTAATTTAAA
1 TATT-ATTT-AA
7521803 TATTATGTTAA
1 TATTAT-TTAA
7521814 TATTATTTAA
1 TATTATTTAA
7521824 T
1 T
7521825 TAATTGTCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.03
9 13 0.22
10 10 0.17
11 30 0.51
12 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (10 bp):
TATTATTTAA
Found at i:7521837 original size:31 final size:31
Alignment explanation
Indices: 7521799--7521929 Score: 74
Period size: 31 Copynumber: 4.1 Consensus size: 31
7521789 TTATTTAATT
7521799 TAAATATTATGTTAATATTATTTAATTAATT
1 TAAATATTATGTTAATATTATTTAATTAATT
* *
7521830 GT-CATATTATTTTACA-ATTATTTTTAATTAATAT
1 -TAAATATTATGTTA-ATATTA--TTTAATTAAT-T
* * *
7521864 ATATAATATTAT-TTGAAAATAATTTAATTCATTT
1 -TA-AATATTATGTT-AATATTATTTAATT-AATT
* * *
7521898 TAAA-A-TATTTTAAAATTATTTAATTAAGT
1 TAAATATTATGTTAATATTATTTAATTAATT
7521927 TAA
1 TAA
7521930 TAATGTCTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
29 5 0.06
30 16 0.20
31 17 0.21
32 4 0.05
33 12 0.15
34 10 0.12
35 5 0.06
36 11 0.14
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
TAAATATTATGTTAATATTATTTAATTAATT
Found at i:7522498 original size:32 final size:32
Alignment explanation
Indices: 7522457--7522522 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
7522447 GGTTCAGATT
**
7522457 AATTCAGATTTAGATCAATTTGAAATCAAATC
1 AATTCAGATTTAGATCAATTCCAAATCAAATC
* * *
7522489 AATTTAGATTTGGATCAATTCCAATTCAAATC
1 AATTCAGATTTAGATCAATTCCAAATCAAATC
7522521 AA
1 AA
7522523 ATTAAGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (32 bp):
AATTCAGATTTAGATCAATTCCAAATCAAATC
Found at i:7523557 original size:22 final size:22
Alignment explanation
Indices: 7523510--7523560 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
7523500 AATTTGCTTG
7523510 ACCTTT-GAGCTTAATTTACAA
1 ACCTTTGGAGCTTAATTTACAA
*
7523531 ACCTTTGGA-CTTAATTTGCAAA
1 ACCTTTGGAGCTTAATTTAC-AA
7523553 ACCTTTGG
1 ACCTTTGG
7523561 GTATAACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
ACCTTTGGAGCTTAATTTACAA
Found at i:7523768 original size:34 final size:33
Alignment explanation
Indices: 7523699--7523785 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 33
7523689 GCTCAATCAA
* * * *
7523699 GTCATTTCATTTTTTGATTTTGACTTAGTCTAG
1 GTCATTTCATTTTTCGACTTAGACTCAGTCTAG
*
7523732 GTCATTTCATTTTCTCGACTTAGGCTCAGTCTAG
1 GTCATTTCATTTT-TCGACTTAGACTCAGTCTAG
* *
7523766 GTCATATCATTTTTCAACTT
1 GTCATTTCATTTTTCGACTT
7523786 TGGCTTAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
33 19 0.41
34 27 0.59
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (33 bp):
GTCATTTCATTTTTCGACTTAGACTCAGTCTAG
Found at i:7524276 original size:6 final size:6
Alignment explanation
Indices: 7524265--7524375 Score: 93
Period size: 6 Copynumber: 18.2 Consensus size: 6
7524255 TTATTTTCAT
* * *
7524265 TATTTA TATTTA TCTTTTG TTTTTTA TATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA T-ATTTA TAT-TTA TATTTA TATTTA TATTTA TATTTA
* * *
7524315 TATTTA TCTTTA TCTTTA T-TTTT TATTCTA -ATTTA TAATTT- TATGTTA
1 TATTTA TATTTA TATTTA TATTTA TATT-TA TATTTA T-ATTTA TAT-TTA
*
7524363 TATTTA TCTTTA T
1 TATTTA TATTTA T
7524376 TTGTCTTTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
5 8 0.09
6 65 0.73
7 16 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:7524444 original size:17 final size:17
Alignment explanation
Indices: 7524424--7524467 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 17
7524414 ATCTTTTTAT
7524424 TTTATCTTTATTTGTTG
1 TTTATCTTTATTTGTTG
7524441 TTTATCTTTA----TTG
1 TTTATCTTTATTTGTTG
7524454 TTTATCTTTATTTG
1 TTTATCTTTATTTG
7524468 ATGATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.57
17 10 0.43
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTATCTTTATTTGTTG
Found at i:7524447 original size:30 final size:30
Alignment explanation
Indices: 7524411--7524467 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7524401 TTACTTCTTA
*
7524411 TTTATCTTT-TTATTTTATCTTTATTTGTTG
1 TTTATCTTTATT-GTTTATCTTTATTTGTTG
7524441 TTTATCTTTATTGTTTATCTTTATTTG
1 TTTATCTTTATTGTTTATCTTTATTTG
7524468 ATGATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (30 bp):
TTTATCTTTATTGTTTATCTTTATTTGTTG
Found at i:7525001 original size:20 final size:18
Alignment explanation
Indices: 7524971--7525014 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7524961 TTATTTTTTT
*
7524971 AATTTTGAATTTTCCAATG
1 AATTTTCAA-TTTCCAATG
*
7524990 AGATTTTCAATTTCCCATG
1 A-ATTTTCAATTTCCAATG
7525009 AATTTT
1 AATTTT
7525015 TTGACAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (18 bp):
AATTTTCAATTTCCAATG
Found at i:7525281 original size:15 final size:16
Alignment explanation
Indices: 7525253--7525282 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7525243 TTATTAATTC
7525253 AAAATAAAACTATAAA
1 AAAATAAAACTATAAA
7525269 AAAATAAAA-TATAA
1 AAAATAAAACTATAA
7525283 CAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAACTATAAA
Found at i:7527742 original size:146 final size:145
Alignment explanation
Indices: 7527458--7527954 Score: 450
Period size: 146 Copynumber: 3.5 Consensus size: 145
7527448 TTTAAAACAT
* * *
7527458 CAAAAATCATAAAATATTATAAAATTGAGATCTAGAAAGTTTCATGAAAATTCAAGCTTGAAAAG
1 CAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCATGAAAATTCAAGCTTGAAAAG
* *
7527523 GCCAAATTACAAAAATACCCTAATAGGAGCATTTTGGTAATTTCACATTTCTTGAGATATTGTTG
66 GCCAAATAACAAAAATACCCTAATAGGAGCATTTTGGTAATTTCACATTTCTTGAGATATTGCTG
7527588 TGATTTCAAATGCAC
131 TGATTTCAAATGCAC
* * * ** *
7527603 CAAAAATTATGAAATATTAAAAAAATTAAGATCTAAAAAGTTTCATAAAAATTTGAGCTTGGAAA
1 CAAAAATTATGAAATATT-ATAAAATTAAGATCTAGAAAGTTTCATGAAAATTCAAGCTTGAAAA
* ** * * * * *
7527668 GGCCAAATAACGAAAATATTCTTATAGG-GATATTTTGGTACTTTCACACTTT-TTGGGGTATTG
65 GGCCAAATAACAAAAATACCCTAATAGGAG-CATTTTGGTAATTTCACA-TTTCTTGAGATATTG
*
7527731 CTGTGATTTCAAATGTAC
128 CTGTGATTTCAAATGCAC
* * * * * * * *
7527749 CAAAAAATGTGAAACATTTTGAAATTAAGATCTAGAAAGTTTCATGAAAATTCAAGCTCGAGAAT
1 CAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCATGAAAATTCAAGCTTGAAAAG
* * * * * * **
7527814 GCTAAATTATAAAAATA--C---T-----CTTTTTGGTAATTTCATATTT-TTCAAGATACGGCT
66 GCCAAATAACAAAAATACCCTAATAGGAGCATTTTGGTAATTTCACATTTCTT-GAGATATTGCT
*
7527868 ATGATTTCAAATGCA-
130 GTGATTTCAAATGCAC
* ** *
7527883 CAAAAAATAAAAAATATTATAAAATTAAGATCT-GAAAAGTTTCATGAAAA-TCTAAGCTTGAGA
1 CAAAAATTATGAAATATTATAAAATTAAGATCTAG-AAAGTTTCATGAAAATTC-AAGCTTGAAA
*
7527946 AGGTCAAAT
64 AGGCCAAAT
7527955 TATGAAAATA
Statistics
Matches: 287, Mismatches: 59, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
133 3 0.01
134 62 0.22
135 33 0.11
140 1 0.00
143 1 0.00
145 66 0.23
146 118 0.41
147 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (145 bp):
CAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCATGAAAATTCAAGCTTGAAAAG
GCCAAATAACAAAAATACCCTAATAGGAGCATTTTGGTAATTTCACATTTCTTGAGATATTGCTG
TGATTTCAAATGCAC
Found at i:7528780 original size:59 final size:59
Alignment explanation
Indices: 7528710--7528922 Score: 242
Period size: 61 Copynumber: 3.6 Consensus size: 59
7528700 AATGCATTTA
* *
7528710 TTCAATGAAAATTTATACTTTCAACTTTTTCTCAAAAAATATTTTTTGAAAATTTTATT
1 TTCAAAGAAAATTAATACTTTCAACTTTTTCTCAAAAAATATTTTTTGAAAATTTTATT
* *
7528769 TTCAAAGAAAATTAATACTATCAA-TTTTTCCTC---AAA-A-TTTTTGAAAATTTTATC
1 TTCAAAGAAAATTAATACTTTCAACTTTTT-CTCAAAAAATATTTTTTGAAAATTTTATT
* * *
7528823 TTCAAGAAAAAATGAATACTTTCAACTTTTTCTTAAAAAAATATTTTTCT-AAAATTTTCATT
1 TTCAA-AGAAAATTAATACTTTCAACTTTTTC-TCAAAAAATATTTTT-TGAAAATTTT-ATT
* * *
7528885 TTCAAAGAAAATTGATACTTTCAATTTTTTCTTAAAAA
1 TTCAAAGAAAATTAATACTTTCAACTTTTTCTCAAAAA
7528923 CATTTCTTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 21
0.79 0.09 0.13
Matches are distributed among these distances:
54 21 0.16
55 18 0.14
56 9 0.07
58 5 0.04
59 27 0.21
60 7 0.05
61 34 0.26
62 8 0.06
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (59 bp):
TTCAAAGAAAATTAATACTTTCAACTTTTTCTCAAAAAATATTTTTTGAAAATTTTATT
Found at i:7528958 original size:16 final size:17
Alignment explanation
Indices: 7528934--7528972 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7528924 ATTTCTTGTG
*
7528934 AAATATATTTTTTAA-AA
1 AAAT-TATTTTCTAATAA
7528951 AAATTATTTTCTAATAA
1 AAATTATTTTCTAATAA
7528968 AAATT
1 AAATT
7528973 GATACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTATTTTCTAATAA
Found at i:7529597 original size:62 final size:62
Alignment explanation
Indices: 7529476--7529626 Score: 178
Period size: 62 Copynumber: 2.4 Consensus size: 62
7529466 TCGTTTTGTC
* * * * * *
7529476 GATGTGAGTCACAATAAAATCCTGCACCTGAAATCTTACTTTTTGATCATCATCATTCTACT
1 GATGTGAGTCACAATAGAATCCTGCACCTGAAACCCTACTCTTTGATCACCATCATTCTACG
* * *
7529538 GATGTGAGTCACAATAGAATCTTGCACCTGAAACCCTACTCTTTGATCACCCTCGTTCTACG
1 GATGTGAGTCACAATAGAATCCTGCACCTGAAACCCTACTCTTTGATCACCATCATTCTACG
* * *
7529600 GAAGTAAGTCATAATAGAA-CACTGCAC
1 GATGTGAGTCACAATAGAATC-CTGCAC
7529627 TTAAAATCCT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
61 1 0.01
62 74 0.99
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (62 bp):
GATGTGAGTCACAATAGAATCCTGCACCTGAAACCCTACTCTTTGATCACCATCATTCTACG
Found at i:7530745 original size:16 final size:17
Alignment explanation
Indices: 7530588--7530761 Score: 75
Period size: 17 Copynumber: 10.3 Consensus size: 17
7530578 GTAAGAAAAC
**
7530588 AGATTCACAAGAATTGA
1 AGATTCACAAGAATTTT
** **
7530605 AGATTTGCAAGAATTAA
1 AGATTCACAAGAATTTT
* * **
7530622 AGATTCATAAAAATTAG
1 AGATTCACAAGAATTTT
**
7530639 AGATTCGTAAG-ATTTT
1 AGATTCACAAGAATTTT
*
7530655 CAGATTTACAAGAATTTT
1 -AGATTCACAAGAATTTT
* **
7530673 TGGCTCACAA-AATTTT
1 AGATTCACAAGAATTTT
* * **
7530689 CAAATTCACAAAAATTGG
1 -AGATTCACAAGAATTTT
** * **
7530707 AGATTCGTAAAAATTGA
1 AGATTCACAAGAATTTT
7530724 AGATTCACAAG-ATTTT
1 AGATTCACAAGAATTTT
*
7530740 AGATTCGCAAGAATTTT
1 AGATTCACAAGAATTTT
7530757 AGATT
1 AGATT
7530762 TGGAAAATTT
Statistics
Matches: 117, Mismatches: 35, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
16 22 0.19
17 86 0.74
18 9 0.08
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (17 bp):
AGATTCACAAGAATTTT
Found at i:7530755 original size:68 final size:70
Alignment explanation
Indices: 7530588--7530757 Score: 170
Period size: 68 Copynumber: 2.5 Consensus size: 70
7530578 GTAAGAAAAC
** * * *
7530588 AGATTCACAAGAATTGAAGATTTGCAAGAA--TTAAAGATTCATAAAAATTAGAGATTCGTAAGA
1 AGATTCACAAGAATTTTAGATTCGCAAGAATTTTAAAGATTCACAAAAATTAGAGATTCGTAAAA
* **
7530651 TTTTC
66 ATTGA
* * ** * * *
7530656 AGATTTACAAGAATTTTTGGCTCACAA-AATTTTCAA-ATTCACAAAAATTGGAGATTCGTAAAA
1 AGATTCACAAGAATTTTAGATTCGCAAGAATTTTAAAGATTCACAAAAATTAGAGATTCGTAAAA
7530719 ATTGA
66 ATTGA
7530724 AGATTCACAAG-ATTTTAGATTCGCAAGAATTTTA
1 AGATTCACAAGAATTTTAGATTCGCAAGAATTTTA
7530758 GATTTGGAAA
Statistics
Matches: 78, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
67 13 0.17
68 61 0.78
69 4 0.05
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (70 bp):
AGATTCACAAGAATTTTAGATTCGCAAGAATTTTAAAGATTCACAAAAATTAGAGATTCGTAAAA
ATTGA
Found at i:7530770 original size:16 final size:17
Alignment explanation
Indices: 7530724--7530761 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
7530714 TAAAAATTGA
*
7530724 AGATTCACAAG-ATTTT
1 AGATTCGCAAGAATTTT
7530740 AGATTCGCAAGAATTTT
1 AGATTCGCAAGAATTTT
7530757 AGATT
1 AGATT
7530762 TGGAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (17 bp):
AGATTCGCAAGAATTTT
Found at i:7530788 original size:17 final size:16
Alignment explanation
Indices: 7530731--7530789 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
7530721 TGAAGATTCA
*
7530731 CAAGATTTTAGATTCG
1 CAAGATTTTAGATTTG
7530747 CAAGAATTTTAGATTTG
1 CAAG-ATTTTAGATTTG
* * *
7530764 GAAAATTTAAAGATTTG
1 CAAGATTT-TAGATTTG
7530781 CAAGATTTT
1 CAAGATTTT
7530790 TTGGTTCACA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 8 0.24
17 26 0.76
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (16 bp):
CAAGATTTTAGATTTG
Found at i:7530989 original size:43 final size:43
Alignment explanation
Indices: 7530903--7530990 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 43
7530893 CACATTTAAT
* * *
7530903 ATTTCAAAGGATCTTATTCAAAAATTTTAGGGTTTCATCCAAA
1 ATTTCAAAGGATCTTATTAAAAAACTTTAGGGTTACATCCAAA
* * *
7530946 ATTTCAAA-GATTTTATTAAAAAACTTTGGGGATTCACATCAAAA
1 ATTTCAAAGGATCTTATTAAAAAACTTTAGGG-TT-ACATCCAAA
7530990 A
1 A
7530991 ATTTTCAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
42 19 0.51
43 10 0.27
44 8 0.22
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (43 bp):
ATTTCAAAGGATCTTATTAAAAAACTTTAGGGTTACATCCAAA
Found at i:7537519 original size:3 final size:3
Alignment explanation
Indices: 7537511--7537547 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
7537501 CATTTCCTTT
**
7537511 TTA TTA TTA ACA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7537548 AAAGAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7543066 original size:21 final size:21
Alignment explanation
Indices: 7543033--7543093 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
7543023 TCATATTATT
*
7543033 ATTAATT-TGATATTATTAATA
1 ATTAATTAT-ATATTATTAAAA
*
7543054 ATTAATTATATA-TAATAAAA
1 ATTAATTATATATTATTAAAA
7543074 ATTAA-TATAT-TTA-TAAAA
1 ATTAATTATATATTATTAAAA
7543092 AT
1 AT
7543094 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.19
19 7 0.19
20 11 0.31
21 10 0.28
22 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTAATTATATATTATTAAAA
Found at i:7543081 original size:17 final size:17
Alignment explanation
Indices: 7543046--7543093 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
7543036 AATTTGATAT
*
7543046 TATTAATAATTAATTATA
1 TATTAATAA-AAATTATA
7543064 TA-TAATAAAAATTAATA
1 TATTAATAAAAATT-ATA
*
7543081 TATTTATAAAAAT
1 TATTAATAAAAAT
7543094 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTAATAAAAATTATA
Found at i:7543082 original size:19 final size:19
Alignment explanation
Indices: 7543042--7543093 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
7543032 TATTAATTTG
* *
7543042 ATATTATTAATAATTAATT
1 ATATTAATAAAAATTAATT
7543061 ATATATAATAAAAATTAA-T
1 ATAT-TAATAAAAATTAATT
*
7543080 ATATTTATAAAAAT
1 ATATTAATAAAAAT
7543094 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.31
19 9 0.31
20 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAATAAAAATTAATT
Found at i:7544203 original size:3 final size:3
Alignment explanation
Indices: 7544195--7544234 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7544185 TTACTTACAT
7544195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7544235 AGAAATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7551572 original size:22 final size:22
Alignment explanation
Indices: 7551546--7551589 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7551536 TGTATATTTA
*
7551546 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7551568 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7551590 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7551757 original size:23 final size:23
Alignment explanation
Indices: 7551737--7551821 Score: 125
Period size: 23 Copynumber: 3.6 Consensus size: 23
7551727 AAAATTTTCA
*
7551737 GCCTTCATTGCTGACTTTTTTAG
1 GCCTTCATTGCCGACTTTTTTAG
7551760 GCCTTCATTGCCGACTTTTTTAG
1 GCCTTCATTGCCGACTTTTTTAG
* *
7551783 GCCTTCATTGTCGAATCTTGTTTAG
1 GCCTTCATTGCCG-A-CTTTTTTAG
7551808 GCCTTCATTGCCGA
1 GCCTTCATTGCCGA
7551822 ACCCTTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
23 34 0.61
24 2 0.04
25 20 0.36
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (23 bp):
GCCTTCATTGCCGACTTTTTTAG
Found at i:7555500 original size:22 final size:22
Alignment explanation
Indices: 7555470--7555512 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7555460 GTATATTTAT
* *
7555470 ATTTGTATCTCTAGAATTAAGA
1 ATTTATATCCCTAGAATTAAGA
7555492 ATTTATATCCCTAGAATTAAG
1 ATTTATATCCCTAGAATTAAG
7555513 GAAGATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
ATTTATATCCCTAGAATTAAGA
Found at i:7555543 original size:12 final size:12
Alignment explanation
Indices: 7555526--7555556 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7555516 GATTTAGTTT
*
7555526 CCTAGTTTAACG
1 CCTAGTTTAACC
7555538 CCTAGTTTAACC
1 CCTAGTTTAACC
7555550 CCTAGTT
1 CCTAGTT
7555557 AGTTGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (12 bp):
CCTAGTTTAACC
Found at i:7558594 original size:23 final size:23
Alignment explanation
Indices: 7558562--7558616 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7558552 GATACATAAA
* *
7558562 AATATGATATGATAAAATAAAAT
1 AATATAATATAATAAAATAAAAT
* *
7558585 AATATAATATAATAAATTAAATT
1 AATATAATATAATAAAATAAAAT
7558608 AA-ATAATAT
1 AATATAATAT
7558617 TATTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
AATATAATATAATAAAATAAAAT
Found at i:7558700 original size:17 final size:19
Alignment explanation
Indices: 7558661--7558708 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
7558651 AAATAAAATT
7558661 ATTTAT-TTATTTATTAAA
1 ATTTATATTATTTATTAAA
7558679 A-TTATATT-TTT-TTAAA
1 ATTTATATTATTTATTAAA
*
7558695 ATTTATATAATTTA
1 ATTTATATTATTTA
7558709 AATTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATATTATTTATTAAA
Found at i:7559437 original size:42 final size:42
Alignment explanation
Indices: 7559390--7559497 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
7559380 GGTAAATAGA
* * *
7559390 AAACATAATATCTCATACATTTACTGTCATGCCTT-TCGCGGT
1 AAACATAATATCTCATACACTTACTGCCATACCTTCT-GCGGT
* * *
7559432 AAACATAATGTTTCATACACTTATTGCCATACCTTCTGCGGT
1 AAACATAATATCTCATACACTTACTGCCATACCTTCTGCGGT
* *
7559474 AAACATGATGT-TCCATACACTTAC
1 AAACATAATATCT-CATACACTTAC
7559498 CGCTAACATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (42 bp):
AAACATAATATCTCATACACTTACTGCCATACCTTCTGCGGT
Found at i:7561651 original size:29 final size:29
Alignment explanation
Indices: 7561608--7561673 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
7561598 TATATTAATT
* * *
7561608 AATATATTTATAATTCAAATATGACATTA
1 AATATTTTTAAAATTCAAATATCACATTA
*
7561637 TAA-ATTTTTAAAATTTAAATATCACATTA
1 -AATATTTTTAAAATTCAAATATCACATTA
7561666 AATATTTT
1 AATATTTT
7561674 ATTACAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (29 bp):
AATATTTTTAAAATTCAAATATCACATTA
Found at i:7565350 original size:2 final size:2
Alignment explanation
Indices: 7565343--7565368 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7565333 CTATACCCTG
7565343 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
7565369 TGAATAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7567573 original size:20 final size:20
Alignment explanation
Indices: 7567548--7567587 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7567538 CCTCTCTCTA
*
7567548 TTATTAAAATAAATAAATAT
1 TTATTAAAACAAATAAATAT
*
7567568 TTATTAAAACATATAAATAT
1 TTATTAAAACAAATAAATAT
7567588 AACAAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATTAAAACAAATAAATAT
Found at i:7569914 original size:14 final size:14
Alignment explanation
Indices: 7569897--7569927 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7569887 TTTCCTTTTT
7569897 AAATATATTTTATA
1 AAATATATTTTATA
*
7569911 AAATATGTTTTATA
1 AAATATATTTTATA
7569925 AAA
1 AAA
7569928 AAGAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:7573334 original size:20 final size:20
Alignment explanation
Indices: 7573309--7573368 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
7573299 ATCCAAGAGA
7573309 ATATTTTAAAATTATAAAAT
1 ATATTTTAAAATTATAAAAT
*
7573329 ATATTTAAAAATGT-TAAAAT
1 ATATTTTAAAAT-TATAAAAT
*
7573349 AT-TTTTAACA--ATAAAAT
1 ATATTTTAAAATTATAAAAT
7573366 ATA
1 ATA
7573369 AAATATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 8 0.24
19 6 0.18
20 19 0.56
21 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATATTTTAAAATTATAAAAT
Found at i:7574479 original size:3 final size:3
Alignment explanation
Indices: 7574471--7574501 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7574461 TGTTTCTTTT
7574471 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
7574502 AATAGATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7575366 original size:19 final size:19
Alignment explanation
Indices: 7575322--7575367 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
7575312 CTTTTCTTTT
*
7575322 TTTAATA-TTTAATAATTT
1 TTTAATATTTTAATAATTC
7575340 TTTAAATATTTTAA-ATATTC
1 TTT-AATATTTTAATA-ATTC
7575360 TTTAATAT
1 TTTAATAT
7575368 GGGACCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAATATTTTAATAATTC
Found at i:7575722 original size:17 final size:17
Alignment explanation
Indices: 7575700--7575735 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7575690 GACACTTTTT
* *
7575700 TTTAATTATTTTAATTA
1 TTTAATTAATTAAATTA
7575717 TTTAATTAATTAAATTA
1 TTTAATTAATTAAATTA
7575734 TT
1 TT
7575736 ATTTGACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAATTAATTAAATTA
Found at i:7577801 original size:2 final size:2
Alignment explanation
Indices: 7577794--7577826 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7577784 TCCATCCCTC
7577794 TA TA TA TA TA TA TA TA TA -A 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
7577827 GATCTGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7577817 original size:15 final size:15
Alignment explanation
Indices: 7577797--7577826 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7577787 ATCCCTCTAT
7577797 ATATATATATATATA
1 ATATATATATATATA
7577812 ATATATATATATATA
1 ATATATATATATATA
7577827 GATCTGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:7579037 original size:3 final size:3
Alignment explanation
Indices: 7579020--7579053 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7579010 CTGTTATCCT
*
7579020 TTC TTT TTC -TC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7579054 GTCCTCCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:7580382 original size:15 final size:15
Alignment explanation
Indices: 7580364--7580393 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7580354 TTTTTAAAAA
7580364 ATTTTGTTTTATTTT
1 ATTTTGTTTTATTTT
*
7580379 ATTTTGTTTTCTTTT
1 ATTTTGTTTTATTTT
7580394 GAAATTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (15 bp):
ATTTTGTTTTATTTT
Found at i:7582001 original size:14 final size:14
Alignment explanation
Indices: 7581979--7582036 Score: 71
Period size: 14 Copynumber: 4.0 Consensus size: 14
7581969 ATTTAAAGGG
7581979 TTTAGGGTTTTAGA
1 TTTAGGGTTTTAGA
* *
7581993 TTTATGGTTTAGAGGA
1 TTTAGGGTTT-TA-GA
*
7582009 TTTAGGGTTTTAGT
1 TTTAGGGTTTTAGA
7582023 TTTAGGGTTTTAGA
1 TTTAGGGTTTTAGA
7582037 CATTTAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 23 0.64
15 2 0.06
16 11 0.31
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTAGA
Found at i:7582032 original size:30 final size:30
Alignment explanation
Indices: 7581908--7582032 Score: 103
Period size: 30 Copynumber: 4.2 Consensus size: 30
7581898 TCAAGGGGTT
* * *
7581908 GGGTTTAGA-AATTTAGGGTTTCAATTTTA
1 GGGTTTAGAGGATTTAGGGTTTTAGTTTTA
* * * *
7581937 GGATTT-GAATGTTTTATGGTTTTAGTTTT-
1 GGGTTTAG-AGGATTTAGGGTTTTAGTTTTA
* * * *
7581966 GGAATTTAAAGGGTTTAGGGTTTTAGATTTA
1 GG-GTTTAGAGGATTTAGGGTTTTAGTTTTA
*
7581997 TGGTTTAGAGGATTTAGGGTTTTAGTTTTA
1 GGGTTTAGAGGATTTAGGGTTTTAGTTTTA
7582027 GGGTTT
1 GGGTTT
7582033 TAGACATTTA
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.01
29 8 0.11
30 64 0.86
31 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (30 bp):
GGGTTTAGAGGATTTAGGGTTTTAGTTTTA
Found at i:7582042 original size:30 final size:30
Alignment explanation
Indices: 7581979--7582042 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
7581969 ATTTAAAGGG
* *
7581979 TTTAGGGTTTTAGATTTATGGTTTAGAGGA
1 TTTAGGGTTTTAGATTTAGGGTTTAGAGCA
*
7582009 TTTAGGGTTTTAGTTTTAGGGTTTTAGA-CA
1 TTTAGGGTTTTAGATTTAGGG-TTTAGAGCA
7582039 TTTA
1 TTTA
7582043 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.50
Consensus pattern (30 bp):
TTTAGGGTTTTAGATTTAGGGTTTAGAGCA
Found at i:7585306 original size:12 final size:12
Alignment explanation
Indices: 7585297--7585330 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
7585287 AAGTTGTAAG
7585297 GGTGGTTGTAGA
1 GGTGGTTGTAGA
7585309 GGTGGTTGTAGA
1 GGTGGTTGTAGA
*
7585321 GGTGGCTGTA
1 GGTGGTTGTA
7585331 AGGCTCTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.03, G:0.50, T:0.32
Consensus pattern (12 bp):
GGTGGTTGTAGA
Found at i:7585444 original size:17 final size:19
Alignment explanation
Indices: 7585410--7585453 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
7585400 TACTTTCGAC
*
7585410 TTTTTTTTGTATTTTTTTG
1 TTTTGTTTGTATTTTTTTG
7585429 -TTTGTTTGTA-TTTTTTG
1 TTTTGTTTGTATTTTTTTG
7585446 TTTTGTTT
1 TTTTGTTT
7585454 TTGTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.05, C:0.00, G:0.14, T:0.82
Consensus pattern (19 bp):
TTTTGTTTGTATTTTTTTG
Found at i:7585956 original size:74 final size:74
Alignment explanation
Indices: 7585878--7586103 Score: 226
Period size: 74 Copynumber: 3.0 Consensus size: 74
7585868 AGTCGAGAAA
** * * *
7585878 TAAGAAAATAATCGGGACAACA-CGTAGAGTTGAGAAGTAAAAAATTGACTGGGACAATACCACG
1 TAAGAAAATAATCGAAACAACACCGT-GAGTTGAGAAGTAAAGAATTGACTGGGACAACACCGCG
7585942 AGTCAAAAAG
65 AGTCAAAAAG
* * * * * * *
7585952 TAAGAAAATAA-CTATAACAACACCGCGAGTTGAAAAGTAAAGAATCT-ACTAGGATAACACTGT
1 TAAGAAAATAATCGA-AACAACACCGTGAGTTGAGAAGTAAAGAAT-TGACTGGGACAACACCGC
7586015 GAGTCAAAAAG
64 GAGTCAAAAAG
** * *
7586026 TAAAGAAAACGATCGAAACAACATCGTGAGTTGAGAAGTAAAGAATTGA-TCGGAACAACACCGC
1 T-AAGAAAATAATCGAAACAACACCGTGAGTTGAGAAGTAAAGAATTGACT-GGGACAACACCGC
*
7586090 GAGTCGAAAAG
64 GAGTCAAAAAG
7586101 TAA
1 TAA
7586104 AGAATTGACT
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
73 1 0.01
74 60 0.50
75 58 0.48
76 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (74 bp):
TAAGAAAATAATCGAAACAACACCGTGAGTTGAGAAGTAAAGAATTGACTGGGACAACACCGCGA
GTCAAAAAG
Found at i:7586086 original size:75 final size:73
Alignment explanation
Indices: 7585894--7586107 Score: 209
Period size: 75 Copynumber: 2.9 Consensus size: 73
7585884 AATAATCGGG
* * * *
7585894 ACAACACGTAGAGTTGAGAAGTAAAAAATTGACTGGGACAATACCACGAGTCAAAAAGT-AAGAA
1 ACAACACGT-GAGTTGAGAAGTAAAGAATTGA-TCGGACAACACCGCGAGTCAAAAAGTAAAGAA
* *
7585958 AATAACTATA
64 AAGAACGATA
* * * * * *
7585968 ACAACACCGCGAGTTGAAAAGTAAAGAATCT-ACTAGGATAACACTGTGAGTCAAAAAGTAAAGA
1 ACAACA-CGTGAGTTGAGAAGTAAAGAAT-TGA-TCGGACAACACCGCGAGTCAAAAAGTAAAGA
*
7586032 AAACGATCGA-A
63 AAA-GAACGATA
*
7586043 ACAACATCGTGAGTTGAGAAGTAAAGAATTGATCGGAACAACACCGCGAGTCGAAAAGTAAAGAA
1 ACAACA-CGTGAGTTGAGAAGTAAAGAATTGATCGG-ACAACACCGCGAGTCAAAAAGTAAAGAA
7586108 TTGACTAGTA
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
74 49 0.43
75 62 0.54
76 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (73 bp):
ACAACACGTGAGTTGAGAAGTAAAGAATTGATCGGACAACACCGCGAGTCAAAAAGTAAAGAAAA
GAACGATA
Found at i:7586102 original size:37 final size:37
Alignment explanation
Indices: 7585967--7586111 Score: 132
Period size: 37 Copynumber: 3.9 Consensus size: 37
7585957 AAATAACTAT
* *
7585967 AACAACACCGCGAGTTGAAAAGTAAAGAATCT-ACTAGG
1 AACAACACCGCGAGTCGAAAAGTAAAGAAT-TGA-TCGG
* * * * ** *
7586005 -ATAACACTGTGAGTCAAAAAGTAAAGAAAACGATCGA
1 AACAACACCGCGAGTCGAAAAGTAAAG-AATTGATCGG
* * * *
7586042 AACAACATCGTGAGTTGAGAAGTAAAGAATTGATCGG
1 AACAACACCGCGAGTCGAAAAGTAAAGAATTGATCGG
7586079 AACAACACCGCGAGTCGAAAAGTAAAGAATTGA
1 AACAACACCGCGAGTCGAAAAGTAAAGAATTGA
7586112 CTAGTACAAT
Statistics
Matches: 82, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
37 59 0.72
38 23 0.28
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (37 bp):
AACAACACCGCGAGTCGAAAAGTAAAGAATTGATCGG
Found at i:7586163 original size:149 final size:149
Alignment explanation
Indices: 7585894--7586182 Score: 336
Period size: 149 Copynumber: 1.9 Consensus size: 149
7585884 AATAATCGGG
* *
7585894 ACAACACGTAGAGTTGAGAAGTAAAAAATTGACTGGGACAATACCACGAGTCAAAAAGTAAGAAA
1 ACAACACGTAGAGTTGAGAAGTAAAAAATTGACTGGAACAACACCACGAGTCAAAAAGTAAGAAA
* ** * * * *
7585959 ATAACTATAACAACACCGCGAGTTGAAAAGTAAAGAATCTACTAGGATAACACTGTGAGTC-AAA
66 ATAACTATAACAACACCGCAAGTCAAAAAGTAAAGAATCGACCAGGACAACACTGTAAGTCTAAA
7586023 AAGTAAAGAAAACGATCGAA
131 AA-TAAAGAAAACGATCGAA
* * *
7586043 ACAACATCGT-GAGTTGAGAAGTAAAGAATTGA-TCGGAACAACACCGCGAGTCGAAAAGTAA-A
1 ACAACA-CGTAGAGTTGAGAAGTAAAAAATTGACT-GGAACAACACCACGAGTCAAAAAGTAAGA
* * * * *
7586105 GAATTGACTAGT-ACAATATCGCAAGTCAAAAAGTAAAGAATCGACCAGGACAATACTGTAAGTC
64 -AAATAACTA-TAACAACACCGCAAGTCAAAAAGTAAAGAATCGACCAGGACAACACTGTAAGTC
*
7586169 TAATAATAAAGAAA
127 TAAAAATAAAGAAA
7586183 CAATTGAGAT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
148 2 0.02
149 107 0.91
150 8 0.07
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (149 bp):
ACAACACGTAGAGTTGAGAAGTAAAAAATTGACTGGAACAACACCACGAGTCAAAAAGTAAGAAA
ATAACTATAACAACACCGCAAGTCAAAAAGTAAAGAATCGACCAGGACAACACTGTAAGTCTAAA
AATAAAGAAAACGATCGAA
Found at i:7586267 original size:22 final size:22
Alignment explanation
Indices: 7586241--7586297 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
7586231 ATTATGCATG
7586241 GAGGTCTTAAAGATTATGTCC-
1 GAGGTCTTAAAGATTATGTCCA
*
7586262 GAAGGTTTTAGAA-ATTATGTCCA
1 G-AGGTCTTA-AAGATTATGTCCA
7586285 GAGGTCTTAAAGA
1 GAGGTCTTAAAGA
7586298 ATCGATCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 3 0.10
22 24 0.80
23 3 0.10
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (22 bp):
GAGGTCTTAAAGATTATGTCCA
Found at i:7586277 original size:44 final size:43
Alignment explanation
Indices: 7586209--7586297 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
7586199 GTAAGTCAAA
7586209 ATTATATCCGAAAGTATTAAAAATTATG-CATGGAGGTCTTAAAG
1 ATTATATCCGAAAGTATTAAAAATTATGCCA--GAGGTCTTAAAG
* * * *
7586253 ATTATGTCCGAAGGTTTTAGAAATTATGTCCAGAGGTCTTAAAG
1 ATTATATCCGAAAGTATTAAAAATTATG-CCAGAGGTCTTAAAG
7586297 A
1 A
7586298 ATCGATCGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 37 0.95
46 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (43 bp):
ATTATATCCGAAAGTATTAAAAATTATGCCAGAGGTCTTAAAG
Done.