Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 148 of 211
Found at i:43991209 original size:26 final size:26
Alignment explanation
Indices: 43991147--43991243 Score: 66
Period size: 26 Copynumber: 3.8 Consensus size: 26
43991137 TGTATGAACA
43991147 TATATAAAT-TAT-AAA-ATATGAAAA
1 TATA-AAATATATAAAATATATGAAAA
*
43991171 TATAAAA-ATTATAAAATATA--AATGTA
1 TATAAAATA-TATAAAATATATGAA--AA
43991197 TATAAAATATATAAAA-ACTATGAAAA
1 TATAAAATATATAAAATA-TATGAAAA
*
43991223 TAAAATAATA-ATAAAATATAT
1 TATAA-AATATATAAAATATAT
43991244 ACATAATATG
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
23 3 0.05
24 9 0.16
25 4 0.07
26 34 0.59
27 6 0.10
28 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
TATAAAATATATAAAATATATGAAAA
Found at i:43991237 original size:35 final size:35
Alignment explanation
Indices: 43991162--43991244 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
43991152 AAATTATAAA
* * *
43991162 ATATGAAA-ATATAAAAATTATAAAATATAAATGT
1 ATATAAAATATATAAAAACTATAAAATATAAATAT
43991196 ATATAAAATATATAAAAACTATGAAAATA-AAATA-
1 ATATAAAATATATAAAAACTAT-AAAATATAAATAT
43991230 ATAATAAAATATATA
1 AT-ATAAAATATATA
43991245 CATAATATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 9 0.21
35 28 0.65
36 6 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (35 bp):
ATATAAAATATATAAAAACTATAAAATATAAATAT
Found at i:43991326 original size:3 final size:3
Alignment explanation
Indices: 43991318--43991367 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
43991308 GCGTGTAGAT
43991318 ATA ATA ATA ATA ATA TATA AT- ATA ACT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
43991363 ATA AT
1 ATA AT
43991368 GCTATTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.07
3 36 0.84
4 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:43991970 original size:17 final size:16
Alignment explanation
Indices: 43991930--43991970 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
43991920 TAAAAACAAG
43991930 AAAGAAAATAAAAAGA
1 AAAGAAAATAAAAAGA
43991946 ACAA-AAAAGTAAAAAGA
1 A-AAGAAAA-TAAAAAGA
43991963 AAAGAAAA
1 AAAGAAAA
43991971 ACGGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAGAAAATAAAAAGA
Found at i:43995130 original size:22 final size:20
Alignment explanation
Indices: 43995082--43995130 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
43995072 TAAAAAATGT
43995082 TGAAATGTTGAAAACCTTGA
1 TGAAATGTTGAAAACCTTGA
* * *
43995102 AGCAATGTTGAAGAAATCTTGA
1 TGAAATGTTG-A-AAACCTTGA
43995124 TGAAATG
1 TGAAATG
43995131 GTGTTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (20 bp):
TGAAATGTTGAAAACCTTGA
Found at i:43995360 original size:20 final size:20
Alignment explanation
Indices: 43995296--43995359 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
43995286 AACCTGACAT
* * *
43995296 GTATCGATATTTTTAAGAGG
1 GTATCGATAATTTTAAAATG
43995316 GTATCGATAATTTTATAAAAT-
1 GTATCGATAA-TTT-TAAAATG
*
43995337 -TATTGATAATTTTAAAATG
1 GTATCGATAATTTTAAAATG
43995356 GTAT
1 GTAT
43995360 TAATACCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.17
19 3 0.08
20 20 0.56
21 3 0.08
22 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATAATTTTAAAATG
Found at i:43996560 original size:13 final size:12
Alignment explanation
Indices: 43996538--43996582 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
43996528 TAACTAATGA
43996538 AAAGAAATAAAT
1 AAAGAAATAAAT
*
43996550 AAAGAAAATAAAC
1 AAAG-AAATAAAT
43996563 AAATGAAATAAAT
1 AAA-GAAATAAAT
*
43996576 CAAGAAA
1 AAAGAAA
43996583 CCAATTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 19 0.68
14 1 0.04
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAGAAATAAAT
Found at i:43996566 original size:17 final size:17
Alignment explanation
Indices: 43996520--43996566 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
43996510 TAGAGAAGTA
* *
43996520 AAAATAAATAACTAATG
1 AAAATAAATAAATAAAG
*
43996537 AAAAGAAATAAATAAAG
1 AAAATAAATAAATAAAG
*
43996554 AAAATAAACAAAT
1 AAAATAAATAAAT
43996567 GAAATAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAATAAAG
Found at i:44000700 original size:15 final size:16
Alignment explanation
Indices: 44000682--44000722 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
44000672 GTTTAGGCTA
44000682 TGTGTGCCACACGCC-
1 TGTGTGCCACACGCCG
* *
44000697 TGTGTGTC-CAGGCCG
1 TGTGTGCCACACGCCG
44000712 TGTGTGCCACA
1 TGTGTGCCACA
44000723 TGGTCATGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.24
15 14 0.67
16 2 0.10
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (16 bp):
TGTGTGCCACACGCCG
Found at i:44003312 original size:18 final size:17
Alignment explanation
Indices: 44003285--44003333 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
44003275 ATTAAAATGT
*
44003285 AAAAATTAAATTAAAAC
1 AAAAATTAAAATAAAAC
44003302 AAAAATATAAAATAAAA-
1 AAAAAT-TAAAATAAAAC
*
44003319 TAAAA-TAAAATAAAA
1 AAAAATTAAAATAAAA
44003334 ATGGCTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.34
17 10 0.34
18 9 0.31
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATTAAAATAAAAC
Found at i:44003316 original size:5 final size:5
Alignment explanation
Indices: 44003308--44003333 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44003298 AAACAAAAAT
44003308 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
44003334 ATGGCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:44003594 original size:59 final size:59
Alignment explanation
Indices: 44003528--44003646 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
44003518 CTATTTTCCT
* *
44003528 ATTATTTAGCTGACAAATTGGAGTGATTGTTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
44003587 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
44003646 A
1 A
44003647 CTAAAGAACT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (59 bp):
ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
Found at i:44008533 original size:15 final size:16
Alignment explanation
Indices: 44008495--44008538 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
44008485 TATTTAAAAA
44008495 ATAAAAAATATAAATTT
1 ATAAAAAATA-AAATTT
* *
44008512 TTTAAAAATAAAA-TT
1 ATAAAAAATAAAATTT
44008527 ATAAAAAATAAA
1 ATAAAAAATAAA
44008539 CTCTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 3 0.13
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATAAAATTT
Found at i:44008565 original size:32 final size:31
Alignment explanation
Indices: 44008489--44008565 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
44008479 TTTTCATATT
* * *
44008489 TAAAAAATAAAAAATATAAATTTTTTAAAAA
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
* * *
44008520 T-AAAATTATAAAAAATAAACTCTTTAAAAT
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
44008550 TCAAAAAATAAAAAAA
1 T-AAAAAATAAAAAAA
44008566 TATTTAAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 24 0.67
31 1 0.03
32 11 0.31
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (31 bp):
TAAAAAATAAAAAAAATAAACTCTTTAAAAA
Found at i:44008593 original size:19 final size:18
Alignment explanation
Indices: 44008545--44008593 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
44008535 TAAACTCTTT
44008545 AAAATTCAAAAAATAAAA
1 AAAATTCAAAAAATAAAA
* **
44008563 AAATATTTAAAAGTTTAAAA
1 AAA-ATTCAAAA-AATAAAA
44008583 AAAATTCAAAA
1 AAAATTCAAAA
44008594 TTCAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATTCAAAAAATAAAA
Found at i:44018685 original size:6 final size:6
Alignment explanation
Indices: 44018676--44018742 Score: 89
Period size: 6 Copynumber: 11.0 Consensus size: 6
44018666 CAAAAACAAC
* * *
44018676 TAAAAA TAAAAA TAAACA TAAACA TAAACA TAAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA
*
44018725 TAAAAA TAAAAC TAAAAA
1 TAAAAA TAAAAA TAAAAA
44018743 GGAAATAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
6 51 0.91
7 5 0.09
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:44018713 original size:31 final size:31
Alignment explanation
Indices: 44018673--44018742 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
44018663 TTACAAAAAC
* *
44018673 AACT-AAAAATAAAAATAAACATAAACAT-A
1 AACTAAAAAATAAAAATAAAAATAAAAATAA
44018702 AACATAAAAAATAAAAATAAAAATAAAAATAA
1 AAC-TAAAAAATAAAAATAAAAATAAAAATAA
44018734 AACTAAAAA
1 AACTAAAAA
44018743 GGAAATAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 3 0.08
30 1 0.03
31 28 0.78
32 4 0.11
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (31 bp):
AACTAAAAAATAAAAATAAAAATAAAAATAA
Found at i:44018742 original size:25 final size:25
Alignment explanation
Indices: 44018676--44018735 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
44018666 CAAAAACAAC
* *
44018676 TAAAAAT-AAAAATAAACATAAACA
1 TAAAAATAAAAAATAAAAATAAAAA
*
44018700 TAAACATAAAAAATAAAAATAAAAA
1 TAAAAATAAAAAATAAAAATAAAAA
44018725 TAAAAATAAAA
1 TAAAAATAAAA
44018736 CTAAAAAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (25 bp):
TAAAAATAAAAAATAAAAATAAAAA
Found at i:44020147 original size:3 final size:3
Alignment explanation
Indices: 44020134--44020162 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
44020124 AAGTAAACAG
44020134 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
44020163 CATAAACAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:44020265 original size:5 final size:5
Alignment explanation
Indices: 44020255--44020343 Score: 53
Period size: 5 Copynumber: 17.6 Consensus size: 5
44020245 AAGAATAATA
* * *
44020255 AAAAT AAAAT AATA- AAAAT AAAAT --AAT AAAAT -TACT AAATAT AATAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA-AAT
*
44020302 AAAAT AAAAT AAAAAT AAAACT AAGCAT AAGAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAA-T AA-AAT AA-AAT AAAAT AAA
44020344 TTAATTAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
3 3 0.05
4 7 0.11
5 34 0.52
6 20 0.30
7 2 0.03
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:44020267 original size:14 final size:14
Alignment explanation
Indices: 44020248--44020321 Score: 89
Period size: 14 Copynumber: 5.1 Consensus size: 14
44020238 AGGTAGCAAG
44020248 AATAATAAAAATAA
1 AATAATAAAAATAA
44020262 AATAATAAAAATAA
1 AATAATAAAAATAA
44020276 AATAATAAAATTACTAA
1 AATAATAAAA--A-TAA
*
44020293 ATATAATAAAAA-AT
1 A-ATAATAAAAATAA
44020307 AA-AATAAAAATAA
1 AATAATAAAAATAA
44020320 AA
1 AA
44020322 CTAAGCATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.15
13 4 0.08
14 26 0.49
16 2 0.04
17 4 0.08
18 9 0.17
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAATAAAAATAA
Found at i:44020325 original size:33 final size:33
Alignment explanation
Indices: 44020251--44020348 Score: 94
Period size: 33 Copynumber: 3.0 Consensus size: 33
44020241 TAGCAAGAAT
*
44020251 AATAAAAATAAAATAAT-AAAAATAAAATAATA
1 AATAAAACTAAAATAATAAAAAATAAAATAATA
**
44020283 AA-ATTACTAAATATAATAAAAAATAAAATAA-A
1 AATAAAACTAAA-ATAATAAAAAATAAAATAATA
* * *
44020315 AATAAAACTAAGCATAAGAATAAAATAAATTAAT
1 AATAAAACTAA-AATAATAA-AAAATAAAATAAT
44020349 TAATTAAAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
31 6 0.12
32 10 0.19
33 25 0.48
34 11 0.21
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.23
Consensus pattern (33 bp):
AATAAAACTAAAATAATAAAAAATAAAATAATA
Found at i:44021716 original size:18 final size:18
Alignment explanation
Indices: 44021664--44021717 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
44021654 TTTTTATTAC
*
44021664 TATTTTTCGTTATTACTAT
1 TATTTTTAG-TATTACTAT
*
44021683 TATTTTATTATATATTACTAT
1 TA-TTT-TTA-GTATTACTAT
44021704 TATTTTTAGTATTA
1 TATTTTTAGTATTA
44021718 TAGACTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 6 0.21
21 13 0.45
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTTTTAGTATTACTAT
Found at i:44021851 original size:27 final size:27
Alignment explanation
Indices: 44021784--44021851 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
44021774 ATTTTACTAC
44021784 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
44021811 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
44021836 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
44021852 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:44026896 original size:10 final size:9
Alignment explanation
Indices: 44026872--44026901 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
44026862 CAGATTCAAT
44026872 AAAAAATAA
1 AAAAAATAA
44026881 AAAAAATAA
1 AAAAAATAA
44026890 AATAAAATAA
1 AA-AAAATAA
44026900 AA
1 AA
44026902 GTCAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:44026915 original size:30 final size:30
Alignment explanation
Indices: 44026881--44026938 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
44026871 TAAAAAATAA
*
44026881 AAAAAATA-AAATAAAATAAAAGTCAAAAAC
1 AAAAAAGAGAAAT-AAATAAAAGTCAAAAAC
* *
44026911 AAAAAAGAGAAATCAATTAAAGTCAAAA
1 AAAAAAGAGAAATAAATAAAAGTCAAAA
44026939 TAAAAATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (30 bp):
AAAAAAGAGAAATAAATAAAAGTCAAAAAC
Found at i:44029370 original size:87 final size:87
Alignment explanation
Indices: 44029044--44029360 Score: 463
Period size: 87 Copynumber: 3.6 Consensus size: 87
44029034 AGAACAGATC
* *
44029044 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTACAGTGGAGTTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
*
44029109 TGCCTTCCTACATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * *
44029131 AGTAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTAAAGATGGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
44029196 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * * * * **
44029218 AGCAGACCGAGAATAAAACCCTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
44029283 TGCCTTCCTGCATTAACAGTGA
66 TGCCTTCCTGCATTGACAGCGA
* ** *
44029305 AGCAGATCAAAAACAAAGCCTTGCCTCCATTGGTTGCAGAGGAGCTGGTTAAAGAT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGAT
44029361 GACAAATCTT
Statistics
Matches: 205, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 205 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTGACAGCGA
Found at i:44029874 original size:44 final size:44
Alignment explanation
Indices: 44029578--44029875 Score: 151
Period size: 44 Copynumber: 6.8 Consensus size: 44
44029568 ATTGAAGCTG
* * *
44029578 ATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGT-A
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
* * * * ** ***
44029621 ATAGATCTTATCTCTCTGAAATTGTAGTAGAGTGGATCGCA-TC-
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
** * * * **
44029664 A-GGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAGAAA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
* * * * ** * * ***
44029706 ACAAGTATTATCCCCCTAAAGTCACAGTGGGGCAGACTGAAAAAGA
1 ATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTCA
* * * *
44029752 A-AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
* * *
44029795 ATAATCCTATCTCCCTCAAGTTGTAGTGGAGCAGATTAAAGT-A
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
* * *
44029838 ATCGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
44029876 GCATCAAGTC
Statistics
Matches: 183, Mismatches: 62, Indels: 19
0.69 0.23 0.07
Matches are distributed among these distances:
40 1 0.01
41 24 0.13
42 1 0.01
43 11 0.06
44 140 0.77
45 2 0.01
46 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA
Found at i:44030564 original size:19 final size:20
Alignment explanation
Indices: 44030542--44030581 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44030532 AAAAGAATTA
44030542 AAGGAAAAG-AAAAAATCAG
1 AAGGAAAAGAAAAAAATCAG
44030561 AAGGAAAAGAAAAAAATCAG
1 AAGGAAAAGAAAAAAATCAG
44030581 A
1 A
44030582 CTTTGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (20 bp):
AAGGAAAAGAAAAAAATCAG
Found at i:44031343 original size:18 final size:18
Alignment explanation
Indices: 44031291--44031344 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
44031281 TTTTTTTTAC
*
44031291 TATTTTTCGTTATTACTAT
1 TATTTTTAG-TATTACTAT
*
44031310 TATTTTATTATATATTACTAT
1 TA-TTT-TTA-GTATTACTAT
44031331 TATTTTTAGTATTA
1 TATTTTTAGTATTA
44031345 TAGATTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 6 0.21
21 13 0.45
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTTTTAGTATTACTAT
Found at i:44031363 original size:25 final size:25
Alignment explanation
Indices: 44031315--44031363 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44031305 ACTATTATTT
* * *
44031315 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
44031340 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
44031364 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:44031478 original size:27 final size:27
Alignment explanation
Indices: 44031411--44031478 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
44031401 ATTTTACTAC
44031411 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
44031438 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
44031463 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
44031479 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:44033567 original size:60 final size:60
Alignment explanation
Indices: 44033476--44033593 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
44033466 TCTATGGCCC
* * * * *
44033476 GTGTAACTCATTGACTTGTAATTAAAGTTCAAAAATTAACTCCAATATTCACATGGCCTT
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCTT
44033536 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
44033594 ATGTCGCTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (60 bp):
GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCTT
Found at i:44036539 original size:19 final size:19
Alignment explanation
Indices: 44036528--44036567 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
44036518 AATTTTAAAC
44036528 TAAAATGAAAATATAAAAA
1 TAAAATGAAAATATAAAAA
*
44036547 TAAAATAAAAATAATAAAAA
1 TAAAATGAAAAT-ATAAAAA
44036567 T
1 T
44036568 GGATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
TAAAATGAAAATATAAAAA
Found at i:44037362 original size:15 final size:17
Alignment explanation
Indices: 44037342--44037388 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
44037332 ACTACAAAAA
44037342 ATTTATTATT-AAT-AT
1 ATTTATTATTCAATAAT
*
44037357 ATTTATAATTGCAATAAAT
1 ATTTATTATT-CAAT-AAT
44037376 ATTTATTATTCAA
1 ATTTATTATTCAA
44037389 ATATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
17 3 0.12
18 3 0.12
19 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTATTATTCAATAAT
Found at i:44037445 original size:16 final size:16
Alignment explanation
Indices: 44037414--44037450 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44037404 ATGTGAATAA
44037414 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
44037430 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
44037446 TATTA
1 TATTA
44037451 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:44037474 original size:18 final size:18
Alignment explanation
Indices: 44037436--44037471 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44037426 TTATTATTTT
*
44037436 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
44037454 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
44037472 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:44037480 original size:12 final size:12
Alignment explanation
Indices: 44037465--44037520 Score: 71
Period size: 12 Copynumber: 4.7 Consensus size: 12
44037455 AAAATTTAAA
44037465 TATTAAATAATT
1 TATTAAATAATT
44037477 TATTAAAATAA-T
1 TATT-AAATAATT
*
44037489 AATTAAATAATT
1 TATTAAATAATT
44037501 ATATT-AATAATT
1 -TATTAAATAATT
44037513 TATTAAAT
1 TATTAAAT
44037521 GACTAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 10 0.26
12 19 0.50
13 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTAAATAATT
Found at i:44038206 original size:23 final size:23
Alignment explanation
Indices: 44038180--44038227 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
44038170 TATTTCTAGG
44038180 ATTGCATGCAACTCTACTCAATT
1 ATTGCATGCAACTCTACTCAATT
*
44038203 ATTGCATGCAACTCTACTCAGTT
1 ATTGCATGCAACTCTACTCAATT
44038226 AT
1 AT
44038228 GTCTAATGCT
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:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (23 bp):
ATTGCATGCAACTCTACTCAATT
Found at i:44041638 original size:42 final size:42
Alignment explanation
Indices: 44041584--44041723 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
44041574 TTTTAGAAAT
* *
44041584 AAACGCCACTAAAAGTCATGACCTTTAGTGGCGCTTTTACAA
1 AAACGCCACTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
* * * * **
44041626 AAACGCCGCTAAAGGTCATGATCTTTAGCGGCACTTCTCCCAC
1 AAACGCCACTAAAAGTCATGACCTTTAGCGGCGCTT-TTACAC
* * **
44041669 AAACGCCACTATAAAG--ATGGCTTTTAGCGGCGCTTTTTGAC
1 AAACGCCACTA-AAAGTCATGACCTTTAGCGGCGCTTTTACAC
*
44041710 AAACGCCGCTAAAA
1 AAACGCCACTAAAA
44041724 ACATGACTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.04
41 13 0.17
42 46 0.59
43 13 0.17
44 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCACTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
Found at i:44042949 original size:43 final size:43
Alignment explanation
Indices: 44042767--44042956 Score: 249
Period size: 43 Copynumber: 4.4 Consensus size: 43
44042757 TTTATGTAAA
* * * *
44042767 AAACGCCGCTAAAGATCATGACCTTTAACGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
*
44042810 AAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
* *
44042853 AAACGCTGCTAAAGAACATGACCTTTAGCGGAGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
* * * * *
44042896 TAACGTCGCTAAAGAACATGACCTTTAGCAGCGCTTCTCG-CAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT-TTGTCAC
44042939 AAACGCCGCTAAA-AACAT
1 AAACGCCGCTAAAGAACAT
44042957 AACTTTAAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.04
43 124 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
Found at i:44047550 original size:7 final size:7
Alignment explanation
Indices: 44047538--44047591 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
44047528 TTACCATCCA
44047538 TAACCCC
1 TAACCCC
44047545 TAACCCC
1 TAACCCC
*
44047552 TAATCCC
1 TAACCCC
*
44047559 TAATCCC
1 TAACCCC
** *
44047566 TAATTCT
1 TAACCCC
*
44047573 TAACCTC
1 TAACCCC
44047580 TAACCCC
1 TAACCCC
44047587 TAACC
1 TAACC
44047592 ATTCTTTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.30, C:0.44, G:0.00, T:0.26
Consensus pattern (7 bp):
TAACCCC
Found at i:44047756 original size:21 final size:20
Alignment explanation
Indices: 44047699--44047758 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
44047689 CCTTAAATCA
*
44047699 CTAACTCTTAACCTCTAACCC
1 CTAACTC-TAACCCCTAACCC
* *
44047720 CTAACCCTAAATCCCTAACCC
1 CTAACTCT-AACCCCTAACCC
44047741 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
44047759 ACCTTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.23
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:44047758 original size:7 final size:7
Alignment explanation
Indices: 44047707--44047758 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
44047697 CACTAACTCT
*
44047707 TAACCTC
1 TAACCCC
44047714 TAACCCC
1 TAACCCC
44047721 TAA-CCC
1 TAACCCC
*
44047727 TAAATCCC
1 T-AACCCC
44047735 TAACCCC
1 TAACCCC
**
44047742 TAACTAC
1 TAACCCC
44047749 TAACCCC
1 TAACCCC
44047756 TAA
1 TAA
44047759 ACCTTATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 4 0.11
7 29 0.78
8 4 0.11
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:44047809 original size:7 final size:7
Alignment explanation
Indices: 44047797--44047842 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
44047787 ACTAATTAAT
44047797 CTAAACC
1 CTAAACC
44047804 CTAAACC
1 CTAAACC
44047811 CT-AACC
1 CTAAACC
44047817 C-AAATCC
1 CTAAA-CC
*
44047824 CTAACCC
1 CTAAACC
*
44047831 CTAATCC
1 CTAAACC
44047838 CTAAA
1 CTAAA
44047843 TCTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 7 0.21
7 24 0.73
8 2 0.06
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:44047838 original size:14 final size:13
Alignment explanation
Indices: 44047800--44047841 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
44047790 AATTAATCTA
*
44047800 AACCCTAAACCCT
1 AACCCTAATCCCT
*
44047813 AACCCAAATCCCT
1 AACCCTAATCCCT
44047826 AACCCCTAATCCCT
1 AA-CCCTAATCCCT
44047840 AA
1 AA
44047842 ATCTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAATCCCT
Found at i:44047990 original size:14 final size:15
Alignment explanation
Indices: 44047973--44048009 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
44047963 AACCCTTAAA
44047973 CCATAATCCCTAA-T
1 CCATAATCCCTAATT
44047987 CCATAATCCCTAATT
1 CCATAATCCCTAATT
44048002 CCATAATC
1 CCATAATC
44048010 TATAAACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (15 bp):
CCATAATCCCTAATT
Found at i:44048464 original size:41 final size:41
Alignment explanation
Indices: 44048398--44048538 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
44048388 GCCGCTAATG
*
44048398 CTCAGAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* * *
44048439 CTCAAAAACGCTGCT-AAAGCTCTGAGAATTAGCGGTGCTTT
1 CTCAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGCGCTTT
* ** *
44048480 CCCAAAAACGCCGCTAAAAGCCCAATCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* *
44048521 TTTAAAAACGCCGCTAAA
1 CTCAAAAACGCCGCTAAA
44048539 GCCCCGAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.88
42 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (41 bp):
CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
Found at i:44053246 original size:24 final size:24
Alignment explanation
Indices: 44053219--44053324 Score: 65
Period size: 24 Copynumber: 4.5 Consensus size: 24
44053209 AAAAATCTAT
44053219 TATTATTTTAATATTTAAATTTGA
1 TATTATTTTAATATTTAAATTTGA
* * * *
44053243 TATTGTTTTAAAATTTATTATTAG-
1 TATTATTTTAATATTTA-AATTTGA
* * * * * *
44053267 TGTAATTTTAAAATAT-AATATGC
1 TATTATTTTAATATTTAAATTTGA
* * *
44053290 TATTATTTTAATTTTTTAA-TTAA
1 TATTATTTTAATATTTAAATTTGA
44053313 TATTATTTTAAT
1 TATTATTTTAAT
44053325 TTATTATACA
Statistics
Matches: 60, Mismatches: 19, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
22 3 0.05
23 24 0.40
24 29 0.48
25 4 0.07
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.58
Consensus pattern (24 bp):
TATTATTTTAATATTTAAATTTGA
Found at i:44055966 original size:7 final size:7
Alignment explanation
Indices: 44055956--44055988 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
44055946 TACTAACTCT
44055956 TAACCTC
1 TAACCTC
44055963 TAACCTC
1 TAACCTC
44055970 TAACCTC
1 TAACCTC
44055977 TAACCTC
1 TAACCTC
44055984 TAACC
1 TAACC
44055989 ATAAACCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
TAACCTC
Found at i:44055972 original size:21 final size:21
Alignment explanation
Indices: 44055948--44055988 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44055938 CCCTAAATTA
44055948 CTAA-CTCTTAACCTCTAACCT
1 CTAACCTC-TAACCTCTAACCT
44055969 CTAACCTCTAACCTCTAACC
1 CTAACCTCTAACCTCTAACC
44055989 ATAAACCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAACCTCTAACCTCTAACCT
Found at i:44055995 original size:14 final size:14
Alignment explanation
Indices: 44055956--44056016 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
44055946 TACTAACTCT
*
44055956 TAACCTCTAACCTC
1 TAACCTCAAACCTC
*
44055970 TAACCTCTAACCTC
1 TAACCTCAAACCTC
*
44055984 TAACCAT-AAACCCC
1 TAACC-TCAAACCTC
*
44055998 TAACC-CAAAACTC
1 TAACCTCAAACCTC
44056011 GTAACC
1 -TAACC
44056017 CCTAACTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 5 0.12
14 34 0.85
15 1 0.03
ACGTcount: A:0.36, C:0.41, G:0.02, T:0.21
Consensus pattern (14 bp):
TAACCTCAAACCTC
Found at i:44055995 original size:21 final size:21
Alignment explanation
Indices: 44055956--44056002 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
44055946 TACTAACTCT
* *
44055956 TAACCTCTAACCTCTAACCTC
1 TAACCTCTAACCTCAAACCCC
44055977 TAACCTCTAACCAT-AAACCCC
1 TAACCTCTAACC-TCAAACCCC
44055998 TAACC
1 TAACC
44056003 CAAAACTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (21 bp):
TAACCTCTAACCTCAAACCCC
Found at i:44056194 original size:81 final size:80
Alignment explanation
Indices: 44056026--44056198 Score: 217
Period size: 81 Copynumber: 2.1 Consensus size: 80
44056016 CCCTAACTAC
44056026 TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATATAAACCCTAAACCCTAA
1 TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATATAAACCCTAAACCCTAA
*
44056091 CCTGAATCCCTAATCCC
66 CCTGAAT--CTAATCCA
* * *
44056108 TAACCCCTAAACCTTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCTTAAACCCTA
1 TAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATATAAACCCTAAACCCTA
* *
44056171 ACTTGACAT-TGAATCTA
65 ACCTGA-ATCT-AATCCA
44056188 TAAACCCTAAA
1 T-AACCCTAAA
44056199 TCACAACCCT
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
79 1 0.01
80 12 0.15
81 47 0.58
82 6 0.07
83 15 0.19
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (80 bp):
TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATATAAACCCTAAACCCTAA
CCTGAATCTAATCCA
Found at i:44056234 original size:14 final size:15
Alignment explanation
Indices: 44056217--44056249 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44056207 CTTAAACTAA
*
44056217 AATCCTTAA-TCCAT
1 AATCCCTAATTCCAT
44056231 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
44056246 AATC
1 AATC
44056250 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:44056705 original size:41 final size:41
Alignment explanation
Indices: 44056644--44056754 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
44056634 TTTTGTGGAA
* *
44056644 CTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
44056685 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
*
44056726 CTTGTTT-AAAAACGCCACTAAAGCCCCGA
1 CTT-TTTCAAAAACGCCGCTAAAGCCCCGA
44056755 AAGGTCAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 63 0.95
42 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
Found at i:44065271 original size:14 final size:14
Alignment explanation
Indices: 44065252--44065278 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44065242 TTAATTTAAT
44065252 AATATAAATAAAAG
1 AATATAAATAAAAG
44065266 AATATAAATAAAA
1 AATATAAATAAAA
44065279 TTATTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AATATAAATAAAAG
Found at i:44066195 original size:18 final size:19
Alignment explanation
Indices: 44066167--44066236 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
44066157 TCTTTACAAG
44066167 AAAATTCAAAATAATTTAA
1 AAAATTCAAAATAATTTAA
*
44066186 AAAATT-AAAATAAATTT-T
1 AAAATTCAAAAT-AATTTAA
*
44066204 AAAATTCCAAAT-ATTTATA
1 AAAATTCAAAATAATTTA-A
44066223 AAAATTTCAAAATA
1 AAAA-TTCAAAATA
44066237 TATATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.10
18 11 0.27
19 19 0.46
20 7 0.17
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAA
Found at i:44066238 original size:16 final size:18
Alignment explanation
Indices: 44066218--44066262 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
44066208 TTCCAAATAT
44066218 TTATAAAAATTT-CAAAA
1 TTATAAAAATTTACAAAA
* *
44066235 -TATATATATTTACAAAA
1 TTATAAAAATTTACAAAA
44066252 TTATAAAAATT
1 TTATAAAAATT
44066263 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAAAAATTTACAAAA
Found at i:44066240 original size:18 final size:17
Alignment explanation
Indices: 44066204--44066262 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
44066194 AATAAATTTT
*
44066204 AAAATTCCAAATATTTATA
1 AAAATTTCAAA-A-TTATA
44066223 AAAATTTCAAAA-TATA
1 AAAATTTCAAAATTATA
* *
44066239 TATATTTACAAAATTATA
1 AAAATTT-CAAAATTATA
44066257 AAAATT
1 AAAATT
44066263 CTAAAACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.27
17 5 0.15
18 9 0.27
19 10 0.30
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTCAAAATTATA
Found at i:44068952 original size:43 final size:43
Alignment explanation
Indices: 44068858--44069118 Score: 312
Period size: 43 Copynumber: 6.1 Consensus size: 43
44068848 CACTGTTGTC
*
44068858 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
44068900 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * * * **
44068943 AACGCCGCTATAGATTAGGGCCTTTAGCGTCGCTTTT-TTACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * *
44068985 AACGTCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * ***
44069028 AACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTTTACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * * * * *
44069071 AACGCCGCTATAGACCAA-AGCTTTAGCGACGCTTCTCGCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
44069113 AACGCC
1 AACGCC
44069119 ACTAAAAACA
Statistics
Matches: 185, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 90 0.49
43 95 0.51
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
Found at i:44068969 original size:85 final size:85
Alignment explanation
Indices: 44068858--44069118 Score: 371
Period size: 85 Copynumber: 3.1 Consensus size: 85
44068848 CACTGTTGTC
***
44068858 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAGACCT
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAAGACCT
*
44068923 TTAGCGGCGCTTTTCCCACA
66 TTAGCGGCGCTTTTCCCAAA
* * * *
44068943 AACGCCGCTATAGATTAGGGCCTTTAGCGTCGCTTTTTTACAAACGTCGCTATAGATCAAGACCT
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAAGACCT
*
44069008 TTAGCGGCGCTTTTCCAAAA
66 TTAGCGGCGCTTTTCCCAAA
* * *
44069028 AACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTTTTACAAACGCCGCTATAGACCAA-AGC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTTACAAACGCCGCTATAGATCAAGACC
* * *
44069092 TTTAGCGACGCTTCTCGCAAA
65 TTTAGCGGCGCTTTTCCCAAA
44069113 AACGCC
1 AACGCC
44069119 ACTAAAAACA
Statistics
Matches: 155, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 130 0.84
86 25 0.16
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (85 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAAGACCT
TTAGCGGCGCTTTTCCCAAA
Found at i:44073735 original size:16 final size:16
Alignment explanation
Indices: 44073707--44073739 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44073697 TCTCTTTTAC
44073707 AATTATATAATAAATT
1 AATTATATAATAAATT
44073723 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
44073739 A
1 A
44073740 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:44073850 original size:7 final size:7
Alignment explanation
Indices: 44073840--44073893 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
44073830 CCCCAGCATT
44073840 TAAACCA
1 TAAACCA
*
44073847 TAAACCC
1 TAAACCA
44073854 TAAACCA
1 TAAACCA
* *
44073861 TAATCCC
1 TAAACCA
44073868 TAAACTCA
1 TAAAC-CA
*
44073876 TAATCCA
1 TAAACCA
*
44073883 TAAACCT
1 TAAACCA
44073890 TAAA
1 TAAA
44073894 ATGGTAGCAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:44073857 original size:14 final size:14
Alignment explanation
Indices: 44073840--44073951 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 14
44073830 CCCCAGCATT
44073840 TAAACCATAAACCC
1 TAAACCATAAACCC
*
44073854 TAAACCATAATCCC
1 TAAACCATAAACCC
* *
44073868 TAAACTCATAATCCA
1 TAAAC-CATAAACCC
*
44073883 TAAACCTTAAAATGGTAGCACC
1 TAAACC--ATAA----A-C-CC
*
44073905 TAAA-CATTAAACTC
1 TAAACCA-TAAACCC
*
44073919 TAAACCATATACCC
1 TAAACCATAAACCC
*
44073933 TAAACCAAAAACCC
1 TAAACCATAAACCC
44073947 TAAAC
1 TAAAC
44073952 TATAGTGATA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
14 46 0.61
15 16 0.21
16 4 0.05
19 1 0.01
20 2 0.03
21 2 0.03
22 5 0.07
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:44073879 original size:15 final size:14
Alignment explanation
Indices: 44073840--44073888 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
44073830 CCCCAGCATT
*
44073840 TAAACCATAAACCC
1 TAAACCATAATCCC
44073854 TAAACCATAATCCC
1 TAAACCATAATCCC
*
44073868 TAAACTCATAATCCA
1 TAAAC-CATAATCCC
44073883 TAAACC
1 TAAACC
44073889 TTAAAATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:44074178 original size:41 final size:41
Alignment explanation
Indices: 44074121--44074522 Score: 583
Period size: 41 Copynumber: 9.9 Consensus size: 41
44074111 TAAATCTCTA
* *
44074121 AGCATTAGCGGCGCTTTATCAAAAACGCCACTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
44074162 AGCATTAGCTGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
**
44074203 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
44074244 AGCATTAGTGGCGCTTTCTCAAAAACGCCGCTAAAGA-CC-
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
44074283 AGCATTAGCGGCGCTTTCTTAAAAACACCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * * *
44074324 AGCATTAGCAGCGCTTCCCCAAAAACGCCGCTAAAGACCCT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* ** * *
44074365 AGCTTTATTGGCGCTTTATCAAAAACGCCGTTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* **
44074406 AGCATTAGCGGCGCTTTCTCAAAAACGCTGCTAAAGACCAT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
44074447 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* *
44074488 AGCATTAGCGGCGCTTTCTAAAAAACGCCACTAAA
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
44074523 TCTTCGAAAG
Statistics
Matches: 318, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 34 0.11
40 2 0.01
41 282 0.89
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
Found at i:44074470 original size:203 final size:205
Alignment explanation
Indices: 44074121--44074522 Score: 639
Period size: 203 Copynumber: 2.0 Consensus size: 205
44074111 TAAATCTCTA
* * * *
44074121 AGCATTAGCGGCGCTTTATCAAAAACGCCACTAAAGACCCGAGCATTAGCTGCGCTTTCTCAAAA
1 AGCATTAGCAGCGCTTCACCAAAAACGCCACTAAAGACCCGAGCATTAGCTGCGCTTTATCAAAA
44074186 ACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCATAGCATTA
66 ACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCATAGCATTA
* * *
44074251 GTGGCGCTTTCTCAAAAACGCCGCTAAAGA-CC-AGCATTAGCGGCGCTTTCTTAAAAACACCGC
131 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTAAAAAACACCAC
44074314 TAAAGACCAG
196 TAAAGACCAG
* * * * *
44074324 AGCATTAGCAGCGCTTCCCCAAAAACGCCGCTAAAGACCCTAGCTTTA-TTGGCGCTTTATCAAA
1 AGCATTAGCAGCGCTTCACCAAAAACGCCACTAAAGACCCGAGCATTAGCT-GCGCTTTATCAAA
* *
44074388 AACGCCGTTAAAGACCCGAGCATTAGCGGCGCTTTCTCAAAAACGCTGCTAAAGACCATAGCATT
65 AACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCATAGCATT
*
44074453 AGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTAAAAAACGCCA
130 AGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTAAAAAACACCA
44074518 CTAAA
195 CTAAA
44074523 TCTTCGAAAG
Statistics
Matches: 181, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
202 1 0.01
203 146 0.81
204 2 0.01
205 32 0.18
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (205 bp):
AGCATTAGCAGCGCTTCACCAAAAACGCCACTAAAGACCCGAGCATTAGCTGCGCTTTATCAAAA
ACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCATAGCATTA
GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTCTAAAAAACACCAC
TAAAGACCAG
Found at i:44074611 original size:39 final size:40
Alignment explanation
Indices: 44074567--44074695 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
44074557 TAGGTTTTTT
* *
44074567 GCGGCGCTTTCTGAAAAACGCCGCTAATGCT-TATATTTA
1 GCGGCGTTTTCTGAAAAACGCCGCTAATGCTCGATATTTA
* * *
44074606 GCGGCGTTTTCCATG--AAGCGCCACTAATGCTCGATCTTTA
1 GCGGCGTTTT-C-TGAAAAACGCCGCTAATGCTCGATATTTA
* * *
44074646 GCGGCGTTTTC-CAAAAAGTGCCGCTAATGCTCGATTTTTA
1 GCGGCGTTTTCTGAAAAA-CGCCGCTAATGCTCGATATTTA
44074686 GCGGCGTTTT
1 GCGGCGTTTT
44074696 TTATCCAAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
39 26 0.35
40 46 0.62
41 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTCTGAAAAACGCCGCTAATGCTCGATATTTA
Found at i:44074650 original size:40 final size:40
Alignment explanation
Indices: 44074580--44074695 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
44074570 GCGCTTTCTG
*
44074580 AAAAA-CGCCGCTAATGCT-TATATTTAGCGGCGTTTTCC
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
** * *
44074618 ATGAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTCC
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
* *
44074658 AAAAAGTGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTT
44074696 TTATCCAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
38 3 0.05
39 12 0.18
40 51 0.77
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
Found at i:44078103 original size:30 final size:30
Alignment explanation
Indices: 44078069--44078129 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44078059 CACGGGCTAG
** * * *
44078069 CACATGGGTGTGTGTCCAGCCCGTGTGGCT
1 CACATGGGCATGTGCCCAACCCATGTGGCT
44078099 CACATGGGCATGTGCCCAACCCATGTGGCT
1 CACATGGGCATGTGCCCAACCCATGTGGCT
44078129 C
1 C
44078130 TTGAAATCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAACCCATGTGGCT
Found at i:44080260 original size:15 final size:14
Alignment explanation
Indices: 44080226--44080265 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
44080216 CTTTCAAGGA
44080226 ATTTTGTGGGTTCTT
1 ATTTT-TGGGTTCTT
44080241 ATTTTTGGGTTCTT
1 ATTTTTGGGTTCTT
44080255 ATTTTTGGGTT
1 ATTTTTGGGTT
44080266 TCGAGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.07, C:0.05, G:0.25, T:0.62
Consensus pattern (14 bp):
ATTTTTGGGTTCTT
Found at i:44081939 original size:15 final size:15
Alignment explanation
Indices: 44081919--44081949 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44081909 GTTATGTAAG
44081919 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
44081934 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
44081949 T
1 T
44081950 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:44085149 original size:15 final size:15
Alignment explanation
Indices: 44085129--44085159 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44085119 GTTATGTAAG
44085129 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
44085144 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
44085159 T
1 T
44085160 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:44090688 original size:22 final size:21
Alignment explanation
Indices: 44090645--44090688 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
44090635 AGGGTTGTTA
*
44090645 TAAAGGAGGCTTAAACATCAT
1 TAAAGGAGGCTTAAACAGCAT
* *
44090666 TAAAGGAGTTCTTAAAGAGCAT
1 TAAAGGAG-GCTTAAACAGCAT
44090688 T
1 T
44090689 TTTATGCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGGAGGCTTAAACAGCAT
Found at i:44091228 original size:44 final size:46
Alignment explanation
Indices: 44091173--44091264 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
44091163 ATAGTGTGGT
*
44091173 GTTCATCATATACCAAGGTTTC-ATCATCCTTGATAG-GGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
* *
44091217 GTTCATTATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
44091263 GT
1 GT
44091265 ATTTTAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 20 0.47
45 13 0.30
46 10 0.23
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:44100368 original size:46 final size:46
Alignment explanation
Indices: 44100317--44100410 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
44100307 ATAGTGTGGT
* *
44100317 GTTCATCATATACCAAGGTTTCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
*
44100363 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGAGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
44100409 GT
1 GT
44100411 CTTTTAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
Found at i:44107891 original size:25 final size:25
Alignment explanation
Indices: 44107830--44107906 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
44107820 AAGATAACAA
** *
44107830 GCCACAAAGGC-TTCCAGAAAGAGGTA
1 GCCACAAAGGCTTTCCAG--AGAATTC
*
44107856 GCCACATAGGCTTTCCAGAGAATTC
1 GCCACAAAGGCTTTCCAGAGAATTC
**
44107881 GCCACAAAGGCTTTTTAGAGAATTC
1 GCCACAAAGGCTTTCCAGAGAATTC
44107906 G
1 G
44107907 TGTTTATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 27 0.63
26 10 0.23
27 6 0.14
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAGAGAATTC
Found at i:44109156 original size:109 final size:110
Alignment explanation
Indices: 44108978--44109269 Score: 448
Period size: 110 Copynumber: 2.7 Consensus size: 110
44108968 TTTGGCTATA
* * * * * *
44108978 TGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGTACG-TTCCTCAAATTTCCAAACGCAA
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
*
44109040 AACATTGCCTTATTTT-GAAATTTTTAAAAGGATATTTAGCCATT
66 AACATTGCCTTATTTTAGAAATTTTTAAAAGGATATTAAGCCATT
*
44109084 TGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
*
44109149 AACATTGCCTTATTTTAGAATTTTTTAAAAGGATATTAAGCCATT
66 AACATTGCCTTATTTTAGAAATTTTTAAAAGGATATTAAGCCATT
*
44109194 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCT
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCA
*
44109259 AAATATTGCCT
65 AAACATTGCCT
44109270 CAATTAGAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
106 10 0.06
108 25 0.15
109 36 0.21
110 80 0.47
111 18 0.11
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (110 bp):
TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTAGAAATTTTTAAAAGGATATTAAGCCATT
Found at i:44109349 original size:21 final size:18
Alignment explanation
Indices: 44109317--44109356 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
44109307 ATTTATATGC
44109317 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
44109337 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
44109356 A
1 A
44109357 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:44111196 original size:50 final size:50
Alignment explanation
Indices: 44111129--44111234 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
44111119 CTGTCATCTC
* * ** *
44111129 CAATCTGTTTAACTGCAATGTCGAGGAAGTAAGATTCACCGTCATAGCTT
1 CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
* **
44111179 CAATCTATTTAATTGCAATGTCAAGGAAACAAAATTCACCGTTGTAGCTT
1 CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
44111229 CAATCT
1 CAATCT
44111235 GTTCCGCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (50 bp):
CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
Found at i:44111266 original size:50 final size:49
Alignment explanation
Indices: 44111212--44111584 Score: 182
Period size: 50 Copynumber: 7.5 Consensus size: 49
44111202 AGGAAACAAA
* * * *
44111212 ATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCACCTGGAAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCTGGAAA-TGAG
* * * ** * **
44111262 ATTCACC-TTAGTAGCTTCAATATTTTGAATTGCA--ATGTTGGAGAAGTGAG
1 ATTCGCCGTT-GTAGCTTCAATCTGTTCCACTGCATCA-CCTGGA-AA-TGAG
* * *
44111312 ATTCGCCATCGTAGCTTCAATCTGTTCCACTGCATCACTCGGGAAATGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCAC-CTGGAAATGAG
* * ** * ** *
44111362 ATTTGCCGTTGT-GACTTCAATCTTTTGAATTGCAAT-GTCGGGAAAGTGAG
1 ATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGC-ATCACCTGGAAA-TGAG
* * * * *
44111412 ATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTAGGAAATAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCT-GGAAATGAG
* * * * ** ** *
44111462 ATTCGCCATTGTGGCTTCGATCTTTTAAACTGCAAT-GTCGGGAAAATGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCACCTGG-AAATGAG
* * * ** *
44111512 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGTATTTCCTGGGAAATAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCT-GGAAATGAG
* *
44111562 ATTCGCCGTTGTGGCTTCGATCT
1 ATTCGCCGTTGTAGCTTCAATCT
44111585 TTTTAAACTG
Statistics
Matches: 239, Mismatches: 67, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
48 1 0.00
49 20 0.08
50 199 0.83
51 15 0.06
52 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (49 bp):
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCTGGAAATGAG
Found at i:44111326 original size:100 final size:98
Alignment explanation
Indices: 44111212--44111785 Score: 591
Period size: 100 Copynumber: 5.8 Consensus size: 98
44111202 AGGAAACAAA
* * * * *
44111212 ATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCACCTGGAAAGTAAGATTCACC-TTAGTAG
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAA-TAAGATTCGCCGTT-GTGG
* *
44111276 CTTCAATATTTTGAATTGCAATGTTGGAGAAGTGAG
64 CTTCGATATTTTGAATTGCAATGTCGG-GAAGTGAG
* * * * * *
44111312 ATTCGCCATCGTAGCTTCAATCTGTTCCACTGCATCACTCGGGAAATGAGATTTGCCGTTGTGAC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCAC-CTGGAAATAAGATTCGCCGTTGTGGC
* *
44111377 TTCAATCTTTTGAATTGCAATGTCGGGAAAGTGAG
65 TTCGATATTTTGAATTGCAATGTCGGG-AAGTGAG
* * *
44111412 ATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTAGGAAATAAGATTCGCCATTGTGGC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCT-GGAAATAAGATTCGCCGTTGTGGC
* * * *
44111477 TTCGATCTTTTAAACTGCAATGTCGGGAAAATGAG
65 TTCGATATTTTGAATTGCAATGTCGGG-AAGTGAG
* **
44111512 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGTATTTCCTGGGAAATAAGATTCGCCGTTGTGGC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCT-GGAAATAAGATTCGCCGTTGTGGC
* * * *
44111577 TTCGATCTTTTTAAACTGCAATGTCTGAGAAGTGAG
65 TTCGAT-ATTTTGAATTGCAATGTC-GGGAAGTGAG
* * * **
44111613 ATTCACCGTCGTAGC-TCTAATTTGTTCCGCTGTATCGTCTGGGAGAA-AA-ATTCGCCGTTGTG
1 ATTCGCCGTCGTAGCTTC-AATCTGTTCCGCTGCATCACCT-GGA-AATAAGATTCGCCGTTGTG
**
44111675 GCTTCGATATTTTGAATTGCAATGTCGGGGAAGCAAG
63 GCTTCGATATTTTGAATTGCAATGTC-GGGAAGTGAG
* * * * * * *
44111712 ATTCGCTGTTGTAGCTTCAATTTGTTCCACTGCATCACCTAGAAGTAAGATTCACC-TTGTGGCT
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTCGCCGTTGTGGCT
*
44111776 TCGATCTTTT
66 TCGATATTTT
44111786 AAACTATTCC
Statistics
Matches: 405, Mismatches: 58, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
97 1 0.00
98 21 0.05
99 60 0.15
100 250 0.62
101 69 0.17
102 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (98 bp):
ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTCGCCGTTGTGGCT
TCGATATTTTGAATTGCAATGTCGGGAAGTGAG
Found at i:44111920 original size:46 final size:46
Alignment explanation
Indices: 44111868--44113202 Score: 1772
Period size: 46 Copynumber: 29.2 Consensus size: 46
44111858 AAGATTCACC
* *** * *
44111868 ATCTTCGATCTTCTCCGCTGCTGGATACAAGAAGACAATATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44111914 ACCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
44111960 ATCTTCGATCTTCTCTGCTGCCAAATATAGGAAGACAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
44112006 ATCTTTGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
44112052 ATCTTTGATCTCTTCCACAGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
44112098 ATCTTCGATCTCTTCCACTGCCAAATACAAGAAGATAAGATCGGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
44112144 ATCTTCGATCTCCTTCGCTACCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44112190 ATCTTCGATCTCCTCCGCTGCCAAATACAAGAAGATAAGATCTG-T
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44112235 CATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTACT
1 -ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *** * *
44112282 ATCTTCGATCTCATTTTCTACCAAATACAGCAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
44112328 ATCTTCGATCTCTTCCGCTGCCAAATATAGGAAAACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
44112374 ATCTTCGATCTCCTCCACTGCCTAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCC-AAATACAGGAAGACAAGATCTGCT
* *
44112421 ATCTTTGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * ** *
44112467 ATCTTTGATCTACTCTACTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44112513 ATCTTCGATCTACT-C-C-G-C---T--AGGAGGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
44112550 ATCTTCGATCTCCTTCACTGCCCAAATACAGTAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTG-CCAAATACAGGAAGACAAGATCTGCT
*
44112597 ATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
44112643 ATCTTTGATCTACTCCGCTGCCAAATATAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
44112689 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44112735 ATCTTTGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
44112781 ATCTTCGATCTACTCTGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44112827 ATCTTCGATCTCCTCCTCTACCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCT-GCCAAATACAGGAAGACAAGATCTGCT
*
44112874 ATCTTCGATCTCCTCCGCTGCCAAATGCAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
44112920 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * * * * * *
44112966 ATATTTGATTTACTCCGTTGCTAAATATAAGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
44113012 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44113058 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAATACAAGATCTGAT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * ** **
44113104 ATCTTTGATCTTCTCTACTGCCAAATACAGGAAGACTGGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
44113150 ATCTTTGATCTCCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
44113196 ATCTTCG
1 ATCTTCG
44113203 TTGATCTGTT
Statistics
Matches: 1139, Mismatches: 136, Indels: 28
0.87 0.10 0.02
Matches are distributed among these distances:
37 29 0.03
38 1 0.00
39 2 0.00
40 1 0.00
42 2 0.00
43 1 0.00
44 1 0.00
45 2 0.00
46 982 0.86
47 118 0.10
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:44114428 original size:7 final size:7
Alignment explanation
Indices: 44114409--44114452 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
44114399 TTAGCCTCTC
44114409 CATTTTT
1 CATTTTT
44114416 -ACTTTTT
1 CA-TTTTT
44114423 CATTTTTTT
1 CA--TTTTT
44114432 CATTTTT
1 CATTTTT
44114439 CATTTTT
1 CATTTTT
44114446 CATTTTT
1 CATTTTT
44114453 TTTCATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 1 0.03
7 24 0.73
8 1 0.03
9 7 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:44114432 original size:9 final size:9
Alignment explanation
Indices: 44114418--44114477 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
44114408 CCATTTTTAC
44114418 TTTTTCATT
1 TTTTTCATT
44114427 TTTTTCA--
1 TTTTTCATT
44114434 TTTTTCATT
1 TTTTTCATT
*
44114443 TTTCATT-TTT
1 TTT--TTCATT
44114453 TTTCATTCATT
1 TTT--TTCATT
44114464 TTTTTCATT
1 TTTTTCATT
44114473 TTTTT
1 TTTTT
44114478 TGTTTGACTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
7 7 0.16
9 21 0.48
10 9 0.20
11 7 0.16
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTCATT
Found at i:44114435 original size:23 final size:22
Alignment explanation
Indices: 44114409--44114477 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
44114399 TTAGCCTCTC
44114409 CATTTTTACTTTTTCATTTTTTT
1 CATTTTT-CTTTTTCATTTTTTT
44114432 CATTTTTCATTTTTCATTTTTTTT
1 CATTTTTC-TTTTTCA-TTTTTTT
*
44114456 CATTCATT-TTTTTCATTTTTTT
1 CATT-TTTCTTTTTCATTTTTTT
44114478 TGTTTGACTC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
22 8 0.19
23 21 0.50
24 11 0.26
25 2 0.05
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (22 bp):
CATTTTTCTTTTTCATTTTTTT
Found at i:44114465 original size:13 final size:14
Alignment explanation
Indices: 44114444--44114472 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44114434 TTTTTCATTT
44114444 TTCATTTTTTTTCA
1 TTCATTTTTTTTCA
44114458 TTCA-TTTTTTTCA
1 TTCATTTTTTTTCA
44114471 TT
1 TT
44114473 TTTTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCATTTTTTTTCA
Found at i:44115309 original size:8 final size:8
Alignment explanation
Indices: 44115298--44115359 Score: 65
Period size: 8 Copynumber: 7.6 Consensus size: 8
44115288 TTTTTCTCTT
44115298 TTTTTTGA
1 TTTTTTGA
44115306 TTTTTTG-
1 TTTTTTGA
44115313 TTTGTTTGA
1 TTT-TTTGA
44115322 TTTTTTGA
1 TTTTTTGA
*
44115330 TTTTTTTA
1 TTTTTTGA
*
44115338 CTTTTTTTTA
1 --TTTTTTGA
44115348 TTTTTT-A
1 TTTTTTGA
44115355 TTTTT
1 TTTTT
44115360 CTTTCGAGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
7 9 0.18
8 29 0.59
9 3 0.06
10 8 0.16
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.81
Consensus pattern (8 bp):
TTTTTTGA
Found at i:44115358 original size:16 final size:15
Alignment explanation
Indices: 44115277--44115359 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 15
44115267 TGACCTCTCA
* *
44115277 TTTTTCTTTTCTTTT
1 TTTTTTTTTTATTTT
44115292 TCTCTTTTTTTTGATTTT
1 T-T-TTTTTTTT-ATTTT
* *
44115310 TTGTTTGTTTGATTTT
1 TT-TTTTTTTTATTTT
*
44115326 TTGATTTTTTTACTTTT
1 TT-TTTTTTTTA-TTTT
44115343 TTTTATTTTTTATTTT
1 TTTT-TTTTTTATTTT
44115359 T
1 T
44115360 CTTTCGAGTC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 21 0.39
17 27 0.50
18 5 0.09
ACGTcount: A:0.07, C:0.06, G:0.06, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTATTTT
Found at i:44118912 original size:109 final size:110
Alignment explanation
Indices: 44118748--44119019 Score: 359
Period size: 110 Copynumber: 2.5 Consensus size: 110
44118738 AGAAATTGAA
* * * * * * * *
44118748 ACCCAGCACCTTAGGGTACGT-TCCACAAAATTCCAAACACAAAACATTGCTTTATTTTGAAA-T
1 ACCCAGCACCTTAGGGCATGTCTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
* * *
44118811 TTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGAC
66 TTTTAAAAGGATATTAAGCCATTTGGTCGAACGAGAAAAATCGAC
* * * *
44118856 ACCCAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTAAAATT
1 ACCCAGCACCTTAGGGCATGTCTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
44118921 TTTTAAAAGGATATTAAGCCATTTGGTCGAACGAGAAAAATCGAC
66 TTTTAAAAGGATATTAAGCCATTTGGTCGAACGAGAAAAATCGAC
* * *
44118966 ACCTAGCACCTTAGGGCATGTCTTCTCAAATTTCCCAAACGCTAAATATTGCCT
1 ACCCAGCACCTTAGGGCATGTCTTCTCAAATTT-CCAAACGCAAAACATTGCCT
44119020 CAATTAGAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
108 18 0.13
109 33 0.24
110 72 0.51
111 17 0.12
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (110 bp):
ACCCAGCACCTTAGGGCATGTCTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
TTTTAAAAGGATATTAAGCCATTTGGTCGAACGAGAAAAATCGAC
Found at i:44119100 original size:21 final size:18
Alignment explanation
Indices: 44119068--44119107 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
44119058 ATTTATATGC
44119068 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
44119088 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
44119107 A
1 A
44119108 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:44119429 original size:3 final size:3
Alignment explanation
Indices: 44119421--44119466 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
44119411 ATATAAAAGC
*
44119421 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
44119467 TGAAATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44121571 original size:42 final size:42
Alignment explanation
Indices: 44121517--44121616 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
44121507 GCTCTCGGTA
*
44121517 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* *
44121559 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
44121601 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
44121617 ATTCATATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:44125639 original size:18 final size:18
Alignment explanation
Indices: 44125596--44125646 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
44125586 CCGTGTGATT
*
44125596 AAAATTAAA--AAAAAAG
1 AAAATTAAACTAAAAACG
* *
44125612 AAGATAAAACTAAAAACG
1 AAAATTAAACTAAAAACG
*
44125630 AAAATTAAACTCAAAAC
1 AAAATTAAACTAAAAAC
44125647 TTGTGACATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 7 0.26
18 20 0.74
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAATTAAACTAAAAACG
Found at i:44132883 original size:3 final size:3
Alignment explanation
Indices: 44132875--44132956 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
44132865 TATGCGTAGG
* *
44132875 ATA ATA ATA ATA TATC AT- ATA ATA ATA ATA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
44132919 CAGTA ATA GA-A ATA ATA TTA ACA ATA TTA ATA A-A ATA A
1 -A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44132957 ACTAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
2 6 0.10
3 49 0.79
4 5 0.08
5 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:44134385 original size:43 final size:43
Alignment explanation
Indices: 44134196--44134637 Score: 264
Period size: 43 Copynumber: 10.4 Consensus size: 43
44134186 GATCTGTTCT
* ** * * *
44134196 CTGCAACCTCAGAAAGATAAGATCTATGTTTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTG-ATTTAATCTACTCCA
* * * * * * * *
44134240 CTGCGACCTCAGGGAGATAGGATTTG-GGTCCTCAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGAT--TTAATCTACTCCA
* * * * *
44134284 CTGCAACTTCAAGGAGATAAGA-CT-TGATGTGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
* ** *
44134324 CTGCAACCTCAGAAAGATAAGATCTGTGATTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
* * * *
44134367 CTGCAACTTTAGGGAGATAGGAT-TG-GTTCTTCAGTCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGAT-TT-AATCTACTCCA
* * * * *
44134410 CTGCAACTTTAGGGAGATAAGA-CT-TGATATGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
* * * * *
44134450 CTACAACCTCAGAGAGATAAGATCTGTGACTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
* * * *
44134493 CTACAACTTCAGGGAGATAGGAT-TG-GTTCTTCAGTCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGAT-TT-AATCTACTCCA
* * * * * * *
44134536 CTACAACTTCAAGGAGATAAGA-CT-TGATGTGATTTTCT-CT
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
* * *
44134576 CTGCAACCTCAGAGAGATAAGATCTGTGATTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
44134619 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
44134638 GGATTGGTTC
Statistics
Matches: 294, Mismatches: 84, Indels: 41
0.70 0.20 0.10
Matches are distributed among these distances:
40 57 0.19
41 24 0.08
42 39 0.13
43 127 0.43
44 47 0.16
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTACTCCA
Found at i:44134443 original size:126 final size:126
Alignment explanation
Indices: 44134141--44134650 Score: 768
Period size: 126 Copynumber: 4.0 Consensus size: 126
44134131 GGAATTAATG
* * * * * * *
44134141 CTTCAATCCACTCCACTGTAACTTTAAGGAGATAGGACTTGATGGGATCTGTTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
* * * * *
44134206 AGAAAGATAAGATCTATGTTTTTAATCCACTCCACTGCGACCTCAGGGAGATAGGATTTGGGT
66 AGAAAGATAAGATCTGTG-ATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTT
* *
44134269 CCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
*
44134334 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
* * * *
44134395 CTTCAGTCTACTCCACTGCAACTTTAGGGAGATAAGACTTGATATGATCTGCTCTCTACAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
* * *
44134460 AGAGAGATAAGATCTGTGACTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
* * *
44134521 CTTCAGTCTACTCCACTACAACTTCAAGGAGATAAGACTTGATGTGATTTTCTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
*
44134586 AGAGAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
44134647 CTTC
1 CTTC
44134651 GGTTTGTTCT
Statistics
Matches: 348, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
126 242 0.70
127 33 0.09
128 73 0.21
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (126 bp):
CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
Found at i:44139347 original size:27 final size:27
Alignment explanation
Indices: 44139309--44139382 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
44139299 GAATGATGTA
*
44139309 GAAAAAAAAATAAAAGAATAATTACTC
1 GAAAAAAGAATAAAAGAATAATTACTC
44139336 GAAAAAAGAATAAAAGAATAATTACTC
1 GAAAAAAGAATAAAAGAATAATTACTC
44139363 GAAAAAAGAATAAAAGAATA
1 GAAAAAAGAATAAAAGAATA
44139383 CTGGCTCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (27 bp):
GAAAAAAGAATAAAAGAATAATTACTC
Found at i:44150770 original size:3 final size:3
Alignment explanation
Indices: 44150762--44150796 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44150752 TATCACATAA
44150762 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
44150797 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44151237 original size:15 final size:15
Alignment explanation
Indices: 44151217--44151251 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
44151207 TAGATTTAGG
44151217 ATCAAGTTC-AATCGA
1 ATCAAG-TCGAATCGA
44151232 ATCAAGTCGAATCGA
1 ATCAAGTCGAATCGA
44151247 ATCAA
1 ATCAA
44151252 TTGAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (15 bp):
ATCAAGTCGAATCGA
Found at i:44151602 original size:33 final size:32
Alignment explanation
Indices: 44151540--44151607 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
44151530 GAAATTTTTT
44151540 AAAATTTTAACTTTCTTTACATATCTTTTAGAA
1 AAAATTTTAACTTTCTTTACATATCTTTTA-AA
* * *
44151573 AAAATTTTAACATTTTTTTATA-ATTTTTTAAA
1 AAAATTTTAAC-TTTCTTTACATATCTTTTAAA
44151605 AAA
1 AAA
44151608 TAAAATTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 5 0.16
33 18 0.58
34 8 0.26
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.50
Consensus pattern (32 bp):
AAAATTTTAACTTTCTTTACATATCTTTTAAA
Found at i:44151655 original size:20 final size:20
Alignment explanation
Indices: 44151618--44151680 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 20
44151608 TAAAATTTGA
* *
44151618 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTT
*
44151637 AA-TTTTAAAATTTATTTTT
1 AATTTTTAAAAATTATTTTT
44151656 AATTTTTAAAAATTA-TTTT
1 AATTTTTAAAAATTATTTTT
44151675 AATTTT
1 AATTTT
44151681 CTTGTAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.18
19 20 0.53
20 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTT
Found at i:44152024 original size:26 final size:26
Alignment explanation
Indices: 44151969--44152035 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
44151959 GAATTATAAA
* * *
44151969 TTTTTACTTATTAATTTGGGGTTGGG
1 TTTTTATTTTTTAATTTGGGGATGGG
44151995 -TTTTATTTTTTATATTT-GGGATGGG
1 TTTTTATTTTTTA-ATTTGGGGATGGG
44152020 TTTTTAGTTTATTTAA
1 TTTTTA-TTT-TTTAA
44152036 AAAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 17 0.50
26 9 0.26
27 4 0.12
28 4 0.12
ACGTcount: A:0.18, C:0.01, G:0.21, T:0.60
Consensus pattern (26 bp):
TTTTTATTTTTTAATTTGGGGATGGG
Found at i:44152298 original size:16 final size:16
Alignment explanation
Indices: 44152277--44152325 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
44152267 CGTTTGGTTC
44152277 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
44152293 GCTGTAATGAAATAGAA
1 GCTGTAATGGAATAG-A
44152310 GC-GTAATGGAATAGA
1 GCTGTAATGGAATAGA
44152325 G
1 G
44152326 GCGTAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 2 0.07
16 25 0.83
17 3 0.10
ACGTcount: A:0.41, C:0.06, G:0.31, T:0.22
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:44152329 original size:16 final size:15
Alignment explanation
Indices: 44152280--44152332 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
44152270 TTGGTTCGCT
44152280 GTAATGGAATAGAGC
1 GTAATGGAATAGAGC
*
44152295 TGTAATGAAATAGAAGC
1 -GTAATGGAATAG-AGC
44152312 GTAATGGAATAGAGGC
1 GTAATGGAATAGA-GC
44152328 GTAAT
1 GTAAT
44152333 AGGTAATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.88
17 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.23
Consensus pattern (15 bp):
GTAATGGAATAGAGC
Found at i:44152367 original size:46 final size:44
Alignment explanation
Indices: 44152314--44152407 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
44152304 ATAGAAGCGT
* * *
44152314 AATGGAATAGAGGCGTAATAGGTAATCCTTTTGTTTGGTTGAATGA
1 AATGGAATAAAGACGTAATA-GT-ATCCTTGTGTTTGGTTGAATGA
* *
44152360 AATGGAATAAAGACGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAGACGTAATAGTATCCTTGTGTTTGGTTGAATGA
44152404 AATG
1 AATG
44152408 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAAAGACGTAATAGTATCCTTGTGTTTGGTTGAATGA
Found at i:44152533 original size:25 final size:24
Alignment explanation
Indices: 44152505--44152581 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 24
44152495 ATTAAATTTT
44152505 AATAAGATTATTAATATAAATAATA
1 AATAA-ATTATTAATATAAATAATA
*
44152530 AAT-AA-T-TTAATCATATATAATA
1 AATAAATTATTAAT-ATAAATAATA
*
44152552 AATAATTATTATTAAATATAATTTAATA
1 AATAA--ATTATT-AATATAA-ATAATA
44152580 AA
1 AA
44152582 ATATATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
21 5 0.12
22 13 0.32
23 2 0.05
24 1 0.02
25 4 0.10
26 1 0.02
27 5 0.12
28 10 0.24
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (24 bp):
AATAAATTATTAATATAAATAATA
Found at i:44152551 original size:22 final size:21
Alignment explanation
Indices: 44152515--44152558 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
44152505 AATAAGATTA
44152515 TTAATATAAATAATAAATAAT
1 TTAATATAAATAATAAATAAT
*
44152536 TTAATCATATATAATAAATAAT
1 TTAAT-ATAAATAATAAATAAT
44152558 T
1 T
44152559 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATATAAATAATAAATAAT
Found at i:44152589 original size:17 final size:17
Alignment explanation
Indices: 44152567--44152600 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44152557 TTATTATTAA
44152567 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44152584 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44152601 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44152659 original size:61 final size:61
Alignment explanation
Indices: 44152581--44152781 Score: 207
Period size: 61 Copynumber: 3.3 Consensus size: 61
44152571 AATTTAATAA
*
44152581 AATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * *
44152642 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-CTAATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
* *
44152701 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
44152762 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
44152782 ATAATTTAAA
Statistics
Matches: 108, Mismatches: 23, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.31
60 16 0.15
61 51 0.47
62 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATCTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:44152731 original size:120 final size:119
Alignment explanation
Indices: 44152551--44152815 Score: 503
Period size: 120 Copynumber: 2.2 Consensus size: 119
44152541 CATATATAAT
44152551 AAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAGTATTAAATA
1 AAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAGTATTAAATA
44152616 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
*
44152670 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAAT
1 AAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAGTATTAAAT
44152735 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
65 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
*
44152790 AAATAATAATTATTAAATATAATTTA
1 AAATAATTATTATTAAATATAATTTA
44152816 TAATCTACTT
Statistics
Matches: 143, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 28 0.20
120 115 0.80
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (119 bp):
AAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAGTATTAAATA
TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
Found at i:44152800 original size:13 final size:12
Alignment explanation
Indices: 44152776--44152815 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
44152766 TATAATACTA
44152776 TAAAATATAATT
1 TAAAATATAATT
44152788 TAAAATAATAATT
1 TAAAAT-ATAATT
*
44152801 ATTAAATATAATT
1 -TAAAATATAATT
44152814 TA
1 TA
44152816 TAATCTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.29
13 12 0.50
14 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:44155042 original size:51 final size:50
Alignment explanation
Indices: 44154965--44155069 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
44154955 ATGCTGGTTT
* *
44154965 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAACAAA
*
44155016 TGATACCCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
44155066 TGAT
1 TGAT
44155070 TTATAGCTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
Found at i:44155722 original size:227 final size:227
Alignment explanation
Indices: 44155327--44155778 Score: 823
Period size: 227 Copynumber: 2.0 Consensus size: 227
44155317 TAGCCGATTG
* *
44155327 GATCCTTTGCTGTCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCATAACTCAGTGTGAAGA
1 GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
* * *
44155392 TGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGGGCCAATCCCAAG
66 TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
*
44155457 GGGAAGAAGGGCTAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
131 GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
44155522 CCACCTTCGGCCCTATTTGTCAAGAATCGATA
196 CCACCTTCGGCCCTATTTGTCAAGAATCGATA
*
44155554 GATCCTTTGCTATCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
1 GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
*
44155619 TGATTGAGTAGCCGTTCACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
66 TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
*
44155684 GGGAAGAAGGGCCGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
131 GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
44155749 CCACCTTCGGCCCTATTTGTCAAGAATCGA
196 CCACCTTCGGCCCTATTTGTCAAGAATCGA
44155779 CAATGCTGGA
Statistics
Matches: 216, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
227 216 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (227 bp):
GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
CCACCTTCGGCCCTATTTGTCAAGAATCGATA
Found at i:44167441 original size:20 final size:21
Alignment explanation
Indices: 44167404--44167442 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44167394 GGAACTAAAA
*
44167404 TAAAAAAATATAATATTAGAT
1 TAAAAAAATATAAAATTAGAT
*
44167425 TAAAATAATA-AAAATTAG
1 TAAAAAAATATAAAATTAG
44167443 GCATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAAAAATATAAAATTAGAT
Found at i:44168020 original size:25 final size:26
Alignment explanation
Indices: 44167979--44168037 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
44167969 TACATTAATT
* *
44167979 AGAGTTTAAGTGTGAAATTAAAAA-A
1 AGAGTTTAAGAGTGAAACTAAAAACA
44168004 AGAGTTTAAGAAG-GAAACTAAAAACA
1 AGAGTTTAAG-AGTGAAACTAAAAACA
44168030 A-AGTTTAA
1 AGAGTTTAA
44168038 CTGGGAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (26 bp):
AGAGTTTAAGAGTGAAACTAAAAACA
Found at i:44169966 original size:25 final size:25
Alignment explanation
Indices: 44169938--44169994 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
44169928 CATTGATCAG
*
44169938 AGTTTAAGTGTGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACTAAAAACAA
*
44169963 AGTTTGAGTGAGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACTAAAAACAA
44169988 AGTTTAA
1 AGTTTAA
44169995 TTGGGAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.25
Consensus pattern (25 bp):
AGTTTAAGTGAGAAACTAAAAACAA
Found at i:44170162 original size:13 final size:13
Alignment explanation
Indices: 44170141--44170171 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44170131 GATAATTAAC
*
44170141 AGAACTATAAAAA
1 AGAATTATAAAAA
44170154 AGAATTATAAAAA
1 AGAATTATAAAAA
44170167 AGAAT
1 AGAAT
44170172 AAGACGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (13 bp):
AGAATTATAAAAA
Found at i:44172764 original size:25 final size:25
Alignment explanation
Indices: 44172713--44172784 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
44172703 ACAGCTTGGG
* * *
44172713 AGAGAATACTGATTTATAGCTCATA
1 AGAGCATACCGATTTAAAGCTCATA
* *
44172738 AGAGCATACCGATTTAAATCTCGTA
1 AGAGCATACCGATTTAAAGCTCATA
* * *
44172763 AGAGCATATCGATCTACAGCTC
1 AGAGCATACCGATTTAAAGCTC
44172785 GAATAAGTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (25 bp):
AGAGCATACCGATTTAAAGCTCATA
Done.