Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 197 of 279
Found at i:64605537 original size:37 final size:37
Alignment explanation
Indices: 64605496--64605602 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
64605486 TATCAGAACT
*
64605496 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
64605533 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
64605570 AGAATCAAAACCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAG
64605603 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:64605545 original size:31 final size:31
Alignment explanation
Indices: 64605508--64605611 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
64605498 AATCAAAATG
*
64605508 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
64605539 AGAATCAGAATTAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* * *
64605570 AGAATCAAAACCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
64605601 AGAATCAGAAT
1 AGAATCAGAAT
64605612 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
29 2 0.04
30 3 0.05
31 44 0.80
32 3 0.05
33 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:64605572 original size:25 final size:25
Alignment explanation
Indices: 64605544--64605611 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
64605534 GAATCAGAAT
* * *
64605544 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
64605569 CAGAATCAAAACCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
64605594 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
64605612 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:64605901 original size:22 final size:22
Alignment explanation
Indices: 64605873--64605928 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
64605863 AACAGCACAC
64605873 AGCCATAATCAGGTTGGCATAA
1 AGCCATAATCAGGTTGGCATAA
* **
64605895 AGCCAT-ATGTAGGTTGGTGTAA
1 AGCCATAAT-CAGGTTGGCATAA
64605917 AGCCATAATCAG
1 AGCCATAATCAG
64605929 AATAATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (22 bp):
AGCCATAATCAGGTTGGCATAA
Found at i:64606465 original size:27 final size:27
Alignment explanation
Indices: 64606435--64606549 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
64606425 GGCAAAATAA
* *
64606435 TAATTTTACCCCACAAGGGTATCTCAG
1 TAATTTTACCCTACAAGGGTATTTCAG
* *
64606462 TAATTCTACCCTACAGGGGTATTTC-G
1 TAATTTTACCCTACAAGGGTATTTCAG
*
64606488 -ATATTTCTACCCTACAAGGGTATTTTAG
1 TA-ATTT-TACCCTACAAGGGTATTTCAG
* * *
64606516 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTCAG
64606543 TAATTTT
1 TAATTTT
64606550 GTAAATCGAG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 4 0.06
27 62 0.86
28 4 0.06
29 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCAG
Found at i:64606499 original size:54 final size:53
Alignment explanation
Indices: 64606437--64606549 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 53
64606427 CAAAATAATA
64606437 ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
1 ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
* * * *
64606490 ATTTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAAT
1 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
64606544 AATTTT
1 -ATTTT
64606550 GTAAATCGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
53 4 0.07
54 46 0.85
55 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
Found at i:64608638 original size:6 final size:6
Alignment explanation
Indices: 64608608--64608720 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
64608598 AAGAAACATT
* * *
64608608 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
64608657 ATCAAA ATCAGA ATTAGGCG A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
64608707 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
64608721 ATGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 63 0.79
7 9 0.11
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:64608665 original size:25 final size:25
Alignment explanation
Indices: 64608629--64608720 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
64608619 AATCAAAATG
*
64608629 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* *
64608654 AGAATCAAAATCAGAATTAGGCGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* * *
64608679 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTGAC
64608704 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
64608721 ATGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTGAC
Found at i:64609010 original size:22 final size:22
Alignment explanation
Indices: 64608982--64609037 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
64608972 AACGGCACAC
64608982 AGCCATAATCAGGTTAGCAG-AA
1 AGCCATAATCAGGTTAGC-GCAA
* *
64609004 AGCCAT-ATGTAGGTTGGCGCAA
1 AGCCATAAT-CAGGTTAGCGCAA
64609026 AGCCATAATCAG
1 AGCCATAATCAG
64609038 AATAATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.11
22 23 0.82
23 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
AGCCATAATCAGGTTAGCGCAA
Found at i:64609581 original size:27 final size:27
Alignment explanation
Indices: 64609551--64609657 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
64609541 GGGGCAAAAT
* * *
64609551 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
64609578 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
64609605 GGTATTTATACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
64609632 AATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
64609658 TAATAATTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:64609653 original size:54 final size:53
Alignment explanation
Indices: 64609555--64609657 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
64609545 CAAAATGGTA
** *
64609555 ATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGT
* *
64609608 ATTTATACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTT
64609658 TAATAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:64614308 original size:16 final size:16
Alignment explanation
Indices: 64614287--64614318 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64614277 AAGGTACATC
64614287 TGAGATTACTTTGTTA
1 TGAGATTACTTTGTTA
*
64614303 TGAGATTATTTTGTTA
1 TGAGATTACTTTGTTA
64614319 CCTGAGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (16 bp):
TGAGATTACTTTGTTA
Found at i:64617439 original size:3 final size:3
Alignment explanation
Indices: 64617431--64617459 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64617421 ATCACATGTT
64617431 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
64617460 TATCAGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:64621085 original size:3 final size:3
Alignment explanation
Indices: 64621077--64621114 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64621067 TAGCATGTAG
64621077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
64621115 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64624369 original size:19 final size:21
Alignment explanation
Indices: 64624345--64624383 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64624335 TTTTAAAAAA
64624345 TATAAA-A-TTTGATTTTTTT
1 TATAAATATTTTGATTTTTTT
64624364 TATAAATATTTTGATTTTTT
1 TATAAATATTTTGATTTTTT
64624384 GAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TATAAATATTTTGATTTTTTT
Found at i:64624381 original size:20 final size:20
Alignment explanation
Indices: 64624352--64624415 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
64624342 AAATATAAAA
*
64624352 TTTGATTTTTTTTATAAATAT
1 TTTGA-TTTTTTTAAAAATAT
*
64624373 TTTGATTTTTTGAAAAATAT
1 TTTGATTTTTTTAAAAATAT
* *
64624393 TTTTAATTTTTTAAAAAT-T
1 TTTGATTTTTTTAAAAATAT
64624412 TTTG
1 TTTG
64624416 TTGAGAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 4 0.11
20 28 0.76
21 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTGATTTTTTTAAAAATAT
Found at i:64624408 original size:19 final size:19
Alignment explanation
Indices: 64624359--64624414 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
64624349 AAATTTGATT
*
64624359 TTTTTTATAAATA-TTTTGA
1 TTTTTTA-AAATATTTTTAA
64624378 TTTTTTGAAAAATATTTTTAA
1 TTTTTT--AAAATATTTTTAA
64624399 TTTTTTAAAA-ATTTTT
1 TTTTTTAAAATATTTTT
64624415 GTTGAGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 6 0.18
19 10 0.30
20 5 0.15
21 12 0.36
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTTAAAATATTTTTAA
Found at i:64639287 original size:24 final size:24
Alignment explanation
Indices: 64639240--64639286 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
64639230 TTTAAAATAG
64639240 AAAAAATTAAAAAATATATATTTT
1 AAAAAATTAAAAAATATATATTTT
**
64639264 AAAAAATTTTAAAATATA-ATTTT
1 AAAAAATTAAAAAATATATATTTT
64639287 TTAAGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAAATTAAAAAATATATATTTT
Found at i:64667403 original size:16 final size:17
Alignment explanation
Indices: 64667382--64667423 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
64667372 GGTTCATTGG
64667382 AATGGAATAAGAT-TAT
1 AATGGAATAAGATCTAT
*
64667398 AATGGAAT-AGATCTGT
1 AATGGAATAAGATCTAT
64667414 AATGGAATAA
1 AATGGAATAA
64667424 AGCTGTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (17 bp):
AATGGAATAAGATCTAT
Found at i:64667429 original size:16 final size:16
Alignment explanation
Indices: 64667397--64667432 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64667387 AATAAGATTA
* *
64667397 TAATGGAATAGATCTG
1 TAATGGAATAAAGCTG
64667413 TAATGGAATAAAGCTG
1 TAATGGAATAAAGCTG
64667429 TAAT
1 TAAT
64667433 CAATCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGGAATAAAGCTG
Found at i:64676211 original size:27 final size:26
Alignment explanation
Indices: 64676166--64676225 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
64676156 CCAATTTATC
64676166 TAAAAATAAATTTTATTAT-TGAAAAA
1 TAAAAATAAATTTTATTATAT-AAAAA
*
64676192 TTAAAAATAACGTTTT-TTATATAAAAA
1 -TAAAAATAA-ATTTTATTATATAAAAA
64676219 TAAAAAT
1 TAAAAAT
64676226 TTATTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 18 0.60
28 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
TAAAAATAAATTTTATTATATAAAAA
Found at i:64676696 original size:28 final size:28
Alignment explanation
Indices: 64676647--64676713 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
64676637 AATAAAAGTC
* *
64676647 AATAAAAGTTATAAAAATTATTAA-ATTTT
1 AATAAAA-ATATAAAAAGTATTAATA-TTT
*
64676676 AATAAAAATATAAAAAGTATTTATATTT
1 AATAAAAATATAAAAAGTATTAATATTT
*
64676704 ATTAAAAATA
1 AATAAAAATA
64676714 AATAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAAAGTATTAATATTT
Found at i:64676929 original size:9 final size:9
Alignment explanation
Indices: 64676915--64677147 Score: 56
Period size: 9 Copynumber: 25.0 Consensus size: 9
64676905 TTTTAGTATG
64676915 ATAATTTTT
1 ATAATTTTT
64676924 ATAATTTTT
1 ATAATTTTT
*
64676933 -TACGAATTTT
1 ATA--ATTTTT
*
64676943 ATATTTCTTT
1 ATAATT-TTT
*
64676953 ATATTTTTT
1 ATAATTTTT
64676962 ATAATTTGTT
1 ATAATTT-TT
** *
64676972 ACGA-CTTT
1 ATAATTTTT
*
64676980 ATAAAATTTT
1 AT-AATTTTT
64676990 ATAATTTTTTT
1 ATAA--TTTTT
* *
64677001 CTATATTTCT
1 ATA-ATTTTT
*
64677011 AT-ATATTCT
1 ATAAT-TTTT
64677020 ATAATTTTT
1 ATAATTTTT
64677029 -TACGA-TTTT
1 ATA--ATTTTT
*
64677038 ATAAAATTTT
1 AT-AATTTTT
64677048 ATAATTTTTT
1 ATAA-TTTTT
*
64677058 TTCAATTTTTT
1 AT-AA-TTTTT
64677069 ATAATTTTT
1 ATAATTTTT
64677078 AATAAAATTTTT
1 -AT--AATTTTT
64677090 A-ATATTTTT
1 ATA-ATTTTT
64677099 -T-ATTTTT
1 ATAATTTTT
***
64677106 AT-ATAAAT
1 ATAATTTTT
*
64677114 ATATTTTTT
1 ATAATTTTT
*
64677123 ATAAATTTT
1 ATAATTTTT
64677132 AT--TTTTT
1 ATAATTTTT
*
64677139 ATCATTTTT
1 ATAATTTTT
64677148 GTCACATGTC
Statistics
Matches: 168, Mismatches: 28, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
7 12 0.07
8 16 0.10
9 66 0.39
10 47 0.28
11 19 0.11
12 8 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:64676934 original size:10 final size:10
Alignment explanation
Indices: 64676915--64677101 Score: 65
Period size: 10 Copynumber: 19.2 Consensus size: 10
64676905 TTTTAGTATG
64676915 ATAA-TTTTT
1 ATAATTTTTT
64676924 ATAATTTTTT
1 ATAATTTTTT
*
64676934 ACGAA--TTTT
1 A-TAATTTTTT
64676943 AT-ATTTCTTT
1 ATAATTT-TTT
64676953 AT-ATTTTTT
1 ATAATTTTTT
*
64676962 ATAATTTGTT
1 ATAATTTTTT
** *
64676972 ACGA--CTTT
1 ATAATTTTTT
**
64676980 ATAAAATTTT
1 ATAATTTTTT
64676990 ATAATTTTTT
1 ATAATTTTTT
* *
64677000 -TCTATATTTCT
1 AT-AAT-TTTTT
* *
64677011 AT-ATATTCT
1 ATAATTTTTT
64677020 ATAATTTTTT
1 ATAATTTTTT
**
64677030 ACGA--TTTT
1 ATAATTTTTT
**
64677038 ATAAAATTTT
1 ATAATTTTTT
64677048 ATAATTTTTT
1 ATAATTTTTT
*
64677058 TTCAATTTTTT
1 AT-AATTTTTT
*
64677069 ATAATTTTTA
1 ATAATTTTTT
*
64677079 ATAAAATTTTT
1 AT-AATTTTTT
64677090 A-ATATTTTTT
1 ATA-ATTTTTT
64677100 AT
1 AT
64677102 TTTTATATAA
Statistics
Matches: 131, Mismatches: 29, Indels: 34
0.68 0.15 0.18
Matches are distributed among these distances:
7 1 0.01
8 10 0.08
9 23 0.18
10 74 0.56
11 22 0.17
12 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:64676944 original size:19 final size:19
Alignment explanation
Indices: 64676920--64676989 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
64676910 GTATGATAAT
64676920 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTACGAA
* *
64676939 TTTTAT-ATTTCTTTA-TATT
1 TTTTATAATTT-TTTACGA-A
* *
64676958 TTTTATAATTTGTTACGAC
1 TTTTATAATTTTTTACGAA
*
64676977 TTTATAAAATTTT
1 TTT-TATAATTTT
64676990 ATAATTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.13
19 22 0.56
20 12 0.31
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:64676989 original size:28 final size:28
Alignment explanation
Indices: 64676958--64677057 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
64676948 TCTTTATATT
* *
64676958 TTTTATAATTTGTTACGACTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
* * * *
64676986 TTTTATAATTTTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTACGA-ATTTATA-AAA
* *
64677016 TTCTATAATTTTTTACGATTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
64677044 TTTTATAATTTTTT
1 TTTTATAATTTTTT
64677058 TTCAATTTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 30 0.53
29 10 0.18
30 17 0.30
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTATAATTTTTTACGAATTTATAAAA
Found at i:64676997 original size:38 final size:37
Alignment explanation
Indices: 64676915--64676999 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 37
64676905 TTTTAGTATG
* *
64676915 ATAA-TTTTTATAATTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
* *
64676951 TTATATTTTTTATAATTTGTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTTATAATTTGTTACGAATTT-T-AAATTTCT
64676990 ATAATTTTTT
1 ATAATTTTTT
64677000 TCTATATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 28 0.70
39 4 0.10
40 5 0.12
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (37 bp):
ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
Found at i:64677023 original size:58 final size:59
Alignment explanation
Indices: 64676942--64677058 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
64676932 TTACGAATTT
* *
64676942 TATATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
1 TATATTTC-TTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
* *
64677002 TATATTTC-TATATATTCTATAATTTTTTACGATTTTATAAAATTTTATAATTTTTTT
1 TATATTTCTTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTT
64677059 TCAATTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 45 0.85
60 8 0.15
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (59 bp):
TATATTTCTTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
Found at i:64677088 original size:21 final size:21
Alignment explanation
Indices: 64677034--64677100 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
64677024 TTTTTTACGA
64677034 TTTT-ATAAAA-TTTTATAAT
1 TTTTAATAAAATTTTTATAAT
** * *
64677053 TTTTTTTCAATTTTTTATAAT
1 TTTTAATAAAATTTTTATAAT
*
64677074 TTTTAATAAAATTTTTAATATT
1 TTTTAATAAAATTTTT-ATAAT
64677096 TTTTA
1 TTTTA
64677101 TTTTTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 21 0.57
22 9 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATAAAATTTTTATAAT
Found at i:64677088 original size:29 final size:29
Alignment explanation
Indices: 64677056--64677112 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
64677046 TTATAATTTT
64677056 TTTTCAAT-TTTTTATAATTTTTA-ATAAAA
1 TTTTCAATATTTTT-T-ATTTTTATATAAAA
*
64677085 TTTTTAATATTTTTTATTTTTATATAAA
1 TTTTCAATATTTTTTATTTTTATATAAA
64677113 TATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 13 0.52
30 5 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTCAATATTTTTTATTTTTATATAAAA
Found at i:64677136 original size:15 final size:16
Alignment explanation
Indices: 64677096--64677146 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
64677086 TTTTAATATT
64677096 TTTTATTTTTATATAA
1 TTTTATTTTTATATAA
* *
64677112 ATATATTTTT-TATAAA
1 TTTTATTTTTATAT-AA
*
64677128 TTTTATTTTT-TATCA
1 TTTTATTTTTATATAA
64677143 TTTT
1 TTTT
64677147 TGTCACATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTATATAA
Found at i:64677147 original size:16 final size:16
Alignment explanation
Indices: 64677096--64677140 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
64677086 TTTTAATATT
64677096 TTTTATTTTTATATAAA
1 TTTTATTTTT-TATAAA
*
64677113 -TATATTTTTTATAAA
1 TTTTATTTTTTATAAA
64677128 TTTTATTTTTTAT
1 TTTTATTTTTTAT
64677141 CATTTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTTATAAA
Found at i:64684532 original size:18 final size:20
Alignment explanation
Indices: 64684496--64684533 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
64684486 TCAAGTCCGT
*
64684496 CTAACATAGAGGAGTCCTTG
1 CTAACATAGAGGAGACCTTG
64684516 CTAACA-AG-GGAGACCTTG
1 CTAACATAGAGGAGACCTTG
64684534 ATAAGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAACATAGAGGAGACCTTG
Found at i:64693813 original size:100 final size:100
Alignment explanation
Indices: 64693640--64693840 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
64693630 AGAATAACCC
*
64693640 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAATGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
64693705 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
*
64693740 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTTCAAAGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
64693805 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
64693840 T
1 T
64693841 GCGTCCAGCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.18
Consensus pattern (100 bp):
TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
Found at i:64695846 original size:6 final size:6
Alignment explanation
Indices: 64695835--64695861 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64695825 ATTGTTGTCC
64695835 ACCTCG ACCTCG ACCTCG ACCTCG ACC
1 ACCTCG ACCTCG ACCTCG ACCTCG ACC
64695862 CTAAGTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
ACCTCG
Found at i:64696725 original size:28 final size:28
Alignment explanation
Indices: 64696692--64696771 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
64696682 GTACTTTTAT
64696692 AAAATGTTTAATGTGGTACCCTACTTTG
1 AAAATGTTTAATGTGGTACCCTACTTTG
** ** *
64696720 AAAATGTCCAATGTGGTACTTATATTTTG
1 AAAATGTTTAATGTGGTAC-CCTACTTTG
64696749 AAAATGTTTAATGTGGTACCCTA
1 AAAATGTTTAATGTGGTACCCTA
64696772 ACTATCAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAATGTTTAATGTGGTACCCTACTTTG
Found at i:64697427 original size:62 final size:62
Alignment explanation
Indices: 64697325--64697479 Score: 181
Period size: 62 Copynumber: 2.5 Consensus size: 62
64697315 CAAAGTATAA
* * * *
64697325 GTACCACATTAGACAATTTATGAAAGTACAAGGACTAAATAATACACAAATTGA-TAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATT-ACTAGTTCAG
* *
64697387 GTACCACATTGGACATTTTATGAAAATACAAATAGC-AAATAATATACAAATTACTAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGA-CTAAATAATACACAAATTACTAGTTCAG
* * *
64697449 GTATCAAATTGAACATTTTAT-AAAAGTACAA
1 GTACCACATTGGACATTTTATGAAAA-TACAA
64697480 GTAACAAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
61 5 0.06
62 75 0.93
63 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATTACTAGTTCAG
Found at i:64697548 original size:26 final size:27
Alignment explanation
Indices: 64697496--64697553 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
64697486 AAAGTGACAT
* *
64697496 TACCCCTTTTAAAAACAAAAACCATCC
1 TACCCATTTTAAAAACAAAAACAATCC
64697523 TACCCATTTTCAAAAA-AAAAA-AATCC
1 TACCCATTTT-AAAAACAAAAACAATCC
*
64697549 AACCC
1 TACCC
64697554 TATAAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.30
27 14 0.52
28 5 0.19
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (27 bp):
TACCCATTTTAAAAACAAAAACAATCC
Found at i:64697574 original size:13 final size:13
Alignment explanation
Indices: 64697556--64697584 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64697546 TCCAACCCTA
64697556 TAAATATGAACTT
1 TAAATATGAACTT
64697569 TAAATATGAACTT
1 TAAATATGAACTT
64697582 TAA
1 TAA
64697585 TTTTATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
TAAATATGAACTT
Found at i:64703069 original size:20 final size:17
Alignment explanation
Indices: 64703014--64703073 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
64703004 ATCCAAGTCA
* *
64703014 AATAAAAAAATTAAAAT
1 AATAAATAAATAAAAAT
64703031 AAATAAATAAATAAAAAT
1 -AATAAATAAATAAAAAT
64703049 AATAAATCAAATATAAGAAT
1 AATAAAT-AAATA-AA-AAT
64703069 AATAA
1 AATAA
64703074 GGAAGCGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.19
18 20 0.54
19 2 0.05
20 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAAATAAATAAAAAT
Found at i:64706080 original size:81 final size:81
Alignment explanation
Indices: 64705945--64706106 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
64705935 TGAAAAAGTT
*
64705945 TAAAACTTTAAACTGGGAGTAATGAAATGTGCATGGATATTAGACATGGGACTTGATTTATATCT
1 TAAAACTTTAAACTGGGAGTAATGAAATGTGCATGGATATTAGACACGGGACTTGATTTATATCT
64706010 GTATATTAATAGATAA
66 GTATATTAATAGATAA
*
64706026 TAAAACTTTAAACTGGGAGTAATGAAATGTGCATGGATATTAGACACGGGACTTGATTTATATTT
1 TAAAACTTTAAACTGGGAGTAATGAAATGTGCATGGATATTAGACACGGGACTTGATTTATATCT
64706091 GTATATTAATAGATAA
66 GTATATTAATAGATAA
64706107 ATGCTCGGGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (81 bp):
TAAAACTTTAAACTGGGAGTAATGAAATGTGCATGGATATTAGACACGGGACTTGATTTATATCT
GTATATTAATAGATAA
Found at i:64712534 original size:51 final size:51
Alignment explanation
Indices: 64712471--64712590 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
64712461 AACTAAGTTA
* *
64712471 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
* * * * *
64712522 TCCGGATGAAATATGATGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
*
64712573 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
64712591 TAAGTTTGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
Found at i:64718541 original size:45 final size:45
Alignment explanation
Indices: 64718492--64718580 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
64718482 AGATGAAACT
*
64718492 TGCCACT-GAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATC
1 TGCCACTAG-GCTATGGGTGCACA-GCAAAATATCACAAATAAAATC
* *
64718537 TGCCACTAGGCTATGGGTGCACAGCAAAATATCATAGATAAAAT
1 TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAAT
64718581 ATATCACTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAATC
Found at i:64718595 original size:45 final size:45
Alignment explanation
Indices: 64718494--64718604 Score: 109
Period size: 45 Copynumber: 2.4 Consensus size: 45
64718484 ATGAAACTTG
* * *
64718494 CCACTGAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATCTG
1 CCACTG-GCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* *
64718539 CCACTAGGCTATGGGTGCACA-GCAAAATATCATAGATAAAATATA
1 CCACT-GGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* * *
64718584 TCACTGTGCTATAGATGCACA
1 CCACTG-GCTATGGGTGCACA
64718605 ATATATTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (45 bp):
CCACTGGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
Found at i:64718840 original size:34 final size:34
Alignment explanation
Indices: 64718791--64718876 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
64718781 TTAATATGAT
* * *
64718791 ACAATTTAATTATGCTTTTAACAGGACAATACGGTA
1 ACAA-TTAA-TATGCTTATAACAAGACAATACAGTA
**
64718827 ACAATTAATATGCTTATAACAATTCAATACAGTA
1 ACAATTAATATGCTTATAACAAGACAATACAGTA
* *
64718861 GCAAATAATATGCTTA
1 ACAATTAATATGCTTA
64718877 AAATAGATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 35 0.81
35 4 0.09
36 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (34 bp):
ACAATTAATATGCTTATAACAAGACAATACAGTA
Found at i:64719869 original size:15 final size:16
Alignment explanation
Indices: 64719837--64719871 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
64719827 TGGTGTAAAG
64719837 AAAAGAGAATGAAAATA
1 AAAAGAGAAT-AAAATA
64719854 AAAAGAGAAT-AAATA
1 AAAAGAGAATAAAATA
64719869 AAA
1 AAA
64719872 GGATGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAGAGAATAAAATA
Found at i:64722214 original size:27 final size:27
Alignment explanation
Indices: 64722175--64722227 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
64722165 GATGAGGTTT
*
64722175 TGATCCAGTAAGAACCATAATTTCTTA
1 TGATCCAGCAAGAACCATAATTTCTTA
64722202 TGATCCAGCAAGAACCATAATTTCTT
1 TGATCCAGCAAGAACCATAATTTCTT
64722228 TGTGAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (27 bp):
TGATCCAGCAAGAACCATAATTTCTTA
Found at i:64723722 original size:66 final size:64
Alignment explanation
Indices: 64723652--64723855 Score: 153
Period size: 66 Copynumber: 3.0 Consensus size: 64
64723642 TTTAATAATA
*
64723652 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATT
1 ATTAT-TTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTTATATAAGAATATT
* * * * *
64723717 GATTATTAAGAATTTTATTAAATTATA-TATTTTAATNTAAATTATATATTTTTATTAAATTATA
1 -ATTATTTA-AATTATATT---TTATAGTA---TAA--TATATTAT-GA-TTTTAGTAAATT-TA
* *
64723781 TTTAATAATA--
53 TATAAGAATATT
* * *
64723791 ATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTA-TTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTTATATAAGAATATT
64723856 TTAATATTAA
Statistics
Matches: 104, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
63 9 0.09
64 11 0.11
65 3 0.03
66 20 0.19
68 4 0.04
69 5 0.05
70 5 0.05
71 4 0.04
73 18 0.17
74 4 0.04
75 11 0.11
76 10 0.10
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (64 bp):
ATTATTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTTATATAAGAATATT
Found at i:64723741 original size:17 final size:17
Alignment explanation
Indices: 64723727--64723780 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
64723717 GATTATTAAG
64723727 AATTTTATTAAATTATA
1 AATTTTATTAAATTATA
*
64723744 TATTTTAATNTAAATTATA
1 AATTTT-AT-TAAATTATA
*
64723763 TATTTTTATTAAATTATA
1 -AATTTTATTAAATTATA
64723781 TTTAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.16
18 11 0.35
19 11 0.35
20 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTATTAAATTATA
Found at i:64723777 original size:18 final size:18
Alignment explanation
Indices: 64723729--64723781 Score: 88
Period size: 19 Copynumber: 2.9 Consensus size: 18
64723719 TTATTAAGAA
64723729 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
*
64723747 TTTAATNTAAATTATATAT
1 TTTTAT-TAAATTATATAT
64723766 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
64723782 TTAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:64723805 original size:139 final size:140
Alignment explanation
Indices: 64723608--64723903 Score: 463
Period size: 139 Copynumber: 2.1 Consensus size: 140
64723598 ATTATTAAGA
*
64723608 ATTTT-ATTAAATTATATATTTTAATTAAAATATTTTTAATAATAATTATGTTAAATTATATTTT
1 ATTTTAATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
64723672 ATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATA-TTGATTATTAAGAATTTTATT
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTGAATATTAAGAATTTTATT
64723736 AAATTAT-AT
131 AAATTATAAT
* * * *
64723745 ATTTTAATNTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAGATTATATTT
1 ATTTTAAT-TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
* *
64723810 TATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAAGAATTTTAT
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTGAATATTAAGAATTTTAT
64723875 TAAATTATAAT
130 TAAATTATAAT
64723886 ATATTTAATTATAATTAT
1 AT-TTTAATTA-AATTAT
64723904 GTTTAAATAT
Statistics
Matches: 144, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
137 5 0.03
138 2 0.01
139 93 0.65
140 26 0.18
141 6 0.04
142 12 0.08
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (140 bp):
ATTTTAATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTGAATATTAAGAATTTTATT
AAATTATAAT
Found at i:64724146 original size:16 final size:16
Alignment explanation
Indices: 64724125--64724192 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
64724115 GATTTGCTAT
64724125 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
64724141 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
64724157 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
64724173 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
64724189 TACA
1 TACA
64724193 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:64729420 original size:14 final size:14
Alignment explanation
Indices: 64729401--64729427 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64729391 AATCACCCCA
64729401 ATTTTATTTTACTT
1 ATTTTATTTTACTT
64729415 ATTTTATTTTACT
1 ATTTTATTTTACT
64729428 AATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTTTACTT
Found at i:64729482 original size:8 final size:8
Alignment explanation
Indices: 64729457--64729522 Score: 57
Period size: 7 Copynumber: 8.1 Consensus size: 8
64729447 TATCTAATAC
64729457 TTATACTTT
1 TTATA-TTT
* *
64729466 TAATTTTT
1 TTATATTT
64729474 TTATATTT
1 TTATATTT
64729482 TTATA-TT
1 TTATATTT
64729489 TTAT-TTT
1 TTATATTT
64729496 TTATATACTT
1 TTATAT--TT
64729506 TTATTATTT
1 TTA-TATTT
64729515 TTAT-TTT
1 TTATATTT
64729522 T
1 T
64729523 ATTTAGCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 16 0.33
8 16 0.33
9 8 0.17
10 5 0.10
11 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:64729483 original size:17 final size:18
Alignment explanation
Indices: 64729457--64729490 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
64729447 TATCTAATAC
64729457 TTATACTTTTA-ATTTTT
1 TTATACTTTTATATTTTT
*
64729474 TTATATTTTTATATTTT
1 TTATACTTTTATATTTT
64729491 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATACTTTTATATTTTT
Found at i:64729550 original size:8 final size:8
Alignment explanation
Indices: 64729463--64729522 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
64729453 ATACTTATAC
*
64729463 TTTTAATT
1 TTTTTATT
*
64729471 TTTTTATA
1 TTTTTATT
64729479 TTTTTA-T
1 TTTTTATT
*
64729486 ATTTTATT
1 TTTTTATT
*
64729494 TTTTATATA
1 TTTT-TATT
*
64729503 CTTTTATT
1 TTTTTATT
64729511 ATTTTTATT
1 -TTTTTATT
64729520 TTT
1 TTT
64729523 ATTTAGCTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 5 0.12
8 22 0.55
9 13 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:64730544 original size:22 final size:22
Alignment explanation
Indices: 64730498--64730544 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
64730488 TATTAGATAT
**
64730498 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
64730520 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
64730542 TAA
1 TAA
64730545 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:64730818 original size:21 final size:21
Alignment explanation
Indices: 64730772--64730811 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
64730762 GCAGGGGAAG
64730772 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
64730793 GAAAG-AAGAAAAAG-GAAAA
1 GAAAGAAAGAAAAAGAGAAAA
64730812 ATTAAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:64732562 original size:23 final size:23
Alignment explanation
Indices: 64732530--64732574 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
64732520 CGAAATACAG
*
64732530 CTCTTCGTGAGCTTCCCGATAGA
1 CTCTTCGTGAGCCTCCCGATAGA
* *
64732553 CTCTTTGTGAGCCTGCCGATAG
1 CTCTTCGTGAGCCTCCCGATAG
64732575 TGCTCGCTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (23 bp):
CTCTTCGTGAGCCTCCCGATAGA
Found at i:64733966 original size:138 final size:138
Alignment explanation
Indices: 64733731--64733990 Score: 457
Period size: 138 Copynumber: 1.9 Consensus size: 138
64733721 TTTTATTTCG
*
64733731 GTTGATTTCTAATGTATGTTTTGGGCTTCGAGGGCCCAGTAGAGAGACGTTATGATTATTTTCAA
1 GTTGATTTCTAATGTATGTTTTGGGCTTCAAGGGCCCAGTAGAGAGACGTTATGATTATTTTCAA
*
64733796 AATATGAATAATAAATAACTCATAATTATCTGAAAATATTCAGTAAACTCCGGTAATACTTGATT
66 AATATGAATAATAAATAACTCAGAATTATCTGAAAATATTCAGTAAACTCCGGTAATACTTGATT
64733861 TCATTCCA
131 TCATTCCA
*
64733869 GTTGATTTCTAATGTATGTTTTGGGCTTCAATGGCCCAGTAGAGAGACGTTATGATTATTTTCAA
1 GTTGATTTCTAATGTATGTTTTGGGCTTCAAGGGCCCAGTAGAGAGACGTTATGATTATTTTCAA
* * * *
64733934 AATATGAATAATAAATGACTTAGAATTATCTGAAAATGTTTAGTAAACTCCGGTAAT
66 AATATGAATAATAAATAACTCAGAATTATCTGAAAATATTCAGTAAACTCCGGTAAT
64733991 GCCTCGTACC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (138 bp):
GTTGATTTCTAATGTATGTTTTGGGCTTCAAGGGCCCAGTAGAGAGACGTTATGATTATTTTCAA
AATATGAATAATAAATAACTCAGAATTATCTGAAAATATTCAGTAAACTCCGGTAATACTTGATT
TCATTCCA
Found at i:64735558 original size:30 final size:30
Alignment explanation
Indices: 64735522--64735579 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
64735512 CCTGAGCATT
*
64735522 TCCACACGGGCTGGCCACACGCCCATGTGA
1 TCCACACGGGCTAGCCACACGCCCATGTGA
*
64735552 TCCACACGGGCTAGCCACACGCCTATGT
1 TCCACACGGGCTAGCCACACGCCCATGT
64735580 ACCCGTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.16
Consensus pattern (30 bp):
TCCACACGGGCTAGCCACACGCCCATGTGA
Found at i:64738199 original size:20 final size:21
Alignment explanation
Indices: 64738164--64738202 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
64738154 ATGGTATATA
64738164 TAATTAACTAGTTAATCAACT
1 TAATTAACTAGTTAATCAACT
*
64738185 TAATTAA-TTGTTAATCAA
1 TAATTAACTAGTTAATCAA
64738203 ATGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTAACTAGTTAATCAACT
Found at i:64751971 original size:45 final size:46
Alignment explanation
Indices: 64751903--64751995 Score: 152
Period size: 45 Copynumber: 2.0 Consensus size: 46
64751893 GAACTTAGAG
* *
64751903 AACTAAGTTGGGTATCACTACCATGAATTCGTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
*
64751949 AACTACGTT-GGTATCACCACCATGAATTCCTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
64751994 AA
1 AA
64751996 AGACTTATCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (46 bp):
AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
Found at i:64752889 original size:46 final size:46
Alignment explanation
Indices: 64752825--64753319 Score: 669
Period size: 46 Copynumber: 10.8 Consensus size: 46
64752815 TTTGAGATGA
* * * *
64752825 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGT
* ** * *
64752871 TTCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* *
64752917 TGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* *
64752963 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * * *
64753009 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * *
64753055 TGCTATGGTATCTTTCAACCATGGTTTTATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGT
* **
64753101 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
*
64753147 TGCCATGGTATCTTTCAACCATGGTC-T-CACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* **
64753191 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
*
64753237 TGCCATGGTATCTTTCAACCATGGTC-T-CACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
*
64753281 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
64753320 TTTAGAAAGC
Statistics
Matches: 409, Mismatches: 33, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
44 82 0.20
45 12 0.03
46 311 0.76
47 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
Found at i:64755303 original size:11 final size:11
Alignment explanation
Indices: 64755281--64755310 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
64755271 TTCCTTACAT
64755281 ATAATAAATAAA
1 ATAAT-AATAAA
64755293 ATAATAATAAA
1 ATAATAATAAA
64755304 ATAATAA
1 ATAATAA
64755311 AATATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:64756923 original size:26 final size:26
Alignment explanation
Indices: 64756889--64756974 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
64756879 ATCCACTCAT
64756889 GGTCCTCTG-CCTAACTCAAACTCAAA
1 GGTCCTCTGACC-AACTCAAACTCAAA
* *
64756915 GGTCTTCTGACCAACTCAAGCTC-AA
1 GGTCCTCTGACCAACTCAAACTCAAA
* * * *
64756940 TGACCTTCGGACCCACTCAAACTCAAA
1 GGTCC-TCTGACCAACTCAAACTCAAA
*
64756967 GGACCTCT
1 GGTCCTCT
64756975 AACCCATCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 4 0.09
26 35 0.74
27 8 0.17
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (26 bp):
GGTCCTCTGACCAACTCAAACTCAAA
Found at i:64756979 original size:26 final size:26
Alignment explanation
Indices: 64756902--64756980 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
64756892 CCTCTGCCTA
* * *
64756902 ACTCAAACTCAAAGGTCTTCTGACCA
1 ACTCAAACTCAAAGGACCTCTGACCC
* * *
64756928 ACTCAAGCTC-AATGACCTTCGGACCC
1 ACTCAAACTCAAAGGACC-TCTGACCC
*
64756954 ACTCAAACTCAAAGGACCTCTAACCC
1 ACTCAAACTCAAAGGACCTCTGACCC
64756980 A
1 A
64756981 TCTCGACTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.10
26 31 0.76
27 6 0.15
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACTCAAACTCAAAGGACCTCTGACCC
Found at i:64758024 original size:19 final size:19
Alignment explanation
Indices: 64758002--64758039 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64757992 AAGCTAATAA
64758002 AAATCTAGTTAAAT-AATTG
1 AAAT-TAGTTAAATGAATTG
*
64758021 AAATTTGTTAAATGAATTG
1 AAATTAGTTAAATGAATTG
64758040 TACAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATTAGTTAAATGAATTG
Found at i:64759983 original size:28 final size:29
Alignment explanation
Indices: 64759951--64760006 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
64759941 TTACCTAAAT
64759951 AATAT-AAAAA-ATAATTAATTACGAAAAA
1 AATATAAAAAACATAA-TAATTACGAAAAA
64759979 AATATAAAAAACATAATAATTACGAAAA
1 AATATAAAAAACATAATAATTACGAAAA
64760007 TAAGTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (29 bp):
AATATAAAAAACATAATAATTACGAAAAA
Found at i:64760916 original size:27 final size:28
Alignment explanation
Indices: 64760864--64760916 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
64760854 CAAATGACTA
*
64760864 TTTTTGTAATTATTCTATTTTCTATACC
1 TTTTTGTAATTAATCTATTTTCTATACC
64760892 TTTTTCGTAATTAAT-TATTTT-TATA
1 TTTTT-GTAATTAATCTATTTTCTATA
64760917 TTATTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTGTAATTAATCTATTTTCTATACC
Found at i:64762442 original size:42 final size:42
Alignment explanation
Indices: 64762366--64762466 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
64762356 CTCGATTTGA
*** *
64762366 GATTTACGTGTAAGACTATGTCTGGGACATAGGCATC-ATATCT
1 GATTT-CGTGTAAGACTATGTCTAAAACAGAGGCATCGATA-CT
*
64762409 GATTTCGTGTAAGACTTTGTCTAAAACAGAGGCATCGATACT
1 GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
* *
64762451 GAATTACATGTAAGAC
1 G-ATTTCGTGTAAGAC
64762467 CACGTCCGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
Found at i:64769970 original size:42 final size:43
Alignment explanation
Indices: 64769923--64770036 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
64769913 TGAGATTTAT
* *
64769923 GTGTAAGACCATGTCTGGGACATAGGCATCG-TATCT-GATTTC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATA-CTAAATTAC
* * *
64769965 GTGTAAGACCCTATCTGGGACAGAGGCATCGATACTAAATTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
* * * *
64770008 ATGTAAGACCACGTCCGGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATAGGCAT
64770037 TGTGCCCGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
Found at i:64772958 original size:42 final size:43
Alignment explanation
Indices: 64772911--64773024 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
64772901 TGAGATTTAT
* *
64772911 GTGTAAGACCATGTCTGGGACATAGGCATCG-TATCT-GATTTC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATA-CTAAATTAC
* * *
64772953 GTGTAAGACCCTATCTGGGACAGAGGCATCGATACTAAATTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
* * * *
64772996 ATGTAAGACCACGTCCGGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATAGGCAT
64773025 TGTGCCCGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
Found at i:64778139 original size:3 final size:3
Alignment explanation
Indices: 64778133--64778231 Score: 57
Period size: 3 Copynumber: 33.0 Consensus size: 3
64778123 TTCTGTTTTT
* *
64778133 TTA TTA TTTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -TA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* *
64778177 TT- TTGCA -TA TATA ATA TT- TATA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TT--A TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
64778223 TCA TTA TTA
1 TTA TTA TTA
64778232 GTATATTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
2 9 0.12
3 56 0.75
4 10 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:64778460 original size:25 final size:24
Alignment explanation
Indices: 64778432--64778493 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
64778422 TGTTTATATA
64778432 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
64778457 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
64778480 TATT-TTATGTATAT
1 TATTATTATGTATAT
64778494 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:64778511 original size:19 final size:19
Alignment explanation
Indices: 64778487--64778524 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64778477 TACTATTTTA
*
64778487 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
64778506 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
64778525 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:64778947 original size:26 final size:28
Alignment explanation
Indices: 64778899--64778954 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
64778889 ATTATACCTA
*
64778899 TTATTTTCACTATTATCACGTAT-TATT
1 TTATTTTCAATATTATCACGTATATATT
* *
64778926 TTATTTT-AATATTATTATGTATATATT
1 TTATTTTCAATATTATCACGTATATATT
64778953 TT
1 TT
64778955 TCATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTCAATATTATCACGTATATATT
Found at i:64784902 original size:27 final size:27
Alignment explanation
Indices: 64784867--64784945 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
64784857 ACCAGATCAA
*
64784867 ATAATTGTGGCATAGCCACCAGGACAG
1 ATAATTGTGGTATAGCCACCAGGACAG
* *
64784894 AT-ATATGTGGTAGAGCCACTA-GATCAG
1 ATAAT-TGTGGTATAGCCACCAGGA-CAG
64784921 ATAATTGTGGTATAGCCACCAGGAC
1 ATAATTGTGGTATAGCCACCAGGAC
64784946 GCTTCCTCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.09
27 35 0.81
28 4 0.09
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (27 bp):
ATAATTGTGGTATAGCCACCAGGACAG
Found at i:64793839 original size:27 final size:27
Alignment explanation
Indices: 64793791--64793949 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
64793781 GTGAGGCTGC
* * *
64793791 CAGATATTGTGAC-GAAGTCACCATATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
64793818 CAGATATTGTGGTAGAGGCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
64793844 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
64793871 CAGATAATCGTGGCAGAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
64793898 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
64793925 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
64793950 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:64793903 original size:54 final size:54
Alignment explanation
Indices: 64793809--64793949 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
64793799 GTGACGAAGT
* * *
64793809 CACCATATACAGAT-ATTGTGGTAGAGGCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
64793863 TACCAGATCAGATAATCGTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
*
64793917 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAG
64793950 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 5 0.07
54 71 0.93
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:64795578 original size:26 final size:26
Alignment explanation
Indices: 64795547--64795654 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
64795537 TGAAATGCCC
*
64795547 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
64795573 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
64795599 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
64795625 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64795651 ATCA
1 ATCA
64795655 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64810082 original size:27 final size:26
Alignment explanation
Indices: 64810042--64810146 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 26
64810032 AGGAAGCGTC
*
64810042 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
64810069 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
64810096 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
64810123 CTGGTGACTTTGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
64810147 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 62 0.89
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:64817344 original size:43 final size:44
Alignment explanation
Indices: 64817282--64817365 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
64817272 ATGCCTAAAA
* *
64817282 AAAAAGAGATCAAGGTGAAAACCTGAAAAGGGCATCTTGATAAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
*
64817326 AAAAAG-GATCAAGGTGAAAACCCGAAAAAGGCGTCTTGAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGAT
64817366 TAACACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 31 0.84
44 6 0.16
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (44 bp):
AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
Found at i:64818317 original size:14 final size:14
Alignment explanation
Indices: 64818298--64818329 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
64818288 TGCTGAGCTG
*
64818298 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
64818312 TTTTCAATTTATGT
1 TTTTCAATTTATGT
64818326 TTTT
1 TTTT
64818330 GAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:64818420 original size:74 final size:74
Alignment explanation
Indices: 64818312--64818626 Score: 474
Period size: 73 Copynumber: 4.2 Consensus size: 74
64818302 CAATTTCTGT
* * *
64818312 TTTTCAATTTATGTTTTTGAAAAATCAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGT
1 TTTTCAATTTCTGTTTTT-CAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
64818377 CACGCTGAGGTA
63 CACGCTGAGGTA
* *
64818389 TTTTTAATTCCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
*
64818454 GCTAAGGTA
66 GCTGAGGTA
* *
64818463 TTTTCAATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
64818527 GCTGAGGTA
66 GCTGAGGTA
*
64818536 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
64818599 TGCTGAGGTA
65 CGCTGAGGTA
*
64818609 TTTTCAATTTCTATTTTT
1 TTTTCAATTTCTGTTTTT
64818627 TTCAATTTAT
Statistics
Matches: 220, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
73 95 0.43
74 65 0.30
75 41 0.19
76 4 0.02
77 15 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
GCTGAGGTA
Found at i:64818630 original size:16 final size:16
Alignment explanation
Indices: 64818609--64818642 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
64818599 TGCTGAGGTA
*
64818609 TTTTCAATTTCTATTT
1 TTTTCAATTTATATTT
64818625 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
64818641 TT
1 TT
64818643 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:64818641 original size:14 final size:16
Alignment explanation
Indices: 64818609--64818645 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
64818599 TGCTGAGGTA
*
64818609 TTTTCAATTTCTATTT
1 TTTTCAATTTCTATAT
64818625 TTTTCAA-TT-TATAT
1 TTTTCAATTTCTATAT
64818639 TTTTCAA
1 TTTTCAA
64818646 AAAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTCAATTTCTATAT
Found at i:64818731 original size:14 final size:13
Alignment explanation
Indices: 64818705--64818740 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
64818695 TGCTGAGGTA
64818705 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
64818718 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
64818732 TTTTCAAAA
1 TTTTCAAAA
64818741 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:64818741 original size:92 final size:92
Alignment explanation
Indices: 64818550--64818809 Score: 270
Period size: 88 Copynumber: 2.9 Consensus size: 92
64818540 CAATTTCTGC
*
64818550 TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG----ATGCTGAGGTAT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
* * * *
64818610 TTTCAATTTCTATTTTTTTCAATTTATAT
66 TTTCAATTTC--TGTTTTGCAAATTATAG
* *
64818639 TTTTCAAAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGGCTCGGGTCACATGCTGAGGT
1 TTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGT
** *
64818704 ATTTTCAAAATCTGTTTTGCAAATTCT-G
64 ATTTTCAATTTCTGTTTTGCAAATTATAG
* * * *
64818732 TTTTC---AAAAATCAACTCATATTGCGAG-GAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTA
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCGGGTCACATGCTGAGGTA
*
64818793 TTCTCAATTTCTGTTTT
65 TTTTCAATTTCTGTTTT
64818810 TAATGTCTGT
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 62 0.43
89 5 0.03
92 40 0.28
93 5 0.03
94 11 0.08
96 20 0.14
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (92 bp):
TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
TTTCAATTTCTGTTTTGCAAATTATAG
Found at i:64818765 original size:88 final size:87
Alignment explanation
Indices: 64818649--64818859 Score: 230
Period size: 88 Copynumber: 2.4 Consensus size: 87
64818639 TTTTCAAAAA
* * * * *
64818649 AAAAATCAACTCATATTGAGA-GAGGTGAGTTGAGGCTCGGGTCACATGCTGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGGA-GTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTCTCAAA
64818713 ATCTGTTTTGCAAAT-TCTGT-TTT
65 ATCTGTTTT--AAATGTCTGTATTT
* * *
64818736 CAAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCTCAAT
1 -AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTCTCAAA
* *
64818801 TTCTGTTTTTAATGTCTGTATTT
65 ATCTGTTTTAAATGTCTGTATTT
* * * *
64818824 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGGAGTGAGTTGAGC
64818860 TCAAGATCAC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
86 3 0.03
87 8 0.08
88 92 0.88
89 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTCTCAAAA
TCTGTTTTAAATGTCTGTATTT
Found at i:64820827 original size:19 final size:19
Alignment explanation
Indices: 64820800--64820837 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
64820790 TACTATTTTA
*
64820800 TGTACATTTCTAATATCAT
1 TGTACATTTCTAACATCAT
*
64820819 TGTATATTTCTAACATCAT
1 TGTACATTTCTAACATCAT
64820838 CATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (19 bp):
TGTACATTTCTAACATCAT
Found at i:64836612 original size:42 final size:42
Alignment explanation
Indices: 64836549--64836687 Score: 226
Period size: 42 Copynumber: 3.3 Consensus size: 42
64836539 GCCCAACTAA
*
64836549 TTACACG-AAGTCTCATGTCGATGCCATATCCCAGATATGGTC
1 TTACACGTAA-TCTCATATCGATGCCATATCCCAGATATGGTC
*
64836591 TTACCCGTAATCTCATATCGATGCCATATCCCAGATATGGTC
1 TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
*
64836633 TTACACGTAATCTCATATCGAGGCCATATCCCAGATATGGTC
1 TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
*
64836675 TTACACTTAATCT
1 TTACACGTAATCT
64836688 TAATAACCCT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 89 0.98
43 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (42 bp):
TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
Found at i:64837993 original size:53 final size:53
Alignment explanation
Indices: 64837919--64838064 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
64837909 CTTACACGGT
* * *
64837919 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATTACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
64837974 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
64838027 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
64838065 AACGAGCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:64840963 original size:93 final size:93
Alignment explanation
Indices: 64840850--64841021 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64840840 CGCCCATAAG
* * *
64840850 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64840915 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64840943 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64841008 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64841022 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64841018 original size:46 final size:46
Alignment explanation
Indices: 64840843--64841018 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
64840833 TGTAACCCGC
* * * *
64840843 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
64840889 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64840939 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64840982 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64841019 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64841037 original size:46 final size:46
Alignment explanation
Indices: 64840892--64841030 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
64840882 TTCGCGTCCA
64840892 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
64840940 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
64840985 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
64841031 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:64854572 original size:22 final size:20
Alignment explanation
Indices: 64854546--64854600 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
64854536 ATTATCTATT
64854546 TATTTAATATCATTTTACTAA
1 TATTTAATATCATTTT-CTAA
* * * *
64854567 TAATTTAATCTAATTTTTTTA
1 T-ATTTAATATCATTTTCTAA
64854588 TATTTAATATCAT
1 TATTTAATATCAT
64854601 ACTTTTTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATATCATTTTCTAA
Found at i:64855075 original size:12 final size:11
Alignment explanation
Indices: 64855048--64855074 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
64855038 AATTATTTAA
64855048 ATTTTAAAAAT
1 ATTTTAAAAAT
64855059 ATTTTAAAAAT
1 ATTTTAAAAAT
64855070 ATTTT
1 ATTTT
64855075 TTTATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:64863161 original size:57 final size:57
Alignment explanation
Indices: 64863073--64863189 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
64863063 GTGGGGCAAA
*
64863073 TGTAGGGGAAAGTAGGTTATCGGTAACACATATACTTTTTTGCAAATGACGACATTT
1 TGTAGGGAAAAGTAGGTTATCGGTAACACATATACTTTTTTGCAAATGACGACATTT
64863130 TGTAGGGAAAAGTAGGTTATCGGTAACACATATACTTTTTTGCAAATGACGACATTT
1 TGTAGGGAAAAGTAGGTTATCGGTAACACATATACTTTTTTGCAAATGACGACATTT
64863187 TGT
1 TGT
64863190 TTGGTGAAGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (57 bp):
TGTAGGGAAAAGTAGGTTATCGGTAACACATATACTTTTTTGCAAATGACGACATTT
Found at i:64867328 original size:3 final size:3
Alignment explanation
Indices: 64867320--64867346 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64867310 AGGGATCAAC
64867320 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
64867347 GGTATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:64878202 original size:3 final size:3
Alignment explanation
Indices: 64878194--64878218 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64878184 TTTATAAAAG
64878194 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
64878219 GAGTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64878912 original size:6 final size:6
Alignment explanation
Indices: 64878901--64878925 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64878891 CCAATACCAG
64878901 CTCCAA CTCCAA CTCCAA CTCCAA C
1 CTCCAA CTCCAA CTCCAA CTCCAA C
64878926 GTCGGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCAA
Found at i:64879036 original size:51 final size:51
Alignment explanation
Indices: 64878981--64879098 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
64878971 TCCAGTTCCA
*
64878981 GCACCACCACGCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCT-TCT
1 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCT-T
*
64879032 GCACCACCACCCAAGGGTCCCACTCCTCTGTATAAGCCCCCAAGTTCTCTT
1 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCTT
* *
64879083 GCTCCACCACCTAAGG
1 GCACCACCACCCAAGG
64879099 CAGCCACTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 61 0.98
52 1 0.02
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.19
Consensus pattern (51 bp):
GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCTT
Found at i:64879117 original size:51 final size:51
Alignment explanation
Indices: 64878981--64879124 Score: 148
Period size: 51 Copynumber: 2.8 Consensus size: 51
64878971 TCCAGTTCCA
* ** * *
64878981 GCACCACCACGCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTTCT
1 GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTCT
** *
64879032 GCACCACCACCCAAGGGTCCCACTCCTCTGTATAAGCCCCCAAGTTC-TCTT
1 GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTC-T
* * * *
64879083 GCTCCACCACCTAAGGCAGCCACTCCCCCT-TATAAACCCCCA
1 GCACCACCACCCAAGGCACCCACT-CCCCTGTATAAGCCCCCA
64879125 GCTCCTGCAC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
50 2 0.02
51 76 0.93
52 4 0.05
ACGTcount: A:0.24, C:0.44, G:0.13, T:0.19
Consensus pattern (51 bp):
GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTCT
Found at i:64882734 original size:10 final size:10
Alignment explanation
Indices: 64882719--64882752 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
64882709 ACGTGAGCCA
64882719 TTTCTATCTG
1 TTTCTATCTG
64882729 TTTCTATCTG
1 TTTCTATCTG
64882739 TTTTCTATCTG
1 -TTTCTATCTG
64882750 TTT
1 TTT
64882753 GAGGAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (10 bp):
TTTCTATCTG
Found at i:64882745 original size:11 final size:11
Alignment explanation
Indices: 64882719--64882752 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
64882709 ACGTGAGCCA
64882719 TTTCTATCTG-
1 TTTCTATCTGT
64882729 TTTCTATCTGT
1 TTTCTATCTGT
64882740 TTTCTATCTGT
1 TTTCTATCTGT
64882751 TT
1 TT
64882753 GAGGAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (11 bp):
TTTCTATCTGT
Found at i:64884728 original size:37 final size:38
Alignment explanation
Indices: 64884644--64884734 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
64884634 ATATAATAAT
* * * * *
64884644 AAATTTAATATATATAATTAAAAGATATTGTTAACAAC
1 AAATATAATATATAAAATTAAAACATATTGTTAAAAAA
*
64884682 AAATAATAATATATAAAATT-AAACATATTTTTAAAAAA
1 AAAT-ATAATATATAAAATTAAAACATATTGTTAAAAAA
64884720 AAATATAATA-ATAAA
1 AAATATAATATATAAA
64884735 TTTATATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 5 0.11
37 6 0.13
38 22 0.48
39 13 0.28
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (38 bp):
AAATATAATATATAAAATTAAAACATATTGTTAAAAAA
Found at i:64884784 original size:18 final size:18
Alignment explanation
Indices: 64884761--64884797 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
64884751 AAAATAAAAA
64884761 CCTCTCCACATCCCTCTC
1 CCTCTCCACATCCCTCTC
* *
64884779 CCTCTCCCCCTCCCTCTC
1 CCTCTCCACATCCCTCTC
64884797 C
1 C
64884798 AGACTTGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.68, G:0.00, T:0.27
Consensus pattern (18 bp):
CCTCTCCACATCCCTCTC
Found at i:64888213 original size:46 final size:45
Alignment explanation
Indices: 64888188--64888351 Score: 118
Period size: 46 Copynumber: 3.4 Consensus size: 45
64888178 GATCAAGTGA
* * *
64888188 CAAGTGGA-AAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
* *
64888233 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGAT
1 CAAGTGAC------AA-GTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
* * *
64888285 CAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
64888331 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
64888352 GCTGCACTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 50 0.49
47 3 0.03
51 2 0.02
52 40 0.39
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:64888214 original size:52 final size:51
Alignment explanation
Indices: 64888143--64888351 Score: 257
Period size: 52 Copynumber: 4.1 Consensus size: 51
64888133 ATCAAGTGAC
* *
64888143 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
64888195 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
64888246 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA--GA-GA-T-
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
64888293 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
64888345 ATAAGTG
1 A-AAGTG
64888352 GCTGCACTTA
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
46 38 0.28
48 3 0.02
49 1 0.01
50 3 0.02
51 2 0.01
52 86 0.62
53 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:64888265 original size:98 final size:98
Alignment explanation
Indices: 64888129--64888351 Score: 233
Period size: 98 Copynumber: 2.3 Consensus size: 98
64888119 TTTGAGTACT
* *
64888129 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
64888191 GTG-GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
62 GAGAGAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* * * *
64888227 TCTGATCAAGTGAC-AAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGA
1 TCTGATCAAGTGACAAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGA
* * *
64888290 GATAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 GAGAAAGTGATAAGTAATAGCTTCAGCTACACTTA
*
64888325 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
64888352 GCTGCACTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 63 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGA
GAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:64888363 original size:37 final size:37
Alignment explanation
Indices: 64888315--64888460 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
64888305 GATAGCTTTA
*
64888315 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
64888352 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
64888389 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
64888426 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
64888461 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:64899674 original size:90 final size:90
Alignment explanation
Indices: 64899466--64899674 Score: 310
Period size: 90 Copynumber: 2.3 Consensus size: 90
64899456 AATACCAGAT
* * * * *
64899466 CTTATTTTCACTGAGCAAGAGTGAAGCAGATCGAATTTTAGAGAATCTTATCTTCACGTACTGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTAGAGAATCTTAGCTCCACGTACTGGC
*
64899531 AATGGAGCATATTCCAATCATAAGC
66 AATGGAGCAGATTCCAATCATAAGC
* * *
64899556 CTTATCTTCACTGAGCAGGAGTCAAGCAGATCAAATTTTGGAGAATCTTAGCTCCACGTACTGGT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTAGAGAATCTTAGCTCCACGTACTGGC
*
64899621 GATGGAGCAGATTCCAATCATAAGC
66 AATGGAGCAGATTCCAATCATAAGC
* *
64899646 CTTATCTTCACTGAGTAGGAGTGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGAAGCAG
64899675 GCTAAATACC
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 106 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (90 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTAGAGAATCTTAGCTCCACGTACTGGC
AATGGAGCAGATTCCAATCATAAGC
Found at i:64899696 original size:43 final size:44
Alignment explanation
Indices: 64899646--64900100 Score: 198
Period size: 45 Copynumber: 10.2 Consensus size: 44
64899636 AATCATAAGC
* *
64899646 CTTATCTTCACTGAGTAGGAGTGGAGCAGGCT-AAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAATACCAGAT
* * * * * ***
64899689 CTTATCTTCACTGAGCAGAAGTGAAGCAGATTGAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAA-ATACCAG-AT
* * * * * * ** *
64899735 CTTAGCTCCAC-GTA-CTGGCGATGGAGCAGATTCCAATCATAAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGACTCAAAT-ACCAGAT
* *
64899779 CTTATCTTCACTGAACAGGAGTGGAGCAGGCT-AAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAATACCAGAT
* ***
64899822 CTTATCTTCACTGAGCAGGAGTGAAGCAGA-TCAAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAA--TACCAG-AT
* * * * * ** *
64899868 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATTAGCT
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGACTCAAAT-ACCAGAT
* *
64899913 -TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAA-ATACCAGAT
* * * ***
64899957 CTTATCTTCATTGAGCAGGAGTGAAGCAGA-TCGAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTC-AA-ATACCAG-AT
* * * * * *
64900003 CTTATCTTCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAGCT
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGACTCAAAT-ACCAGAT
* * *
64900048 -TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAA-ATACCAGAT
64900092 CTTATCTTC
1 CTTATCTTC
64900101 GGTAAGCAGG
Statistics
Matches: 298, Mismatches: 83, Indels: 60
0.68 0.19 0.14
Matches are distributed among these distances:
42 4 0.01
43 60 0.20
44 72 0.24
45 84 0.28
46 72 0.24
47 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAATACCAGAT
Found at i:64900015 original size:135 final size:135
Alignment explanation
Indices: 64899556--64900232 Score: 943
Period size: 135 Copynumber: 5.0 Consensus size: 135
64899546 AATCATAAGC
* * * *
64899556 CTTATCTTCACTGAGCAGGAGTCAAGCAGATCAAATTTTGGAGAATCTTAGCTCCACGTACTGGT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
* *
64899621 GATGGAGCAGATTCCAATCATAAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCT-AA-ATAC
66 GATGGAGCAGATTCCAATCATAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
64899684 CAGAT
131 CAGAT
* ** * *
64899689 CTTATCTTCACTGAGCAGAAGTGAAGCAGATTGAATTTTGGAGAATCTTAGCTCCACGTACTGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
* *
64899754 GATGGAGCAGATTCCAATCATAAGCCTTATCTTCACTGAACAGGAGTGGAGCAGGCT-AA-ATAC
66 GATGGAGCAGATTCCAATCATAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
64899817 CAGAT
131 CAGAT
64899822 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
*
64899887 GATGGAGCAGATTCCAATCATTAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
66 GATGGAGCAGATTCCAATCATAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
64899952 CAGAT
131 CAGAT
* * *
64899957 CTTATCTTCATTGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTTCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
*
64900022 GATGGAGCAGATTCCAATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
66 GATGGAGCAGATTCCAATCATAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
*
64900087 CAGGT
131 CAGAT
** * * * * * *
64900092 CTTATCTTCGGTAAGCAGGAGCGGAA-CATATCAAATTTTGGTGAATCTTATCTCCATGTATCGG
1 CTTATCTTCACTGAGCAGGAG-TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGG
* * * ** * * ** * *
64900156 CAATGGAGCAGGTTTCAGCCACCAA-CTTTATTTTTTCTAAGCAGGAGTGGAACAGGCTAAATAT
65 CGATGGAGCAGATTCCAATCA-TAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATAT
*
64900220 AGCAGAT
129 ACCAGAT
64900227 CTTATC
1 CTTATC
64900233 CCACTGCAGG
Statistics
Matches: 496, Mismatches: 44, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
133 240 0.48
134 2 0.00
135 250 0.50
136 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (135 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGC
GATGGAGCAGATTCCAATCATAAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC
CAGAT
Found at i:64900389 original size:177 final size:177
Alignment explanation
Indices: 64900061--64900393 Score: 391
Period size: 177 Copynumber: 1.9 Consensus size: 177
64900051 TCTTCACTGA
* * * * *
64900061 GCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTCGGTAAGCAGGAGCGGAACATATCAA
1 GCAGGAATGGAGCAGGATAAATATACCAGATCTTATCTTCAGTAAGCAGGAGCGGAACAGATCAA
* * * * * * *
64900126 ATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGGTTTCAGCCACCAACTTTATTTTT
66 ATTTTGGAGAATCTTATCTCCACGTACCGGCAATGGAGCAGATTCCAACCACCAACTTTATCTTT
* *
64900191 TCTAAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTTATCCCACT
131 ACTAAGAAGGAGTGGAACAGGCTAAATATAGCAGATCTTATCCCACT
* * * * * *
64900238 GCAGGAATGGAGCAGGATAAATATACTAGATCTTATTTTCATTGAGCAGGAG-TGAAGCAGATCG
1 GCAGGAATGGAGCAGGATAAATATACCAGATCTTATCTTCAGTAAGCAGGAGCGGAA-CAGATCA
* ** * * *
64900302 AATTTTGGAGCATCTTATCTCCACGTACCGGTGATGGAGCAGATTCCAATCATCAGCTTTATCTT
65 AATTTTGGAGAATCTTATCTCCACGTACCGGCAATGGAGCAGATTCCAACCACCAACTTTATCTT
*
64900367 TACTAAGAAGTAG-GGTAACAGGCTAAA
130 TACTAAGAAGGAGTGG-AACAGGCTAAA
64900394 ATTTACAGAT
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
176 5 0.04
177 122 0.96
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (177 bp):
GCAGGAATGGAGCAGGATAAATATACCAGATCTTATCTTCAGTAAGCAGGAGCGGAACAGATCAA
ATTTTGGAGAATCTTATCTCCACGTACCGGCAATGGAGCAGATTCCAACCACCAACTTTATCTTT
ACTAAGAAGGAGTGGAACAGGCTAAATATAGCAGATCTTATCCCACT
Found at i:64900512 original size:85 final size:86
Alignment explanation
Indices: 64900369--64900658 Score: 473
Period size: 85 Copynumber: 3.4 Consensus size: 86
64900359 TTTATCTTTA
* * *
64900369 CTAAGAAGTAGGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCTGAGCAGTGGTGGAGCAGGT
1 CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGGTGGAGCAGGT
64900434 CGAAGATC-CGCCTTAACCCC
66 CGAAGATCTCGCCTTAACCCC
* * *
64900454 CTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCCTGGCTCGCCGAGCAGTGGTGGAGCAGGT
1 CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGGTGGAGCAGGT
64900519 C-AA-ATACTCGCCTTAACCCC
66 CGAAGAT-CTCGCCTTAACCCC
*
64900539 CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCAAGCAGTGGTGGAGCAGGT
1 CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGGTGGAGCAGGT
64900604 CGAAGA-CTCGCCTTAACCCC
66 CGAAGATCTCGCCTTAACCCC
64900624 CTAAGCAGTAAGGTAACAGGCTAAAA-TTACAGATC
1 CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATC
64900659 TTATCTTCGT
Statistics
Matches: 193, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
83 2 0.01
84 12 0.06
85 176 0.91
86 2 0.01
87 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (86 bp):
CTAAGCAGTAAGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGGTGGAGCAGGT
CGAAGATCTCGCCTTAACCCC
Found at i:64900965 original size:18 final size:18
Alignment explanation
Indices: 64900942--64900977 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64900932 ATTAAACCAT
*
64900942 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
64900960 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
64900978 TGCTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:64901384 original size:64 final size:63
Alignment explanation
Indices: 64901255--64901394 Score: 164
Period size: 63 Copynumber: 2.3 Consensus size: 63
64901245 AACCCCTTTT
* *
64901255 TTTA-TTTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTATTTTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATA
* * * *
64901318 TTTGTTTTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTTATTTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATA
*
64901379 -TTATTTATTTATTATT
1 TTTATTTTTTTATTATT
64901395 ATATATTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
60 14 0.21
61 13 0.19
62 4 0.06
63 23 0.34
64 13 0.19
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTATTTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATA
Found at i:64901393 original size:19 final size:18
Alignment explanation
Indices: 64901369--64901405 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
64901359 TTATGTTTCA
64901369 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
64901388 TATTATTATATATTTATT
1 TATTATTATATATTTATT
64901406 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Done.