Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 155 of 198
Found at i:49035476 original size:60 final size:60
Alignment explanation
Indices: 49035397--49035518 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
49035387 TGTATGAATA
* * * * * *
49035397 TTGTAATTATTTTATAATTAATTTGTTAGTAATTT-GGAATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGG-ATTAAGCTATAAATTGTTGTGT
*
49035457 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
49035517 TT
1 TT
49035519 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 52 0.96
61 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:49038629 original size:22 final size:22
Alignment explanation
Indices: 49038594--49038657 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
49038584 TACCTAATTT
*
49038594 TTTTCTTCT-TTTCCTTCCTTC
1 TTTTCTTCTGCTTCCTTCCTTC
49038615 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCTGCTTCCTTCCTTC
*
49038637 TTTTCTTTTGCTTCCTTCCTT
1 TTTTCTTCTGCTTCCTTCCTT
49038658 ATTCTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 9 0.22
22 31 0.77
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (22 bp):
TTTTCTTCTGCTTCCTTCCTTC
Found at i:49038650 original size:18 final size:18
Alignment explanation
Indices: 49038599--49038664 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 18
49038589 AATTTTTTTC
49038599 TTCTTTTCCTTCCTTCTT
1 TTCTTTTCCTTCCTTCTT
49038617 TTCTTCTGCTTCCTTCCTTCTT
1 TTC-T-T--TTCCTTCCTTCTT
*
49038639 TTCTTTTGCTTCCTTCCTT
1 TTCTTTTCCTTCCTT-CTT
49038658 ATTCTTT
1 -TTCTTT
49038665 CTTCCGTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
18 12 0.29
19 4 0.10
20 8 0.20
21 1 0.02
22 16 0.39
ACGTcount: A:0.02, C:0.32, G:0.03, T:0.64
Consensus pattern (18 bp):
TTCTTTTCCTTCCTTCTT
Found at i:49038775 original size:27 final size:27
Alignment explanation
Indices: 49038745--49038853 Score: 182
Period size: 27 Copynumber: 4.0 Consensus size: 27
49038735 ATTTCAGTAT
49038745 GGCACCACCATTGGCGCCTCCCAGATA
1 GGCACCACCATTGGCGCCTCCCAGATA
*
49038772 GGCACCACCATTGGTGCCTCCCAGATA
1 GGCACCACCATTGGCGCCTCCCAGATA
* *
49038799 GGCACCACCATTGGTGCCTCCCAAATA
1 GGCACCACCATTGGCGCCTCCCAGATA
*
49038826 GGCACCACCATTGGCGCCTTCCAGATA
1 GGCACCACCATTGGCGCCTCCCAGATA
49038853 G
1 G
49038854 ACGCCAATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.17
Consensus pattern (27 bp):
GGCACCACCATTGGCGCCTCCCAGATA
Found at i:49052942 original size:36 final size:37
Alignment explanation
Indices: 49052892--49052972 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
49052882 ATATAATTAT
* * * * * *
49052892 CACTTTTAAGTATTACAACTATATCATTATGCCGAAA
1 CACTTATAAGTATTACAAATACACCAATAGGCCGAAA
49052929 CACTTATAA-TATTACAAATACACCAATAGGCCGAAA
1 CACTTATAAGTATTACAAATACACCAATAGGCCGAAA
49052965 CACTTATA
1 CACTTATA
49052973 TGTTCAATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 30 0.79
37 8 0.21
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (37 bp):
CACTTATAAGTATTACAAATACACCAATAGGCCGAAA
Found at i:49053243 original size:43 final size:43
Alignment explanation
Indices: 49053177--49053304 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
49053167 GGCTCGTACA
* *
49053177 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAAACACATATCG
* *
49053220 ATGCCACTGTCCTAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAAACACATA-TCG
* *
49053263 ATGCCAAC-GTCCCAAACGTGGTCTTACATGAAAACACATATC
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGTAAACACATATC
49053305 AGAATCCTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 66 0.92
44 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:49053697 original size:14 final size:14
Alignment explanation
Indices: 49053678--49053711 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
49053668 AGAAAATTGC
49053678 CATTTTGCCCCTGA
1 CATTTTGCCCCTGA
*
49053692 CATTTTGCCCTTGA
1 CATTTTGCCCCTGA
49053706 CATTTT
1 CATTTT
49053712 ACACTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.44
Consensus pattern (14 bp):
CATTTTGCCCCTGA
Found at i:49054061 original size:23 final size:23
Alignment explanation
Indices: 49054034--49054079 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
49054024 TAATTTGTTA
49054034 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
49054057 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
49054080 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:49054944 original size:23 final size:23
Alignment explanation
Indices: 49054892--49054936 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49054882 AATCAGTAAA
*
49054892 AAATTTATTTTTCACTTAGTATT
1 AAATATATTTTTCACTTAGTATT
*
49054915 AAATATATTTTTCACTTTGTAT
1 AAATATATTTTTCACTTAGTAT
49054937 AATCTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (23 bp):
AAATATATTTTTCACTTAGTATT
Found at i:49058510 original size:101 final size:101
Alignment explanation
Indices: 49058330--49058575 Score: 384
Period size: 101 Copynumber: 2.4 Consensus size: 101
49058320 AATTCATCCT
* * * *
49058330 TTACATTCATAGTGCCATAACCCAGTTATGGTTTTATCATTAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
49058395 CTTACATATAAACACTACCATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGGTC
* * * *
49058431 TTACGTTCATAGTGCCACAACCCAGTTATAGTCTTATCATCAAAATGCCATGGCCCAACTATGGT
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
*
49058496 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGGTC
* *
49058532 TTGCATTCATAGTGCCATAAACCAGTTATGGTCTTATCCATCAA
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAA
49058576 TTCATCTTTT
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
101 124 0.95
102 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTACCATGGTCCAACCATGGTC
Found at i:49058516 original size:35 final size:34
Alignment explanation
Indices: 49058375--49058538 Score: 109
Period size: 35 Copynumber: 4.8 Consensus size: 34
49058365 ATCATTAGAA
* *
49058375 TGCCATAGCCCAGCTATGGTCTTACATATAAACAC
1 TGCCATGGCCCAACTATGGTCTTACAT-TAAACAC
* * * * * * *
49058410 TACCATGGTCCAACCATGGTCTTACGTT-CATAG
1 TGCCATGGCCCAACTATGGTCTTACATTAAACAC
*** ** * *
49058443 TGCCACAACCCAGTTATAGTCTTATCATCAAA-A-
1 TGCCATGGCCCAACTATGGTCTTA-CATTAAACAC
49058476 TGCCATGGCCCAACTATGGTCTTACATATAAACAC
1 TGCCATGGCCCAACTATGGTCTTACAT-TAAACAC
* * *
49058511 TGCCATGGTCCAACCATGGTCTTGCATT
1 TGCCATGGCCCAACTATGGTCTTACATT
49058539 CATAGTGCCA
Statistics
Matches: 93, Mismatches: 31, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
32 3 0.03
33 38 0.41
34 6 0.06
35 46 0.49
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (34 bp):
TGCCATGGCCCAACTATGGTCTTACATTAAACAC
Found at i:49062685 original size:22 final size:22
Alignment explanation
Indices: 49062660--49062723 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
49062650 TTATCATTCC
49062660 GCACTTCAGTGCCTACTGTTTT
1 GCACTTCAGTGCCTACTGTTTT
* * * *
49062682 GCACTTCGGTGCTTAATGATTT
1 GCACTTCAGTGCCTACTGTTTT
*
49062704 GCACTTCAGTGCCCACTGTT
1 GCACTTCAGTGCCTACTGTT
49062724 ATATTAGTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.38
Consensus pattern (22 bp):
GCACTTCAGTGCCTACTGTTTT
Found at i:49062708 original size:44 final size:44
Alignment explanation
Indices: 49062639--49062723 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
49062629 TACCGTTTCA
*
49062639 CACTTCGGTGCTTATCATTCCGCACTTCAGTGCCTACTGTTTTG
1 CACTTCGGTGCTTATCATTCCGCACTTCAGTGCCCACTGTTTTG
* *
49062683 CACTTCGGTGCTTAATGATT-TGCACTTCAGTGCCCACTGTT
1 CACTTCGGTGCTT-ATCATTCCGCACTTCAGTGCCCACTGTT
49062724 ATATTAGTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 32 0.86
45 5 0.14
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (44 bp):
CACTTCGGTGCTTATCATTCCGCACTTCAGTGCCCACTGTTTTG
Found at i:49064359 original size:13 final size:13
Alignment explanation
Indices: 49064309--49064365 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
49064299 TAAGTTTGGA
49064309 ATAAATAATATAT
1 ATAAATAATATAT
* *
49064322 AAAAATGA-A-A-
1 ATAAATAATATAT
49064332 ATAAATAATATAT
1 ATAAATAATATAT
49064345 ATAAAGTAATAATAT
1 ATAAA-TAAT-ATAT
49064360 ATAAAT
1 ATAAAT
49064366 GAGTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 11 0.31
14 5 0.14
15 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAATAATATAT
Found at i:49065088 original size:23 final size:22
Alignment explanation
Indices: 49065045--49065102 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49065035 AAAGGGTATC
* *
49065045 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
49065066 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
49065089 TGCATATCATATCT
1 TACAAATCATATCT
49065103 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49065386 original size:18 final size:18
Alignment explanation
Indices: 49065363--49065397 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49065353 TTGGGATTGT
* *
49065363 TTTGAATTGGTTTTAAAC
1 TTTGAAATGGCTTTAAAC
49065381 TTTGAAATGGCTTTAAA
1 TTTGAAATGGCTTTAAA
49065398 ACAATGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (18 bp):
TTTGAAATGGCTTTAAAC
Found at i:49065479 original size:21 final size:21
Alignment explanation
Indices: 49065453--49065511 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
49065443 AAAATTTACC
49065453 TAAGGTATCGATACCTAAGGG
1 TAAGGTATCGATACCTAAGGG
*
49065474 TAAGGTATCGATACTTAAGGG
1 TAAGGTATCGATACCTAAGGG
** *
49065495 TAACATACCGATACCTA
1 TAAGGTATCGATACCTA
49065512 GAGCTTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (21 bp):
TAAGGTATCGATACCTAAGGG
Found at i:49067214 original size:28 final size:27
Alignment explanation
Indices: 49067162--49067229 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
49067152 ATATAATTTT
*
49067162 TTAATTCTTTTTATTTTTAGGTTTTATAATA
1 TTAATTTTTTTTATTTTT--GTTTTA-AA-A
49067193 TTAATTTTTTTTATTTTT-TTTTAAAA
1 TTAATTTTTTTTATTTTTGTTTTAAAA
*
49067219 TTAATATTTTT
1 TTAATTTTTTT
49067230 AGGATTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.31
27 2 0.06
28 5 0.14
31 17 0.49
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.69
Consensus pattern (27 bp):
TTAATTTTTTTTATTTTTGTTTTAAAA
Found at i:49067408 original size:90 final size:92
Alignment explanation
Indices: 49067288--49067471 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 92
49067278 AATCCCCTCC
** * *
49067288 TTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATTTATCAAAAAGGCCCTCAAACTTCTTA
1 TTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTCTTA
*
49067353 AAAAAAGCATTTAAGCCCCTGCT-TTA
66 AAAAAAGCAATTAAGCCCCTGCTCTTA
* * * * * *
49067379 TTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGACCCTCAAAATTTTTC
1 TTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTCTTA
* *
49067443 AAAAAAGCAATTAAGTCCTTGCTCTTA
66 AAAAAAGCAATTAAGCCCCTGCTCTTA
49067470 TT
1 TT
49067472 AAAAATTATA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 67 0.85
91 12 0.15
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (92 bp):
TTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTCTTA
AAAAAAGCAATTAAGCCCCTGCTCTTA
Found at i:49067502 original size:26 final size:29
Alignment explanation
Indices: 49067472--49067526 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 29
49067462 TGCTCTTATT
49067472 AAAAATTA-TAAAAA-AAT-AAATTTTAG
1 AAAAATTATTAAAAATAATAAAATTTTAG
49067498 AAAAATTATTAAAAATTAATAAAATTTTA
1 AAAAATTATTAAAAA-TAATAAAATTTTA
49067527 ATATTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
29 3 0.12
30 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTATTAAAAATAATAAAATTTTAG
Found at i:49067513 original size:10 final size:10
Alignment explanation
Indices: 49067498--49067544 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
49067488 TAAATTTTAG
49067498 AAAAATTATT
1 AAAAATTATT
*
49067508 AAAAATTAAT
1 AAAAATTATT
49067518 -AAAATT-TT
1 AAAAATTATT
* *
49067526 AATATTTATT
1 AAAAATTATT
49067536 AAAAATTAT
1 AAAAATTAT
49067545 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
8 1 0.03
9 10 0.34
10 18 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AAAAATTATT
Found at i:49067559 original size:19 final size:20
Alignment explanation
Indices: 49067516--49067559 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
49067506 TTAAAAATTA
*
49067516 ATAAAATTTTAATATTTATT
1 ATAAAATTATAATATTTATT
*
49067536 A-AAAATTATAAT-TTTTTT
1 ATAAAATTATAATATTTATT
49067554 ATAAAA
1 ATAAAA
49067560 AAGCGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 14 0.67
20 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATTATAATATTTATT
Found at i:49067836 original size:9 final size:9
Alignment explanation
Indices: 49067807--49067903 Score: 54
Period size: 10 Copynumber: 10.3 Consensus size: 9
49067797 CTTCATAAAA
49067807 TTTTATA-T
1 TTTTATATT
* *
49067815 TTCTATATA
1 TTTTATATT
49067824 TTTTATATT
1 TTTTATATT
49067833 TTTT-TATGAT
1 TTTTATAT--T
* **
49067843 TTTTAGAAAA
1 TTTTA-TATT
*
49067853 TTTTACAATT
1 TTTTA-TATT
49067863 TTTTATATT
1 TTTTATATT
*
49067872 TTTTACGATT
1 TTTTA-TATT
49067882 TTTATATATT
1 TTT-TATATT
*
49067892 TTTTAAATT
1 TTTTATATT
49067901 TTT
1 TTT
49067904 AATAAAATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
8 9 0.13
9 27 0.40
10 29 0.43
11 2 0.03
12 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:49067857 original size:29 final size:28
Alignment explanation
Indices: 49067823--49067921 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 28
49067813 ATTTCTATAT
49067823 ATTTTATATTTTTTTATGATTTTTAGAAA
1 ATTTTATATTTTTTTAT-ATTTTTAGAAA
* *
49067852 ATTTTACAATTTTTTATATTTTTTACG--A
1 ATTTTATATTTTTTTATA-TTTTTA-GAAA
* * *
49067880 TTTTTATATATTTTTTAAATTTTTAATAAA
1 ATTTTATAT-TTTTTTATATTTTT-AGAAA
49067910 ATTTTAATATTT
1 ATTTT-ATATTT
49067922 GAATTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
28 13 0.24
29 30 0.55
30 8 0.15
31 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
ATTTTATATTTTTTTATATTTTTAGAAA
Found at i:49067875 original size:19 final size:20
Alignment explanation
Indices: 49067853--49067904 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
49067843 TTTTAGAAAA
49067853 TTTTACAATTTTT-TATATT
1 TTTTACAATTTTTATATATT
*
49067872 TTTTACGATTTTTATATATT
1 TTTTACAATTTTTATATATT
49067892 TTTTA-AATTTTTA
1 TTTTACAATTTTTA
49067905 ATAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTACAATTTTTATATATT
Found at i:49068095 original size:90 final size:89
Alignment explanation
Indices: 49067989--49068199 Score: 239
Period size: 89 Copynumber: 2.4 Consensus size: 89
49067979 AATTTTAAAT
* *
49067989 AAAAGCAGGGGCTTAATTGCTTTTTTTTTTAATTTTAAGGGTCTTTTTA-ATGCATTTTGAAAGT
1 AAAAGCAGGGACTTAATTG-TTTTTTTTTTAATTTTAAGGGCCTTTTTATA-GCATTTTGAAAGT
* *
49068053 TCAAGTACCTAATTGAGTGCAAAAAA
64 TCAAGTACCAAAATGAGTGCAAAAAA
* ** * * *
49068079 AAAAGTAGGGACTTAATTG-TTTTTTTAAAAGGTTTGAGGGCCTTTTTGTAGCATTTTGAAAGTT
1 AAAAGCAGGGACTTAATTGTTTTTTTTTTAA-TTTTAAGGGCCTTTTTATAGCATTTTGAAAGTT
* * *
49068143 TAAGTATCAAAATGAGTGCAAAAGA
65 CAAGTACCAAAATGAGTGCAAAAAA
*
49068168 AAAAGCA-AGAGCTTAATTGTTTTTTTTTTAAT
1 AAAAGCAGGGA-CTTAATTGTTTTTTTTTTAAT
49068200 AAAAAAATTG
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
88 11 0.11
89 61 0.62
90 27 0.27
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (89 bp):
AAAAGCAGGGACTTAATTGTTTTTTTTTTAATTTTAAGGGCCTTTTTATAGCATTTTGAAAGTTC
AAGTACCAAAATGAGTGCAAAAAA
Found at i:49072803 original size:2 final size:2
Alignment explanation
Indices: 49072796--49072825 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49072786 CTCTAGTTTC
49072796 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
49072826 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49085736 original size:16 final size:16
Alignment explanation
Indices: 49085709--49085743 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49085699 GGGGCAGAAG
49085709 AGAAGTTTTTATTAACA
1 AGAAGTTTTTATTAA-A
49085726 AGAAG-TTTTATTAAA
1 AGAAGTTTTTATTAAA
49085741 AGA
1 AGA
49085744 CTTAGATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 9 0.50
17 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (16 bp):
AGAAGTTTTTATTAAA
Found at i:49092975 original size:19 final size:19
Alignment explanation
Indices: 49092940--49092996 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
49092930 TTTTAATAAA
*
49092940 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
49092958 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
49092976 TA-AAATTTATTTTGAATTTT
1 TATAAA--TATTTTGAATTTT
49092996 T
1 T
49092997 TTGTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 3 0.09
18 12 0.35
19 15 0.44
20 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:49099061 original size:110 final size:110
Alignment explanation
Indices: 49098816--49099220 Score: 629
Period size: 110 Copynumber: 3.7 Consensus size: 110
49098806 GATAAACGAG
* * * * *
49098816 AAATCGAAACCCAGCACCTTAAGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
* * * *
49098880 TTGAAATTTTT--GAAGGGGTATTTAGCTATTTGGTTGAATGAGAA
66 TTGAAATTTTTAAGAA-GGATATTAAGCCATTTGGTTGAACGAGAA
*
49098924 AAATTGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
49098989 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
49099034 AAATCGATACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCTAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
49099099 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
49099144 AAATCGACACCCAGCACCTTTA-GGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACC-TTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTAT
*
49099208 TTAGAAATATTTT
65 TTTGAAAT-TTTT
49099221 CCTTTTTTGA
Statistics
Matches: 275, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
108 24 0.09
109 45 0.16
110 196 0.71
111 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:49099876 original size:3 final size:3
Alignment explanation
Indices: 49099868--49099901 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
49099858 ATATAAAAGC
*
49099868 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49099902 TGAAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:49105406 original size:19 final size:19
Alignment explanation
Indices: 49105362--49105413 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
49105352 ATTACAAAAA
*
49105362 AAAAATTAAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
49105381 TATAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
49105400 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
49105414 GTATATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:49108780 original size:30 final size:30
Alignment explanation
Indices: 49108744--49108803 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
49108734 AAAGTTAGAC
49108744 TCGAATGAATATATTAGCTCGCCATACTTG
1 TCGAATGAATATATTAGCTCGCCATACTTG
49108774 TCGAATGAATATATTAGCTCGCCATACTTG
1 TCGAATGAATATATTAGCTCGCCATACTTG
49108804 ACGGATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (30 bp):
TCGAATGAATATATTAGCTCGCCATACTTG
Found at i:49110924 original size:46 final size:46
Alignment explanation
Indices: 49110758--49110924 Score: 237
Period size: 46 Copynumber: 3.6 Consensus size: 46
49110748 TATGTAAGAG
*
49110758 CCTATTCTTGTAATT-TCTAGTCCGCAACATATGCAAGAGCTTAGAA
1 CCTATTCTTGT-ATTCTCGAGTCCGCAACATATGCAAGAGCTTAGAA
* * *
49110804 CCTATTCTTGTATTTTCGAGTCTGCAACATATGCAAGAGTTTAGAA
1 CCTATTCTTGTATTCTCGAGTCCGCAACATATGCAAGAGCTTAGAA
* * **
49110850 CCTATTCCTGTATTCTCGAGTTCGCAACATATGCAAGAGCTCGGAA
1 CCTATTCTTGTATTCTCGAGTCCGCAACATATGCAAGAGCTTAGAA
*
49110896 CCTATTCTTGTATTCTCGAGTCCACAACA
1 CCTATTCTTGTATTCTCGAGTCCGCAACA
49110925 CATGTAGGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 3 0.03
46 104 0.97
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CCTATTCTTGTATTCTCGAGTCCGCAACATATGCAAGAGCTTAGAA
Found at i:49112677 original size:23 final size:23
Alignment explanation
Indices: 49112651--49112715 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
49112641 TTCATTTAAC
*
49112651 TTAATCGAACATGTTTACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
49112674 TTAAACGAACATATTCATGAACA
1 TTAATCGAACATGTTCACGAACA
* *
49112697 TAAAATTGAACATGTTCAC
1 T-TAATCGAACATGTTCAC
49112716 AGACAATGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:49120786 original size:15 final size:15
Alignment explanation
Indices: 49120751--49120792 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49120741 TTAAGAATTT
*
49120751 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49120765 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49120779 TATTTAATAATAAT
1 TATTTAATTATAAT
49120793 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49123859 original size:25 final size:25
Alignment explanation
Indices: 49123831--49123879 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
49123821 CAGAGAAAAT
*
49123831 TTTTAGATCAATTTATATT-TTTTTC
1 TTTTAGAGCAATTTA-ATTATTTTTC
*
49123856 TTTTTGAGCAATTTAATTATTTTT
1 TTTTAGAGCAATTTAATTATTTTT
49123880 GAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.63
Consensus pattern (25 bp):
TTTTAGAGCAATTTAATTATTTTTC
Found at i:49126614 original size:32 final size:32
Alignment explanation
Indices: 49126576--49127029 Score: 458
Period size: 32 Copynumber: 14.2 Consensus size: 32
49126566 ATATTTTATG
* *
49126576 TATTGCTGAATT-AATTTGTATACGTATATATA
1 TATTGCCGAATTGAA-TTGTATATGTATATATA
* * * *
49126608 TATTGCTGAATTGAATTGTATAGGTATACACA
1 TATTGCCGAATTGAATTGTATATGTATATATA
*
49126640 TATTGCCTAATTGAATTGTATATGTATACT-TA
1 TATTGCCGAATTGAATTGTATATGTATA-TATA
* * **
49126672 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATATATA
*
49126704 TATTGCCGAATTGAATTGTATATGTATACT-TG
1 TATTGCCGAATTGAATTGTATATGTATA-TATA
* * **
49126736 TATTGTCGAATTGAATTGTATAGGTATATACC
1 TATTGCCGAATTGAATTGTATATGTATATATA
*
49126768 TATTGCCGAATTGAATTGTATATGCATACT-TA
1 TATTGCCGAATTGAATTGTATATGTATA-TATA
* * **
49126800 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATATATA
*
49126832 TATTGCCGAATTGAATTATATATGTATACT-TA
1 TATTGCCGAATTGAATTGTATATGTATA-TATA
* * * **
49126864 TATTGCCGAATTGAATTGCATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATATATA
* *
49126896 TATTGTCGAATTGAATTGTATA-G-ATATACA
1 TATTGCCGAATTGAATTGTATATGTATATATA
* *
49126926 CCTATTGTCGAATTAAATTGTATATGTATACT-TA
1 --TATTGCCGAATTGAATTGTATATGTATA-TATA
49126960 TATTGCCGAATTGAATTGTATATGTATACT-TA
1 TATTGCCGAATTGAATTGTATATGTATA-TATA
* * *
49126992 TGTTGCCGAATTGATTTGTATATGTATTTATA
1 TATTGCCGAATTGAATTGTATATGTATATATA
49127024 TATTGC
1 TATTGC
49127030 TGATTTAATT
Statistics
Matches: 353, Mismatches: 54, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
30 5 0.01
31 3 0.01
32 336 0.95
33 4 0.01
34 4 0.01
35 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (32 bp):
TATTGCCGAATTGAATTGTATATGTATATATA
Found at i:49127029 original size:64 final size:64
Alignment explanation
Indices: 49126576--49127018 Score: 622
Period size: 64 Copynumber: 6.9 Consensus size: 64
49126566 ATATTTTATG
* * *
49126576 TATTGCTGAATT-AATTTGTATACGTATA-TATATATTGCTGAATTGAATTGTATAGGTATACAC
1 TATTGCCGAATTGAA-TTGTATATGTATACT-TATATTGCCGAATTGAATTGTATAGGTATACAC
*
49126639 A
64 C
*
49126640 TATTGCCTAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* * *
49126704 TATTGCCGAATTGAATTGTATATGTATACTTGTATTGTCGAATTGAATTGTATAGGTATATACC
1 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
49126768 TATTGCCGAATTGAATTGTATATGCATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *
49126832 TATTGCCGAATTGAATTATATATGTATACTTATATTGCCGAATTGAATTGCATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *** * * * ***
49126896 TATTGTCGAATTGAATTGTATA-GATATACACCTATTGTCGAATTAAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATG-TATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* * *
49126960 TATTGCCGAATTGAATTGTATATGTATACTTATGTTGCCGAATTGATTTGTATATGTAT
1 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTAT
49127019 TTATATATTG
Statistics
Matches: 339, Mismatches: 36, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
63 1 0.00
64 334 0.99
65 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:49130011 original size:16 final size:16
Alignment explanation
Indices: 49129990--49130020 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49129980 ATTGGGTTAA
49129990 GAAAATTATTTAATTG
1 GAAAATTATTTAATTG
49130006 GAAAATTATTTAATT
1 GAAAATTATTTAATT
49130021 AGTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
GAAAATTATTTAATTG
Found at i:49131465 original size:18 final size:19
Alignment explanation
Indices: 49131430--49131467 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49131420 ATTTTTTTTC
*
49131430 TTTTTTTTTTAAATCTCAA
1 TTTTTTTTATAAATCTCAA
*
49131449 TTTTTTTTATGAA-CTCAA
1 TTTTTTTTATAAATCTCAA
49131467 T
1 T
49131468 ATAACCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTTTTATAAATCTCAA
Found at i:49138644 original size:21 final size:21
Alignment explanation
Indices: 49138594--49138646 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
49138584 TTCATGTTTA
49138594 CTTTCTGTTTAGCTCTCACGAG
1 CTTT-TGTTTAGCTCTCACGAG
* ***
49138616 CTTCTGTTTAGCTCTTTTGAG
1 CTTTTGTTTAGCTCTCACGAG
49138637 CTTTTGTTTA
1 CTTTTGTTTA
49138647 ACCTTTATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.11, C:0.21, G:0.17, T:0.51
Consensus pattern (21 bp):
CTTTTGTTTAGCTCTCACGAG
Found at i:49138673 original size:42 final size:42
Alignment explanation
Indices: 49138625--49138772 Score: 176
Period size: 42 Copynumber: 3.5 Consensus size: 42
49138615 GCTTCTGTTT
** * *
49138625 AGCTCTTTTGAGCTTTTGTTTAACCTTTATGGGTTTTCATTCC
1 AGCTCTTACGAGCTTCTGTTCAACCTTTATGGGTTTTCATT-C
*
49138668 A-CTCTTACGAGCTTCTGTTCAACCCTTT-TGGGTTTTCGTTC
1 AGCTCTTACGAGCTTCTGTTCAA-CCTTTATGGGTTTTCATTC
* *
49138709 AGCTCTTACGAGCTTCCGTTCAACCTTTATGGG-TTTCTATTT
1 AGCTCTTACGAGCTTCTGTTCAACCTTTATGGGTTTTC-ATTC
*
49138751 AGCTCTTATGAGCTTCTGTTCA
1 AGCTCTTACGAGCTTCTGTTCA
49138773 GCTTCCGGGC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 11 0.12
42 74 0.81
43 6 0.07
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (42 bp):
AGCTCTTACGAGCTTCTGTTCAACCTTTATGGGTTTTCATTC
Found at i:49138775 original size:21 final size:21
Alignment explanation
Indices: 49138669--49138775 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
49138659 TTTCATTCCA
* *
49138669 CTCTTACGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAG
* * * *
49138690 CCCTTTTG-GGTTTTCGTTCAG
1 CTCTTATGAGCTTCT-GTTCAG
* * *
49138711 CTCTTACGAGCTTCCGTTCAA
1 CTCTTATGAGCTTCTGTTCAG
* * * *
49138732 C-CTTTATGGGTTTCTATTTAG
1 CTC-TTATGAGCTTCTGTTCAG
49138753 CTCTTATGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAG
49138774 CT
1 CT
49138776 TCCGGGCTTC
Statistics
Matches: 58, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
20 5 0.09
21 49 0.84
22 4 0.07
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAG
Found at i:49146236 original size:6 final size:6
Alignment explanation
Indices: 49146225--49146251 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49146215 AAATGGCTCA
49146225 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
49146252 GGAAATAGAC
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:49147989 original size:19 final size:18
Alignment explanation
Indices: 49147946--49147989 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
49147936 TGAACTTATT
*
49147946 AATT-TTTTTAATTTTTG
1 AATTATTTTTAATTTTTA
*
49147963 AATAATTTTATAATTTTTA
1 AATTATTTT-TAATTTTTA
49147982 AATTATTT
1 AATTATTT
49147990 GTTGACATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 3 0.14
18 4 0.18
19 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
AATTATTTTTAATTTTTA
Found at i:49149938 original size:24 final size:24
Alignment explanation
Indices: 49149903--49149948 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
49149893 TCCCCTTAGC
*
49149903 AAAT-AAACCCAATTTTATAAATAA
1 AAATAAAACCAAATTTTA-AAATAA
49149927 AAATAAAACCAAATTTTAAAAT
1 AAATAAAACCAAATTTTAAAAT
49149949 GTCCACAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAAACCAAATTTTAAAATAA
Found at i:49151122 original size:9 final size:9
Alignment explanation
Indices: 49151105--49151142 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
49151095 TTAATTATAA
49151105 TACTATTAT
1 TACTATTAT
*
49151114 TATTATTAT
1 TACTATTAT
49151123 TACTATTAT
1 TACTATTAT
*
49151132 TACTACTAT
1 TACTATTAT
49151141 TA
1 TA
49151143 TTATAGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (9 bp):
TACTATTAT
Found at i:49151129 original size:12 final size:12
Alignment explanation
Indices: 49151108--49151146 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
49151098 ATTATAATAC
*
49151108 TATTATTATTAT
1 TATTACTATTAT
49151120 TATTACTATTAT
1 TATTACTATTAT
*
49151132 TACTACTATTAT
1 TATTACTATTAT
49151144 TAT
1 TAT
49151147 AGATGTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:49151158 original size:3 final size:3
Alignment explanation
Indices: 49151108--49151146 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
49151098 ATTATAATAC
* * *
49151108 TAT TAT TAT TAT TAT TAC TAT TAT TAC TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49151147 AGATGTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:49151478 original size:2 final size:2
Alignment explanation
Indices: 49151473--49151503 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49151463 TTTTACCTAT
49151473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49151504 TTCATTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49163247 original size:16 final size:16
Alignment explanation
Indices: 49163224--49163263 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
49163214 CGTTTGGTTC
49163224 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
49163240 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49163256 GCTGTAAT
1 GCTGTAAT
49163264 AATAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:49163643 original size:120 final size:120
Alignment explanation
Indices: 49163474--49163875 Score: 725
Period size: 120 Copynumber: 3.4 Consensus size: 120
49163464 TTAATCATAT
* * *
49163474 TTTAACGTATTTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
49163539 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
49163594 TTTAACATAATTATTATTAAATATAATTTAATAAAATTATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
49163659 AAATATTCTTATATAAATTTACTAAAATTATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
49163714 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
49163779 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
49163834 TTTTAACATAATTATTATTAAATATAATTTAATAAAAA-ATAT
1 -TTTAACATAATTATTATTAAATATAATTTAATAAAAATATAT
49163876 TAGCAGTAAT
Statistics
Matches: 271, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
120 235 0.87
121 36 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:49165244 original size:49 final size:49
Alignment explanation
Indices: 49165167--49165270 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
49165157 AAAAAAATTC
* * *
49165167 AAATTAAAATTGAGTTTAATATCATGAATCAAAAGATGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGATCAACACTTTATA
* *
49165216 AAATTAAAATTAAGTTCAATATCGTGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGATCAACACTTTATA
49165265 AAATTA
1 AAATTA
49165271 TAACACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGATCAACACTTTATA
Found at i:49167446 original size:27 final size:28
Alignment explanation
Indices: 49167407--49167478 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
49167397 TCAATAATAA
*
49167407 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
49167436 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
49167466 -T-T-ATAATTATAAA
1 ATGTAATAATTATAAA
49167479 AAAATTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 2 0.05
26 1 0.03
27 14 0.36
28 3 0.08
29 13 0.33
30 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:49180356 original size:48 final size:48
Alignment explanation
Indices: 49180304--49180447 Score: 270
Period size: 48 Copynumber: 3.0 Consensus size: 48
49180294 TAGCCTGCTT
49180304 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
49180352 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
* *
49180400 CAGCACACCAAATTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
49180448 AGTAATCTTG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (48 bp):
CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
Found at i:49186144 original size:31 final size:31
Alignment explanation
Indices: 49186094--49186173 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
49186084 GTTAATATTC
* *
49186094 CATTT-GGTATTTGAGTTTGGCTTCAATGTT
1 CATTTAGGTACTTGAATTTGGCTTCAATGTT
* *
49186124 CATTTAGGTACTTGAATTTGGTTTCAGTGTT
1 CATTTAGGTACTTGAATTTGGCTTCAATGTT
49186155 CATTTAGGTACTTGAATTT
1 CATTTAGGTACTTGAATTT
49186174 TTTCAATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (31 bp):
CATTTAGGTACTTGAATTTGGCTTCAATGTT
Found at i:49195981 original size:2 final size:2
Alignment explanation
Indices: 49195974--49196005 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49195964 TTTCCTGCCT
49195974 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
49196006 AATTTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:49208503 original size:70 final size:69
Alignment explanation
Indices: 49208428--49208585 Score: 172
Period size: 70 Copynumber: 2.3 Consensus size: 69
49208418 TTAGAGTTCA
* * * *
49208428 CTAATTTAAGATCACAACTCCACCCAATAGTTCTTTAATTTACGATCATGAACAATTCATTCATA
1 CTAATTTAAGATCACAACTCCACCCAATAATTCGTTAATTTAAGATCACGAACAATT-ATTCATA
49208493 GCTTG
65 GCTTG
* ** * * * * * *
49208498 TTAATTTAAGATTGCAACTTCACTCAATAATTCGTTGATTTAAGATCACGAATAATTTTTTATAG
1 CTAATTTAAGATCACAACTCCACCCAATAATTCGTTAATTTAAGATCACGAACAATTATTCATAG
49208563 CTTG
66 CTTG
* *
49208567 CTGATTTAAGATCATAACT
1 CTAATTTAAGATCACAACT
49208586 TCACTTAACA
Statistics
Matches: 70, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
69 24 0.34
70 46 0.66
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (69 bp):
CTAATTTAAGATCACAACTCCACCCAATAATTCGTTAATTTAAGATCACGAACAATTATTCATAG
CTTG
Found at i:49208505 original size:140 final size:140
Alignment explanation
Indices: 49208185--49208495 Score: 367
Period size: 140 Copynumber: 2.2 Consensus size: 140
49208175 CAATTCATTG
* ** * * * * ** ** *
49208185 ATTTATGATCATGAATTATTCACTCATAGCTCACGAATTTACAATTGCAACTTTACTTAAACAGT
1 ATTTACGATCATGAACAATTAATTCATAGCTCACCAATTTACGATCACCGCTTTACTTAAACAAT
* * * * *
49208250 GTGTTGATTTAAGATCATAATAGATATTTTATATCTCACTAATGTAATATCGCAAATCCACCCAA
66 ATGTTGATTTAAGATCACAATAGATATTTTAGATCTCACTAATGTAAGATCACAAATCCACCCAA
49208315 CAGTTTATTA
131 CAGTTTATTA
* *
49208325 ATTTACGATCATGAACGATTAATTCATCGCTCACCAATTTACGATCACCGCTTTACTTAAACAAT
1 ATTTACGATCATGAACAATTAATTCATAGCTCACCAATTTACGATCACCGCTTTACTTAAACAAT
* *
49208390 ATGTTGATTTAAGATCACAACT-GATATTTTAGAGT-TCACTAATTTAAGATCACAACTCCACCC
66 ATGTTGATTTAAGATCACAA-TAGATATTTTAGA-TCTCACTAATGTAAGATCACAAATCCACCC
*
49208453 AATAGTTCT-TTA
129 AACAGTT-TATTA
*
49208465 ATTTACGATCATGAACAATTCATTCATAGCT
1 ATTTACGATCATGAACAATTAATTCATAGCT
49208496 TGTTAATTTA
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
140 141 0.98
141 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (140 bp):
ATTTACGATCATGAACAATTAATTCATAGCTCACCAATTTACGATCACCGCTTTACTTAAACAAT
ATGTTGATTTAAGATCACAATAGATATTTTAGATCTCACTAATGTAAGATCACAAATCCACCCAA
CAGTTTATTA
Found at i:49208586 original size:69 final size:69
Alignment explanation
Indices: 49208392--49208731 Score: 227
Period size: 69 Copynumber: 4.9 Consensus size: 69
49208382 TAAACAATAT
* * * ** * *
49208392 GTTGATTTAAGATCAC-AACTGATATTTTAGAG-TTCACTAATTTAAGATCACAACTCCACCCAA
1 GTTGATTTAAGATCACGAA-TGATTTTTTATAGCTT-GCTAATTTAAGATCGTAACTTCACTCAA
49208455 TAGTTC
64 TAGTTC
* * * * ** * * * * *
49208461 TTTAATTTACGATCATGAACAATTCATTCATAGCTTGTTAATTTAAGATTGCAACTTCACTCAAT
1 GTTGATTTAAGATCACGAATGATT-TTTTATAGCTTGCTAATTTAAGATCGTAACTTCACTCAAT
*
49208526 AATTC
65 AGTTC
* * * * *
49208531 GTTGATTTAAGATCACGAATAATTTTTTATAGCTTGCTGATTTAAGATCATAACTTCACTTAACA
1 GTTGATTTAAGATCACGAATGATTTTTTATAGCTTGCTAATTTAAGATCGTAACTTCACTCAATA
49208596 GTTC
66 GTTC
** * * * * * * * * * * *
49208600 ACTGATTTACGATCACGACTGATTTTTTGTAAC-TCCACAATTTTATATCGTAATTTCTCTTAAT
1 GTTGATTTAAGATCACGAATGATTTTTTATAGCTTGC-TAATTTAAGATCGTAACTTCACTCAAT
49208664 AGTTC
65 AGTTC
* * * * ** *
49208669 GTTGATTTAAAATTACAAATGATTTTTCATAGCTTGCCGATTTAAGATTGTAACTTCACTCAA
1 GTTGATTTAAGATCACGAATGATTTTTTATAGCTTGCTAATTTAAGATCGTAACTTCACTCAA
49208732 CAATTTACCA
Statistics
Matches: 200, Mismatches: 66, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
68 2 0.01
69 141 0.70
70 55 0.28
71 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (69 bp):
GTTGATTTAAGATCACGAATGATTTTTTATAGCTTGCTAATTTAAGATCGTAACTTCACTCAATA
GTTC
Found at i:49210969 original size:2 final size:2
Alignment explanation
Indices: 49210962--49210992 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49210952 GCCCTTAATT
49210962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49210993 TATCAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49216022 original size:25 final size:25
Alignment explanation
Indices: 49215994--49216048 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
49215984 CTCGGTATAT
49215994 GGCTCCT-TGGAGCTT-CTAGATTAAA
1 GGCTCCTATGG-GCTTCCT-GATTAAA
* *
49216019 GGCTCTTATGGGCTTCCTGATTAAT
1 GGCTCCTATGGGCTTCCTGATTAAA
49216044 GGCTC
1 GGCTC
49216049 TTCAGAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (25 bp):
GGCTCCTATGGGCTTCCTGATTAAA
Found at i:49216058 original size:25 final size:24
Alignment explanation
Indices: 49216003--49216064 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
49215993 TGGCTCCTTG
49216003 GAGCTTCTAGATTAAAGGCTCTTAT
1 GAGCTTCT-GATTAAAGGCTCTTAT
* *
49216028 GGGCTTCCTGATTAATGGCTCTTCA-
1 GAGCTT-CTGATTAAAGGCTCTT-AT
49216053 GAGCTTTCTGAT
1 GAGC-TTCTGAT
49216065 ATTAGCTCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (24 bp):
GAGCTTCTGATTAAAGGCTCTTAT
Found at i:49218233 original size:45 final size:45
Alignment explanation
Indices: 49218102--49218768 Score: 324
Period size: 44 Copynumber: 15.0 Consensus size: 45
49218092 TGGAGTAGGT
* * * *
49218102 TGAAGATAACAGATCTTGCATTCCTGTACTGACAGCGAAGCAAAT
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
49218147 TGAAGA-CAC-CAGTCTTGCCTTCCTGTACTGACATCGGAGCAGAC
1 TGAAGATAACACA-TCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * *
49218191 TAAAGATAACACATCTTGCATTCATGTATTGACAGCGAAGCAGA-
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
*
49218235 TCG-A-AT-ACACCAGCCTTGCCTTCCTGTACTGACAGCTG-AGCAGAC
1 T-GAAGATAACA-CA-TCTTGCCTTCCTGTACTGACAGC-GAAGCAGAC
* * *
49218280 TGAAGATAAAAGATCTTGCCTTCCTGTACTGACAGCGAAGCA-AA
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * *
49218324 TCGAAGAT-AC-CAGCCTTGCCTCCCTGGT-TTGACAGCGGAGCAGAC
1 T-GAAGATAACACA-TCTTGCCTTCCT-GTACTGACAGCGAAGCAGAC
** * * * **
49218369 TGAAGATAGTAGATTTTGCCTTCCTCTACTGGTAGCGAAGCAGA-
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
49218413 TCGAAG---ACACGAGCCTTGCCTCCCTAGGT-TTG-TAGCGGAGCAGAC
1 T-GAAGATAACAC-A-TCTTGCCTTCCT--GTACTGACAGCGAAGCAGAC
* *
49218458 TGAAGATAACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGA-
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * *
49218502 TCGAAGACAAGA-GTCTTGCCTCCCTGGT-TTGACAGCGAAGTAGAG
1 T-GAAGATAACACATCTTGCCTTCCT-GTACTGACAGCGAAGCAGAC
** * * *
49218547 TGAAGATAGTAGATATTGCCTTCCTATACTGACAGCGAAGCAGA-
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** * *** * *
49218591 TCGAAGA-CAC-CGGCCTTGCCTCCCTGGGTTTATAGCGAAGCAGAC
1 T-GAAGATAACAC-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
** * * *
49218636 TGAAGATAGTAGATATTGCCTTCTTGTACTGACAGCGAAGCAGA-
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * *** * * *
49218680 TCGAAGA-CAC-CAGCCTTGTCTTCCTGGGTTGACAGTGGAGCAGAA
1 T-GAAGATAACACA-TCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
** * * *
49218725 TGAAGATAGTAGATTTTGCCTTCCTGTACTGACAGTGAAGCAGA
1 TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
49218769 TCGAAGACCC
Statistics
Matches: 456, Mismatches: 121, Indels: 90
0.68 0.18 0.13
Matches are distributed among these distances:
42 4 0.01
43 10 0.02
44 214 0.47
45 214 0.47
46 9 0.02
47 5 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (45 bp):
TGAAGATAACACATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:49218255 original size:89 final size:88
Alignment explanation
Indices: 49218102--49218967 Score: 827
Period size: 89 Copynumber: 9.8 Consensus size: 88
49218092 TGGAGTAGGT
* * * * *
49218102 TGAAGATAACAGATCTTGCATTCCTGTACTGACAGCGAAGCAAATTGAAGACACCAGTCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
49218167 TCCTGTACTGACATCGGAGCAGAC
66 CCCTGT-TTGACAGCGGAGCAGAC
* * * * * * *
49218191 TAAAGATAACACATCTTGCATTCATGTATTGACAGCGAAGCAGATCGAATACACCAGCCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
49218256 TCCTGTACTGACAGCTGAGCAGAC
66 CCCTGT-TTGACAGCGGAGCAGAC
* * *
49218280 TGAAGATAAAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAAATCGAAGATACCAGCCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
49218345 CCCTGGTTTGACAGCGGAGCAGAC
66 CCCT-GTTTGACAGCGGAGCAGAC
* * * ** *
49218369 TGAAGATAGTAGATTTTGCCTTCCTCTACTGGTAGCGAAGCAGATCGAAGACACGAGCCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
49218434 CCCTAGGTTTG-TAGCGGAGCAGAC
66 CCCT--GTTTGACAGCGGAGCAGAC
* * ** *
49218458 TGAAGATAACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACAAGAGTCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
49218523 CCCTGGTTTGACAGCGAAGTAGAG
66 CCCT-GTTTGACAGCGGAGCAGAC
* * * *
49218547 TGAAGATAGTAGATATTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCGGCCTTGCCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
49218612 CCCTGGGTTT-ATAGCGAAGCAGAC
66 CCCT--GTTTGACAGCGGAGCAGAC
* * * *
49218636 TGAAGATAGTAGATATTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGTCT
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
49218701 TCCTGGGTTGACAGTGGAGCAGAA
66 CCCT-GTTTGACAGCGGAGCAGAC
* * *
49218725 TGAAGATAGTAGATTTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGAC-CCTAGCCTTGCC
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACC-AGCCTTGCC
49218789 TCCCTGAGTTTG-CAG-GAGAGCAGAC
65 TCCCT--GTTTGACAGCG-GAGCAGAC
* ** ** * * * * *
49218814 TAAAGAT-AGCGTATCATTGTTTTCC-GTATTGGCAGCGAAGCA-ATCGAAGACACTAGGCTTGT
1 TGAAGATAATAG-ATC-TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * *
49218876 CTCCCTAAATTTG-CAGTGGAGTAGAC
64 CTCCCT--GTTTGACAGCGGAGCAGAC
* * ** ** *
49218902 TAAAAATAGCAGATCTTATCTTCCTGTACT-AGCAGCGAAGCAGATCGACA-ACACCAGCTTTGC
1 TGAAGATAATAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGA-AGACACCAGCCTTGC
49218965 CTC
64 CTC
49218968 TCTGAGTGTG
Statistics
Matches: 657, Mismatches: 103, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
87 7 0.01
88 73 0.11
89 552 0.84
90 25 0.04
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
TGAAGATAATAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGTTTGACAGCGGAGCAGAC
Found at i:49219771 original size:7 final size:7
Alignment explanation
Indices: 49219761--49219785 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49219751 AATACAAAAG
49219761 GAAATCT
1 GAAATCT
49219768 GAAATCT
1 GAAATCT
49219775 GAAATCT
1 GAAATCT
49219782 GAAA
1 GAAA
49219786 AGGTGGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (7 bp):
GAAATCT
Found at i:49220531 original size:9 final size:9
Alignment explanation
Indices: 49220512--49220605 Score: 80
Period size: 9 Copynumber: 10.4 Consensus size: 9
49220502 TAATATTAAT
*
49220512 TTATCATTA
1 TTATTATTA
*
49220521 TTACTATTA
1 TTATTATTA
* **
49220530 TTACTATCG
1 TTATTATTA
49220539 TTATTATTA
1 TTATTATTA
*
49220548 TTATTAATA
1 TTATTATTA
*
49220557 TTATTACTA
1 TTATTATTA
* *
49220566 CTATTATTT
1 TTATTATTA
49220575 TTATTATTA
1 TTATTATTA
*
49220584 GTATTATTA
1 TTATTATTA
* *
49220593 TTTTTATTT
1 TTATTATTA
49220602 TTAT
1 TTAT
49220606 CAATTTACCT
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATTATTA
Found at i:49220548 original size:6 final size:6
Alignment explanation
Indices: 49220512--49220605 Score: 80
Period size: 6 Copynumber: 15.7 Consensus size: 6
49220502 TAATATTAAT
* * * ** *
49220512 TTATCA TTATTA CTATTA TTACTA TCGTTA TTATTA TTATTA ATATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * *
49220560 TTACTA CTATTA TTTTTA TTATTA GTATTA TTATTT TTATTT TTAT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTAT
49220606 CAATTTACCT
Statistics
Matches: 68, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (6 bp):
TTATTA
Found at i:49220553 original size:30 final size:30
Alignment explanation
Indices: 49220512--49220592 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
49220502 TAATATTAAT
* * *
49220512 TTATCATTATTACTATTATTACTA-TCGTTA
1 TTATTATTATTAATATTATTACTACT-ATTA
49220542 TTATTATTATTAATATTATTACTACTATTA
1 TTATTATTATTAATATTATTACTACTATTA
* *
49220572 TTTTTATTATTAGTATTATTA
1 TTATTATTATTAATATTATTA
49220593 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
30 44 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TTATTATTATTAATATTATTACTACTATTA
Found at i:49220579 original size:21 final size:21
Alignment explanation
Indices: 49220546--49220600 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
49220536 TCGTTATTAT
**
49220546 TATTATTAATATTATTACTAC
1 TATTATTTTTATTATTACTAC
* *
49220567 TATTATTTTTATTATTAGTAT
1 TATTATTTTTATTATTACTAC
49220588 TATTATTTTTATT
1 TATTATTTTTATT
49220601 TTTATCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTATTTTTATTATTACTAC
Found at i:49226190 original size:43 final size:42
Alignment explanation
Indices: 49226109--49226191 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 42
49226099 CCTGAAGAAG
* **
49226109 AAAAAGAGACCAAGGTGAAAACCCACAAATGGTGCTTTGAAA
1 AAAAAGAGACCAAAGTGAAAACCCACAAATGGCACTTTGAAA
* *
49226151 AAAAAGAAGACTAAAGTGAAAACCCGCAAA-GGACACTTTGA
1 AAAAAG-AGACCAAAGTGAAAACCCACAAATGG-CACTTTGA
49226192 GTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.13
Consensus pattern (42 bp):
AAAAAGAGACCAAAGTGAAAACCCACAAATGGCACTTTGAAA
Found at i:49228959 original size:89 final size:89
Alignment explanation
Indices: 49227588--49229507 Score: 1922
Period size: 89 Copynumber: 21.6 Consensus size: 89
49227578 GACACTAGCT
* * * * * * ***
49227588 TTGCCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAGCAGATCTTACCTTCCTGTACTGACA
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTGCCTCCCTGGGTTGACA
* * * * *
49227652 GTGAAGCAGA-TCGAAGACACCAG-CC
64 GCGGAGCAGACT-GAAGATAGCAGATC
* * * * ***
49227677 TTGCTTTCCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTTCCTGTACTGACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* *
49227742 GGAGCAAACTGTAG-TAGCAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* *
49227765 TTGCCTTCCTGTACTGACAGCTAAGCAAATCGAAGACACCAGCCTTGCCTCCCTGGGTTTG-CAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG-TTGACAG
* * *
49227829 CGGAGTAGACTAAAGATAGCAGATT
65 CGGAGCAGACTGAAGATAGCAGATC
* * * * **
49227854 TTTCCTTCATGTACTAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTTTCTGGGTTGACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* *
49227919 AGAGCAGACTGAAGATAGTAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* * * * * *
49227943 TTGCCTTCCTGTATTGATAGCGAAGTAGATCTAAGACACTAGCCTTGCCTCCCTGGGTTTACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* *
49228008 GGAGCGGACTGAAGATAGTAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* * * *
49228032 TTGCCATT-CTGTACTGACAGCGAAGCAGATCGAAGACATCAGTCTTGCCTTCCTAGGTTGACAG
1 TTGCC-TTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAG
*
49228096 CAGAGCAGACTGAAGATAGCAGATC
65 CGGAGCAGACTGAAGATAGCAGATC
* * * ***
49228121 TTGCCTTCCTGTACTGACAGTGAAACAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* * *
49228186 AGAGCAGACTGAAGATAACACATC
66 GGAGCAGACTGAAGATAGCAGATC
** * * *
49228210 TTGCCTTAATGTACTGACAACGAAGCAGATCGAATACACCAGCCTTGCCTCCTTGGGTTTG-CAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG-TTGACAG
* *
49228274 CGGAGCAAACTAAAGATAGCAGATC
65 CGGAGCAGACTGAAGATAGCAGATC
* * * * * * *
49228299 TTGCCTTCCTGTACTGATAGCGAAGTAAATCGAAGACACTAGTCTTACCTCCCTGGGTTGACAGT
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
49228364 GGAGCAGACTGAAGATAGCAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* * *
49228388 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCTCTGGGTTAACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* * *
49228453 AGAGCAAACTGAAGATAGTAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* * * ** *
49228477 TTGCCTTCCTATACTGACAACGAAGCAAATCTCAGACACCAGCCTTGCCTCCCTGGGTTTG-CAA
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG-TTGACAG
* *
49228541 CGAAGCAGATTGAAGATAGCAGATC
65 CGGAGCAGACTGAAGATAGCAGATC
* * * * * ***
49228566 TTGCCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAACAGATCTTGCCTTCCTGTACTGACA
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTGCCTCCCTGGGTTGACA
* * *
49228630 GCGAAGCAGATCT-AAGACACCAGATC
64 GCGGAGCAGA-CTGAAGATAGCAGATC
** * * * * * * * **
49228656 TTGTATTCCTTTGCTGACAGCGGAGCAGA-CTGAAGATAGCAGATCTTGCCTTCCTGTATTGACA
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTGCCTCCCTGGGTTGACA
* * * *
49228720 GTGAAGCAGA-TCGAAGACACCAG-TC
64 GCGGAGCAGACT-GAAGATAGCAGATC
* * * *
49228745 TTGCCTTCCTATACTGACACCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGGTTTG-CAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGGTTGACAG
* *
49228809 CGAAGCAGACTAAAGATAGCAGATC
65 CGGAGCAGACTGAAGATAGCAGATC
*
49228834 TTACCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* *
49228899 GGAGCAGACTGAAGATAACAGATA
66 GGAGCAGACTGAAGATAGCAGATC
* * * * * * *
49228923 TTGCCTTCCTATACTGACAGTGAAGCAGATCGAAGACACCAACATTGCCTCTCTAGGTTTG-TAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGGTTGACAG
*
49228987 CGGAGCAGACTGAAGATAACAGATC
65 CGGAGCAGACTGAAGATAGCAGATC
* * * * ** **
49229012 TTACCTTCCTATACCGACAACGAAGCAGATCGAAGACAAGAATCTTGCCTCCCTGGGTTGACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
* * * * *
49229077 GGAGCAGAGTAAATATAGTAGATA
66 GGAGCAGACTGAAGATAGCAGATC
* * * *
49229101 TTACCTTCTTGTACTAACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTTG-CAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG-TTGACAG
*
49229165 CGGAGCAGACTGAAGATAGCAAATC
65 CGGAGCAGACTGAAGATAGCAGATC
* * * * *
49229190 TTACCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTTACAGC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
49229255 GGAGCAGACTGAAGATAGCAGATC
66 GGAGCAGACTGAAGATAGCAGATC
* * * * *
49229279 TTGCCTTCCTGTACTGACAGCAAAGCAGATTGAAGACACTATCCTTGCCTCCCTGAGTTTG-CAG
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG-GGTTGACAG
*
49229343 CGGAGCAGACTAAAGATAGC-GTATC
65 CGGAGCAGACTGAAGATAGCAG-ATC
*** * ** * * * *
49229368 ATTATTTTCCTGTATTGGTAGCGAAGCA-ATCGAAGACACTAGCCTTGCCTCTCTAAGTTTG-CA
1 -TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGGTTGACA
* * * * *
49229431 ACGGAGTAGACT-AACAACAGCAAATC
64 GCGGAGCAGACTGAA-GATAGCAGATC
*
49229457 TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGACA-ACACCAGCCTTGCCTC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCGA-AGACACCAGCCTTGCCTC
49229508 TCTGAGTTTG
Statistics
Matches: 1531, Mismatches: 266, Indels: 68
0.82 0.14 0.04
Matches are distributed among these distances:
87 4 0.00
88 168 0.11
89 1208 0.79
90 150 0.10
91 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
TTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGACAGC
GGAGCAGACTGAAGATAGCAGATC
Found at i:49229350 original size:44 final size:42
Alignment explanation
Indices: 49229118--49229360 Score: 130
Period size: 44 Copynumber: 5.5 Consensus size: 42
49229108 CTTGTACTAA
* *
49229118 CAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTTG
1 CAGCGAAGCAGATTGAAGATACCATCCTTGCCTCCCT--GTTTG
* * * * * *
49229162 CAGCGGAGCAGACTGAAGATAGCAAAT-CTTACCTTCCTGTACTG
1 CAGCGAAGCAGATTGAAGATA-C-CATCCTTGCCTCCCTGT-TTG
* * * * *
49229206 ACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTTA
1 -CAGCGAAGCAGATTGAAGATACCATCCTTGCCTCCCT--GTTTG
* * * * *
49229251 CAGCGGAGCAGACTGAAGATAGCAGAT-CTTGCCTTCCTGTACTG
1 CAGCGAAGCAGATTGAAGATA-C-CATCCTTGCCTCCCTGT-TTG
* * *
49229295 ACAGCAAAGCAGATTGAAGACACTATCCTTGCCTCCCTGAGTTTG
1 -CAGCGAAGCAGATTGAAGATACCATCCTTGCCTCCCT--GTTTG
* * *
49229340 CAGCGGAGCAGACTAAAGATA
1 CAGCGAAGCAGATTGAAGATA
49229361 GCGTATCATT
Statistics
Matches: 144, Mismatches: 41, Indels: 28
0.68 0.19 0.13
Matches are distributed among these distances:
43 7 0.05
44 74 0.51
45 57 0.40
46 6 0.04
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (42 bp):
CAGCGAAGCAGATTGAAGATACCATCCTTGCCTCCCTGTTTG
Found at i:49231084 original size:6 final size:6
Alignment explanation
Indices: 49231068--49231180 Score: 118
Period size: 6 Copynumber: 18.8 Consensus size: 6
49231058 TAATATTAAT
* * * *
49231068 TTATCA TTATTA CTATTA TTACTA TCATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * *
49231116 TTATTA TTATTA TTATTA TTATTA CTACTA CTATTA TTTTTA TTTTTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * *
49231164 GTATTT TTATTT TTATT
1 TTATTA TTATTA TTATT
49231181 TTTACCAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 91 1.00
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (6 bp):
TTATTA
Found at i:49231087 original size:9 final size:9
Alignment explanation
Indices: 49231068--49231180 Score: 118
Period size: 9 Copynumber: 12.6 Consensus size: 9
49231058 TAATATTAAT
*
49231068 TTATCATTA
1 TTATTATTA
*
49231077 TTACTATTA
1 TTATTATTA
* *
49231086 TTACTATCA
1 TTATTATTA
49231095 TTATTATTA
1 TTATTATTA
49231104 TTATTATTA
1 TTATTATTA
49231113 TTATTATTA
1 TTATTATTA
49231122 TTATTATTA
1 TTATTATTA
49231131 TTATTATTA
1 TTATTATTA
* * *
49231140 CTACTACTA
1 TTATTATTA
*
49231149 TTATTTTTA
1 TTATTATTA
* *
49231158 TTTTTAGTA
1 TTATTATTA
* *
49231167 TTTTTATTT
1 TTATTATTA
49231176 TTATT
1 TTATT
49231181 TTTACCAATT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 86 1.00
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (9 bp):
TTATTATTA
Found at i:49231168 original size:15 final size:15
Alignment explanation
Indices: 49231150--49231178 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49231140 CTACTACTAT
49231150 TATTTTTATTTTTAG
1 TATTTTTATTTTTAG
49231165 TATTTTTATTTTTA
1 TATTTTTATTTTTA
49231179 TTTTTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TATTTTTATTTTTAG
Found at i:49235523 original size:17 final size:16
Alignment explanation
Indices: 49235497--49235531 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
49235487 ATCGTAATAT
49235497 ATTATTAATTAATAAA
1 ATTATTAATTAATAAA
*
49235513 ATTATTTAATTTATAAA
1 ATTA-TTAATTAATAAA
49235530 AT
1 AT
49235532 CAAATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATTAATTAATAAA
Found at i:49241547 original size:81 final size:81
Alignment explanation
Indices: 49241461--49242161 Score: 796
Period size: 81 Copynumber: 8.7 Consensus size: 81
49241451 GAGACCTTAA
* * * *
49241461 CAGACAAGGAA-AAACAAGAGAAGGTGCAGCAGCCCGAGAGTTTACCAGATAATAAAGGGAAAGA
1 CAGACAAGGAAGAGA-AAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGA
* *
49241525 TGCGCCTAAGATTTTAC
65 TGCGCCCAAGAGTTTAC
* * * * * * * *
49241542 TAGACAAGGAAGAGAAAGAGAAGACACGGCAGCCCGAGAGTTTACTAGATAAGGAAGGGCAAGAT
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
**
49241607 GCATCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
* * * *
49241623 GAGACAAGGAAGAGAAAGAGAAGGCACCGCAGCCCGAGAGTTTACCAGACAAGGAAGGGAAAGAT
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
* *
49241688 GCACCCAAGAATTTAC
66 GCGCCCAAGAGTTTAC
*
49241704 CAAACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAA-AGAAGGGAAAGA
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGA-AAGGGAAAGA
* *
49241768 TACACCCAAGAGTTTAC
65 TGCGCCCAAGAGTTTAC
* * *
49241785 CAGACAAGGAAGAGAAAAAGAAGGTGCAGCAGCCCGAGAGTTTACTAGACAAGGAAA-GGAAAGA
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAA-GAAAGGGAAAGA
* *
49241849 TGCGCCTAAGAGTTTAT
65 TGCGCCCAAGAGTTTAC
* * * * **
49241866 CAGACAAGGAAGAGAAAGAGGAGGCGCAACAGCCCGAGAGTTTACAAGACAAAAAAGATAAAGAT
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
*
49241931 GTGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
* * * * * * * * *
49241947 TAGACAAGGAAGAAAAAGAGGAGGCACAACAGCCAGAGAGTTTACCAAACAAGGAAGAGAAAGAT
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
*
49242012 GTGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
* * * * ** * * *
49242028 CAGACAAGGAAGTGAATGAGGAGGCGCATCAGCTTGAGAGTTTACCAGATAAGGAAGAGAAAGAT
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
**
49242093 AAGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
* * * *
49242109 CAGACAAGGAAGAGAACGAGGAGGCACAGCAGTCCGAGAGTTTACCAGACAAG
1 CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAG
49242162 GCTGCAAATC
Statistics
Matches: 538, Mismatches: 77, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
80 3 0.01
81 530 0.99
82 4 0.01
83 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (81 bp):
CAGACAAGGAAGAGAAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGAAAGGGAAAGAT
GCGCCCAAGAGTTTAC
Found at i:49241703 original size:36 final size:36
Alignment explanation
Indices: 49241659--49241884 Score: 157
Period size: 36 Copynumber: 5.8 Consensus size: 36
49241649 CCGCAGCCCG
49241659 AGAGTTTACCAGACAAGGAAGGGAAAGATGCACCCA
1 AGAGTTTACCAGACAAGGAAGGGAAAGATGCACCCA
* * *
49241695 AGAATTTACCAAACAAGGAAGAGAAAGAGAAGGCGCA-GCAGCCCG
1 AGAGTTTACCAGACAAGGAAG-G---GA-AA---G-ATGCA-CCCA
* *
49241740 AGAGTTTACCAGACAAAGAAGGGAAAGATACACCCA
1 AGAGTTTACCAGACAAGGAAGGGAAAGATGCACCCA
* *
49241776 AGAGTTTACCAGACAAGGAAGAGAAAAAGAAGGTGCAGCAGCCCG
1 AGAGTTTACCAGACAAGGAAG-G-GAAAG-A--T---GCA-CCCA
* * * *
49241821 AGAGTTTACTAGACAAGGAAAGGAAAGATGCGCCTA
1 AGAGTTTACCAGACAAGGAAGGGAAAGATGCACCCA
* *
49241857 AGAGTTTATCAGACAAGGAAGAGAAAGA
1 AGAGTTTACCAGACAAGGAAGGGAAAGA
49241885 GGAGGCGCAA
Statistics
Matches: 148, Mismatches: 22, Indels: 40
0.70 0.10 0.19
Matches are distributed among these distances:
36 69 0.47
37 7 0.05
38 4 0.03
39 1 0.01
40 5 0.03
41 5 0.03
42 1 0.01
43 4 0.03
44 8 0.05
45 44 0.30
ACGTcount: A:0.44, C:0.17, G:0.28, T:0.11
Consensus pattern (36 bp):
AGAGTTTACCAGACAAGGAAGGGAAAGATGCACCCA
Found at i:49241965 original size:36 final size:36
Alignment explanation
Indices: 49241897--49242121 Score: 117
Period size: 36 Copynumber: 5.8 Consensus size: 36
49241887 AGGCGCAACA
* * ** *
49241897 GCCCGAGAGTTTACAAGACAAAAAAGATAAAGATGT
1 GCCCAAGAGTTTACCAGACAAGGAAGAAAAAGATGT
* * *
49241933 GCCCAAGAGTTTACTAGACAAGGAAGAAAAAGAGGAG
1 GCCCAAGAGTTTACCAGACAAGGAAGAAAAAGATG-T
* *
49241970 GCACAACAGCCAGAGAGTTTACCAAACAAGGAAGAGAAAGATGT
1 G-----C--CCA-AGAGTTTACCAGACAAGGAAGAAAAAGATGT
* * * *
49242014 GCCCAAGAGTTTACCAGACAAGGAAGTGAATGAGGAGGC
1 GCCCAAGAGTTTACCAGACAAGGAA--GAA-AAAGATGT
* * * **
49242053 GCATCAGCTTGAGAGTTTACCAGATAAGGAAGAGAAAGATAA
1 GC--C--C--AAGAGTTTACCAGACAAGGAAGAAAAAGATGT
49242095 GCCCAAGAGTTTACCAGACAAGGAAGA
1 GCCCAAGAGTTTACCAGACAAGGAAGA
49242122 GAACGAGGAG
Statistics
Matches: 143, Mismatches: 28, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
36 69 0.48
37 4 0.03
38 3 0.02
39 7 0.05
40 1 0.01
41 1 0.01
42 6 0.04
43 3 0.02
44 4 0.03
45 45 0.31
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (36 bp):
GCCCAAGAGTTTACCAGACAAGGAAGAAAAAGATGT
Found at i:49244698 original size:13 final size:13
Alignment explanation
Indices: 49244680--49244716 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
49244670 AGGATTAAGT
49244680 GCCACACGGCCTA
1 GCCACACGGCCTA
**
49244693 GCCACAATGCCTA
1 GCCACACGGCCTA
49244706 GCCACACGGCC
1 GCCACACGGCC
49244717 GTGTGGCTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.46, G:0.22, T:0.08
Consensus pattern (13 bp):
GCCACACGGCCTA
Found at i:49245857 original size:39 final size:39
Alignment explanation
Indices: 49245813--49245892 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
49245803 TCTCTGTAAG
49245813 TATGTTTCGCTATCAAACTGATTTCTATAATTCTATTAT
1 TATGTTTCGCTATCAAACTGATTTCTATAATTCTATTAT
49245852 TATGTTTCGCTATCAAACTGATTTCTATAATTCTATTAT
1 TATGTTTCGCTATCAAACTGATTTCTATAATTCTATTAT
49245891 TA
1 TA
49245893 GTCACGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (39 bp):
TATGTTTCGCTATCAAACTGATTTCTATAATTCTATTAT
Found at i:49250407 original size:15 final size:15
Alignment explanation
Indices: 49250383--49250417 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
49250373 ACAATTTCAC
49250383 AAAA-TGATTTCGTG
1 AAAATTGATTTCGTG
49250397 AAAATTGATTTCGTG
1 AAAATTGATTTCGTG
49250412 AAAATT
1 AAAATT
49250418 TACAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (15 bp):
AAAATTGATTTCGTG
Found at i:49251455 original size:13 final size:13
Alignment explanation
Indices: 49251437--49251468 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49251427 TTTCCAGCAA
49251437 TTATGAATTTATT
1 TTATGAATTTATT
49251450 TTATGAATTTATT
1 TTATGAATTTATT
*
49251463 TGATGA
1 TTATGA
49251469 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:49251674 original size:50 final size:50
Alignment explanation
Indices: 49251563--49251911 Score: 500
Period size: 50 Copynumber: 6.8 Consensus size: 50
49251553 ATTTGGGTAA
* *
49251563 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-GATG
*
49251619 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
49251669 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
49251719 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
49251769 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
49251819 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
49251869 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
49251912 TGTTATTATC
Statistics
Matches: 273, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
50 195 0.71
51 36 0.13
55 2 0.01
56 40 0.15
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:49264661 original size:29 final size:29
Alignment explanation
Indices: 49264619--49264685 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
49264609 ACACGAGCAT
* *
49264619 AGGCCGTGTGAGCCACATAGTCGTGTGAC
1 AGGCCGTGTGAGCCACACAGTCATGTGAC
*
49264648 AGGCCGTGTGAGCCACACGGTCATGTGAC
1 AGGCCGTGTGAGCCACACAGTCATGTGAC
49264677 AGGCCGTGT
1 AGGCCGTGT
49264686 AAGTGACCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.19
Consensus pattern (29 bp):
AGGCCGTGTGAGCCACACAGTCATGTGAC
Found at i:49268078 original size:16 final size:16
Alignment explanation
Indices: 49268059--49268090 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49268049 TCCTTACAAT
49268059 TTCATTTTCTTGTTGA
1 TTCATTTTCTTGTTGA
49268075 TTCATTTTCTTGTTGA
1 TTCATTTTCTTGTTGA
49268091 AATCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (16 bp):
TTCATTTTCTTGTTGA
Found at i:49272530 original size:41 final size:40
Alignment explanation
Indices: 49272485--49272587 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 40
49272475 TTTCCGAATC
*
49272485 AATGAAAAAGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 AATGAAAAAGTTGAAAAGGATATTATCCGAAAAGGATAT-A
*
49272526 AATGAGAAAGTTGAAAAGGATATTATCCGAAAAGGATATA
1 AATGAAAAAGTTGAAAAGGATATTATCCGAAAAGGATATA
*
49272566 AATG-AAAAGATCGAAAAGGATA
1 AATGAAAAAG-TTGAAAAGGATA
49272588 GCAATGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.07
40 16 0.28
41 37 0.65
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.20
Consensus pattern (40 bp):
AATGAAAAAGTTGAAAAGGATATTATCCGAAAAGGATATA
Found at i:49272580 original size:24 final size:24
Alignment explanation
Indices: 49272553--49272598 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49272543 GGATATTATC
*
49272553 CGAAAAGGATATAAATGAAAAGAT
1 CGAAAAGGATAGAAATGAAAAGAT
*
49272577 CGAAAAGGATAGCAATGAAAAG
1 CGAAAAGGATAGAAATGAAAAG
49272599 GTTGATAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.24, T:0.13
Consensus pattern (24 bp):
CGAAAAGGATAGAAATGAAAAGAT
Found at i:49279504 original size:45 final size:45
Alignment explanation
Indices: 49279361--49279521 Score: 272
Period size: 46 Copynumber: 3.6 Consensus size: 45
49279351 TTTGAGTACT
49279361 TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
49279406 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
49279452 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
49279497 TCTGATCAGGGAC-AAGTGATAAGTG
1 TCTGATCAGTGACAAAGTGATAAGTG
49279522 ATTATACATA
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.11
44 5 0.04
45 26 0.23
46 70 0.62
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:49280222 original size:73 final size:73
Alignment explanation
Indices: 49280103--49280248 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
49280093 TTGGATACGG
49280103 GTAAGGGGTGTTACAGTAACTCTAATTTTATTGGAGTGTTCCATTGGGCCACCAAGGCTTCAAAT
1 GTAAGGGGTGTTACAGTAACTCTAATTTTATTGGAGTGTTCCATTGGGCCACCAAGGCTTCAAAT
49280168 AGATGAAC
66 AGATGAAC
49280176 GTAAGGGGTGTTACAGTAACTCTAATTTTATTGGAGTGTTCCATTGGGCCACCAAGGCTTCAAAT
1 GTAAGGGGTGTTACAGTAACTCTAATTTTATTGGAGTGTTCCATTGGGCCACCAAGGCTTCAAAT
49280241 AGATGAAC
66 AGATGAAC
49280249 TTCTCAATAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (73 bp):
GTAAGGGGTGTTACAGTAACTCTAATTTTATTGGAGTGTTCCATTGGGCCACCAAGGCTTCAAAT
AGATGAAC
Found at i:49280785 original size:21 final size:19
Alignment explanation
Indices: 49280739--49280794 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
49280729 AATCTTCAAG
*
49280739 GATATTCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49280758 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49280777 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
49280795 AGATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49281065 original size:23 final size:23
Alignment explanation
Indices: 49281021--49281065 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
49281011 TCTTATTTTG
* *
49281021 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
49281044 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
49281066 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:49281435 original size:37 final size:37
Alignment explanation
Indices: 49281359--49281435 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
49281349 CATACATACG
*
49281359 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
49281397 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
49281434 TT
1 TT
49281436 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:49296649 original size:12 final size:11
Alignment explanation
Indices: 49296632--49296664 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
49296622 AACAAATCCT
49296632 CTCTCATATTTC
1 CTCTCA-ATTTC
49296644 CTCTCAA-TTC
1 CTCTCAATTTC
49296654 CTCTCAATTTC
1 CTCTCAATTTC
49296665 TTTCCAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:49296679 original size:22 final size:22
Alignment explanation
Indices: 49296654--49296701 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
49296644 CTCTCAATTC
*
49296654 CTCTCAATTTCTTTCCAAAACT
1 CTCTCAATTTCCTTCCAAAACT
*
49296676 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAACT
49296698 CTCT
1 CTCT
49296702 TAAATCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAACT
Found at i:49296752 original size:22 final size:22
Alignment explanation
Indices: 49296727--49296777 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
49296717 TTTCAATTTC
*
49296727 CTCTCAATTTCCTTCCGAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
49296749 CTCTTAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
49296771 CTCTCAA
1 CTCTCAA
49296778 ATCCATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:49296752 original size:73 final size:73
Alignment explanation
Indices: 49296647--49296813 Score: 273
Period size: 73 Copynumber: 2.3 Consensus size: 73
49296637 ATATTTCCTC
* *
49296647 TCAA-TTCCTCTCAATTTCTTTCCAAAACTCTCTCAATTTCCTTCCAAAATTCTCTTAAATCCAT
1 TCAATTTCCTCTCAATTTCCTTCCAAAACTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
49296711 ATTTAATT
66 ATTTAATT
* * *
49296719 TCAATTTCCTCTCAATTTCCTTCCGAAATTCTCTTAATTTCCTTCCAAAATTCTCTCAAATCCAT
1 TCAATTTCCTCTCAATTTCCTTCCAAAACTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
*
49296784 ATTTGATT
66 ATTTAATT
49296792 TCAATTTCCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
49296814 TTTTAAAATA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 4 0.05
73 84 0.95
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.44
Consensus pattern (73 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAACTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
ATTTAATT
Found at i:49297963 original size:7 final size:7
Alignment explanation
Indices: 49297951--49297976 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49297941 TAGTCAATTG
49297951 GTATTTA
1 GTATTTA
49297958 GTATTTA
1 GTATTTA
49297965 GTATTTA
1 GTATTTA
49297972 GTATT
1 GTATT
49297977 ATTATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:49298646 original size:18 final size:18
Alignment explanation
Indices: 49298623--49298658 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49298613 GCGTTTCCTA
49298623 ACCCTTATATGTACCCTT
1 ACCCTTATATGTACCCTT
*
49298641 ACCCTTATATGTATCCTT
1 ACCCTTATATGTACCCTT
49298659 TTTCGAGTCC
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:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (18 bp):
ACCCTTATATGTACCCTT
Found at i:49299198 original size:29 final size:29
Alignment explanation
Indices: 49299161--49299328 Score: 255
Period size: 29 Copynumber: 5.7 Consensus size: 29
49299151 AGTTTATCCT
* *
49299161 AACCCTAACCCTAACCAAACTTTATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
49299190 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
49299219 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
49299248 AACCCTAACCCTAACCTAATTTAATTAAAA
1 AACCCTAACCCTAACCTAACTTAATT-AAA
49299278 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
49299307 AACCCTAATCCTAACACTAACT
1 AACCCTAACCCTAAC-CTAACT
49299329 CAAGTGATAA
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
29 94 0.73
30 34 0.27
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAACTTAATTAAA
Found at i:49299374 original size:37 final size:37
Alignment explanation
Indices: 49299335--49299629 Score: 554
Period size: 37 Copynumber: 8.0 Consensus size: 37
49299325 AACTCAAGTG
* *
49299335 ATAATTTCACTAACCCTTAATAATTTTATATAATTTG
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299372 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299409 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
* *
49299446 ATAATTTCTCTAACCATTAATAATTTTATATAATTTG
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299483 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299520 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299557 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
49299594 ATAATTTCACTAACCATTAATAATTTTATATAATTT
1 ATAATTTCACTAACCATTAATAATTTTATATAATTT
49299630 GAGTTAATAC
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 252 1.00
ACGTcount: A:0.40, C:0.13, G:0.01, T:0.46
Consensus pattern (37 bp):
ATAATTTCACTAACCATTAATAATTTTATATAATTTC
Found at i:49303970 original size:3 final size:3
Alignment explanation
Indices: 49303962--49304002 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
49303952 AAATTAGTTA
49303962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49304003 CAAAAGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49311091 original size:21 final size:21
Alignment explanation
Indices: 49311041--49311114 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
49311031 CTTGATGCAA
*
49311041 CCACTGCTCCAGTTGAATCTT
1 CCACTGCTCCAATTGAATCTT
49311062 CCA-TGGCTCCAATTGAATCTT
1 CCACT-GCTCCAATTGAATCTT
* *
49311083 CAACTGCTCTAATTG-ATCCTT
1 CCACTGCTCCAATTGAAT-CTT
49311104 CCACTGCTCCA
1 CCACTGCTCCA
49311115 TCCCTTCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.07
21 41 0.91
22 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (21 bp):
CCACTGCTCCAATTGAATCTT
Found at i:49316270 original size:27 final size:31
Alignment explanation
Indices: 49316212--49316271 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
49316202 TATTTAATTA
49316212 TTTATATTTAATAATATAATAATTTATTAAAAT
1 TTTATATTTAATAATATAAT-ATTTA-TAAAAT
49316245 TTTAT-TTTAATAATA-AAT-TTTA-AAAAT
1 TTTATATTTAATAATATAATATTTATAAAAT
49316272 AATATTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 5 0.19
29 4 0.15
31 3 0.11
32 10 0.37
33 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTATATTTAATAATATAATATTTATAAAAT
Found at i:49316771 original size:23 final size:24
Alignment explanation
Indices: 49316722--49316780 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
49316712 ACATGGACTC
49316722 ATGACATATTTTAACCTCATATAAAT
1 ATGA-ATATTTTAA-CTCATATAAAT
* *
49316748 ATGAATATTTTAA-TTATATTAAT
1 ATGAATATTTTAACTCATATAAAT
*
49316771 ATGAGTATTT
1 ATGAATATTT
49316781 GTTTAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.57
25 9 0.30
26 4 0.13
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATGAATATTTTAACTCATATAAAT
Found at i:49325086 original size:9 final size:9
Alignment explanation
Indices: 49325072--49325100 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
49325062 TAAACAATTC
49325072 AATAATATA
1 AATAATATA
49325081 AATAATATA
1 AATAATATA
49325090 AATAATATA
1 AATAATATA
49325099 AA
1 AA
49325101 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:49325581 original size:29 final size:30
Alignment explanation
Indices: 49325521--49325581 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
49325511 GTTGGGGAGG
* * **
49325521 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
49325551 GGAGTAAAAGTTTTGAGGGAAAAGT-AAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
49325580 GG
1 GG
49325582 TTGGGAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:49325729 original size:9 final size:9
Alignment explanation
Indices: 49325712--49325742 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49325702 TCGAGTTGAT
49325712 TCGAATAAC
1 TCGAATAAC
*
49325721 TCGATTAAC
1 TCGAATAAC
49325730 TCGAATAAC
1 TCGAATAAC
49325739 TCGA
1 TCGA
49325743 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49333435 original size:27 final size:27
Alignment explanation
Indices: 49333401--49333461 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
49333391 CTAATTATTT
49333401 TCCCCCAAATTGACATCTGTGCCTTTC
1 TCCCCCAAATTGACATCTGTGCCTTTC
49333428 TCCCCCAAATTGACATCTGTGCCTTTC
1 TCCCCCAAATTGACATCTGTGCCTTTC
49333455 TCCCCCA
1 TCCCCCA
49333462 CCCATCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.18, C:0.41, G:0.10, T:0.31
Consensus pattern (27 bp):
TCCCCCAAATTGACATCTGTGCCTTTC
Found at i:49339422 original size:13 final size:14
Alignment explanation
Indices: 49339404--49339436 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49339394 TACTTTTTAA
49339404 AATTTTTA-AATTT
1 AATTTTTATAATTT
*
49339417 AATTTTTATACTTT
1 AATTTTTATAATTT
49339431 AATTTT
1 AATTTT
49339437 GACATATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
AATTTTTATAATTT
Found at i:49340151 original size:18 final size:20
Alignment explanation
Indices: 49340128--49340165 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
49340118 ATAAAAAATA
49340128 TAATTTTTA-AATTA-ATTT
1 TAATTTTTATAATTAGATTT
49340146 TAATTTTTATAATTAGATTT
1 TAATTTTTATAATTAGATTT
49340166 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TAATTTTTATAATTAGATTT
Found at i:49343787 original size:5 final size:5
Alignment explanation
Indices: 49343772--49343801 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
49343762 ACCTTTTTTA
49343772 AAAACT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAA
49343802 ACAAAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:49346437 original size:16 final size:16
Alignment explanation
Indices: 49346413--49346450 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49346403 TTTGGTTCGC
* *
49346413 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
49346429 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
49346445 TGTAAT
1 TGTAAT
49346451 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:49346705 original size:18 final size:17
Alignment explanation
Indices: 49346684--49346718 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49346674 TTATTATTAA
*
49346684 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49346702 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49346719 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49346811 original size:15 final size:15
Alignment explanation
Indices: 49346783--49346823 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
49346773 ATAAAATATA
49346783 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
49346798 TATTAAATATATTAT
1 AATTAAATATATTAT
49346813 AATTAAA-ATAT
1 AATTAAATATAT
49346824 ACAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:49346945 original size:18 final size:17
Alignment explanation
Indices: 49346924--49346958 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49346914 TTATTATTAA
*
49346924 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49346942 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49346959 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49347076 original size:59 final size:58
Alignment explanation
Indices: 49346880--49347077 Score: 167
Period size: 59 Copynumber: 3.3 Consensus size: 58
49346870 CTCAAATCAT
* *
49346880 AATATATGATACT-ATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGAT-TTAATAAAAGATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
* ** * * *
49346939 AATATATAATTTAAT-AAA-AT--TCTT-AATAATTAATATTCTTATATGAATTTACTCAA
1 AATATATGATTTAATAAAAGATAAT-TTAAATAATTAATATT-AAATAT-ATTTTAATTAA
49346995 ATCATAATAT-ATTATACTATAAAAGATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 A--AT-ATATGATT-TA--ATAAAAGATAATTT-AAATAATTAATATTAAATATATTTTAATTAA
49347059 AATATATGATTTAATAAAA
1 AATATATGATTTAATAAAA
49347078 TTTAAAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
54 11 0.10
55 6 0.06
56 11 0.10
57 2 0.02
58 9 0.08
59 23 0.21
61 8 0.07
62 8 0.07
63 2 0.02
64 11 0.10
65 5 0.05
66 13 0.12
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATTTAATAAAAGATAATTTAAATAATTAATATTAAATATATTTTAATTAA
Found at i:49347090 original size:120 final size:120
Alignment explanation
Indices: 49346662--49347079 Score: 748
Period size: 120 Copynumber: 3.5 Consensus size: 120
49346652 ATTTAATCAT
49346662 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
49346727 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
49346783 AATTAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
49346848 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
49346903 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
49346968 TTAATATTCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
49347023 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
49347080 TAAAATAATT
Statistics
Matches: 286, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 281 0.98
121 5 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Done.