Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 149 of 216
Found at i:47038753 original size:19 final size:20
Alignment explanation
Indices: 47038725--47038783 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
47038715 TAAAAAAATT
*
47038725 ACAATCTTTTACAATTTCTA
1 ACAATATTTTACAATTTCTA
* * *
47038745 ATAAT-TTTTATAATTTCTT
1 ACAATATTTTACAATTTCTA
47038764 ACAATATTTTACAATTTCTA
1 ACAATATTTTACAATTTCTA
47038784 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.51
Consensus pattern (20 bp):
ACAATATTTTACAATTTCTA
Found at i:47038779 original size:20 final size:19
Alignment explanation
Indices: 47038723--47038782 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
47038713 TTTAAAAAAA
47038723 TTACAATCTTTTACAATTTC
1 TTACAAT-TTTTACAATTTC
* * *
47038743 TAATAATTTTTATAATTTC
1 TTACAATTTTTACAATTTC
47038762 TTACAATATTTTACAATTTC
1 TTACAAT-TTTTACAATTTC
47038782 T
1 T
47038783 ATTTTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (19 bp):
TTACAATTTTTACAATTTC
Found at i:47038796 original size:10 final size:10
Alignment explanation
Indices: 47038783--47038818 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
47038773 TACAATTTCT
47038783 ATTTTTTAAA
1 ATTTTTTAAA
47038793 ATTTTTTTAAA
1 A-TTTTTTAAA
*
47038804 ATTTTTAAAA
1 ATTTTTTAAA
47038814 ATTTT
1 ATTTT
47038819 AACATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:47038800 original size:11 final size:11
Alignment explanation
Indices: 47038784--47038818 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47038774 ACAATTTCTA
47038784 TTTTTTAAAAT
1 TTTTTTAAAAT
47038795 TTTTTTAAAA-
1 TTTTTTAAAAT
*
47038805 TTTTTAAAAAT
1 TTTTTTAAAAT
47038816 TTT
1 TTT
47038819 AACATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:47038831 original size:11 final size:9
Alignment explanation
Indices: 47038731--47038875 Score: 66
Period size: 9 Copynumber: 15.6 Consensus size: 9
47038721 AATTACAATC
*
47038731 TTTTACAAT
1 TTTTAAAAT
*
47038740 TTCTAATAAT
1 TTTTAA-AAT
*
47038750 TTTTATAAT
1 TTTTAAAAT
*
47038759 TTCTTACAAT
1 TT-TTAAAAT
*
47038769 ATTTTACAAT
1 -TTTTAAAAT
* *
47038779 TTCT--ATT
1 TTTTAAAAT
47038786 TTTTAAAATTT
1 TTTTAAAA--T
47038797 TTTTAAAAT
1 TTTTAAAAT
*
47038806 TTTTAAAAA
1 TTTTAAAAT
47038815 TTTTAACATAT
1 TTTTAA-A-AT
47038826 TTTT--AAT
1 TTTTAAAAT
47038833 TTTTAAATAGT
1 TTTTAAA-A-T
**
47038844 TTTTGTAAT
1 TTTTAAAAT
*
47038853 TTTT-ATAT
1 TTTTAAAAT
47038861 TTTTAAAGAT
1 TTTTAAA-AT
47038871 TTTTA
1 TTTTA
47038876 GGGTTTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
7 11 0.10
8 7 0.07
9 35 0.33
10 30 0.29
11 22 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:47038836 original size:18 final size:19
Alignment explanation
Indices: 47038815--47038857 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
47038805 TTTTTAAAAA
47038815 TTTTAACATA-TTTT-TAAT
1 TTTTAA-ATAGTTTTGTAAT
47038833 TTTTAAATAGTTTTTGTAAT
1 TTTTAAATAG-TTTTGTAAT
47038853 TTTTA
1 TTTTA
47038858 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 4 0.18
20 9 0.41
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTAAATAGTTTTGTAAT
Found at i:47038847 original size:47 final size:46
Alignment explanation
Indices: 47038744--47038857 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 46
47038734 TACAATTTCT
* *
47038744 AATAATTTTTATAATTTCTTACAATATTTTACAATTTCTATTTTTTA
1 AATAATTTTTATAATTT-TTACAAAATTTTACAATTTCTAATTTTTA
* * *
47038791 AA-ATTTTTTTAAAATTTTTA-AAAATTTTAACATATTTTTAATTTTTA
1 AATA-ATTTTTATAATTTTTACAAAATTTT-ACA-ATTTCTAATTTTTA
* *
47038838 AATAGTTTTTGTAATTTTTA
1 AATAATTTTTATAATTTTTA
47038858 TATTTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
45 7 0.13
46 7 0.13
47 40 0.73
48 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (46 bp):
AATAATTTTTATAATTTTTACAAAATTTTACAATTTCTAATTTTTA
Found at i:47042763 original size:457 final size:452
Alignment explanation
Indices: 47041913--47042824 Score: 1524
Period size: 457 Copynumber: 2.0 Consensus size: 452
47041903 GTTTGATTTT
* *
47041913 TGGCTTAATTTTTATTATATATGAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
1 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
47041978 ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
66 ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
47042043 TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAATATACTTGAGAGTT
131 TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAATATACTTGAGAGTT
* * *
47042108 TTATTTGGATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTGCACAATTCATAATTCATT
196 TTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAATTCATC
* *
47042173 CAGCAACTTCTCTCTTTAAGTTAATAAAATTCTCTTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
261 CAACAACTTCTCTCTTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
47042238 AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
326 AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
* *
47042303 TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCGTTTGGAGGGGGTTATAGG-TTCATC
391 TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTAT-GGATTCATC
* *
47042365 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTTTTATTTCATTATTT
1 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
*
47042430 ATTTATTATGAATTTTGGATATATAT-TTTTAAGTATTTTAAGTTATTTAGGGGTTTTATGTTTC
66 ATTTATTATGAATTTTGGATATAT-TGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTC
* *
47042494 TTAGTCAATAAGAAAGTTTAGTTTAAAACTACTTATTTAGATTAATTAGAGTTTCAGTATACTTG
130 TTAGTCAATAAGAAAGTTTAG-----AACTACTTATTTAGATTAACTAGAGTTTCAATATACTTG
* * *
47042559 AGAGTTTTATTTGAATGTACTTAGCTATCTTATATAAAGGTTTTTTCATTGTACACAATTCATAA
190 AGAGTTTTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAA
*
47042624 TTCATCCAACAACTTCTCTCTTTTAATTTAATAAAATTCTATTTAAG-TTTTTCTCTTCAAGAAT
255 TTCATCCAACAACTTCTCTC-TTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAAT
* *
47042688 TTCTCTTGAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAG
319 TCCTCTTAAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAG
* * *
47042753 CTTTTTATTGCCAAGTTTTCTTTCTTGGAGGAGAAATTAGAGTCATTTGGAGGGAGTTATGGATT
384 CTTCTTATTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTATGGATT
47042818 CATC
449 CATC
47042822 TGG
1 TGG
47042825 TTTCCAAGGC
Statistics
Matches: 429, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
452 143 0.33
453 1 0.00
456 2 0.00
457 259 0.60
458 24 0.06
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (452 bp):
TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAATATACTTGAGAGTT
TTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAATTCATC
CAACAACTTCTCTCTTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTATGGATTCATC
Found at i:47047386 original size:19 final size:20
Alignment explanation
Indices: 47047364--47047412 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
47047354 TTATAACGTA
*
47047364 ACCAAAATCTT-TAA-CAGAT
1 ACCAAAAT-TTGTAACCAAAT
47047383 ACCAAAATTTGTAACCAAAT
1 ACCAAAATTTGTAACCAAAT
47047403 ACCAAAATTT
1 ACCAAAATTT
47047413 CTAATGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 14 0.52
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (20 bp):
ACCAAAATTTGTAACCAAAT
Found at i:47050712 original size:16 final size:16
Alignment explanation
Indices: 47050672--47050715 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
47050662 ATTATTAAAT
47050672 TTAATTTAATA-TTTA
1 TTAATTTAATATTTTA
*
47050687 TCT-ATATAATATTTTA
1 T-TAATTTAATATTTTA
47050703 TTAATTTAATATT
1 TTAATTTAATATT
47050716 AATGTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTAATATTTTA
Found at i:47064116 original size:28 final size:27
Alignment explanation
Indices: 47064066--47064119 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 27
47064056 ATTTCATCAA
47064066 ATATATATAATTTTAAATGTTTAGAAAT
1 ATATATATAATTTTAAA-GTTTAGAAAT
47064094 ATATATATTAATTTTAGAA-TTTAGAA
1 ATATATA-TAATTTTA-AAGTTTAGAA
47064120 TTTTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 14 0.58
29 8 0.33
30 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
ATATATATAATTTTAAAGTTTAGAAAT
Found at i:47064232 original size:17 final size:19
Alignment explanation
Indices: 47064192--47064232 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
47064182 TAAATTATAT
47064192 ATTTTAGAATTTTATTTTA
1 ATTTTAGAATTTTATTTTA
*
47064211 TTTTTA-AATTTT-TTTTA
1 ATTTTAGAATTTTATTTTA
47064228 ATTTT
1 ATTTT
47064233 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTAGAATTTTATTTTA
Found at i:47064233 original size:18 final size:19
Alignment explanation
Indices: 47064171--47064233 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
47064161 ATATTTTGAT
*
47064171 TTTTTA-AATTTTAAATTATA
1 TTTTTAGAATTTT--ATTTTA
47064191 TATTTTAGAATTTTATTTTA
1 T-TTTTAGAATTTTATTTTA
47064211 TTTTTA-AATTTT-TTTTAA
1 TTTTTAGAATTTTATTTT-A
47064229 TTTTT
1 TTTTT
47064234 TTGAATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 4 0.10
18 12 0.31
19 5 0.13
20 7 0.18
21 5 0.13
22 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTAGAATTTTATTTTA
Found at i:47065424 original size:11 final size:10
Alignment explanation
Indices: 47065384--47065455 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
47065374 TTTTCTATTA
47065384 AATATAATTT
1 AATATAATTT
**
47065394 AATA-AAAAT
1 AATATAATTT
47065403 AATAAATAATTT
1 AAT--ATAATTT
47065415 AATCATAATTT
1 AAT-ATAATTT
47065426 AATATAA-TT
1 AATATAATTT
47065435 -AT-T-ATTT
1 AATATAATTT
47065442 AATATAATTT
1 AATATAATTT
47065452 AATA
1 AATA
47065456 AAAATAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
6 1 0.02
7 3 0.06
8 4 0.08
9 9 0.18
10 16 0.32
11 11 0.22
12 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATAATTT
Found at i:47065428 original size:16 final size:16
Alignment explanation
Indices: 47065387--47065449 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
47065377 TCTATTAAAT
* *
47065387 ATAATTTAATAAAAATA
1 ATAATTTAAT-ATAATC
* *
47065404 ATAA-ATAATTTAATC
1 ATAATTTAATATAATC
*
47065419 ATAATTTAATATAATT
1 ATAATTTAATATAATC
*
47065435 ATTATTTAATATAAT
1 ATAATTTAATATAAT
47065450 TTAATAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 7 0.19
16 26 0.70
17 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAATATAATC
Found at i:47065429 original size:26 final size:25
Alignment explanation
Indices: 47065400--47065462 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
47065390 ATTTAATAAA
47065400 AATAATAAATAATTTAATCATAATTT
1 AATAATAAATAATTTAAT-ATAATTT
*
47065426 AAT-ATAATTATTATTTAATATAATTT
1 AATAATAA--ATAATTTAATATAATTT
47065452 AATAA-AAATAA
1 AATAATAAATAA
47065463 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 15 0.47
27 10 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAATAAATAATTTAATATAATTT
Found at i:47065432 original size:21 final size:20
Alignment explanation
Indices: 47065384--47065455 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
47065374 TTTTCTATTA
**
47065384 AATATAATTTAATA-AAAAT
1 AATATAATTTAATATAATTT
47065403 AATAAATAATTTAATCATAATTT
1 AAT--ATAATTTAAT-ATAATTT
47065426 AATATAA-TT-AT-T-ATTT
1 AATATAATTTAATATAATTT
47065442 AATATAATTTAATA
1 AATATAATTTAATA
47065456 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
16 11 0.25
17 3 0.07
18 2 0.05
19 5 0.11
20 2 0.05
21 14 0.32
22 1 0.02
23 6 0.14
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATAATTTAATATAATTT
Found at i:47065449 original size:58 final size:56
Alignment explanation
Indices: 47065379--47065497 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 56
47065369 GAATTTTTTC
* * *
47065379 TATTAAATATAATTTAATAAAAATAATAAATAATTTAATCATAAT-TTAATATAATTAT
1 TATTTAATATAATTTAATAAAAAT-A-AAA-AATTTAATAACAATCTTAATATAATTAT
*
47065437 TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACATTCTTAATATAATTAT
1 TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACAATCTTAATATAATTAT
47065493 T-TTTA
1 TATTTA
47065498 TTAAATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
55 15 0.27
56 17 0.30
57 1 0.02
58 23 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (56 bp):
TATTTAATATAATTTAATAAAAATAAAAAATTTAATAACAATCTTAATATAATTAT
Found at i:47066475 original size:44 final size:46
Alignment explanation
Indices: 47066381--47066476 Score: 117
Period size: 44 Copynumber: 2.1 Consensus size: 46
47066371 ATAAGACTAT
* * *
47066381 AATAAAATAGAGTTGTAATCAGTAATTCAATTGTTTGGTTGAATAA
1 AATAAAATAGAATTGTAATCAATAATTCAATTGTTTGATTGAATAA
* *
47066427 AATAAAATAGAATTGTAAT-AAT-ATTC-TTGTGTTTGATTGAATAG
1 AATAAAATAGAATTGTAATCAATAATTCAAT-TGTTTGATTGAATAA
47066471 AATAAA
1 AATAAA
47066477 TGTTGTAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 2 0.05
46 18 0.41
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.38
Consensus pattern (46 bp):
AATAAAATAGAATTGTAATCAATAATTCAATTGTTTGATTGAATAA
Found at i:47066552 original size:16 final size:16
Alignment explanation
Indices: 47066528--47066568 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
47066518 ACCTCAGAAA
*
47066528 TAATTTAATCATAATT
1 TAATATAATCATAATT
* *
47066544 TAATATAATTATTATT
1 TAATATAATCATAATT
47066560 TAATATAAT
1 TAATATAAT
47066569 AATTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATATAATCATAATT
Found at i:47066577 original size:16 final size:16
Alignment explanation
Indices: 47066541--47066580 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47066531 TTTAATCATA
*
47066541 ATTTAATATAATTATT
1 ATTTAATATAATAATT
47066557 ATTTAATATAATAATT
1 ATTTAATATAATAATT
*
47066573 TTTTAATA
1 ATTTAATA
47066581 AAAATAAAAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATATAATAATT
Found at i:47075548 original size:117 final size:114
Alignment explanation
Indices: 47075299--47075617 Score: 385
Period size: 117 Copynumber: 2.8 Consensus size: 114
47075289 TGTGTGTGTA
* * * * * * *
47075299 TTTTATTAAGTTTAAGTTTGTATTAAAAGTATGATTTGTTTGTTTTATTATTGTTTTTATGATAC
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
* *
47075364 CTTATATCA-GTTTTATGTATTTAA-GACAAATAAATTTTTTTATTGTG
66 CTTATATCAGGTTTTTTGTATTTAAGGACAAAGAAATTTTTTTATTGTG
* * * *
47075411 TTTTATTAGCTTTAAGTTTGTATTAACGGCATGATTAGTTTGTTTTGTTAATGTTTTTGTGGTAT
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
** * *
47075476 CTTATATCAGGTTTTTTTGTATTTAAGGGGAAGGACATTTTTTT-TGGCTGTG
66 CTTATATCAGG-TTTTTTGTATTTAAGGACAAAGAAATTTTTTTAT---TGTG
* * **
47075528 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGCTTAATTTGTTTTATTAATGTTTTTGAAGTAT
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
47075593 CTTATATC-GGTTTTTTGTATTTAAG
66 CTTATATCAGGTTTTTTGTATTTAAG
47075618 ATATGAACAT
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
112 63 0.36
113 1 0.01
114 14 0.08
115 27 0.15
116 2 0.01
117 69 0.39
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (114 bp):
TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
CTTATATCAGGTTTTTTGTATTTAAGGACAAAGAAATTTTTTTATTGTG
Found at i:47076508 original size:16 final size:17
Alignment explanation
Indices: 47076483--47076523 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
47076473 AAATAAATAA
47076483 TTTTAAAT-AAT-TTAT
1 TTTTAAATAAATATTAT
47076498 TTTTAATATAAATATTAT
1 TTTTAA-ATAAATATTAT
*
47076516 TTTAAAAT
1 TTTTAAAT
47076524 TTTTTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 2 0.09
17 5 0.23
18 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATAAATATTAT
Found at i:47078994 original size:14 final size:14
Alignment explanation
Indices: 47078975--47079002 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47078965 CCAATTTAGT
47078975 AATGAAATATTAAA
1 AATGAAATATTAAA
47078989 AATGAAATATTAAA
1 AATGAAATATTAAA
47079003 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:47080154 original size:18 final size:17
Alignment explanation
Indices: 47080103--47080156 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
47080093 CTTATGTTAA
47080103 TTTCAAATCGTGTCATTCG
1 TTTCAAATCGT-T-ATTCG
* *
47080122 TTTCAAAAACATTATTCG
1 TTTC-AAATCGTTATTCG
47080140 TTTACAAATCGTTATTC
1 TTT-CAAATCGTTATTC
47080157 AATTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 18 0.62
19 6 0.21
20 5 0.17
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (17 bp):
TTTCAAATCGTTATTCG
Found at i:47085625 original size:18 final size:18
Alignment explanation
Indices: 47085594--47085642 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
47085584 GTATCGTTCG
*
47085594 TTTCTAAATTATTATTC-A
1 TTTC-AAATCATTATTCAA
47085612 TTTACAAATCATTATTCAA
1 TTT-CAAATCATTATTCAA
*
47085631 TTTCAAAACATT
1 TTTCAAATCATT
47085643 TTTTTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAAATCATTATTCAA
Found at i:47097039 original size:25 final size:25
Alignment explanation
Indices: 47097005--47097064 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
47096995 CAGTGGTGTA
*
47097005 GTGGCAAGGTGGT-G-A-CACAGGT
1 GTGGCAAGGAGGTGGCATCACAGGT
47097027 GTGGCAAGGAGGTGGCATCACAGGT
1 GTGGCAAGGAGGTGGCATCACAGGT
*
47097052 GTGGTAAGGAGGT
1 GTGGCAAGGAGGT
47097065 CAAAGGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 1 0.03
25 19 0.58
ACGTcount: A:0.23, C:0.12, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCAAGGAGGTGGCATCACAGGT
Found at i:47101211 original size:47 final size:47
Alignment explanation
Indices: 47101160--47101545 Score: 508
Period size: 47 Copynumber: 8.1 Consensus size: 47
47101150 TTAGGATTTT
* *
47101160 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
47101207 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
47101258 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
47101304 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
47101356 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
47101403 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG-ATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
47101449 ATGTGATGAATGTGAACATGCATTTATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
47101496 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
47101543 ATG
1 ATG
47101546 CGAAACGTGT
Statistics
Matches: 302, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
46 73 0.24
47 143 0.47
49 2 0.01
51 53 0.18
52 31 0.10
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:47101271 original size:98 final size:97
Alignment explanation
Indices: 47101160--47101545 Score: 556
Period size: 98 Copynumber: 4.0 Consensus size: 97
47101150 TTAGGATTTT
*
47101160 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
47101225 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCA
47101258 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
47101322 TGTATATATATATGCGTGATAAGG-CGAATGGCCA
66 CG---ATATATATGTGTGATAAGGCCGAATGGCCA
47101356 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
47101419 C-ATGCGTATGTGTGATAAGGCCG-ATGGCCA
66 CGATATATATGTGTGATAAGGCCGAATGGCCA
* * * * *
47101449 ATGTGATGAATGTGAACATGCATTTATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
47101514 TGA-ATATATGTG-G-TAAGGCCGAATGGCTA
66 CGATATATATGTGTGATAAGGCCGAATGGCCA
47101543 ATG
1 ATG
47101546 CGAAACGTGT
Statistics
Matches: 263, Mismatches: 17, Indels: 20
0.88 0.06 0.07
Matches are distributed among these distances:
93 89 0.34
94 12 0.05
95 6 0.02
96 1 0.00
97 19 0.07
98 101 0.38
99 35 0.13
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (97 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:47101307 original size:23 final size:23
Alignment explanation
Indices: 47101234--47101308 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
47101224 CCGTATATAT
47101234 ATGTGTGATAAGGCCGAATGGCC
1 ATGTGTGATAAGGCCGAATGGCC
* * * *
47101257 A-ATGTGATGAATG-TGAACAT-GCGT
1 ATGTGTGAT-AAGGCCG-A-ATGGC-C
47101281 ATGTGTGATAAGGCCGAATGGCC
1 ATGTGTGATAAGGCCGAATGGCC
47101304 ATGTG
1 ATGTG
47101309 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 7 0.19
23 14 0.38
24 9 0.24
25 7 0.19
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.25
Consensus pattern (23 bp):
ATGTGTGATAAGGCCGAATGGCC
Found at i:47101399 original size:145 final size:141
Alignment explanation
Indices: 47101160--47101545 Score: 532
Period size: 145 Copynumber: 2.7 Consensus size: 141
47101150 TTAGGATTTT
* *
47101160 ATGTGATGGATGTGAACATGC--GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAACATGCATTTATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
47101223 CCCGTAT-ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
65 --C--ATGA-ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
47101287 GATAAGGCCGAATGGCC-
125 GATAAGGCCG-ATGGCCA
* *
47101304 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGG-CGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAACATG--CAT-T-TATG-GTGATAAGGCCGAATGGCCAATGTGATGAATG
**
47101368 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
61 TGAACATGAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
47101433 ATAAGGCCGATGGCCA
126 ATAAGGCCGATGGCCA
*
47101449 ATGTGATGAATGTGAACATGCATTTAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATTTATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
47101513 ATGAATATATGTGGTAAGGCCGAATGGCTAATG
66 ATGAATATGTGTGATAAGGCCGAATGGCCAATG
47101546 CGAAACGTGT
Statistics
Matches: 218, Mismatches: 15, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
139 8 0.04
140 55 0.25
141 3 0.01
142 1 0.00
143 2 0.01
144 24 0.11
145 85 0.39
147 1 0.00
149 26 0.12
150 13 0.06
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATTTATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAG
GCCGATGGCCA
Found at i:47101585 original size:93 final size:91
Alignment explanation
Indices: 47101171--47101594 Score: 289
Period size: 93 Copynumber: 4.5 Consensus size: 91
47101161 TGTGATGGAT
* * * * * **
47101171 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATAT
1 GTGAACATGCAT-TATGAGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATG-A-ATATA-
* *
47101236 GTGTGATAAGGCCGAATGGCCAATGTGATGAAT
62 -TGTGATAAGGCCG-ATGGCCAATGCGA-GAAC
* * * * * *
47101269 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCAT-TATGAGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATG---A-ATAT
* *
47101333 ATGCGTGATAAGG-CGAATGGCCAATGTGATGAAT
61 AT--GTGATAAGGCCG-ATGGCCAATGCGA-GAAC
* * * * * ** *
47101367 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
1 GTGAACATGCAT-TATGAGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGAATATATGT
* *
47101432 GATAAGGCCGATGGCCAATGTGATGAAT
65 GATAAGGCCGATGGCCAATGCGA-GAAC
* *
47101460 GTGAACATGCATTTATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGT
1 GTGAACATGCA-TTATGAGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGAATATATGT
* *
47101525 GGTAAGGCCGAATGGCTAATGCGA-AAC
65 GATAAGGCCG-ATGGCCAATGCGAGAAC
* * * * *
47101552 GTGTATGAGATGGA-TATGTGGTAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCATTATGAGATAAAGCCAAATGGCCAATGTGA
47101595 GATATGTACG
Statistics
Matches: 293, Mismatches: 22, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
92 5 0.02
93 118 0.40
94 14 0.05
95 9 0.03
97 20 0.07
98 91 0.31
99 36 0.12
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (91 bp):
GTGAACATGCATTATGAGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGAATATATGTG
ATAAGGCCGATGGCCAATGCGAGAAC
Found at i:47101608 original size:46 final size:46
Alignment explanation
Indices: 47101519--47101609 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
47101509 GAACATGAAT
* * * *
47101519 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
47101565 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
47101610 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:47101810 original size:37 final size:36
Alignment explanation
Indices: 47101755--47101895 Score: 219
Period size: 37 Copynumber: 3.9 Consensus size: 36
47101745 GAAATATATT
47101755 CGGGTAAGACCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCGATGACTACGTGTGGAGATTATGTC
*
47101791 TGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGA-CCGATGACTACGTGTGGAGATTATGTC
*
47101828 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGA-CCGATGACTACGTGTGGAGATTATGTC
* * *
47101865 CGGGTAAGACCGATAACTTCATGTGGAGATT
1 CGGGTAAGACCGATGACTACGTGTGGAGATT
47101896 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 27 0.28
37 71 0.72
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (36 bp):
CGGGTAAGACCGATGACTACGTGTGGAGATTATGTC
Found at i:47103279 original size:40 final size:40
Alignment explanation
Indices: 47103159--47103508 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
47103149 GAGAATTGAG
47103159 AGTGATATATCCGGGCTAAGTCCCGA-GAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
47103198 AGTGATGTATCCGGGCTAAGTCCCGA-GAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
47103237 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
47103277 AGTG-TAATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGAT-ATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
47103317 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
47103357 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
47103397 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
47103437 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
47103477 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
47103509 ATCATGCTGG
Statistics
Matches: 292, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 64 0.22
40 227 0.78
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:47103789 original size:58 final size:57
Alignment explanation
Indices: 47103720--47103828 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
47103710 CGAATGATTA
* *
47103720 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
47103778 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
47103829 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:47107608 original size:47 final size:47
Alignment explanation
Indices: 47107557--47107944 Score: 528
Period size: 47 Copynumber: 8.1 Consensus size: 47
47107547 TTAGGATTTT
* *
47107557 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
47107604 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
47107655 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
47107702 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
47107755 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
47107802 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
47107848 ATATGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
47107895 ATGTGATGAATGTGAACATGAATATAGTGTG-TAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATAT-GTGTGATAAGGCCGAATGGCCA
47107942 ATG
1 ATG
47107945 CGAAACGTGT
Statistics
Matches: 305, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
46 42 0.14
47 171 0.56
48 4 0.01
49 2 0.01
51 43 0.14
52 1 0.00
53 42 0.14
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:47107659 original size:24 final size:24
Alignment explanation
Indices: 47107631--47107706 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
47107621 CCGTATATAT
47107631 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
47107655 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
47107678 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
47107702 ATGTG
1 ATGTG
47107707 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:47107782 original size:23 final size:23
Alignment explanation
Indices: 47107755--47107829 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
47107745 CGAATGGCCA
47107755 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
47107778 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
47107802 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
47107825 ATGTG
1 ATGTG
47107830 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:47107790 original size:100 final size:98
Alignment explanation
Indices: 47107557--47107944 Score: 587
Period size: 100 Copynumber: 4.0 Consensus size: 98
47107547 TTAGGATTTT
*
47107557 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
47107622 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
47107655 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
47107720 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 TG--TATATATATGTGTGATAAGGCCGAATGGCCA
47107755 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
47107819 ---ATGCGTATGTGTGATAAGGCCGAATGGCC-
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
* * * * *
47107848 ATATGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
47107913 TG-A-ATATA-GTGTG-TAAGGCCGAATGGCTA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
47107942 ATG
1 ATG
47107945 CGAAACGTGT
Statistics
Matches: 267, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
93 73 0.27
94 32 0.12
95 2 0.01
96 1 0.00
98 65 0.24
99 1 0.00
100 93 0.35
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:47107806 original size:147 final size:141
Alignment explanation
Indices: 47107560--47107944 Score: 535
Period size: 147 Copynumber: 2.7 Consensus size: 141
47107550 GGATTTTATG
* * * *
47107560 TGATGGATGTGAACATGCGTATGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG
1 TGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C-
47107624 TAT-ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
63 -ATGA-ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
*
47107688 AGGCCGAATGGCCAATG
126 AGGCCGAATGGCC-ATA
*
47107705 TGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 TGATGAATGTGAA-C---ATACATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
**
47107770 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
61 ACATGAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
47107835 AGGCCGAATGGCCATA
126 AGGCCGAATGGCCATA
* *
47107851 TGATGAATGTGAACATGCATATAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
*
47107915 AATATAGTGTG-TAAGGCCGAATGGCTAATG
66 AATAT-GTGTGATAAGGCCGAATGGCCAATG
47107945 CGAAACGTGT
Statistics
Matches: 218, Mismatches: 14, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
140 60 0.28
141 5 0.02
142 8 0.04
145 13 0.06
146 16 0.07
147 73 0.33
149 7 0.03
151 36 0.17
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (141 bp):
TGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
AATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCC
GAATGGCCATA
Found at i:47108007 original size:46 final size:48
Alignment explanation
Indices: 47107916--47108014 Score: 112
Period size: 46 Copynumber: 2.1 Consensus size: 48
47107906 GTGAACATGA
* * * *
47107916 ATATAGTGTGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATAGTGTGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * * *
47107964 ATAT-GTG-GTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATGT
1 ATATAGTGTGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
47108010 ATATA
1 ATATA
47108015 TATATATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
46 35 0.83
47 3 0.07
48 4 0.10
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (48 bp):
ATATAGTGTGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:47108245 original size:73 final size:73
Alignment explanation
Indices: 47108158--47108297 Score: 244
Period size: 73 Copynumber: 1.9 Consensus size: 73
47108148 ATATATTCCG
* *
47108158 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGGAGA
47108223 TTATGTCC
66 TTATGTCC
* *
47108231 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCATGTGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGGAGA
47108296 TT
66 TT
47108298 TCGTCTGAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (73 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGGAGA
TTATGTCC
Found at i:47108298 original size:37 final size:37
Alignment explanation
Indices: 47108154--47108297 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
47108144 GGAAATATAT
47108154 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
47108191 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47108228 TCC-GGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
47108264 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
47108298 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 35 0.34
37 67 0.66
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47110622 original size:65 final size:60
Alignment explanation
Indices: 47110550--47110694 Score: 146
Period size: 65 Copynumber: 2.3 Consensus size: 60
47110540 TATATTCAAG
* * *
47110550 TTCTTGAGTTGAATTTAATATATAAATTTCTTATACGTATGTGGTTCAAACATAGATTGCAAAA
1 TTCTTGAGCTGAATTTAATATATAAATTT-ATATA--TATGTGGTTCAAACATAGATTAC-AAA
* * * * * * *
47110614 TCTCTTGAGCCGAATTTGATGTATACATTTATATATATGTGGTTCGAATATAGGTTACAAA
1 T-TCTTGAGCTGAATTTAATATATAAATTTATATATATGTGGTTCAAACATAGATTACAAA
47110675 TTCATTGAGCTGAATTTAAT
1 TTC-TTGAGCTGAATTTAAT
47110695 GTTTTGAACT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
60 2 0.03
61 18 0.27
62 19 0.28
64 5 0.07
65 23 0.34
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (60 bp):
TTCTTGAGCTGAATTTAATATATAAATTTATATATATGTGGTTCAAACATAGATTACAAA
Found at i:47110713 original size:61 final size:61
Alignment explanation
Indices: 47110643--47110773 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
47110633 TGTATACATT
* * * * *
47110643 TATATATATGTGGTTCGAATATAGGT-TACAAATTCATTGAGCTGAATTTAATGTTTTGAAC
1 TATATATATGAGGTTCGAATATA-ATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
* * * * *
47110704 TATACATATGAGGTTCGAATGTAATATACAAGTTCTTTGAGCTAAACTTAATGTTATGAAT
1 TATATATATGAGGTTCGAATATAATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
47110765 TATATATAT
1 TATATATAT
47110774 TTTTTTCATG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (61 bp):
TATATATATGAGGTTCGAATATAATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
Found at i:47110931 original size:25 final size:25
Alignment explanation
Indices: 47110890--47110942 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
47110880 CTGTACTTAG
47110890 CAGGCTTAACGCCAGTGAAATAATT
1 CAGGCTTAACGCCAGTGAAATAATT
* *
47110915 CAGGCTTAATGCTAGTGAAATAATT
1 CAGGCTTAACGCCAGTGAAATAATT
47110940 CAG
1 CAG
47110943 ACTTTACGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (25 bp):
CAGGCTTAACGCCAGTGAAATAATT
Found at i:47110960 original size:41 final size:41
Alignment explanation
Indices: 47110915--47111047 Score: 221
Period size: 41 Copynumber: 3.2 Consensus size: 41
47110905 TGAAATAATT
*
47110915 CAGGCTTAATGCTAGTGAAATAATTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
*
47110956 CAGGCTTAATGCCAGTGAAATAATTCAAACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
* *
47110997 CAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
*
47111038 TAGGCTTAAT
1 CAGGCTTAAT
47111048 ACCGGTGTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (41 bp):
CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
Found at i:47113972 original size:11 final size:11
Alignment explanation
Indices: 47113958--47113982 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47113948 TATATATAAG
47113958 TAATTTAATGA
1 TAATTTAATGA
47113969 TAATTTAATGA
1 TAATTTAATGA
47113980 TAA
1 TAA
47113983 AAGTGGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TAATTTAATGA
Found at i:47117705 original size:64 final size:64
Alignment explanation
Indices: 47117604--47117734 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
47117594 TAAAATTGTC
*
47117604 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATGAAGTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
* *
47117668 TTAACAATAAAATTTAGGAGAAATATAGAAATATTAATATAAAATAAATTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
47117732 TTA
1 TTA
47117735 GAATAGGAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (64 bp):
TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
Found at i:47117710 original size:32 final size:32
Alignment explanation
Indices: 47117610--47117712 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
47117600 TGTCTTAACA
*
47117610 ATAAAATTTAGGAGAAACATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
** **** ** *
47117642 ATAAAATGAAGTTTTAATCAT-TTAAT-TTAACA
1 ATAAAATTTAGGAGAAAT-ATAGAAATATTAA-T
47117674 ATAAAATTTAGGAGAAATATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
47117706 ATAAAAT
1 ATAAAAT
47117713 AAATTTTTAA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 6 0.12
32 36 0.75
33 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (32 bp):
ATAAAATTTAGGAGAAATATAGAAATATTAAT
Found at i:47117859 original size:20 final size:20
Alignment explanation
Indices: 47117834--47117906 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
47117824 TCAAAAGTTT
47117834 ATAATTTTCTTAATATATAA
1 ATAATTTTCTTAATATATAA
* * * *
47117854 ATAATTTACCCTGATAGTAAAA
1 ATAATTT-TCTTAATA-TATAA
47117876 TTTTATAATTTTCTTAATATATAA
1 ----ATAATTTTCTTAATATATAA
47117900 ATAATTT
1 ATAATTT
47117907 ATCCTAATAG
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 14 0.36
21 5 0.13
22 4 0.10
24 4 0.10
25 5 0.13
26 7 0.18
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (20 bp):
ATAATTTTCTTAATATATAA
Found at i:47117898 original size:46 final size:46
Alignment explanation
Indices: 47117826--47117932 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
47117816 TCAAAATTTC
* *
47117826 AAAAGTTTATAATTTTCTTAATATATAAATAATTTACCCTGATAGT
1 AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
*
47117872 AAAATTTTATAATTTTCTTAATATATAAATAATTTATCCTAATAGT
1 AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
* *
47117918 AAACTTTTAAAATTT
1 AAAATTTTATAATTT
47117933 ATACAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (46 bp):
AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
Found at i:47119766 original size:3 final size:3
Alignment explanation
Indices: 47119752--47119815 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
47119742 TGTTTAACAC
47119752 ATT ATAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47119798 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
47119816 GAACATCTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47128317 original size:21 final size:21
Alignment explanation
Indices: 47128293--47128349 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
47128283 CGATGAATTT
*
47128293 AAAATAAATAATATATACATG
1 AAAATAAATAATATATACATA
* ***
47128314 AAAATTAA-AA-ATATGGTTA
1 AAAATAAATAATATATACATA
47128333 AAAATAAATAATATATA
1 AAAATAAATAATATATA
47128350 AAATAATAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 12 0.44
20 4 0.15
21 11 0.41
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAATAAATAATATATACATA
Found at i:47130110 original size:7 final size:7
Alignment explanation
Indices: 47130093--47130180 Score: 104
Period size: 7 Copynumber: 12.6 Consensus size: 7
47130083 TTCCTTCCCA
*
47130093 AATTCTC
1 AATTTTC
*
47130100 AATCTTC
1 AATTTTC
*
47130107 AATCTTC
1 AATTTTC
* *
47130114 AATCTCC
1 AATTTTC
*
47130121 AATTTCC
1 AATTTTC
47130128 AATTTTC
1 AATTTTC
*
47130135 TATTTTC
1 AATTTTC
*
47130142 AATCTTC
1 AATTTTC
47130149 AATTTTC
1 AATTTTC
47130156 AATTTTC
1 AATTTTC
47130163 AATTTTC
1 AATTTTC
47130170 AATTTTC
1 AATTTTC
47130177 AATT
1 AATT
47130181 CTAAATCCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 72 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (7 bp):
AATTTTC
Found at i:47157950 original size:7 final size:7
Alignment explanation
Indices: 47157937--47157974 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
47157927 TTTGGTTGTA
47157937 ATTGGAC
1 ATTGGAC
*
47157944 TTTGGAC
1 ATTGGAC
47157951 ATTGGAC
1 ATTGGAC
47157958 ATTGGAC
1 ATTGGAC
47157965 ATTGGAC
1 ATTGGAC
47157972 ATT
1 ATT
47157975 TTATTTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (7 bp):
ATTGGAC
Found at i:47160679 original size:45 final size:44
Alignment explanation
Indices: 47160630--47160740 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 44
47160620 AAACCATAAT
* * * *
47160630 TGAAAGACACTATGGCATCATGACGGAAGT-GAGTAAGACCATGGC
1 TGAAAGACGCTATGGCATCATG--GGAAATAGACTAAGACCATAGC
* *
47160675 TGAAAGATGCTATGGCATCATGGTAAATAGGACTAAGACCATAGC
1 TGAAAGACGCTATGGCATCATGGGAAATA-GACTAAGACCATAGC
*
47160720 TGAAAGACGTTATGGCATCAT
1 TGAAAGACGCTATGGCATCAT
47160741 TTCATAGTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 4 0.07
45 52 0.93
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (44 bp):
TGAAAGACGCTATGGCATCATGGGAAATAGACTAAGACCATAGC
Found at i:47163540 original size:5 final size:5
Alignment explanation
Indices: 47163530--47163562 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
47163520 AAAAGAGGGA
47163530 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47163563 TAGGATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:47169367 original size:23 final size:23
Alignment explanation
Indices: 47169341--47169399 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
47169331 CCATACCTTT
47169341 GACAGTCACACGGCCACACCCTC
1 GACAGTCACACGGCCACACCCTC
* *
47169364 GACAGTCACACGACTACACCCTC
1 GACAGTCACACGGCCACACCCTC
* *
47169387 GATAGTTACACGG
1 GACAGTCACACGG
47169400 TCAGCCACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.39, G:0.19, T:0.14
Consensus pattern (23 bp):
GACAGTCACACGGCCACACCCTC
Found at i:47173190 original size:29 final size:30
Alignment explanation
Indices: 47173138--47173203 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
47173128 TAGGCTTGGC
47173138 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
1 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
*
47173168 CTTAGCATT-TCCTTAGGCTTTGCCTTAGA
1 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
47173197 CTTAACA
1 CTTAACA
47173204 ATTCATAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (30 bp):
CTTAACATTGTCCTTAGGCTTTGCCTTAGA
Found at i:47174763 original size:16 final size:17
Alignment explanation
Indices: 47174730--47174763 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47174720 TCGGGCTATA
*
47174730 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
47174747 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
47174763 A
1 A
47174764 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:47179104 original size:18 final size:17
Alignment explanation
Indices: 47179082--47179121 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
47179072 AAAAATTAGA
*
47179082 TAAATGATATACTTTAT
1 TAAATGATACACTTTAT
*
47179099 TCAAATTATACACTTTAT
1 T-AAATGATACACTTTAT
47179117 TAAAT
1 TAAAT
47179122 ATAATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATGATACACTTTAT
Found at i:47179250 original size:27 final size:27
Alignment explanation
Indices: 47179199--47179287 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
47179189 TTTTAATATG
*
47179199 AAAA-AAATTGTAAATTAAAAT-AGAAAA
1 AAAATAAATTG-AAA-TGAAATGAGAAAA
47179226 AAAGAT-AATTGAAATGACAA-GAGAAAA
1 AAA-ATAAATTGAAATGA-AATGAGAAAA
* *
47179253 AAATTAAATTTAAATGAAATGAGAAAA
1 AAAATAAATTGAAATGAAATGAGAAAA
*
47179280 AAATTAAA
1 AAAATAAA
47179288 ATGGAAAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
26 5 0.09
27 42 0.79
28 6 0.11
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.21
Consensus pattern (27 bp):
AAAATAAATTGAAATGAAATGAGAAAA
Found at i:47179252 original size:26 final size:27
Alignment explanation
Indices: 47179216--47179287 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
47179206 TTGTAAATTA
*
47179216 AAAT-AGAAAAAAA-GATAATTGAAATG
1 AAATGAGAAAAAAATTA-AATTGAAATG
*
47179242 ACAA-GAGAAAAAAATTAAATTTAAATG
1 A-AATGAGAAAAAAATTAAATTGAAATG
47179269 AAATGAGAAAAAAATTAAA
1 AAATGAGAAAAAAATTAAA
47179288 ATGGAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.12, T:0.19
Consensus pattern (27 bp):
AAATGAGAAAAAAATTAAATTGAAATG
Found at i:47179270 original size:70 final size:69
Alignment explanation
Indices: 47179190--47179458 Score: 221
Period size: 70 Copynumber: 3.8 Consensus size: 69
47179180 TGAGAGAAAT
* *
47179190 TTTAATATGAAAAAAATTGTAAATTAAAATAGAAAAAAAGATAATTGAAATGACAAGAGAAAA-A
1 TTTAA-ATGAAAAAAATT-TAAATTAAAATAGAAAAAAATATAATTTAAATGA-AAGAGAAAATA
47179254 AATTAAA
63 AATTAAA
* * *
47179261 TTTAAATGAAATGAGAAA--AAAATTAAAATGGAAAGAAATATAATTTAAATGAAATGAGGAAGA
1 TTTAAATGAAA--A-AAATTTAAATTAAAATAGAAAAAAATATAATTTAAATGAAA-GA-G-A-A
47179324 AATTAAATTTAAA
59 AA-TAAA-TTAAA
* * *
47179337 TTTAAATGAAAAAAATAATTTAAA-TGAAATAAGAAAAAATTA-AATTTACATGAAA-A-AAAAT
1 TTTAAATG--AAAAA-AATTTAAATTAAAAT-AGAAAAAAATATAATTTAAATGAAAGAGAAAAT
*
47179398 AATTTAAA
62 AAATTAAA
* * *
47179406 -TGAAATGAGAAAAAAATTAAATTTAAATAGAAAAAAATATAATTTAAATGAAA
1 TTTAAATGA-AAAAAATTTAAATTAAAATAGAAAAAAATATAATTTAAATGAAA
47179459 TGAAAATGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 42
0.73 0.08 0.19
Matches are distributed among these distances:
66 18 0.11
67 21 0.13
68 6 0.04
69 7 0.04
70 40 0.25
71 9 0.06
72 3 0.02
73 6 0.04
75 5 0.03
76 16 0.10
77 17 0.10
78 14 0.09
ACGTcount: A:0.62, C:0.01, G:0.10, T:0.26
Consensus pattern (69 bp):
TTTAAATGAAAAAAATTTAAATTAAAATAGAAAAAAATATAATTTAAATGAAAGAGAAAATAAAT
TAAA
Found at i:47179287 original size:21 final size:21
Alignment explanation
Indices: 47179262--47179443 Score: 102
Period size: 21 Copynumber: 8.0 Consensus size: 21
47179252 AAAATTAAAT
47179262 TTAAATGAAATGAGAAAAAAA
1 TTAAATGAAATGAGAAAAAAA
* *
47179283 TTAAAATGGAAA-GA-AATATAAT
1 TT-AAAT-GAAATGAGAA-AAAAA
47179305 TTAAATGAAATGAGGAAGAAATTAAA
1 TTAAATGAAATGA-G-A-AAA--AAA
* *
47179331 TTTAAATTTAAATGAAAAAAATAA
1 -TTAAA-TGAAATGAGAAAAA-AA
*
47179355 TTTAAATGAAATAAG-AAAAAA
1 -TTAAATGAAATGAGAAAAAAA
* * *
47179376 TTAAATTTACATGAAAAAAAATAA
1 TTAAA-TGAAATG-AGAAAAA-AA
47179400 TTTAAATGAAATGAGAAAAAAA
1 -TTAAATGAAATGAGAAAAAAA
*
47179422 TTAAATTTAAAT-AGAAAAAAA
1 TTAAA-TGAAATGAGAAAAAAA
47179443 T
1 T
47179444 ATAATTTAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 38
0.69 0.09 0.21
Matches are distributed among these distances:
20 9 0.07
21 31 0.25
22 23 0.18
23 21 0.17
24 17 0.14
25 9 0.07
26 3 0.02
27 5 0.04
28 7 0.06
ACGTcount: A:0.63, C:0.01, G:0.10, T:0.26
Consensus pattern (21 bp):
TTAAATGAAATGAGAAAAAAA
Found at i:47179298 original size:27 final size:27
Alignment explanation
Indices: 47179236--47179299 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
47179226 AAAGATAATT
*
47179236 GAAATGACAA-GAGAAAAAAATTAAATT
1 GAAATGA-AATGAGAAAAAAATTAAATG
*
47179263 TAAATGAAATGAGAAAAAAATTAAAATG
1 GAAATGAAATGAGAAAAAAATT-AAATG
47179291 GAAA-GAAAT
1 GAAATGAAAT
47179300 ATAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 23 0.72
28 7 0.22
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.19
Consensus pattern (27 bp):
GAAATGAAATGAGAAAAAAATTAAATG
Found at i:47179449 original size:21 final size:20
Alignment explanation
Indices: 47179335--47179458 Score: 74
Period size: 23 Copynumber: 5.7 Consensus size: 20
47179325 ATTAAATTTA
47179335 AATTTAAATG-AAAAAA-AT
1 AATTTAAATGAAAAAAATAT
*
47179353 AATTTAAATGAAATAAGAAAAAATT
1 AATTTAAATG--A-AA-AAAATA-T
*
47179378 AAATTTACATGAAAAAAA-AT
1 -AATTTAAATGAAAAAAATAT
*
47179398 AATTTAAATGAAATGAGAAAAAAATT
1 AATTTAAATG--A--A-AAAAATA-T
47179424 AAATTTAAATAGAAAAAAATAT
1 -AATTTAAAT-GAAAAAAATAT
47179446 AATTTAAATGAAA
1 AATTTAAATGAAA
47179459 TGAAAATGGA
Statistics
Matches: 86, Mismatches: 3, Indels: 32
0.71 0.02 0.26
Matches are distributed among these distances:
18 10 0.12
19 9 0.10
20 5 0.06
21 11 0.13
22 7 0.08
23 13 0.15
24 8 0.09
25 2 0.02
26 11 0.13
27 9 0.10
28 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (20 bp):
AATTTAAATGAAAAAAATAT
Found at i:47179473 original size:17 final size:17
Alignment explanation
Indices: 47179446--47179514 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
47179436 AAAAAAATAT
*
47179446 AATTTAAATGAAATGAA
1 AATTGAAATGAAATGAA
* *
47179463 AATGGAAATGAAATGGA
1 AATTGAAATGAAATGAA
* * *
47179480 AATTTAAATTAAATG-G
1 AATTGAAATGAAATGAA
47179496 AATTGAAATAGAAATGAA
1 AATTGAAAT-GAAATGAA
47179514 A
1 A
47179515 GGAAAAAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 8 0.20
17 31 0.77
18 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (17 bp):
AATTGAAATGAAATGAA
Found at i:47179891 original size:19 final size:18
Alignment explanation
Indices: 47179869--47179907 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47179859 GTATATTAGG
*
47179869 AAAAAATAAATTTAAATGA
1 AAAAAATAAA-TGAAATGA
*
47179888 AAAAAATTAATGAAATGA
1 AAAAAATAAATGAAATGA
47179906 AA
1 AA
47179908 TGTTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAATAAATGAAATGA
Found at i:47179906 original size:5 final size:5
Alignment explanation
Indices: 47179896--47179996 Score: 58
Period size: 5 Copynumber: 18.0 Consensus size: 5
47179886 GAAAAAAATT
* *
47179896 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
** *
47179948 AATGA ATATGA AATGA AATGA GGTGTTA AATGA ATATAA AATGA AATGA
1 AATGA A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA
47179997 TGATTATGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
5 41 0.54
6 22 0.29
7 13 0.17
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:47179914 original size:30 final size:30
Alignment explanation
Indices: 47179872--47179996 Score: 86
Period size: 30 Copynumber: 4.2 Consensus size: 30
47179862 TATTAGGAAA
47179872 AAAT-AAAT-TTAAATGAAA-A-AAATTAATG
1 AAATGAAATGTTAAATGAAATATAAA-T-ATG
*
47179900 AAATGAAATGTTAAATGAAATATGAATATG
1 AAATGAAATGTTAAATGAAATATAAATATG
* *
47179930 AAATGAAATG-TAATTTGTAATGAATATGAA-ATG
1 AAATGAAATGTTAA-ATG--A--AATATAAATATG
**
47179963 AAATGAGGTGTTAAATG-AATATAAA-ATG
1 AAATGAAATGTTAAATGAAATATAAATATG
47179991 AAATGA
1 AAATGA
47179997 TGATTATGAA
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
28 20 0.25
29 7 0.09
30 25 0.31
31 2 0.02
32 3 0.04
33 13 0.16
34 11 0.14
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (30 bp):
AAATGAAATGTTAAATGAAATATAAATATG
Found at i:47179917 original size:12 final size:12
Alignment explanation
Indices: 47179898--47179967 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
47179888 AAAAAATTAA
47179898 TGAAATGAAATG
1 TGAAATGAAATG
* *
47179910 TTAAATGAAATA
1 TGAAATGAAATG
47179922 TGAATATGAAA--
1 TGAA-ATGAAATG
* *
47179933 TGAAATGTAATT
1 TGAAATGAAATG
* *
47179945 TGTAATG-AATA
1 TGAAATGAAATG
47179956 TGAAATGAAATG
1 TGAAATGAAATG
47179968 AGGTGTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 13 0.28
12 22 0.48
13 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (12 bp):
TGAAATGAAATG
Found at i:47179935 original size:35 final size:33
Alignment explanation
Indices: 47179898--47179968 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
47179888 AAAAAATTAA
*
47179898 TGAAATGAAATGTT-AAATGAAATATGAATATGAAA
1 TGAAATGAAAT-TTGAAAT-GAATATGAA-ATGAAA
* *
47179933 TGAAATGTAATTTGTAATGAATATGAAATGAAA
1 TGAAATGAAATTTGAAATGAATATGAAATGAAA
47179966 TGA
1 TGA
47179969 GGTGTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 9 0.28
34 10 0.31
35 13 0.41
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (33 bp):
TGAAATGAAATTTGAAATGAATATGAAATGAAA
Found at i:47179979 original size:28 final size:27
Alignment explanation
Indices: 47179921--47179996 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
47179911 TAAATGAAAT
*
47179921 ATGAATATGAAATGAAATGTAATTTGTA
1 ATGAATATGAAATGAAATG-AATTTGAA
*
47179949 ATGAATATGAAATGAAATGAGGTGTT-AA
1 ATGAATATGAAATGAAATGA-AT-TTGAA
*
47179977 ATGAATATAAAATGAAATGA
1 ATGAATATGAAATGAAATGA
47179997 TGATTATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 40 0.93
29 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (27 bp):
ATGAATATGAAATGAAATGAATTTGAA
Found at i:47180085 original size:20 final size:19
Alignment explanation
Indices: 47180031--47180138 Score: 98
Period size: 18 Copynumber: 5.6 Consensus size: 19
47180021 AAATGAAAAT
*
47180031 AAATTATAAATTTAAATG-
1 AAATAATAAATTTAAATGA
* *
47180049 AAATCAA-AAACTGAAATGA
1 AAAT-AATAAATTTAAATGA
47180068 AAATAA-AAATTTTGAAATGA
1 AAATAATAAA-TTT-AAATGA
47180088 GAAATAATTAAATTTAAATGGA
1 -AAATAA-TAAATTTAAAT-GA
*
47180110 AAATAATTAATTTAAATGA
1 AAATAATAAATTTAAATGA
47180129 AAAT-ATAAAT
1 AAATAATAAAT
47180139 GGAAAATTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
18 23 0.31
19 12 0.16
20 16 0.21
21 16 0.21
22 5 0.07
23 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (19 bp):
AAATAATAAATTTAAATGA
Found at i:47180106 original size:21 final size:20
Alignment explanation
Indices: 47180018--47180133 Score: 100
Period size: 21 Copynumber: 5.7 Consensus size: 20
47180008 TGGAATGACG
47180018 TTTAAATGAAAATAAATTATAAA
1 TTTAAATGAAAAT-AA-T-TAAA
47180041 TTTAAATG-AAATCAA--AAA
1 TTTAAATGAAAAT-AATTAAA
* *
47180059 CTGAAATGAAAATAA--AAA
1 TTTAAATGAAAATAATTAAA
47180077 TTTTGAAATGAGAAATAATTAAA
1 -TTT-AAATGA-AAATAATTAAA
47180100 TTTAAATGGAAAATAATT-AA
1 TTTAAAT-GAAAATAATTAAA
47180120 TTTAAATGAAAATA
1 TTTAAATGAAAATA
47180134 TAAATGGAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
18 14 0.17
19 12 0.15
20 15 0.19
21 18 0.22
22 11 0.14
23 11 0.14
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (20 bp):
TTTAAATGAAAATAATTAAA
Found at i:47180166 original size:20 final size:17
Alignment explanation
Indices: 47180093--47180161 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
47180083 AATGAGAAAT
47180093 AATTAAATTTAAATGGAAAA
1 AATT-AATTTAAATGG--AA
47180113 TAATTAATTTAAAT-GAA
1 -AATTAATTTAAATGGAA
47180130 AA-T-A--TAAATGGAA
1 AATTAATTTAAATGGAA
47180143 AATTAATTTAAATGGAA
1 AATTAATTTAAATGGAA
47180160 AA
1 AA
47180162 AAATTCATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 2 0.05
15 2 0.05
16 2 0.05
17 13 0.30
19 1 0.02
20 9 0.21
21 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
AATTAATTTAAATGGAA
Found at i:47180194 original size:5 final size:5
Alignment explanation
Indices: 47180184--47180259 Score: 73
Period size: 5 Copynumber: 14.6 Consensus size: 5
47180174 ATGTAGGTGT
* * *
47180184 AAATG AAATG AAATG AAAATAT AAATG AAATG AAAAG GAA-G AAATG AAATG
1 AAATG AAATG AAATG -AAAT-G AAATG AAATG AAATG AAATG AAATG AAATG
*
47180235 CAAATG AAATAC AAATG AAATG AAA
1 -AAATG AAAT-G AAATG AAATG AAA
47180260 AAAAAAAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.05
5 39 0.66
6 17 0.29
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:47180197 original size:22 final size:22
Alignment explanation
Indices: 47180183--47180259 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
47180173 AATGTAGGTG
47180183 TAAATGAAATGAAATGAAAATA
1 TAAATGAAATGAAATGAAAATA
**
47180205 TAAATGAAATGAAA--AGGA-A
1 TAAATGAAATGAAATGAAAATA
*
47180224 GAAATGAAATGCAAATG-AAATA
1 TAAATGAAATG-AAATGAAAATA
*
47180246 CAAATGAAATGAAA
1 TAAATGAAATGAAA
47180260 AAAAAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 11 0.24
20 5 0.11
21 4 0.09
22 25 0.56
ACGTcount: A:0.62, C:0.03, G:0.17, T:0.18
Consensus pattern (22 bp):
TAAATGAAATGAAATGAAAATA
Found at i:47180241 original size:11 final size:10
Alignment explanation
Indices: 47180184--47180259 Score: 73
Period size: 11 Copynumber: 7.3 Consensus size: 10
47180174 ATGTAGGTGT
47180184 AAATGAAATG
1 AAATGAAATG
*
47180194 AAATGAAAATAT
1 AAATG-AAAT-G
47180206 AAATGAAATG
1 AAATGAAATG
* *
47180216 AAAAGGAA-G
1 AAATGAAATG
47180225 AAATGAAATG
1 AAATGAAATG
*
47180235 CAAATGAAATAC
1 -AAATGAAAT-G
47180247 AAATGAAATG
1 AAATGAAATG
47180257 AAA
1 AAA
47180260 AAAAAAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
9 7 0.13
10 15 0.28
11 26 0.49
12 5 0.09
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (10 bp):
AAATGAAATG
Found at i:47180677 original size:23 final size:23
Alignment explanation
Indices: 47180634--47180677 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47180624 GTATATTAGG
*
47180634 AAAAAAGTAATAAATTTAAATGA
1 AAAAAAGTAATAAATTCAAATGA
*
47180657 AAAAAATTAATGAAA-TCAAAT
1 AAAAAAGTAAT-AAATTCAAAT
47180678 ATTAAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAAAAGTAATAAATTCAAATGA
Found at i:47180745 original size:19 final size:19
Alignment explanation
Indices: 47180718--47180754 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47180708 GTAATTTGTA
47180718 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
*
47180737 ATGATTATGAAATGAAAT
1 ATGAATATGAAATGAAAT
47180755 AAAAGTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:47180768 original size:17 final size:17
Alignment explanation
Indices: 47180740--47180789 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
47180730 TGAAATGATG
47180740 ATTATGAAATG-AAATAAA
1 ATTAT-AAATGAAAAT-AA
47180758 AGTT-TAAATGAAAATAA
1 A-TTATAAATGAAAATAA
47180775 ATTATAAATGAAAAT
1 ATTATAAATGAAAAT
47180790 GAAAATAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 6 0.21
19 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (17 bp):
ATTATAAATGAAAATAA
Found at i:47180768 original size:47 final size:46
Alignment explanation
Indices: 47180651--47180769 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 46
47180641 TAATAAATTT
* *
47180651 AAATGAAA-AAAATTAATGAAATCAAATATTAAATGAAATATGAATAAG
1 AAATGAAATAAAATT--TGAAAT-GAATATGAAATGAAATATGAATAAG
** * * *
47180699 AAATGAAATGTAATTTGTAATGAATATGAAATGAAATGATGATTATG
1 AAATGAAATAAAATTTGAAATGAATATGAAATGAAAT-ATGAATAAG
47180746 AAATGAAATAAAAGTTT-AAATGAA
1 AAATGAAATAAAA-TTTGAAATGAA
47180770 AATAAATTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
46 14 0.24
47 29 0.50
48 11 0.19
49 4 0.07
ACGTcount: A:0.56, C:0.01, G:0.14, T:0.29
Consensus pattern (46 bp):
AAATGAAATAAAATTTGAAATGAATATGAAATGAAATATGAATAAG
Found at i:47180809 original size:18 final size:18
Alignment explanation
Indices: 47180786--47180826 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
47180776 TTATAAATGA
* *
47180786 AAATGAAAATAAGAACTG
1 AAATGAAAAAAAAAACTG
*
47180804 AAATGAAAAAAAAAATTG
1 AAATGAAAAAAAAAACTG
47180822 AAATG
1 AAATG
47180827 GTAAATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.17
Consensus pattern (18 bp):
AAATGAAAAAAAAAACTG
Found at i:47183592 original size:92 final size:91
Alignment explanation
Indices: 47183494--47183726 Score: 346
Period size: 89 Copynumber: 2.6 Consensus size: 91
47183484 TACAGATTAA
* *
47183494 ATTAAATTTACAGATACAAAAAAAAATACAAACATTCTAAGAAATTAATACGCGAAAATATAAAA
1 ATTAAATTTACAGATA-AAAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAA
*
47183559 ATGAAACATTAAATCCTAAACAACTAT
65 ATGAAACATTAAATCCTAAACAACTAC
* *
47183586 ATTAAATTTACAGAT--ATAAAAAATAAAAACATTCTAAGAAATTAATACATGAAAATATAAAAA
1 ATTAAATTTACAGATAAAAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
* *
47183649 TGATACCTTAAATCCTAAACAACTAC
66 TGAAACATTAAATCCTAAACAACTAC
*
47183675 ATTAAATTTACAGATATAAAAAAAAATAAAAACACTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATA-AAAAAAAAATAAAAACATTCT-AAGAAATTAATACA
47183727 ATTATTTTGA
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
89 82 0.64
92 40 0.31
93 6 0.05
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (91 bp):
ATTAAATTTACAGATAAAAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
TGAAACATTAAATCCTAAACAACTAC
Found at i:47183603 original size:48 final size:48
Alignment explanation
Indices: 47183551--47183696 Score: 130
Period size: 48 Copynumber: 3.2 Consensus size: 48
47183541 ATACGCGAAA
47183551 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
1 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
* * * * * *
47183599 ATATAAAAAAT-AAA-A--ACATTCTAAGA-AA-T-TAATACA-TGA-AA
1 ATAT-AAAAATGAAACATTAAATCCTAA-ACAACTATATTAAATTTACAG
* * *
47183640 ATATAAAAATGATACCTTAAATCCTAAACAACTACATTAAATTTACAG
1 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
47183688 ATATAAAAA
1 ATATAAAAA
47183697 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
40 6 0.08
41 7 0.10
42 2 0.03
43 6 0.08
44 10 0.14
45 10 0.14
46 5 0.07
47 3 0.04
48 17 0.24
49 6 0.08
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (48 bp):
ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
Found at i:47185429 original size:17 final size:16
Alignment explanation
Indices: 47185395--47185425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47185385 CCTGTTTACT
*
47185395 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
47185411 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
47185426 TATTTTCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:47186359 original size:3 final size:3
Alignment explanation
Indices: 47186351--47186388 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
47186341 ATTCCACCAA
47186351 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 AA
47186389 AGTATGCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47196133 original size:43 final size:43
Alignment explanation
Indices: 47196077--47196211 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
47196067 TTATGTGAAA
* ** *
47196077 AAACGCCGTTAAAGACCATGACCTTTAACGACGCTTTTATCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
*
47196120 AAACGCCGCTAAAGGTCATGGTCC-TTAACGACGCTTTTGTCAC
1 AAACGCCGCTAAAGGTCAT-GACCTTTAACGACGCTTTTGTCAC
* * * *
47196163 AAACACCACTAAAGGTCATGAACTTTAGCGACGCTTTTGTCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
47196206 AAACGC
1 AAACGC
47196212 ATGTCCTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.03
43 74 0.94
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
Found at i:47196356 original size:24 final size:23
Alignment explanation
Indices: 47196320--47196365 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47196310 AATTATTTTA
47196320 ATAAAATAATATTTAT-TTTTATG
1 ATAAAATAATA-TTATGTTTTATG
*
47196343 ATAAATATTATATTATGTTTTAT
1 ATAAA-ATAATATTATGTTTTAT
47196366 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
ATAAAATAATATTATGTTTTATG
Found at i:47196358 original size:23 final size:21
Alignment explanation
Indices: 47196311--47196365 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 21
47196301 ATTTAAAAAA
*
47196311 ATTATTTTAATAAAATAATAT
1 ATTATTTTTATAAAATAATAT
*
47196332 -TTATTTTTATGATAAATATTAT
1 ATTATTTTTAT-A-AAATAATAT
47196354 ATTATGTTTTAT
1 ATTAT-TTTTAT
47196366 TTTTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 9 0.32
21 1 0.04
22 8 0.29
23 4 0.14
24 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTATTTTTATAAAATAATAT
Found at i:47198686 original size:21 final size:21
Alignment explanation
Indices: 47198653--47198698 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47198643 GCATGTAAAA
*
47198653 AAACCAGACCAATATTAAGCT
1 AAACCAGACCAATAATAAGCT
* *
47198674 AAACTAGATCAATAATAAGCT
1 AAACCAGACCAATAATAAGCT
47198695 AAAC
1 AAAC
47198699 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.20
Consensus pattern (21 bp):
AAACCAGACCAATAATAAGCT
Found at i:47205839 original size:15 final size:15
Alignment explanation
Indices: 47205815--47205856 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
47205805 TAGTTAATCT
* *
47205815 AAACCCTAAATCTTA
1 AAACCCTAAACCATA
*
47205830 AAATCCTAAACCATA
1 AAACCCTAAACCATA
47205845 AAACCCTAAACC
1 AAACCCTAAACC
47205857 CTTAACACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCCTAAACCATA
Found at i:47205947 original size:22 final size:22
Alignment explanation
Indices: 47205905--47205947 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47205895 AAACTGCAAA
*
47205905 CCATAAATCATAACCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
47205927 CCATAATTCATAAACCTTAAA
1 CCATAAATCATAAACCCTAAA
47205948 ATAGTAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:47206386 original size:41 final size:41
Alignment explanation
Indices: 47206299--47206608 Score: 285
Period size: 41 Copynumber: 7.6 Consensus size: 41
47206289 AATTTTTTGT
* * *
47206299 GGCGCTTTTTCAAAAATGCCACTAAAA---TAGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCT-GAGCATTAGC
*
47206338 GGCGCTTCTTCAAAAACGCCACTAAAACCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * * * *
47206379 AGTGCTTCATT-AAACACGCCGCTAAAGCCCTGAGCATCAGC
1 GGCGCTTC-TTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* *
47206420 GGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
47206461 AGCGCTTTCAT-AAAAACGCCGCTAAAA--ATAGAGCATTAGC
1 GGCGC-TTCTTCAAAAACGCCGCTAAAACCCT-GAGCATTAGC
* * * * * *
47206501 GGTGCTCCTTCAAAAACGCCTCTAAAGCCCTGAGTATTAAC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
47206542 GACGCTTCTTCAAAAACGCTGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
47206583 GGTGCGTT-TTAAAAAACTCCGCTAAA
1 GGCGC-TTCTTCAAAAACGCCGCTAAA
47206609 GCCCCATGCA
Statistics
Matches: 221, Mismatches: 39, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
39 29 0.13
40 29 0.13
41 153 0.69
42 10 0.05
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
Found at i:47206622 original size:163 final size:163
Alignment explanation
Indices: 47206322--47206622 Score: 405
Period size: 163 Copynumber: 1.8 Consensus size: 163
47206312 AAATGCCACT
* * *
47206322 AAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCACTAAAACCCTGAGCATTAGCAGTGCTTC
1 AAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCATTAACAGCGCTTC
* *
47206387 ATTAAACACGCCGCTAAAGCCCTGAGCATCAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTG
66 ATTAAAAACGCCGCTAAAGCCCTGAGCATCAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTC
47206452 AGCATTAGCAGCGCTTTCATAAAAACGCCGCTA
131 AGCATTAGCAGCGCTTTCATAAAAACGCCGCTA
* * * *
47206485 AAAATAGAGCATTAGCGGTGCTCCTTCAAAAACGCCTCTAAAGCCCTGAGTATTAAC-GACGCTT
1 AAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCATTAACAG-CGCTT
* * * *
47206549 C-TTCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCGTT-TTAAAAAACT-CCGCTAAAGC
65 CATT-AAAAACGCCGCTAAAGCCCTGAGCATCAGCGGCGC-TTCTTAAAAAA-TGCCGCTAAAAC
47206611 CC-CATGCATTAG
127 CCTCA-GCATTAG
47206623 TGACGCTTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
162 4 0.03
163 113 0.94
164 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (163 bp):
AAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCATTAACAGCGCTTC
ATTAAAAACGCCGCTAAAGCCCTGAGCATCAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTC
AGCATTAGCAGCGCTTTCATAAAAACGCCGCTA
Found at i:47206638 original size:122 final size:122
Alignment explanation
Indices: 47206328--47206640 Score: 258
Period size: 122 Copynumber: 2.6 Consensus size: 122
47206318 CACTAAAATA
* * * * * * *
47206328 GAGCATTAGCGGCGC-TTCTTCAAAAACGCCACT-AAAACCCTGAGCATTAGC-AGTGCTTCATT
1 GAGCATTAGCAGCGCTTTCAT-AAAAACGCCGCTAAAAACAC--AGCATTAGCGA-CGCTCCTTT
* * * *
47206390 AAACACGCCGCTAAAGCCCTGAGCATCAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCT
62 AAAAACGCCGCTAAAGCCCTGAGCATCAACGACGCTTCTTAAAAAACGCCGCTAAAACCCT
* * ** *
47206451 GAGCATTAGCAGCGCTTTCATAAAAACGCCGCTAAAAATAGAGCATTAGCGGTGCTCCTTCAAAA
1 GAGCATTAGCAGCGCTTTCATAAAAACGCCGCTAAAAACACAGCATTAGCGACGCTCCTTTAAAA
* * * * * *
47206516 ACGCCTCTAAAGCCCTGAGTATTAACGACGCTTCTTCAAAAACGCTGCTAAAGCCCT
66 ACGCCGCTAAAGCCCTGAGCATCAACGACGCTTCTTAAAAAACGCCGCTAAAACCCT
* * * * ** * * *
47206573 GAGCATTAGCGGTGCGTTTTA-AAAAACTCCGCTAAAGCCCCATGCATTAGTGACGCT-TTTTAA
1 GAGCATTAGCAGCGC-TTTCATAAAAACGCCGCTAAAAACACA-GCATTAGCGACGCTCCTTTAA
47206636 AAACG
64 AAACG
47206641 ACACTAATGC
Statistics
Matches: 151, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
122 103 0.68
123 40 0.26
124 8 0.05
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (122 bp):
GAGCATTAGCAGCGCTTTCATAAAAACGCCGCTAAAAACACAGCATTAGCGACGCTCCTTTAAAA
ACGCCGCTAAAGCCCTGAGCATCAACGACGCTTCTTAAAAAACGCCGCTAAAACCCT
Found at i:47215243 original size:24 final size:23
Alignment explanation
Indices: 47215197--47215243 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47215187 CTAATTTATT
* *
47215197 TTCTTTTATTTACTTCTGGCAAG
1 TTCTTTTATTTAATTCTGACAAG
*
47215220 TTCTTTTAGTTTAATTTTGACAAG
1 TTCTTTTA-TTTAATTCTGACAAG
47215244 AAGAAACCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
TTCTTTTATTTAATTCTGACAAG
Found at i:47220996 original size:8 final size:8
Alignment explanation
Indices: 47220948--47220977 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47220938 TTTTTAATTC
47220948 TTTATTAG
1 TTTATTAG
47220956 TTTATTAG
1 TTTATTAG
*
47220964 TTTATTAT
1 TTTATTAG
47220972 TTTATT
1 TTTATT
47220978 TAAATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (8 bp):
TTTATTAG
Found at i:47231394 original size:6 final size:6
Alignment explanation
Indices: 47231322--47231397 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
47231312 TTTATTTGTA
* * * * * *
47231322 TTATTT TTAATTT TAATTT ATCTTT TTATGT TTATGT TTATTT CTATTT
1 TTATTT TT-ATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
47231371 TTAGTTGT TT-TGTT TTATTT TTATTT T
1 TTA-TT-T TTAT-TT TTATTT TTATTT T
47231398 CTTGTACTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
6 43 0.78
7 9 0.16
8 3 0.05
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:47245893 original size:22 final size:23
Alignment explanation
Indices: 47245832--47245894 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
47245822 ACTAGTACAT
*
47245832 TAATGTTGAGGTGTTAAATGCTGC
1 TAAT-TTGAGGTGTTAAAAGCTGC
* * *
47245856 AAATTATGATGT-TTAAAAGTTG-
1 TAATT-TGAGGTGTTAAAAGCTGC
47245878 TAATTTGAGGTGTTAAA
1 TAATTTGAGGTGTTAAA
47245895 TGCTACCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 5 0.16
22 9 0.29
23 9 0.29
24 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (23 bp):
TAATTTGAGGTGTTAAAAGCTGC
Found at i:47250904 original size:27 final size:28
Alignment explanation
Indices: 47250820--47250972 Score: 220
Period size: 27 Copynumber: 5.5 Consensus size: 28
47250810 CATGAGATTG
* * * *
47250820 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
47250849 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
47250877 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
47250904 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
47250932 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47250959 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
47250973 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 49 0.43
28 47 0.41
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47250916 original size:55 final size:55
Alignment explanation
Indices: 47250820--47250972 Score: 225
Period size: 55 Copynumber: 2.7 Consensus size: 55
47250810 CATGAGATTG
* * * *
47250820 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAG-TT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
* *
47250877 GCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
47250932 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCG
47250973 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 71 0.81
56 2 0.02
57 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47319847 original size:27 final size:27
Alignment explanation
Indices: 47319805--47319856 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
47319795 GAAATGTGAA
*
47319805 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
47319832 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
47319857 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:47319908 original size:103 final size:104
Alignment explanation
Indices: 47319729--47319951 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
47319719 TTGTATAAAA
** * *
47319729 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47319794 TGAAATGTGAAAGGG-GTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGAGTTGCTATGTGCTGATTCCCCCG
* *
47319832 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47319896 TTGAAATGTGAAAGGGAGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGAGTTGCTATGTGCTGATTCCCCCG
47319936 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47319952 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 72 0.64
104 40 0.36
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGAGTTGCTATGTGCTGATTCCCCCG
Found at i:47320004 original size:71 final size:72
Alignment explanation
Indices: 47319870--47320021 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
47319860 TCATTGGTGG
* *
47319870 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGAGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGAGTTGCTATGTGCTGATTCCCCC
47319935 GAGGGGT
66 GAGGGGT
*** *
47319942 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGAGTTGCTATGTGCTGATTCCCCC
47320006 GAGGGGT
66 GAGGGGT
47320013 TGCTAAGTG
1 TGCTAAGTG
47320022 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGAGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47322141 original size:342 final size:342
Alignment explanation
Indices: 47321511--47322192 Score: 1161
Period size: 342 Copynumber: 2.0 Consensus size: 342
47321501 CATCCATTCC
* *
47321511 TAATCATTTTGTCTCTCACTTTGGAACCAACCAGTTCCAATCTAACTGAAGTGGAATCAAATTCC
1 TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
*
47321576 AACTATTTATAATTCAACCGCTAAAATTTTCTAATCTCCCATTGGAGTCCCACAATTTACTAGTC
66 AACTATTTATAATTCAACCGCTAAAATTTTCTAATCTCCCATTGGAGCCCCACAATTTACTAGTC
*
47321641 CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCGGGAGTTACACACTC
131 CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACTC
*
47321706 TCACTGTACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
196 TCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
47321771 TCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
261 TCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
47321836 CAGACTGATTGAAAAGA
326 CAGACTGATTGAAAAGA
* *
47321853 TAATGATTTTGTCTCTCACTTTGGAACCAGCAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
1 TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
* * * * ** *
47321918 AGCTATTTATAATTTAGCCGCTAAAATTTTCT-AGCTTCTTATTGGAGCCCCGCAATTTACTAGT
66 AACTATTTATAATTCAACCGCTAAAATTTTCTAATC-TCCCATTGGAGCCCCACAATTTACTAGT
* * *
47321982 CCTTTCAATTTAATCCTAGCTTTCCCAACTTTCGGGGTAATTAGGGTAACCAGGAGTTTCACACT
130 CCTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACT
*
47322047 CTCACTGCACCAATTTTTGATACAAAGTATAACAAAGGAGGAAGACAA-GATGGAACAAGGAGGA
195 CTCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATG-TGGAACAAGGAGGA
*
47322111 GATCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAGAG
259 GATCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAG
47322176 GACAGACTGATTGAAAA
324 GACAGACTGATTGAAAA
47322193 TTTAAATGCT
Statistics
Matches: 319, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
341 3 0.01
342 316 0.99
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (342 bp):
TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
AACTATTTATAATTCAACCGCTAAAATTTTCTAATCTCCCATTGGAGCCCCACAATTTACTAGTC
CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACTC
TCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
TCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
CAGACTGATTGAAAAGA
Found at i:47325431 original size:2 final size:2
Alignment explanation
Indices: 47325424--47325460 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
47325414 ATTGAAAACC
47325424 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
47325461 GGATATGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47327927 original size:15 final size:14
Alignment explanation
Indices: 47327907--47327939 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
47327897 TTTGTGTACC
47327907 CTTTTCAATAATTTT
1 CTTTTCAAT-ATTTT
47327922 CTTTTCAATATTTT
1 CTTTTCAATATTTT
47327936 -TTTT
1 CTTTT
47327940 GGACGGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTCAATATTTT
Found at i:47328386 original size:15 final size:15
Alignment explanation
Indices: 47328366--47328404 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
47328356 ATACAATTAC
*
47328366 AAATAAAATATATTT
1 AAATAAAATATAATT
*
47328381 AAAT-AATTATAATT
1 AAATAAAATATAATT
47328395 AAATAAAATA
1 AAATAAAATA
47328405 AGCACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATAAAATATAATT
Found at i:47328877 original size:14 final size:14
Alignment explanation
Indices: 47328858--47328894 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
47328848 ATAGCTAAGC
* *
47328858 CCCCAACTCTTTTT
1 CCCCAAATCATTTT
47328872 CCCCAAATCATTTT
1 CCCCAAATCATTTT
47328886 CCCCAAATC
1 CCCCAAATC
47328895 CCTAACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.32
Consensus pattern (14 bp):
CCCCAAATCATTTT
Found at i:47330386 original size:22 final size:21
Alignment explanation
Indices: 47330358--47330399 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
47330348 TGAATGGGGA
*
47330358 AGTGGAAGGATGGAAAGAGTAG
1 AGTGGAAAGATGGAAA-AGTAG
47330380 AGTGGAAAGATGGAAAAGTA
1 AGTGGAAAGATGGAAAAGTA
47330400 ATAAATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (21 bp):
AGTGGAAAGATGGAAAAGTAG
Found at i:47333631 original size:37 final size:37
Alignment explanation
Indices: 47333590--47333666 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
47333580 GTGAGTTGTA
*
47333590 AGACTTAAATCATTCATTGCACAAGCTTGAAGATAGT
1 AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
*
47333627 AGACTTAAATCATTCATTGTACAAGCTTAAAGATAGT
1 AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
47333664 AGA
1 AGA
47333667 TTGTCTCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
Found at i:47335134 original size:49 final size:48
Alignment explanation
Indices: 47335018--47335147 Score: 201
Period size: 48 Copynumber: 2.7 Consensus size: 48
47335008 TTAGATAAGG
* *
47335018 AAATATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATT
1 AAATAGAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATA
47335066 AAATAGAATTTAATTATTATTTAAAAGAGTTTTA-AGTAAA-ATATAATA
1 AAATAGAATTTAATTATTATTTAAAAGAGTTTTATA-TAAATA-ATAATA
47335114 AAATAGAATTTAAATTATTATTTAAAAGAGTTTT
1 AAATAGAATTT-AATTATTATTTAAAAGAGTTTT
47335148 TAAATTTCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
47 2 0.03
48 53 0.69
49 22 0.29
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (48 bp):
AAATAGAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATA
Found at i:47336804 original size:12 final size:12
Alignment explanation
Indices: 47336787--47336812 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47336777 AAGAAGCTAG
47336787 GTTAAATTGTAA
1 GTTAAATTGTAA
47336799 GTTAAATTGTAA
1 GTTAAATTGTAA
47336811 GT
1 GT
47336813 CATATGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTAAATTGTAA
Found at i:47337019 original size:129 final size:129
Alignment explanation
Indices: 47336788--47337038 Score: 396
Period size: 129 Copynumber: 1.9 Consensus size: 129
47336778 AGAAGCTAGG
* * * *
47336788 TTAAATTGTAAGTTAAATTGTAAGTCATATGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
1 TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
*
47336853 TTTCGTGTTTTATAGTGAATCAGAAGCTCGTTTGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
66 TTTCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
* *
47336917 TTAAATGGTAAGTTAAATTCTAAGTTACAGGAACTTACTAATCTTAAATGCTTACTCTGTGTTAC
1 TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTA-
* * *
47336982 TTTT-GTGTTTTATAGTGAATTAGAAGCTTGTTCGGGTTGGAAGCTTGTCGGGGCTAT
65 TTTTCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTAT
47337039 ATCACACTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
129 107 0.96
130 4 0.04
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (129 bp):
TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
TTTCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
Found at i:47339814 original size:163 final size:164
Alignment explanation
Indices: 47339514--47339841 Score: 534
Period size: 163 Copynumber: 2.0 Consensus size: 164
47339504 TCCATGGCAC
* * **
47339514 AAGCACCAGTTAGGGCTTATGCTATTCGCACAAGAGATGATGCTTCTGCGCCAGATGTTATTACT
1 AAGCACCAGTTAGGGCTTATGCTATTCGCACAAGAGAGGATGCCTCTGCAACAGATGTTATTACT
**
47339579 GGTACTTTTTCTAGTTTTTTATACTGATATTACTGCTTTGATTACTCTGGGATCCACTCATTCAT
66 GGTACTTTTTCTAGTTTTTTATACTGATATTACTGCTTTGATTACTCCAGGATCCACTCATTCAT
*
47339644 ATGTGTGCATGAATTTAGTGTCTAGTAAGAATTT
131 ATGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
* * *
47339678 AAGCACCAGTTAGGGCTTATGCTATTTGCACACGAGAGGATGCCTCTGTAACAGATGTTATTACT
1 AAGCACCAGTTAGGGCTTATGCTATTCGCACAAGAGAGGATGCCTCTGCAACAGATGTTATTACT
47339743 GGTACTTTTTCTA-TTTTTTATACTGATATTACTGCTTTGATTGA-TCCAGGATCCACTCATTCA
66 GGTACTTTTTCTAGTTTTTTATACTGATATTACTGCTTTGATT-ACTCCAGGATCCACTCATTCA
*
47339806 TATGTGTGCACGAATTTAGTGTCTATTAAGAATTT
130 TATGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
47339841 A
1 A
47339842 CCTATTGAGT
Statistics
Matches: 152, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
163 80 0.53
164 72 0.47
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (164 bp):
AAGCACCAGTTAGGGCTTATGCTATTCGCACAAGAGAGGATGCCTCTGCAACAGATGTTATTACT
GGTACTTTTTCTAGTTTTTTATACTGATATTACTGCTTTGATTACTCCAGGATCCACTCATTCAT
ATGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
Done.