Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 116 of 205
Found at i:34993702 original size:23 final size:24
Alignment explanation
Indices: 34993658--34993708 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
34993648 TGTGAGCGAG
* *
34993658 GAAAGAACATTGAAAAAGAAAG-T
1 GAAAGAACATGGAAAAAAAAAGAT
34993681 GAAAGAA-ATGGAAAAGAAAAAGAT
1 GAAAGAACATGGAAAA-AAAAAGAT
34993705 GAAA
1 GAAA
34993709 ATGAGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (24 bp):
GAAAGAACATGGAAAAAAAAAGAT
Found at i:34993832 original size:16 final size:16
Alignment explanation
Indices: 34993811--34993860 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
34993801 AAAGAGCCTG
34993811 AAAAGAAATCGAGTGA
1 AAAAGAAATCGAGTGA
*
34993827 AAAAGAAAGT-GAGTCTGT
1 AAAAGAAA-TCGAG--TGA
34993845 AAAAGAAA-CGAGTGA
1 AAAAGAAATCGAGTGA
34993860 A
1 A
34993861 GAGAGTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 4 0.14
18 10 0.36
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (16 bp):
AAAAGAAATCGAGTGA
Found at i:34993857 original size:33 final size:33
Alignment explanation
Indices: 34993789--34993860 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
34993779 AGAAAACGAA
*
34993789 AGTGGAAAAGAAAAAGAGCCTGAAAAGAAATCG
1 AGTGAAAAAGAAAAAGAGCCTGAAAAGAAATCG
** *
34993822 AGTGAAAAAGAAAGTGAGTCTGTAAAAGAAA-CG
1 AGTGAAAAAGAAAAAGAGCCTG-AAAAGAAATCG
34993855 AGTGAA
1 AGTGAA
34993861 GAGAGTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.53, C:0.07, G:0.28, T:0.12
Consensus pattern (33 bp):
AGTGAAAAAGAAAAAGAGCCTGAAAAGAAATCG
Found at i:34997890 original size:21 final size:22
Alignment explanation
Indices: 34997848--34997901 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
34997838 ACTAAGTCAT
*
34997848 AAAAT-CTAAATTATTGGACTA
1 AAAATACTAAAATATTGGACTA
*
34997869 AAAATACTAAAATA-TGGTCTA
1 AAAATACTAAAATATTGGACTA
*
34997890 AAGATAACTAAA
1 AAAAT-ACTAAA
34997902 TGGGAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
AAAATACTAAAATATTGGACTA
Found at i:35001107 original size:19 final size:18
Alignment explanation
Indices: 35001056--35001107 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
35001046 GGAAATAAAA
*
35001056 AAATAAAAAAAACAAACTT
1 AAATAAAAAAAA-AAAATT
* *
35001075 GAATAGAAACAAAAAAATT
1 AAATA-AAAAAAAAAAATT
*
35001094 AAATAAAAATAAAA
1 AAATAAAAAAAAAA
35001108 TTACATAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAAAAAAATT
Found at i:35001109 original size:16 final size:17
Alignment explanation
Indices: 35001088--35001120 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35001078 TAGAAACAAA
35001088 AAAATTAAATAA-AAAT
1 AAAATTAAATAATAAAT
*
35001104 AAAATTACATAATAAAT
1 AAAATTAAATAATAAAT
35001121 TTCATAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAATAATAAAT
Found at i:35004991 original size:21 final size:21
Alignment explanation
Indices: 35004967--35005015 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
35004957 GTGTTCTAGT
35004967 TGCATCTAGGTC-TGGTGTGGA
1 TGCATCTA-GTCTTGGTGTGGA
* *
35004988 TGCAACTAGTCTTGTTGTGGA
1 TGCATCTAGTCTTGGTGTGGA
*
35005009 TACATCT
1 TGCATCT
35005016 GATTGTGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (21 bp):
TGCATCTAGTCTTGGTGTGGA
Found at i:35006472 original size:50 final size:49
Alignment explanation
Indices: 35006417--35006561 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 49
35006407 CATTAAGATT
*
35006417 ATGAGAAGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCAAG
* ** * * *
35006467 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGCGCACCTAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCTTG-GCACCAAG
* * * *
35006517 ATGAGAACTCCAATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCA
35006562 GTACAAGAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 2 0.03
50 74 0.95
51 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCTTGGCACCAAG
Found at i:35009687 original size:13 final size:13
Alignment explanation
Indices: 35009669--35009693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35009659 GAAGAAGATA
35009669 AAAAAAACTCTCC
1 AAAAAAACTCTCC
35009682 AAAAAAACTCTC
1 AAAAAAACTCTC
35009694 ATTTTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAACTCTCC
Found at i:35016058 original size:11 final size:10
Alignment explanation
Indices: 35016044--35016079 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
35016034 TTCAATTTAG
35016044 TTTTTATTTT
1 TTTTTATTTT
35016054 CTTTTTATTTT
1 -TTTTTATTTT
35016065 ATTTTTATTTT
1 -TTTTTATTTT
35016076 TTTT
1 TTTT
35016080 CTAACTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:35025556 original size:31 final size:31
Alignment explanation
Indices: 35025521--35025584 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
35025511 TAGTTTAACA
*
35025521 TTAACTTCTTTGTTATTAAAATAAAAATTGT
1 TTAACTTCTTTGTTATTAAAATAAAAAATGT
35025552 TTAACTTCTTTGTTATTAAAATAAAAAATGT
1 TTAACTTCTTTGTTATTAAAATAAAAAATGT
35025583 TT
1 TT
35025585 GTCTTGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
TTAACTTCTTTGTTATTAAAATAAAAAATGT
Found at i:35026040 original size:28 final size:28
Alignment explanation
Indices: 35025968--35026048 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
35025958 TACGACATGT
* * *
35025968 AGTAATAATCTGGGCCTGAGCCCTAAGC
1 AGTAACAATCTGGGCCTTAGCCCAAAGC
* * **
35025996 AATAACAGTCTAAGCCTTAGCCCAAAGC
1 AGTAACAATCTGGGCCTTAGCCCAAAGC
*
35026024 AGTAACAATGTGGGCCTTAGCCCAA
1 AGTAACAATCTGGGCCTTAGCCCAA
35026049 TATAGAAACA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (28 bp):
AGTAACAATCTGGGCCTTAGCCCAAAGC
Found at i:35026422 original size:27 final size:26
Alignment explanation
Indices: 35026392--35026632 Score: 136
Period size: 27 Copynumber: 8.9 Consensus size: 26
35026382 GGTATAATAG
* *
35026392 TCATTTTACCTTATAGGGGTATTTTGC
1 TCATTTTACCTT-CAGGGGTATTTCGC
* *
35026419 TCATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTA-CCTTCAGGGGTATTTCGC
* *
35026446 TCATTTTACCCTTCAAGGGTAGTTCAG-
1 TCATTTTA-CCTTCAGGGGTATTTC-GC
* **
35026473 TCATTTTACCCTTC-GAGGGTAGTTCTA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
* *
35026500 TCATTTTACCCTTC-GAGGGTATATCGA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
*
35026527 TCATTTTACCCTTC-GAGGGTATTTTAG-
1 TCATTTTA-CCTTCAG-GGGTA-TTTCGC
*
35026554 TCATTTTACCCTTC-GAGGGTATTTCGA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
* *
35026581 TCATTTTACTCTTC-GAGAGTATTTCGG
1 TCATTTTAC-CTTCAG-GGGTATTTCGC
* *
35026608 TCATTCTACCCTTCAAGGGTATTTC
1 TCATTTTA-CCTTCAGGGGTATTTC
35026633 AATTATTTTA
Statistics
Matches: 185, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.03
27 171 0.92
28 9 0.05
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (26 bp):
TCATTTTACCTTCAGGGGTATTTCGC
Found at i:35026466 original size:54 final size:54
Alignment explanation
Indices: 35026391--35026642 Score: 303
Period size: 54 Copynumber: 4.7 Consensus size: 54
35026381 GGGTATAATA
* * *
35026391 GTCATTTTA-CCTT-ATAGGGGTATTTTGCTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCA-A-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
35026445 GTCATTTTACCCTTCAAGGGTAGTTC-AGTCATTTTACCCTTCGAGGGTAGTTCT
1 GTCATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCG
* * * **
35026499 ATCATTTTACCCTTCGAGGGTATATCGATCATTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
35026553 GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACTCTTCGAGAGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
35026607 GTCATTCTACCCTTCAAGGGTATTTCAATTATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTA
35026643 GGCCCATTAC
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
54 164 0.96
55 6 0.04
56 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
Found at i:35026520 original size:81 final size:81
Alignment explanation
Indices: 35026419--35026642 Score: 331
Period size: 81 Copynumber: 2.8 Consensus size: 81
35026409 GGTATTTTGC
* *
35026419 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTCAAGGGTAGTTCAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
*
35026484 TTCGAGGGTAGTTCTA
66 TTCGAGGGTAGTTCGA
* * * *
35026500 TCATTTTACCCTTCGAGGGTATATCGATCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
*
35026565 TTCGAGGGTATTTCGA
66 TTCGAGGGTAGTTCGA
* * * * *
35026581 TCATTTTACTCTTCGAGAGTATTTCGGTCATTCTACCCTTCAAGGGTATTTCAATTATTTTA
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
35026643 GGCCCATTAC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 126 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
TTCGAGGGTAGTTCGA
Found at i:35030688 original size:21 final size:21
Alignment explanation
Indices: 35030662--35030708 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
35030652 CTGAAAAGGC
*
35030662 CTATTATTTCTTTTTAGACGG
1 CTATTATTTCTTTTTAGACAG
35030683 CTATTATTTCTTTTTAGACAG
1 CTATTATTTCTTTTTAGACAG
35030704 CTATT
1 CTATT
35030709 CTATGTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (21 bp):
CTATTATTTCTTTTTAGACAG
Found at i:35035332 original size:17 final size:17
Alignment explanation
Indices: 35035310--35035357 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
35035300 GATAAGTATA
35035310 TATTGTTATTGCATTTT
1 TATTGTTATTGCATTTT
* *
35035327 TATTGTCATTACATTTT
1 TATTGTTATTGCATTTT
* *
35035344 CA-TGTTAGTGCATT
1 TATTGTTATTGCATT
35035358 GCGGATAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.56
Consensus pattern (17 bp):
TATTGTTATTGCATTTT
Found at i:35055527 original size:17 final size:17
Alignment explanation
Indices: 35055505--35055549 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
35055495 TTATTGCATT
35055505 TGTATCTGATTATGAAA
1 TGTATCTGATTATGAAA
35055522 TGTATCTGATTATGAAA
1 TGTATCTGATTATGAAA
**
35055539 TACATCTGATT
1 TGTATCTGATT
35055550 CTGTATAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (17 bp):
TGTATCTGATTATGAAA
Found at i:35056332 original size:35 final size:35
Alignment explanation
Indices: 35056282--35056350 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
35056272 CAAGAGTTTT
35056282 TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
1 TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
* * * *
35056317 TAAATAAACTAATGTAACTCTTCTAGATTCGGCC
1 TAAACAAACTAATGTAAATATTCCAGATTCGGCC
35056351 GTAATGTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (35 bp):
TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
Found at i:35059435 original size:3 final size:3
Alignment explanation
Indices: 35059429--35059460 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
35059419 AAGAATAAGA
*
35059429 AGG AGG AGG AGG AGG AGG AGG AGG AGA AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
35059461 AGGGCGATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:35059529 original size:20 final size:21
Alignment explanation
Indices: 35059475--35059530 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
35059465 CGATGCCGAA
*
35059475 AAAGGAAAAGAA-AAAGAGAG
1 AAAGAAAAAGAAGAAAGAGAG
*
35059495 AAAGACAATAG-AGAAAG-GAG
1 AAAGA-AAAAGAAGAAAGAGAG
35059515 AAAGAAAAAGAAGAAA
1 AAAGAAAAAGAAGAAA
35059531 AAATAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 18 0.60
21 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAGAAGAAAGAGAG
Found at i:35059672 original size:15 final size:16
Alignment explanation
Indices: 35059651--35059687 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35059641 AAAACCTTAA
35059651 TTATTATT-TTAGTTAG
1 TTATTATTATT-GTTAG
35059667 -TATTATTATTGTTAG
1 TTATTATTATTGTTAG
35059682 TTATTA
1 TTATTA
35059688 GGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:35059685 original size:56 final size:56
Alignment explanation
Indices: 35059613--35059917 Score: 610
Period size: 56 Copynumber: 5.4 Consensus size: 56
35059603 TTTATTTTAG
35059613 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
1 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
35059669 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
1 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
35059725 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
1 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
35059781 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
1 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
35059837 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
1 TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
35059893 TTATTATTGTTAGTTATTAGGATTA
1 TTATTATTGTTAGTTATTAGGATTA
35059918 GTGGTTAAAT
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 249 1.00
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.50
Consensus pattern (56 bp):
TTATTATTGTTAGTTATTAGGATTAATAAAAACCTTAATTATTATTTTAGTTAGTA
Found at i:35059728 original size:15 final size:16
Alignment explanation
Indices: 35059707--35059743 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35059697 AAAACCTTAA
35059707 TTATTATT-TTAGTTAG
1 TTATTATTATT-GTTAG
35059723 -TATTATTATTGTTAG
1 TTATTATTATTGTTAG
35059738 TTATTA
1 TTATTA
35059744 GGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:35059784 original size:15 final size:16
Alignment explanation
Indices: 35059763--35059799 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35059753 AAAACCTTAA
35059763 TTATTATT-TTAGTTAG
1 TTATTATTATT-GTTAG
35059779 -TATTATTATTGTTAG
1 TTATTATTATTGTTAG
35059794 TTATTA
1 TTATTA
35059800 GGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:35059840 original size:15 final size:16
Alignment explanation
Indices: 35059819--35059855 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35059809 AAAACCTTAA
35059819 TTATTATT-TTAGTTAG
1 TTATTATTATT-GTTAG
35059835 -TATTATTATTGTTAG
1 TTATTATTATTGTTAG
35059850 TTATTA
1 TTATTA
35059856 GGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:35059896 original size:15 final size:16
Alignment explanation
Indices: 35059875--35059911 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35059865 AAAACCTTAA
35059875 TTATTATT-TTAGTTAG
1 TTATTATTATT-GTTAG
35059891 -TATTATTATTGTTAG
1 TTATTATTATTGTTAG
35059906 TTATTA
1 TTATTA
35059912 GGATTAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:35062800 original size:8 final size:8
Alignment explanation
Indices: 35062772--35062813 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
35062762 GAGCTTATGC
*
35062772 TGTAAAGT
1 TGTAATGT
*
35062780 TGTTATG-
1 TGTAATGT
35062787 TGTAATGT
1 TGTAATGT
*
35062795 TGTAATAT
1 TGTAATGT
35062803 TGTAATGT
1 TGTAATGT
35062811 TGT
1 TGT
35062814 TGTAACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:35063609 original size:25 final size:26
Alignment explanation
Indices: 35063550--35063609 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
35063540 TAATTAAATT
**
35063550 TATACAAAAAAGTACAAACTTTGTAA
1 TATACAAAAAAGTACAAACTGAGTAA
*
35063576 TATA-AAAAAAATACAAACTAGAGTAA
1 TATACAAAAAAGTACAAACT-GAGTAA
35063602 TAT-CAAAA
1 TATACAAAA
35063610 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (26 bp):
TATACAAAAAAGTACAAACTGAGTAA
Found at i:35065442 original size:159 final size:159
Alignment explanation
Indices: 35065268--35066114 Score: 1400
Period size: 159 Copynumber: 5.3 Consensus size: 159
35065258 TAATTTCAAT
*
35065268 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
*
35065333 TATATTATTTTAGTACATAAAGTTCGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
*
35065398 AAAAAAACCCTTATTTTGGCCATTTGTTC
131 AAAAAAACCCTTATTTTGGCCCTTTGTTC
** *
35065427 GTATTTTTCTTATTTTCAAATTTTATTACTTTAAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
35065492 TATATTATTTT-GTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
*
35065556 AAAAAAAACCCTTATTTTGGCCCTTTGTTT
131 -AAAAAAACCCTTATTTTGGCCCTTTGTTC
35065586 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
35065651 TATATTATTTT-GTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTA
66 TATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTG--TTTTTTATATAAATTTA
*
35065715 GTAAAAAAAACCCTTATTTTGGCCCTTTGTTT
129 GT-AAAAAAACCCTTATTTTGGCCCTTTGTTC
*
35065747 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATAT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
*
35065812 TATATTATTTTAGTACATAATA-TTTGAAATATATTAATTTAGTGT-TTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAA-AGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAG
35065875 T-AAAAAACCCTTATTTTGGCCCTTTGTTC
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
35065904 AG-ATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATT
1 -GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
*
35065968 TTATATTATTTTAGTACATAAAGTTCGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAG
65 TTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAG
*
35066033 TAAAAAAACCCTTATTTTTGCCCTTTGTTC
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
* **
35066063 GTATTTTTCTTTTTTTTCGGATTTTATTACTTTCATTAAATATACTATTTTC
1 GTATTTTTC-TTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTC
35066115 ATTTTTTAGT
Statistics
Matches: 649, Mismatches: 28, Indels: 21
0.93 0.04 0.03
Matches are distributed among these distances:
156 1 0.00
157 128 0.20
158 71 0.11
159 259 0.40
160 37 0.06
161 124 0.19
162 29 0.04
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (159 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:35066314 original size:30 final size:30
Alignment explanation
Indices: 35066278--35066424 Score: 144
Period size: 30 Copynumber: 5.4 Consensus size: 30
35066268 AAATTAATTA
35066278 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
35066308 AAATAATAAAACATA-CA--TA-ATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
35066334 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
35066354 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
35066384 AAATAATAAGACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
35066414 AAA-AATTAAAA
1 AAATAA-TAAAA
35066425 TTAAATTATG
Statistics
Matches: 100, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
20 7 0.07
21 1 0.01
22 5 0.05
23 1 0.01
24 11 0.11
25 2 0.02
26 16 0.16
27 2 0.02
29 4 0.04
30 51 0.51
ACGTcount: A:0.62, C:0.09, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:35066332 original size:12 final size:12
Alignment explanation
Indices: 35066301--35066359 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
35066291 TAGAATGTAC
35066301 ATAACATAAATA
1 ATAACATAAATA
*
35066313 ATAAAACATACATA
1 AT--AACATAAATA
35066327 ATAACATAAATA
1 ATAACATAAATA
35066339 ATAACATAAATA
1 ATAACATAAATA
*
35066351 ATAAAATAA
1 ATAACATAA
35066360 TAAGACATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 31 0.74
14 11 0.26
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:35066347 original size:20 final size:20
Alignment explanation
Indices: 35066301--35066362 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
35066291 TAGAATGTAC
* *
35066301 ATAACATAAATAATAAAA-C
1 ATAACATAAATAACAAAATA
35066320 AT-ACAT-AATAACATAAATA
1 ATAACATAAATAACA-AAATA
*
35066339 ATAACATAAATAATAAAATA
1 ATAACATAAATAACAAAATA
35066359 ATAA
1 ATAA
35066363 GACATAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.17
18 7 0.19
19 4 0.11
20 13 0.36
21 6 0.17
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAACATAAATAACAAAATA
Found at i:35066381 original size:38 final size:37
Alignment explanation
Indices: 35066262--35066392 Score: 144
Period size: 38 Copynumber: 3.4 Consensus size: 37
35066252 AACACACTTA
35066262 ATAA-ATAAATTAATTAAAATAATAAAACATAGAATGTAC
1 ATAACATAAA-TAA-TAAAATAATAAAACATAG-ATGTAC
*
35066301 ATAACATAAATAATAAAACATACATAATAACATA-A-ATA-
1 ATAACATAAATAAT-AAA-ATA-ATAA-AACATAGATGTAC
*
35066339 ATAACATAAATAATAAAATAATAAGACATAGTATGTAC
1 ATAACATAAATAATAAAATAATAAAACATAG-ATGTAC
35066377 ATAACATAAATAATAA
1 ATAACATAAATAATAA
35066393 GACATAGAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 19
0.78 0.03 0.19
Matches are distributed among these distances:
34 5 0.06
35 4 0.05
36 4 0.05
37 5 0.06
38 31 0.39
39 12 0.15
40 9 0.11
41 4 0.05
42 6 0.08
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.26
Consensus pattern (37 bp):
ATAACATAAATAATAAAATAATAAAACATAGATGTAC
Found at i:35066667 original size:3 final size:3
Alignment explanation
Indices: 35066659--35066767 Score: 73
Period size: 3 Copynumber: 36.3 Consensus size: 3
35066649 CTTCCCTCCC
* * * *
35066659 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TC-T TCT
* * * * *
35066705 GCG TCT CCT TCC CCT TCT TCT TCT TC- TCT TC- TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
35066750 TCT TCT CTCAT TCT TCT T
1 TCT TCT -TC-T TCT TCT T
35066768 TCCTAATGCT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 8 0.10
3 62 0.77
4 9 0.11
5 1 0.01
ACGTcount: A:0.01, C:0.35, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:35070147 original size:113 final size:114
Alignment explanation
Indices: 35069949--35070172 Score: 396
Period size: 113 Copynumber: 2.0 Consensus size: 114
35069939 TTATTATTGG
* * * *
35069949 CAAAGTCAAATCCACTTTTTATGCAATTTACCTTTGTTATTTTTAGTCAGTTGAAGTCTTATGGA
1 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
35070014 TACCATAGTTCACATTCATAAT-ACACACCTTAAAAACTTTATGAATAC
66 TACCATAGTTCACATTCATAATAACACACCTTAAAAACTTTATGAATAC
35070062 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
1 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
35070127 TACCATAGTTCACATTCATAATACACACACCTTAAAAACTTTATGA
66 TACCATAGTTCACATTCATAATA-ACACACCTTAAAAACTTTATGA
35070173 TTCTCGCTTA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
113 83 0.79
115 22 0.21
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (114 bp):
CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
TACCATAGTTCACATTCATAATAACACACCTTAAAAACTTTATGAATAC
Found at i:35070244 original size:6 final size:6
Alignment explanation
Indices: 35070221--35070267 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
35070211 TCTTTTATAC
*
35070221 ATATCT ATAATAT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
1 ATATCT AT-ATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
35070268 ATATTATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATCT
Found at i:35070256 original size:18 final size:18
Alignment explanation
Indices: 35070221--35070271 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
35070211 TCTTTTATAC
35070221 ATATCTATAATATATATCT
1 ATATCTAT-ATATATATCT
*
35070240 ATATCTATATCTATATCT
1 ATATCTATATATATATCT
35070258 ATATCTATATATAT
1 ATATCTATATATAT
35070272 TATTGATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATCTATATATATATCT
Found at i:35072320 original size:21 final size:21
Alignment explanation
Indices: 35072303--35072344 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35072293 TTCTTTCCTT
35072303 TATTCAATTGATTGTTTCTTG
1 TATTCAATTGATTGTTTCTTG
* * *
35072324 TTTTTAATTGATTGTTACTTG
1 TATTCAATTGATTGTTTCTTG
35072345 CTCTCAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (21 bp):
TATTCAATTGATTGTTTCTTG
Found at i:35073745 original size:19 final size:18
Alignment explanation
Indices: 35073700--35073747 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
35073690 ACATAAATAA
*
35073700 ATAAATAAATAATAACGAT
1 ATAAA-AAATAATAAAGAT
35073719 A-AAGAAAATGAATAAAGAT
1 ATAA-AAAAT-AATAAAGAT
35073738 ATAAAAAATA
1 ATAAAAAATA
35073748 CAAAAAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAATAAAGAT
Found at i:35073956 original size:8 final size:8
Alignment explanation
Indices: 35073933--35073999 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
35073923 TACATACATG
35073933 TATATAAA
1 TATATAAA
35073941 TGAT-TAAA
1 T-ATATAAA
35073949 TATATAAA
1 TATATAAA
*
35073957 AATATAAA
1 TATATAAA
**
35073965 CGTATATATG
1 --TATATAAA
*
35073975 TATGTAAA
1 TATATAAA
35073983 TAT-TAAA
1 TATATAAA
35073990 TAT-TAAA
1 TATATAAA
35073997 TAT
1 TAT
35074000 GTATATATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 16 0.33
8 25 0.52
9 2 0.04
10 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (8 bp):
TATATAAA
Found at i:35074217 original size:3 final size:3
Alignment explanation
Indices: 35074101--35074198 Score: 70
Period size: 3 Copynumber: 32.7 Consensus size: 3
35074091 AAATATGATG
* * * * * *
35074101 ATA ATA ACA ATA ATA TTA ATA ATA ATA TTA ATA ATA TTA ATA CTA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
35074149 CTA CTA CTA CTA CTA CTA CTA CTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35074197 AT
1 AT
35074199 TTATTATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:35077642 original size:40 final size:40
Alignment explanation
Indices: 35077553--35077816 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
35077543 TTGAATGATG
* *
35077553 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
35077592 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35077632 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35077671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35077711 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35077751 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35077792 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35077817 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35077834 original size:120 final size:118
Alignment explanation
Indices: 35077553--35077849 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
35077543 TTGAATGATG
* *
35077553 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
35077613 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
35077671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
35077736 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
35077792 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
35077850 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:35081937 original size:31 final size:31
Alignment explanation
Indices: 35081902--35081963 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
35081892 TTTATTTAGA
35081902 TTCTATCTTATTAAAAATGCTTAAACGTTGG
1 TTCTATCTTATTAAAAATGCTTAAACGTTGG
*
35081933 TTCTATTTTATTAAAAATGCTTAAACGTTGG
1 TTCTATCTTATTAAAAATGCTTAAACGTTGG
35081964 GTGCTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (31 bp):
TTCTATCTTATTAAAAATGCTTAAACGTTGG
Found at i:35081974 original size:31 final size:30
Alignment explanation
Indices: 35081904--35081974 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
35081894 TATTTAGATT
*
35081904 CTATCTTATTAAAAATGCTTAAACGTTGGTT
1 CTAT-TTATTAAAAATGCTTAAACGTTGGTG
35081935 CTATTTTATTAAAAATGCTTAAACGTTGGGTG
1 CTA-TTTATTAAAAATGCTTAAACGTT-GGTG
35081967 CTATTTAT
1 CTATTTAT
35081975 AGAATTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (30 bp):
CTATTTATTAAAAATGCTTAAACGTTGGTG
Found at i:35082507 original size:11 final size:11
Alignment explanation
Indices: 35082491--35082515 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35082481 TACTTTTATG
35082491 TATATTATAGA
1 TATATTATAGA
35082502 TATATTATAGA
1 TATATTATAGA
35082513 TAT
1 TAT
35082516 GTATTGTGAT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TATATTATAGA
Found at i:35087502 original size:32 final size:31
Alignment explanation
Indices: 35087452--35087513 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
35087442 ATACTTTATA
35087452 AAAGTTGCATTTTCAAAATACTTTATAAAATT
1 AAAGTTGCATTTTCAAAATACTTTA-AAAATT
* *
35087484 AAAGTTGTATATTT-AAAATATTTTAAAAAT
1 AAAGTTGCAT-TTTCAAAATACTTTAAAAAT
35087514 AATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 19 0.70
33 3 0.11
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
AAAGTTGCATTTTCAAAATACTTTAAAAATT
Found at i:35089193 original size:15 final size:14
Alignment explanation
Indices: 35089173--35089203 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
35089163 TATTCTTACA
35089173 ATAATGTTAAAAGAT
1 ATAATGTTAAAA-AT
35089188 ATAATGTTAAAAAT
1 ATAATGTTAAAAAT
35089202 AT
1 AT
35089204 TCTTACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
ATAATGTTAAAAAT
Found at i:35096345 original size:27 final size:27
Alignment explanation
Indices: 35096306--35096608 Score: 360
Period size: 27 Copynumber: 11.3 Consensus size: 27
35096296 ACAGGTCAAT
** * **
35096306 AAATGACTAAAATACCCCTATAAAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
35096333 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
35096360 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
35096387 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
35096414 AAAT-AGCTTAAATACCCTCATATGGTA
1 AAATGA-CCGAAATACCCCCATAGGGTA
* * *
35096441 GAATGACCGAAATGCCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
35096468 GAATGATTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
35096495 AAATGACC-AAAGTACCCCCATAGGGTA
1 AAATGACCGAAA-TACCCCCATAGGGTA
* *
35096522 AAATGACCG-AATACCCTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
35096548 AAATGATCGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
35096575 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
35096602 AAATGAC
1 AAATGAC
35096609 TGTTATACCC
Statistics
Matches: 238, Mismatches: 33, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
26 25 0.11
27 212 0.89
28 1 0.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:35096388 original size:54 final size:54
Alignment explanation
Indices: 35096306--35096608 Score: 398
Period size: 54 Copynumber: 5.6 Consensus size: 54
35096296 ACAGGTCAAT
* **
35096306 AAATGACTAAAATACCC-CTATAAAGTAAAATGACCGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCTC-ATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
* *
35096360 AAATGACTGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
* * * * *
35096414 AAAT-AGCTTAAATACCCTCATATGGTAGAATGACCGAAATGCCCCCATAAGGTA
1 AAATGA-CTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
* *
35096468 GAATGATTGAAATACCCTCATAGGGTAAAATGACC-AAAGTACCCCCATAGGGTA
1 AAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCCATAGGGTA
* * * *
35096522 AAATGACCG-AATACCCTCATAAGGTAAAATGATCGAAATACCCCCATAGGATA
1 AAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
*
35096575 AAATGACCGAAATACCCTCATAGGGTAAAATGAC
1 AAATGACTGAAATACCCTCATAGGGTAAAATGAC
35096609 TGTTATACCC
Statistics
Matches: 217, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
53 50 0.23
54 165 0.76
55 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
Found at i:35097511 original size:3 final size:3
Alignment explanation
Indices: 35097503--35097528 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35097493 CATGATCAAG
35097503 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
35097529 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:35098496 original size:22 final size:21
Alignment explanation
Indices: 35098461--35098558 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
35098451 AAAGGGTATC
* *
35098461 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
35098482 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
35098505 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
35098524 TGCATATC-TCATATCTAAGAT
1 TACAAATCAT-ATCTCTAAGAT
* *
35098545 TGCATATCATATCT
1 TACAAATCATATCT
35098559 AAGATTGCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.02
19 17 0.26
21 22 0.33
22 16 0.24
23 10 0.15
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:35098504 original size:23 final size:22
Alignment explanation
Indices: 35098461--35098518 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
35098451 AAAGGGTATC
* *
35098461 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35098482 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
35098505 TGCATATCATATCT
1 TACAAATCATATCT
35098519 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35098537 original size:21 final size:19
Alignment explanation
Indices: 35098497--35098571 Score: 132
Period size: 19 Copynumber: 3.8 Consensus size: 19
35098487 AATCATATCT
35098497 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35098516 TCTAAGATTGCATATCTCATA
1 TCTAAGATTGCATA--TCATA
35098537 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35098556 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35098572 CCTGAAAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 35 0.65
21 19 0.35
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35099550 original size:44 final size:44
Alignment explanation
Indices: 35099499--35099991 Score: 724
Period size: 44 Copynumber: 11.4 Consensus size: 44
35099489 ATATGGAATT
*
35099499 TTCAACCTACTCCACTGCT-ACTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
35099543 TTTAACCTATTCCACTGCTGACTAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
35099578 TTC-ACCTATTCCACTACTGACCAGGGAGCTAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
35099621 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
35099665 TTCAACCTATTCCACTACTAACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
35099709 TTCAACCTATTCCACTGCTGACCAGGGAGATATGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
35099753 TTCAACCTATTTCACTGTTGACCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
35099797 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
35099841 TTCAACCTATTCCACTGCTGACCAGGGAGATATGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
35099885 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
35099929 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
35099973 TTCAACCTATTCCACTGCT
1 TTCAACCTATTCCACTGCT
35099992 TTCCAAGGAG
Statistics
Matches: 405, Mismatches: 31, Indels: 26
0.88 0.07 0.06
Matches are distributed among these distances:
34 27 0.07
35 2 0.00
37 1 0.00
41 1 0.00
43 4 0.01
44 366 0.90
45 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:35099590 original size:34 final size:34
Alignment explanation
Indices: 35099547--35099611 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
35099537 ACAATCTTTA
* *
35099547 ACCTATTCCACTGCTGACTAGGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGATTC
*
35099581 ACCTATTCCACTACTGACCAGGGAGCTAGGA
1 ACCTATTCCACTACTGACCAGGGAGATAGGA
35099612 CTTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGATTC
Found at i:35106178 original size:212 final size:211
Alignment explanation
Indices: 35105811--35106230 Score: 831
Period size: 212 Copynumber: 2.0 Consensus size: 211
35105801 GAAGGATTAA
35105811 CACCCTCGTAACGCCCAAAAATTGGTACCTAGTTAATTAATTAATGTCTTAATGTCGAAAATTGA
1 CACCCTCGTAACGCCCAAAAATTGGTACCTAGTTAATTAATTAATGTCTTAATGTCGAAAATTGA
35105876 AAACTTTGAAGAGATTTAAAATACATTCTTTTAATTTAAAAAAAACTTATATAAAACAAGTTACT
66 AAACTTTGAAGAGATTTAAAATACATTCTTTTAATTTAAAAAAAACTTATATAAAACAAGTTACT
35105941 CGATAAGACCCTCTCATTTTGAAAAGAGAAAATGTCACACCCAATAAGTTAGGGCATGATATTTC
131 CGATAAGACCCTCTCATTTTGAAAAGAGAAAATGTCACACCCAATAAGTTAGGGCATGATATTTC
35106006 ACTTCCTCAAAAGNTAG
196 ACTTCCTCAAAAG-TAG
35106023 CACCCTCGTAACGCCCAAAAATTGGTACCTAGTTAATTAATTAATGTCTTAATGTCGAAAATTGA
1 CACCCTCGTAACGCCCAAAAATTGGTACCTAGTTAATTAATTAATGTCTTAATGTCGAAAATTGA
35106088 AAACTTTGAAGAGATTTAAAATACATTCTTTTAATTTAAAAAAAACTTATATAAAACAAGTTACT
66 AAACTTTGAAGAGATTTAAAATACATTCTTTTAATTTAAAAAAAACTTATATAAAACAAGTTACT
35106153 CGATAAGACCCTCTCATTTTGAAAAGAGAAAATGTCACACCCAATAAGTTAGGGCATGATATTTC
131 CGATAAGACCCTCTCATTTTGAAAAGAGAAAATGTCACACCCAATAAGTTAGGGCATGATATTTC
35106218 ACTTCCTCAAAAG
196 ACTTCCTCAAAAG
35106231 CGAGCTTGTC
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 208 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (211 bp):
CACCCTCGTAACGCCCAAAAATTGGTACCTAGTTAATTAATTAATGTCTTAATGTCGAAAATTGA
AAACTTTGAAGAGATTTAAAATACATTCTTTTAATTTAAAAAAAACTTATATAAAACAAGTTACT
CGATAAGACCCTCTCATTTTGAAAAGAGAAAATGTCACACCCAATAAGTTAGGGCATGATATTTC
ACTTCCTCAAAAGTAG
Found at i:35106681 original size:3 final size:3
Alignment explanation
Indices: 35106673--35106732 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
35106663 AAGAACAAAA
* *
35106673 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35106721 AAT AAT AAT AAT
1 AAT AAT AAT AAT
35106733 GAAAAGATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35106968 original size:25 final size:23
Alignment explanation
Indices: 35106911--35106953 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
35106901 AAATATAAAA
35106911 TATAA-AAAAATATATATGTACG
1 TATAAGAAAAATATATATGTACG
35106933 TATAAGAAAAATATATATGTA
1 TATAAGAAAAATATATATGTA
35106954 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
TATAAGAAAAATATATATGTACG
Found at i:35107691 original size:23 final size:22
Alignment explanation
Indices: 35107648--35107705 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35107638 AAAGGATATC
* *
35107648 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35107669 TACGAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
35107692 TACATATCATATCT
1 TACAAATCATATCT
35107706 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35107708 original size:19 final size:19
Alignment explanation
Indices: 35107661--35107739 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 19
35107651 AAATTAAATC
*
35107661 TCTAAGATTACGAAATCATA
1 TCTAAGATTAC-ATATCATA
35107681 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
35107703 TCTAAGATTGCATATATCACA
1 TCTAAGATT--ACATATCATA
*
35107724 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
35107740 CTTGAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 14 0.29
21 17 0.35
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:35107721 original size:21 final size:21
Alignment explanation
Indices: 35107695--35107738 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
35107685 CTAAGATTAC
*
35107695 ATATCATATCTAAGATTGCAT
1 ATATCACATCTAAGATTGCAT
35107716 ATATCACATCTAAGATTGCAT
1 ATATCACATCTAAGATTGCAT
35107737 AT
1 AT
35107739 CCTTGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATCACATCTAAGATTGCAT
Found at i:35109461 original size:43 final size:43
Alignment explanation
Indices: 35109399--35109738 Score: 554
Period size: 43 Copynumber: 7.9 Consensus size: 43
35109389 TTACAATGCT
* *
35109399 ACTATAGACCATGGTCTTTAGCGGCGCTTACCCAACAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
* * *
35109442 GCTATAAACCATGGTCTTTAGTGGCGCTTAGCCAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
* *
35109485 GCTATAGATCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
*
35109528 GCTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
35109571 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
** *
35109614 ACTATAGACCATTCTCTTTAGCGGCGCTTAGGCAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
**
35109657 ACTATAGACCATGGTCTTTAGCGGCGCTTAGGAAAAAAACGCC
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
*
35109700 ACTATAGACCATGGTCTTTAGCGGCGCTTACCCAAAAAA
1 ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAA
35109739 TGCCGCTAAT
Statistics
Matches: 278, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 278 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (43 bp):
ACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCC
Found at i:35110079 original size:21 final size:21
Alignment explanation
Indices: 35110053--35110107 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
35110043 AGCTGTTCTG
*
35110053 CTTCCCTCGCTGTAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
*
35110074 CTTCCCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
* *
35110095 TTTCTCTCGCTGC
1 CTTCCCTCGCTGC
35110108 CACATCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.35
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:35110194 original size:21 final size:21
Alignment explanation
Indices: 35110154--35110194 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35110144 CTTTCGTTGA
**
35110154 ACCTCAGCTTCTCTTGCTGCT
1 ACCTCAGCTTCTCTCACTGCT
*
35110175 ACCTCTGCTTCTCTCACTGC
1 ACCTCAGCTTCTCTCACTGC
35110195 CGCATCTGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.41, G:0.12, T:0.37
Consensus pattern (21 bp):
ACCTCAGCTTCTCTCACTGCT
Found at i:35110201 original size:87 final size:87
Alignment explanation
Indices: 35110089--35110254 Score: 255
Period size: 87 Copynumber: 1.9 Consensus size: 87
35110079 CTCGCTGCAG
* *
35110089 CCTCTGTTTCTCTCGCTGCCACATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCTGCTTCTCTCACTGCCACATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
35110152 GAACCTCAGCTTCTCTTGCTGCTA
64 GAACCTCAGCTTCTCTTGCTGCTA
* * *
35110176 CCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCTGCTTCTCTCACTGCCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
35110241 ACCTCAGCTTCTCT
66 ACCTCAGCTTCTCT
35110255 CGATATTGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
86 1 0.01
87 67 0.93
88 4 0.06
ACGTcount: A:0.13, C:0.30, G:0.16, T:0.40
Consensus pattern (87 bp):
CCTCTGCTTCTCTCACTGCCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
ACCTCAGCTTCTCTTGCTGCTA
Found at i:35115820 original size:15 final size:15
Alignment explanation
Indices: 35115781--35115822 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
35115771 TCGTATTATG
35115781 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
35115796 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
35115812 TAAGTTATGTA
1 TAAGTTATGTA
35115823 AGTTATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:35115952 original size:19 final size:17
Alignment explanation
Indices: 35115923--35116297 Score: 111
Period size: 16 Copynumber: 23.9 Consensus size: 17
35115913 AAATATATAT
35115923 ATTA-ATAAGTTATGTC
1 ATTATATAAGTTATGTC
*
35115939 GTATTATGTAAGTTATG-C
1 --ATTATATAAGTTATGTC
35115957 ATTATATAAGTTATGT-
1 ATTATATAAGTTATGTC
35115973 ATTA-ATAAGTTATGT-
1 ATTATATAAGTTATGTC
* *
35115988 A--AGATATG-TA--TC
1 ATTATATAAGTTATGTC
* * *
35116000 ATTTTA-AAATATATAT-
1 ATTATATAAGT-TATGTC
35116016 ATTA-ATAAGTTATGTC
1 ATTATATAAGTTATGTC
* *
35116032 GTATTATGTAACTTATGT-
1 --ATTATATAAGTTATGTC
*
35116050 ATTATATAAGTCATGT-
1 ATTATATAAGTTATGTC
35116066 ATTA-ATAAGTTATGT-
1 ATTATATAAGTTATGTC
*
35116081 ATTA-AAAATGTTATGT-
1 ATTATATAA-GTTATGTC
* *
35116097 ATTA-ATAAGTTGTGTA
1 ATTATATAAGTTATGTC
*
35116113 AGT-TAT--G-TA--TC
1 ATTATATAAGTTATGTC
* * *
35116124 ATTTTA-AAATATATAT-
1 ATTATATAAGT-TATGTC
35116140 ATTA-ATAAGTTATGTC
1 ATTATATAAGTTATGTC
*
35116156 GTATTATGTAAGTTATGT-
1 --ATTATATAAGTTATGTC
35116174 ATTATATAAGTTATGT-
1 ATTATATAAGTTATGTC
35116190 ATTA-ATAAGTTATGT-
1 ATTATATAAGTTATGTC
* *
35116205 A--AGATATG-TA--TC
1 ATTATATAAGTTATGTC
* * *
35116217 ATTTTA-AAATATATAT-
1 ATTATATAAGT-TATGTC
35116233 ATTA-ATAAGTTATGTC
1 ATTATATAAGTTATGTC
35116249 GTATTATATAAGTTATGT-
1 --ATTATATAAGTTATGTC
*
35116267 ATTA-AAAATGTTATGT-
1 ATTATATAA-GTTATGTC
35116283 ATTA-ATAAGTTATGT
1 ATTATATAAGTTATGT
35116298 AAGTTATGTA
Statistics
Matches: 274, Mismatches: 39, Indels: 91
0.68 0.10 0.23
Matches are distributed among these distances:
11 5 0.02
12 4 0.01
13 9 0.03
14 11 0.04
15 78 0.28
16 108 0.39
17 3 0.01
18 17 0.06
19 39 0.14
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (17 bp):
ATTATATAAGTTATGTC
Found at i:35115985 original size:50 final size:50
Alignment explanation
Indices: 35115922--35116080 Score: 174
Period size: 50 Copynumber: 3.3 Consensus size: 50
35115912 AAAATATATA
35115922 TATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATG
1 TATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATG
* * * *
35115972 TATTAATAAGTTA--T-GTA--A-GATATG-TAT-CATTTTA-AAATATATA
1 TATTAATAAGTTATGTCGTATTATG-TAAGTTATGCATTATATAAGT-TATG
* * *
35116015 TATTAATAAGTTATGTCGTATTATGTAACTTATGTATTATATAAGTCATG
1 TATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATG
35116065 TATTAATAAGTTATGT
1 TATTAATAAGTTATGT
35116081 ATTAAAAATG
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
42 3 0.03
43 22 0.25
44 4 0.05
45 5 0.06
46 3 0.03
47 3 0.03
48 4 0.05
49 4 0.05
50 36 0.41
51 3 0.03
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (50 bp):
TATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATG
Found at i:35115987 original size:40 final size:41
Alignment explanation
Indices: 35115942--35116154 Score: 109
Period size: 43 Copynumber: 5.1 Consensus size: 41
35115932 TTATGTCGTA
* * *
35115942 TTATGTAAGTTATG-CATTATATAAGT-TATGTATTAATAAG
1 TTATGTAAGATATGTCATTATA-AAATATATATATTAATAAG
*
35115982 TTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAG
1 TTATGTAAGATATG--TCATTATAAAATATATATATTAATAAG
* * ** * * * *
35116025 TTATGT-CGTATTATGTAACTTATGTATTATATA-AGTCATGTA-
1 TTATGTAAG-A-TATGTCA-TTATAAAATATATATATTAAT-AAG
* * * *
35116067 TTA-ATAAGTTATGT-ATTA-AAAATGTTATGTATTAATAAG
1 TTATGTAAGATATGTCATTATAAAAT-ATATATATTAATAAG
* * *
35116106 TTGTGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
1 TTATGTAAGATATG--TCATTATAAAATATATATATTAATAAG
35116149 TTATGT
1 TTATGT
35116155 CGTATTATGT
Statistics
Matches: 126, Mismatches: 30, Indels: 31
0.67 0.16 0.17
Matches are distributed among these distances:
37 2 0.02
38 7 0.06
39 7 0.06
40 27 0.21
41 1 0.01
42 15 0.12
43 58 0.46
44 9 0.07
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (41 bp):
TTATGTAAGATATGTCATTATAAAATATATATATTAATAAG
Found at i:35116007 original size:93 final size:93
Alignment explanation
Indices: 35115866--35116081 Score: 364
Period size: 93 Copynumber: 2.3 Consensus size: 93
35115856 GTTATGTCGT
** *
35115866 ATTATATAAGTTATGTATTAATAAG--GGGAAAGATATGTATCATTTTAAAATATATATATTAAT
1 ATTATATAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAAT
*
35115929 AAGTTATGTCGTATTATGTAAGTTATGC
66 AAGTTATGTCGTATTATGTAACTTATGC
35115957 ATTATATAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAAT
1 ATTATATAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAAT
*
35116022 AAGTTATGTCGTATTATGTAACTTATGT
66 AAGTTATGTCGTATTATGTAACTTATGC
*
35116050 ATTATATAAGTCATGTATTAATAAGTTATGTA
1 ATTATATAAGTTATGTATTAATAAGTTATGTA
35116082 TTAAAAATGT
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
91 25 0.21
93 92 0.79
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.44
Consensus pattern (93 bp):
ATTATATAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAAT
AAGTTATGTCGTATTATGTAACTTATGC
Found at i:35116102 original size:124 final size:124
Alignment explanation
Indices: 35115947--35116205 Score: 448
Period size: 124 Copynumber: 2.1 Consensus size: 124
35115937 TCGTATTATG
* *
35115947 TAAGTTATGCATTATATAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATAT
1 TAAGTTATGTATTATAAAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATAT
35116012 ATATATTAATAAGTTATGTCGTATTATGTAACTTATGTATTATATAAGTCATGTATTAA
66 ATATATTAATAAGTTATGTCGTATTATGTAACTTATGTATTATATAAGTCATGTATTAA
* *
35116071 TAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTGTGTAAGTTATGTATCATTTTAAAATA
1 TAAGTTATGTATTATAAAA-GTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATA
* *
35116135 TATATATTAATAAGTTATGTCGTATTATGTAAGTTATGTATTATATAAGTTATGTATTAA
65 TATATATTAATAAGTTATGTCGTATTATGTAACTTATGTATTATATAAGTCATGTATTAA
35116195 TAAGTTATGTA
1 TAAGTTATGTA
35116206 AGATATGTAT
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
123 3 0.02
124 125 0.98
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (124 bp):
TAAGTTATGTATTATAAAAGTTATGTATTAATAAGTTATGTAAGATATGTATCATTTTAAAATAT
ATATATTAATAAGTTATGTCGTATTATGTAACTTATGTATTATATAAGTCATGTATTAA
Found at i:35116138 original size:217 final size:215
Alignment explanation
Indices: 35115847--35116298 Score: 746
Period size: 217 Copynumber: 2.1 Consensus size: 215
35115837 TTAAAATATA
*
35115847 TATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAATAAGGGGAAAGATATGTATCATTTT
1 TATTAATAAGTTA--T-GTATTATAAAAGTTATGTATTAATAAGGGGAAAGATATGTATCATTTT
35115912 AAAATATATATATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATGTATTA
63 AAAATATATATATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATGTATTA
*
35115977 ATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATGTA
128 ATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATATA
*
35116042 ACTTATGTATTATATAA-GTCATG
193 ACTTATGTATTA-AAAATGTCATG
* * *
35116065 TATTAATAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTGTGTAAGTTATGTATCATTTT
1 TATTAATAAGTTATGTATTATAAAA-GTTATGTATTAATAAG--GGGAAAGATATGTATCATTTT
*
35116129 AAAATATATATATTAATAAGTTATGTCGTATTATGTAAGTTATGTATTATATAAGTTATGTATTA
63 AAAATATATATATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATGTATTA
35116194 ATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATATA
128 ATAAGTTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATATA
* *
35116259 AGTTATGTATTAAAAATGTTATG
193 ACTTATGTATTAAAAATGTCATG
35116282 TATTAATAAGTTATGTA
1 TATTAATAAGTTATGTA
35116299 AGTTATGTAT
Statistics
Matches: 221, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
214 3 0.01
215 22 0.10
216 4 0.02
217 179 0.81
218 13 0.06
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (215 bp):
TATTAATAAGTTATGTATTATAAAAGTTATGTATTAATAAGGGGAAAGATATGTATCATTTTAAA
ATATATATATTAATAAGTTATGTCGTATTATGTAAGTTATGCATTATATAAGTTATGTATTAATA
AGTTATGTAAGATATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATATAACT
TATGTATTAAAAATGTCATG
Found at i:35116147 original size:43 final size:44
Alignment explanation
Indices: 35116096--35116339 Score: 191
Period size: 50 Copynumber: 5.4 Consensus size: 44
35116086 AAATGTTATG
*
35116096 TATTAATAAGTTGTGTAAGTTATGT-A-TCATTTTAAAATATATA
1 TATTAATAAGTTATGTAA-TTATGTAAGTCATTTTAAAATATATA
* * *
35116139 TATTAATAAGTTATGTCGTATTATGTAAGTTATGTATTATATAAGT-TATG
1 TATTAATAAGTTATGT--AATTATGTAAGTCAT-T-TTA-A-AA-TATATA
*
35116189 TATTAATAAGTTATGTAAGATATGT-A-TCATTTTAAAATATATA
1 TATTAATAAGTTATGTAA-TTATGTAAGTCATTTTAAAATATATA
* * * * *
35116232 TATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATG
1 TATTAATAAGTTATGT--AATTATGTAAGTCAT-T-TT-AAAAT-ATATA
35116282 TATTAATAAGTTATGTAAGTTATGT-A-TCATTTT-AAA-ATATA
1 TATTAATAAGTTATGTAA-TTATGTAAGTCATTTTAAAATATATA
35116323 TATTAATAAGTTATGTA
1 TATTAATAAGTTATGTA
35116340 CATGTTTAAA
Statistics
Matches: 162, Mismatches: 19, Indels: 42
0.73 0.09 0.19
Matches are distributed among these distances:
41 20 0.12
42 1 0.01
43 39 0.24
44 11 0.07
45 9 0.06
46 8 0.05
47 8 0.05
48 9 0.06
49 16 0.10
50 40 0.25
51 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (44 bp):
TATTAATAAGTTATGTAATTATGTAAGTCATTTTAAAATATATA
Found at i:35116168 original size:93 final size:93
Alignment explanation
Indices: 35116064--35116338 Score: 477
Period size: 93 Copynumber: 3.0 Consensus size: 93
35116054 TATAAGTCAT
*
35116064 GTATTA-ATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTGTGTAAGTTATGTATCATTT
1 GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTT
35116128 TAAAATATATATATTAATAAGTTATGTC
66 TAAAATATATATATTAATAAGTTATGTC
* * *
35116156 GTATTATGTAAGTTATGTATTATATAA-GTTATGTATTAATAAGTTATGTAAGATATGTATCATT
1 GTATTATATAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATT
35116220 TTAAAATATATATATTAATAAGTTATGTC
65 TTAAAATATATATATTAATAAGTTATGTC
35116249 GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTT
1 GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTT
35116314 T-AAA-ATATATATTAATAAGTTATGT
66 TAAAATATATATATTAATAAGTTATGT
35116339 ACATGTTTAA
Statistics
Matches: 173, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
91 21 0.12
92 12 0.07
93 137 0.79
94 3 0.02
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (93 bp):
GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTT
TAAAATATATATATTAATAAGTTATGTC
Found at i:35116171 original size:53 final size:53
Alignment explanation
Indices: 35116109--35116268 Score: 184
Period size: 53 Copynumber: 3.3 Consensus size: 53
35116099 TAATAAGTTG
35116109 TGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
1 TGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
* * * *
35116162 TGTAAGTTATGTATTA-TAT-AAGT-TATGTATTAATAAGTTA--T-GTA--A
1 TGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
35116207 -G--A--TATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
1 TGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
*
35116255 TATAAGTTATGTAT
1 TGTAAGTTATGTAT
35116269 TAAAAATGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 26
0.71 0.08 0.22
Matches are distributed among these distances:
40 8 0.09
41 2 0.02
42 4 0.05
43 16 0.19
44 1 0.01
45 2 0.02
46 3 0.04
47 3 0.04
48 2 0.02
50 16 0.19
51 4 0.05
52 2 0.02
53 22 0.26
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (53 bp):
TGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTA
Found at i:35116173 original size:9 final size:9
Alignment explanation
Indices: 35116159--35116214 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
35116149 TTATGTCGTA
35116159 TTATGTAAG
1 TTATGTAAG
35116168 TTATGT-A-
1 TTATGTAAG
*
35116175 TTATATAAG
1 TTATGTAAG
35116184 TTATGT-A-
1 TTATGTAAG
*
35116191 TTA-ATAAG
1 TTATGTAAG
35116199 TTATGTAAG
1 TTATGTAAG
*
35116208 ATATGTA
1 TTATGTA
35116215 TCATTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 21 0.57
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35116204 original size:31 final size:30
Alignment explanation
Indices: 35115922--35116298 Score: 189
Period size: 31 Copynumber: 12.1 Consensus size: 30
35115912 AAAATATATA
*
35115922 TATTAATAAGTTATGTCGTATTATGTAAGTTATG
1 TATTAATAAGTTA--T-GTATTA-ATAAGTTATG
*
35115956 CATTATATAAGTTATGTATTAATAAGTTATG
1 TATTA-ATAAGTTATGTATTAATAAGTTATG
* *
35115987 TA--AGATATGTATCAT-T-TTAA-AA-TATATA
1 TATTA-ATAAGT-T-ATGTATTAATAAGT-TATG
* *
35116015 TATTAATAAGTTATGTCGTATTATGTAACTTATG
1 TATTAATAAGTTA--T-GTATTA-ATAAGTTATG
*
35116049 TATTATATAAGTCATGTATTAATAAGTTATG
1 TATTA-ATAAGTTATGTATTAATAAGTTATG
* *
35116080 TATTAAAAATGTTATGTATTAATAAGTTGTG
1 TATTAATAA-GTTATGTATTAATAAGTTATG
*
35116111 TAAGTT-AT--GTATCAT-T-TTAA-AA-TATATA
1 T-A-TTAATAAGT-T-ATGTATTAATAAGT-TATG
*
35116139 TATTAATAAGTTATGTCGTATTATGTAAGTTATG
1 TATTAATAAGTTA--T-GTATTA-ATAAGTTATG
35116173 TATTATATAAGTTATGTATTAATAAGTTATG
1 TATTA-ATAAGTTATGTATTAATAAGTTATG
* *
35116204 TA--AGATATGTATCAT-T-TTAA-AA-TATATA
1 TATTA-ATAAGT-T-ATGTATTAATAAGT-TATG
35116232 TATTAATAAGTTATGTCGTATTATATAAGTTATG
1 TATTAATAAGTTA--T-GTATTA-ATAAGTTATG
*
35116266 TATTAAAAATGTTATGTATTAATAAGTTATG
1 TATTAATAA-GTTATGTATTAATAAGTTATG
35116297 TA
1 TA
35116299 AGTTATGTAT
Statistics
Matches: 269, Mismatches: 27, Indels: 97
0.68 0.07 0.25
Matches are distributed among these distances:
26 2 0.01
27 9 0.03
28 22 0.08
29 41 0.15
30 11 0.04
31 75 0.28
32 35 0.13
33 7 0.03
34 37 0.14
35 30 0.11
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (30 bp):
TATTAATAAGTTATGTATTAATAAGTTATG
Found at i:35116616 original size:15 final size:15
Alignment explanation
Indices: 35116588--35116623 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
35116578 TTAATAAAAG
*
35116588 GAAAA-AGTAGAAAT
1 GAAAACAGTACAAAT
35116602 GAAAACAGTACAAAT
1 GAAAACAGTACAAAT
35116617 GAAAACA
1 GAAAACA
35116624 AATTGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (15 bp):
GAAAACAGTACAAAT
Found at i:35118491 original size:24 final size:24
Alignment explanation
Indices: 35118443--35118492 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
35118433 AATTCAGTTC
* *
35118443 TTATAATATTTTATTTCTTTTTAT
1 TTATAATATTTTATTTCTATATAT
35118467 TTATAAT-TTTTATTTCTAATATAT
1 TTATAATATTTTATTTCT-ATATAT
35118491 TT
1 TT
35118493 CTGACTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATAATATTTTATTTCTATATAT
Found at i:35119705 original size:73 final size:73
Alignment explanation
Indices: 35119499--35119726 Score: 384
Period size: 74 Copynumber: 3.1 Consensus size: 73
35119489 TTTGTACCAG
* *
35119499 AAACGCCACTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTTGGTTAAACTTTTGCGGCAT
1 AAACGCCACTAATACCAATAAACAGTAT-AAAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGT
* * *
35119564 TTGTACCAG
65 TTTTACAAT
*
35119573 AAACGCCGCTAATACCAATAAACAGTATACAAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGT
1 AAACGCCACTAATACCAATAAACAGTATA-AAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGT
35119638 TTTTACAAT
65 TTTTACAAT
35119647 AAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGTT
1 AAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGTT
35119712 TTTACAAT
66 TTTACAAT
35119720 AAACGCC
1 AAACGCC
35119727 GCAAATTCGT
Statistics
Matches: 146, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
73 52 0.36
74 94 0.64
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (73 bp):
AAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTGGTTAAACTTTTGTGGCGTT
TTTACAAT
Found at i:35120956 original size:82 final size:81
Alignment explanation
Indices: 35120804--35121000 Score: 195
Period size: 82 Copynumber: 2.4 Consensus size: 81
35120794 CGCTAGCTAC
* * ** * * **
35120804 AAAACGCCGCTAAAGACCGGAGCATTAGCGGCGTTTTCTAATATGCGCCGCTAATGCTGCGGTTT
1 AAAACGCCGCTAAAGACC-GAGCATTAGCGGCGTCTTCTAAAAAACGCCGCTAAAGCTGCAGCAT
* *
35120869 GTAGCGGCGCTTTTTA-
65 GTAGCGGCGCATATTAG
35120885 AGAAACGCCGCTAAAGACCTGAGCATTAGCGGCG-CTTCGTAAAAAACGCCGCTAAAGACCTG-A
1 A-AAACGCCGCTAAAGACC-GAGCATTAGCGGCGTCTTC-TAAAAAACGCCGCTAAAG--CTGCA
35120948 GCAT-TAGCGGCGCATATTAG
61 GCATGTAGCGGCGCATATTAG
* *
35120968 AAAACGCCGCGAAAGACCGCACCATTAGCGGCG
1 AAAACGCCGCTAAAGACCG-AGCATTAGCGGCG
35121001 ATTATGTAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
81 5 0.05
82 86 0.89
83 3 0.03
84 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (81 bp):
AAAACGCCGCTAAAGACCGAGCATTAGCGGCGTCTTCTAAAAAACGCCGCTAAAGCTGCAGCATG
TAGCGGCGCATATTAG
Found at i:35121017 original size:41 final size:41
Alignment explanation
Indices: 35120804--35121021 Score: 164
Period size: 41 Copynumber: 5.3 Consensus size: 41
35120794 CGCTAGCTAC
* * *
35120804 AAAACGCCGCTAAAGACCGGAGCATTAGCGGCG-TTTTCTA
1 AAAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTATGTA
** * * ** * *
35120844 ATATGCGCCGCTAATG--CTGCGGTTTGTAGCGGCGCTT-TTTA
1 A-AAACGCCGCTAAAGACCTG-AGCAT-TAGCGGCGATTATGTA
* *
35120885 AGAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-CGTAA
1 A-AAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTATGT-A
35120927 AAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCA-TAT-TA
1 AAAACGCCGCTAAAGACCTGAGCATTAGCGGCG-ATTATGTA
* *
35120967 GAAAACGCCGCGAAAGACC-GCACCATTAGCGGCGATTATGTA
1 -AAAACGCCGCTAAAGACCTG-AGCATTAGCGGCGATTATGTA
*
35121009 AAAGCGCCGCTAA
1 AAAACGCCGCTAA
35121022 GGGCCCCAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 123 0.87
42 8 0.06
43 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTATGTA
Found at i:35121017 original size:82 final size:82
Alignment explanation
Indices: 35120870--35121021 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 82
35120860 CTGCGGTTTG
* * * * *
35120870 TAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTCGTAAAAAACGCC
1 TAGCGGCGCATATTAAGAAACGCCGCGAAAGACCTGACCATTAGCGGCGATTCGTAAAAAACGCC
35120935 GCTAAAGACCTGAGCAT
66 GCTAAAGACCTGAGCAT
* *
35120952 TAGCGGCGCATATT-AGAAAACGCCGCGAAAGACC-GCACCATTAGCGGCGATTATGT-AAAAGC
1 TAGCGGCGCATATTAAG-AAACGCCGCGAAAGACCTG-ACCATTAGCGGCGATT-CGTAAAAAAC
35121014 GCCGCTAA
63 GCCGCTAA
35121022 GGGCCCCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 3 0.05
82 55 0.92
83 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.18
Consensus pattern (82 bp):
TAGCGGCGCATATTAAGAAACGCCGCGAAAGACCTGACCATTAGCGGCGATTCGTAAAAAACGCC
GCTAAAGACCTGAGCAT
Found at i:35121170 original size:41 final size:40
Alignment explanation
Indices: 35121125--35121215 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 40
35121115 TTACACATAT
35121125 CGCCGCTAATGCTCGTATCTTTGGCGGCGTTTTTTGT-AAA
1 CGCCGCTAATGCTCG-ATCTTTGGCGGCGTTTTTTGTCAAA
* * *
35121165 GCGCCGCTAATGCTCGATTTTTTGTGGCGTTTTTTGTCCAAA
1 -CGCCGCTAATGCTCGATCTTTGGCGGCGTTTTTTGT-CAAA
35121207 CGCCGCTAA
1 CGCCGCTAA
35121216 AAGCGCCGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
40 18 0.40
41 24 0.53
42 3 0.07
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.36
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATCTTTGGCGGCGTTTTTTGTCAAA
Found at i:35121224 original size:12 final size:12
Alignment explanation
Indices: 35121207--35121231 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35121197 TTTGTCCAAA
35121207 CGCCGCTAAAAG
1 CGCCGCTAAAAG
35121219 CGCCGCTAAAAG
1 CGCCGCTAAAAG
35121231 C
1 C
35121232 CTGTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CGCCGCTAAAAG
Found at i:35121482 original size:33 final size:33
Alignment explanation
Indices: 35121444--35121507 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
35121434 TTTTTACATG
35121444 TGTATCAAAATCAAGATAGGATTCTAAGATTTT
1 TGTATCAAAATCAAGATAGGATTCTAAGATTTT
35121477 TGTATCAAAATCAAGATAGGATTCTAAGATT
1 TGTATCAAAATCAAGATAGGATTCTAAGATT
35121508 GTTTTTCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (33 bp):
TGTATCAAAATCAAGATAGGATTCTAAGATTTT
Found at i:35123642 original size:11 final size:11
Alignment explanation
Indices: 35123626--35123686 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
35123616 TTTTTGGTAT
35123626 TAAAATTTCTA
1 TAAAATTTCTA
*
35123637 TAAAATTTCTG
1 TAAAATTTCTA
*
35123648 TAAAA--TCAA
1 TAAAATTTCTA
*
35123657 TCAATCAATTTCTG
1 T-AA--AATTTCTA
35123671 TAAAATTTCTA
1 TAAAATTTCTA
35123682 TAAAA
1 TAAAA
35123687 ATAAAACAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
9 3 0.08
10 2 0.05
11 27 0.69
12 2 0.05
13 2 0.05
14 3 0.08
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.39
Consensus pattern (11 bp):
TAAAATTTCTA
Found at i:35125774 original size:7 final size:7
Alignment explanation
Indices: 35125759--35125798 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
35125749 TCTTTAATAA
*
35125759 TAAATCC
1 TAAACCC
35125766 TAAACCC
1 TAAACCC
*
35125773 TAAACTC
1 TAAACCC
*
35125780 TAAACCA
1 TAAACCC
35125787 TAAACCC
1 TAAACCC
35125794 TAAAC
1 TAAAC
35125799 TCAAAACTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:35125790 original size:21 final size:21
Alignment explanation
Indices: 35125766--35125805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35125756 TAATAAATCC
*
35125766 TAAACCCTAAACTCTAAACCA
1 TAAACCCTAAACTCAAAACCA
35125787 TAAACCCTAAACTCAAAAC
1 TAAACCCTAAACTCAAAAC
35125806 TCTAATCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACTCAAAACCA
Found at i:35126931 original size:185 final size:185
Alignment explanation
Indices: 35126619--35126993 Score: 687
Period size: 185 Copynumber: 2.0 Consensus size: 185
35126609 TTTTATTGTA
* *
35126619 TTTTCAGCCTTTAATTCAACTTTTACCTACCCAAGCCATTCACCCTCTTCCTCTCCTCTTTTCTC
1 TTTTCAGCATTTAATTCAAATTTTACCTACCCAAGCCATTCACCCTCTTCCTCTCCTCTTTTCTC
*
35126684 TTCAATTTTCTTTCTTTCTCCCATTGTTGTCGTCACCTACACCTAGTTTTACCATCTCTTTCTTC
66 TTCAATTTTCTTTCTTTCTCCCATTATTGTCGTCACCTACACCTAGTTTTACCATCTCTTTCTTC
* *
35126749 TTTTTCTTTTTGCCACAAGATTTGTTAACATATTTTCCATCATATTGCTGTTATT
131 TTTTTCTTTTTGCCACAAGATTTGTTAACATATTCTCCACCATATTGCTGTTATT
*
35126804 TTTTCAGCATTTAATTCAAATTTTACCTACCCAAGCCGTTCACCCTCTTCCTCTCCTCTTTTCTC
1 TTTTCAGCATTTAATTCAAATTTTACCTACCCAAGCCATTCACCCTCTTCCTCTCCTCTTTTCTC
*
35126869 TTCAATTTTCTTTCTTTCTCCCATTATTGTCGTCACCTACTCCTAGTTTTACCATCTCTTTCTTC
66 TTCAATTTTCTTTCTTTCTCCCATTATTGTCGTCACCTACACCTAGTTTTACCATCTCTTTCTTC
35126934 TTTTTCTTTTTGCCACAAGATTTGTTAACATATTCTCCACCATATTGCTGTTATT
131 TTTTTCTTTTTGCCACAAGATTTGTTAACATATTCTCCACCATATTGCTGTTATT
35126989 TTTTC
1 TTTTC
35126994 CTCATTAAAA
Statistics
Matches: 183, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 183 1.00
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.48
Consensus pattern (185 bp):
TTTTCAGCATTTAATTCAAATTTTACCTACCCAAGCCATTCACCCTCTTCCTCTCCTCTTTTCTC
TTCAATTTTCTTTCTTTCTCCCATTATTGTCGTCACCTACACCTAGTTTTACCATCTCTTTCTTC
TTTTTCTTTTTGCCACAAGATTTGTTAACATATTCTCCACCATATTGCTGTTATT
Found at i:35131054 original size:42 final size:42
Alignment explanation
Indices: 35131003--35131120 Score: 191
Period size: 42 Copynumber: 2.8 Consensus size: 42
35130993 GTTTACAAAC
*
35131003 AAAAACGCCGCTAAAGACCATGTTCTTCAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
35131045 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
35131087 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
35131121 TTTTTCTCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:35131144 original size:42 final size:41
Alignment explanation
Indices: 35131094--35131392 Score: 379
Period size: 42 Copynumber: 7.1 Consensus size: 41
35131084 GAGAAAAACA
* *
35131094 CCGCTAAAGATCATGTTCTTTAGCGGCTTTTTCTCTTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCTTTTTCTC-TAAGCG
* *
35131136 CCGTTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGC-TTTTTCTCTAAGCG
* * *
35131178 CCTCTGAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGC-TTTTTCTCTAAGCG
* *
35131220 CCTCTGAAGAACATGGTCTTTAGCGGCCTTTTT-TCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGG-CTTTTTCTCTAAGCG
*
35131261 CCGCTAAAGAACATGGTCTTTAGCGG-TGTTTCTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCT-TTT-TCTCTAAGCG
*
35131303 CCGCTAAAGAACATGGTCTTTAGCGG-TGTTTCTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCT-TTT-TCTCTAAGCG
* *
35131345 CCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGC-TTTTTCTCTAAGCG
35131387 CCGCTA
1 CCGCTA
35131393 TACAAAAACG
Statistics
Matches: 240, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 33 0.14
42 191 0.80
43 11 0.05
44 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCTTTTTCTCTAAGCG
Found at i:35131279 original size:125 final size:125
Alignment explanation
Indices: 35131094--35131392 Score: 429
Period size: 125 Copynumber: 2.4 Consensus size: 125
35131084 GAGAAAAACA
* * *
35131094 CCGCTAAAGATCATGTTCTTTAGCGG-CTTTTTCTCTTAAGCGCCGTTAAAGAACATGGTCTTTA
1 CCGCTAAAGAACATGGTCTTTAGCGGCCTTTTT-TC-TAAGCGCCGCTAAAGAACATGGTCTTTA
* * * *
35131158 GCGGCATTTTTTTCTAAGCGCCTCTGAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAGCG
64 GCGGCATTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTCTTTCTAAGCG
* *
35131220 CCTCTGAAGAACATGGTCTTTAGCGGCCTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGC
1 CCGCTAAAGAACATGGTCTTTAGCGGCCTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGC
** **
35131285 GGTGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTCTTTCTAAGCG
66 GGCATTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTCTTTCTAAGCG
* *
35131345 CCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCGCCGCTA
1 CCGCTAAAGAACATGGTCTTTAGCGGC-CTTTTTTCTAAGCGCCGCTA
35131393 TACAAAAACG
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 105 0.68
126 43 0.28
127 6 0.04
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (125 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCCTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGC
GGCATTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTCTTTCTAAGCG
Found at i:35131390 original size:84 final size:83
Alignment explanation
Indices: 35131094--35131392 Score: 429
Period size: 84 Copynumber: 3.6 Consensus size: 83
35131084 GAGAAAAACA
* * * *
35131094 CCGCTAAAGATCATGTTCTTTAGCGGC-TTTTTCTCTTAAGCGCCGTTAAAGAACATGGTCTTTA
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTC-TAAGCGCCGCTAAAGAACATGGTCTTTA
35131158 GCGGCATTTTTTTCTAAGCG
65 GCGGCA-TTTTTTCTAAGCG
* * * * *
35131178 CCTCTGAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAGCGCCTCTGAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
*
35131243 CGGCCTTTTTTCTAAGCG
66 CGGCATTTTTTCTAAGCG
* *
35131261 CCGCTAAAGAACATGGTCTTTAGCGGTGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
**
35131326 CGGTGTTTCTTTCTAAGCG
66 CGGCATTT-TTTCTAAGCG
*
35131345 CCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCGCCGCTA
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
35131393 TACAAAAACG
Statistics
Matches: 192, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
83 77 0.40
84 108 0.56
85 7 0.04
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (83 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
CGGCATTTTTTCTAAGCG
Found at i:35133263 original size:28 final size:28
Alignment explanation
Indices: 35133197--35133251 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
35133187 AATATATAGT
* *
35133197 ACTAATAATTATAAATTTTAGTGTTTTC
1 ACTAATATTTTTAAATTTTAGTGTTTTC
35133225 ACTAATATTTTTAAATTTTAGTGTTTT
1 ACTAATATTTTTAAATTTTAGTGTTTT
35133252 TATTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (28 bp):
ACTAATATTTTTAAATTTTAGTGTTTTC
Found at i:35134766 original size:23 final size:23
Alignment explanation
Indices: 35134723--35134766 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
35134713 CTTAAATTAT
* *
35134723 ACATATTTTACAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
35134746 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
35134767 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:35134861 original size:391 final size:390
Alignment explanation
Indices: 35134024--35134958 Score: 1349
Period size: 391 Copynumber: 2.4 Consensus size: 390
35134014 TTGGTCCTCT
* * * *
35134024 CCTAAACCCTAAATTCCTCAGTCTTAATCACTAACATCTAACCCCTAAACCCCTAACCCCTAAAT
1 CCTAAA-CCTAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAAACCCCT--CCCCTAAAC
* * *
35134089 CTCAAAT-CTCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCACATAT
63 CTTAAATCCT-GGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATTCACTTAT
* *
35134153 ATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAA
127 ATATAGTACTCCCTAACCATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAATTAAA
*
35134218 CCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTATTCTATC
192 CCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATC
* * *
35134283 TATTATATATATATATCTCTCAAGGCATAATTTAAACCCTAATTTATACATCTTTTACAATTACA
257 TATTATATATATATATCTCTAAAGGCATAATTTAAACCCTAAATTATACATATTTTACAATTACA
*
35134348 TAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATTATAACCAGACCCCTG
322 TAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCATAACCAGACCCCTG
35134413 AAAC
387 AAAC
*
35134417 CCTAAACCTTAAATCCCTAAGTCTTAACAACTAACATCTAACCCCTAAACCCCTCCCCTAAACCT
1 CCTAAACC-TAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAAACCCCTCCCCTAAACCT
*
35134482 TAAATCCTGGCCAACCCTTAGTTAAGCATAATCCATAATCTATAATCCCTAAATTCACTTATATA
65 TAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATTCACTTATATA
35134547 TAGTACTCCCTAACCATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCT
130 TAGTACTCCCTAACCATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCT
*
35134612 TAATCTTATTAAACCCGCCTAAATTAACCATTGAA-GGATATAAATAATTTTCTA-TACTCTATC
195 TAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAAT-A-TTT-AAGTACTCTATC
* *
35134675 TA-T-TATATATATCTCTCTAAAGGCATAATTAATTAAACCTTAAATTATACATATTTTACAATT
257 TATTATATATATATATCTCTAAAGGCATAA-T--TTAAACCCTAAATTATACATATTTTACAATT
* *
35134738 ACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAA-CCAAAATCGTAACCCGACCC
319 ACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCATAACCAGACCC
35134802 CTGAAAC
384 CTGAAAC
*
35134809 CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCT-AA-----CCCCTAAACCT
1 CCTAAAC-CTAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAAACCCCTCCCCTAAACCT
* * * * * * *
35134868 TAAATCCCGGCCAATCCTTAATTAAGCAAAACCCCTAATCTATAATCCATATATAAATC-CATAT
65 TAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCC--CTA-AATTCAC-T-T
35134932 ATATATAGTACTCCCTAAACC-TTAAAA
125 ATATATAGTACTCCCT-AACCATTAAAA
35134959 TTATATGAAC
Statistics
Matches: 496, Mismatches: 31, Indels: 33
0.89 0.06 0.06
Matches are distributed among these distances:
386 53 0.11
388 3 0.01
389 5 0.01
390 56 0.11
391 175 0.35
392 83 0.17
393 121 0.24
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (390 bp):
CCTAAACCTAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAAACCCCTCCCCTAAACCTT
AAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATTCACTTATATAT
AGTACTCCCTAACCATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCTT
AATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTATT
ATATATATATATCTCTAAAGGCATAATTTAAACCCTAAATTATACATATTTTACAATTACATAAG
AACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCATAACCAGACCCCTGAAAC
Found at i:35135677 original size:114 final size:114
Alignment explanation
Indices: 35135494--35135757 Score: 379
Period size: 113 Copynumber: 2.3 Consensus size: 114
35135484 TTTATTTTTT
* * ** * * *
35135494 GCGGCGCTATACCAAAAATGCCACTAGGGCCACTGAAGGCCATTAAACGACGCCGTTGTATTTTA
1 GCGGCGCTAAACCAAAAACGCCACTAACGCCACCGTAGGCCACTAAACGACGCCGTTGTATTTTA
* * *
35135559 TTTTTTGCGGCGTT-TATCCTGAAAACGCCGCTAAAAACACAGACCATTA
66 TTTTTTGCGGCGTTCT-TCCTAAAAACACCACTAAAAACACAGACCATTA
*
35135608 GCGGCGCCAAACCAAAAACGCCACTAACGCCACCGTA-GCCACTAAACGACGCCGTTGTATTTTA
1 GCGGCGCTAAACCAAAAACGCCACTAACGCCACCGTAGGCCACTAAACGACGCCGTTGTATTTTA
35135672 TTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAACACAGACCATTA
66 TTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAACACAGACCATTA
* *
35135721 GCGGCGCTAGACCAAAAACGCCACTAAACGACACCGT
1 GCGGCGCTAAACCAAAAACGCCACT-AACGCCACCGT
35135758 TGTATTTTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
113 93 0.69
114 41 0.31
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (114 bp):
GCGGCGCTAAACCAAAAACGCCACTAACGCCACCGTAGGCCACTAAACGACGCCGTTGTATTTTA
TTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAACACAGACCATTA
Found at i:35135761 original size:95 final size:95
Alignment explanation
Indices: 35135645--35135842 Score: 315
Period size: 95 Copynumber: 2.1 Consensus size: 95
35135635 CGCCACCGTA
*
35135645 GCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAAC
1 GCCACTAAACGACACCGTTGTATTTTATTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAAC
* * *
35135710 ACAGACCATTAGCGGCGCTAGACCAAAAAC
66 ACAGACCATTAGCAGCGCAAGACAAAAAAC
* * * * *
35135740 GCCACTAAACGACACCGTTGTATTTTATTTTTTGCGGCGTTTTTTCTGAAAACGCCGCTAAAAAC
1 GCCACTAAACGACACCGTTGTATTTTATTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAAC
35135805 ACAGACCATTAGCAGCGCAAGACAAAAAAC
66 ACAGACCATTAGCAGCGCAAGACAAAAAAC
35135835 GCCACTAA
1 GCCACTAA
35135843 GGCCACTGAA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (95 bp):
GCCACTAAACGACACCGTTGTATTTTATTTTTTGCGGCGTTCTTCCTAAAAACACCACTAAAAAC
ACAGACCATTAGCAGCGCAAGACAAAAAAC
Found at i:35142807 original size:140 final size:140
Alignment explanation
Indices: 35142388--35142808 Score: 707
Period size: 140 Copynumber: 3.0 Consensus size: 140
35142378 GAATAAATGT
*
35142388 TGCATACTTCGAAAACTTGTCCACCACAACAAAAATGCTTGCAAACCTATCAGATTTAGGCAAAC
1 TGCATACTTCGAAAACTTGTCCACCACAACAAAAATGCTTGCAAACCCATCAGATTTAGGCAAAC
* *
35142453 CCACAATAAAGTCCATGGATAAACTCTCCCATGGACGCTCTGGAATGGGTAAAGGTTGTAACAAA
66 CCACAATAAAGTCCATGGATAAACTCTCCCATGGACGCTCCGGAATGGGCAAAGGTTGTAACAAA
*
35142518 CCGGCAGCAA
131 CCGGCAGCAG
* *
35142528 TGCATACTTCGAAAACTTGTCCACCACAACATAAATGCTTGCAAACCCATCAGATTTAGGAAAAC
1 TGCATACTTCGAAAACTTGTCCACCACAACAAAAATGCTTGCAAACCCATCAGATTTAGGCAAAC
* *
35142593 CCACAATAAAGTCCATGGATAAACTCTCCTATGGACGCTCCGAAATGGGCAAAGGTTGTAACAAA
66 CCACAATAAAGTCCATGGATAAACTCTCCCATGGACGCTCCGGAATGGGCAAAGGTTGTAACAAA
*
35142658 TCGGCAGCAG
131 CCGGCAGCAG
* * *
35142668 TGCATACTTCAAAAACTTGTCCACCACAACAAAAATGCTTGTAAACCCATCAAATTTAGGCAAAC
1 TGCATACTTCGAAAACTTGTCCACCACAACAAAAATGCTTGCAAACCCATCAGATTTAGGCAAAC
* * *
35142733 CCACAATAAAGTTCATGGATAAACTCTCCCATGGACGCTCCGGAATAGGCAAAGGTTGCAACAAA
66 CCACAATAAAGTCCATGGATAAACTCTCCCATGGACGCTCCGGAATGGGCAAAGGTTGTAACAAA
35142798 CCGGCAGCAG
131 CCGGCAGCAG
35142808 T
1 T
35142809 CTTCAACTCG
Statistics
Matches: 261, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 261 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (140 bp):
TGCATACTTCGAAAACTTGTCCACCACAACAAAAATGCTTGCAAACCCATCAGATTTAGGCAAAC
CCACAATAAAGTCCATGGATAAACTCTCCCATGGACGCTCCGGAATGGGCAAAGGTTGTAACAAA
CCGGCAGCAG
Found at i:35145490 original size:15 final size:15
Alignment explanation
Indices: 35145465--35145499 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
35145455 GACTCTATTT
*
35145465 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
35145479 TAATTAATATTAAGA
1 TAATTAATATTAAGA
35145494 TAATTA
1 TAATTA
35145500 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:35149451 original size:23 final size:23
Alignment explanation
Indices: 35149408--35149466 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
35149398 AAAAGCTATC
*
35149408 TACAAATCAAATC-TCTAAGA-T
1 TACAAATCATATCTTCTAAGATT
35149429 TACAAAATCATATCTTCTAAGATT
1 TAC-AAATCATATCTTCTAAGATT
35149453 TACAAATCATATCT
1 TACAAATCATATCT
35149467 AAGATTGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.09
22 9 0.26
23 18 0.53
24 4 0.12
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (23 bp):
TACAAATCATATCTTCTAAGATT
Found at i:35151466 original size:20 final size:20
Alignment explanation
Indices: 35151431--35151476 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
35151421 TTGACTTATT
* *
35151431 TTAAAAACAATTTAAC-TGA
1 TTAAAAAAAATCTAACTTGA
35151450 TTGAAAAAAAATCTAACTTGA
1 TT-AAAAAAAATCTAACTTGA
35151471 TTAAAA
1 TTAAAA
35151477 TCATTTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 5 0.22
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (20 bp):
TTAAAAAAAATCTAACTTGA
Found at i:35158912 original size:15 final size:16
Alignment explanation
Indices: 35158883--35158912 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35158873 CAAACATGTT
35158883 TTAACACATTATCAAA
1 TTAACACATTATCAAA
35158899 TTAACACA-TATCAA
1 TTAACACATTATCAA
35158913 CAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:35166454 original size:40 final size:40
Alignment explanation
Indices: 35166354--35166618 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
35166344 GCTCCTCGTT
* * * *
35166354 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
35166394 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35166433 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35166473 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35166513 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35166553 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35166594 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35166619 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35166578 original size:80 final size:80
Alignment explanation
Indices: 35166321--35166618 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
35166311 AAATCACGTA
* ** * * *
35166321 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35166383 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
35166399 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
35166462 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
35166479 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35166543 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
35166559 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
35166619 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:35166627 original size:41 final size:41
Alignment explanation
Indices: 35166550--35166627 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35166540 TTTGTATCTC
* * *
35166550 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35166591 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35166628 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35170430 original size:45 final size:45
Alignment explanation
Indices: 35170366--35170454 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
35170356 AACAGATACT
* *
35170366 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
35170411 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
35170455 TTGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:35170523 original size:51 final size:52
Alignment explanation
Indices: 35170465--35170600 Score: 188
Period size: 50 Copynumber: 2.7 Consensus size: 52
35170455 TTGGTTCACA
* *
35170465 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCA-TCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
* * * *
35170516 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
*
35170566 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
35170601 CACTTTCACT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 4 0.05
50 39 0.53
51 31 0.42
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
Found at i:35173226 original size:41 final size:41
Alignment explanation
Indices: 35173181--35173295 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
35173171 TGATTCAGTA
* *
35173181 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAAT-GTAT
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATACT-T
*
35173222 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATACTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATACTT
* *
35173263 CACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTG
35173296 TATTACATTC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.03
41 64 0.96
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATACTT
Found at i:35181155 original size:41 final size:40
Alignment explanation
Indices: 35181098--35181258 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 40
35181088 TAAACAGATT
* * *
35181098 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * * *
35181139 CACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
35181179 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
* * *
35181221 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTA
35181259 CATTCAATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 92 0.93
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:35184607 original size:16 final size:15
Alignment explanation
Indices: 35184576--35184609 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35184566 GCAATAAAAA
*
35184576 TTCAGTACTTAATTT
1 TTCAGCACTTAATTT
*
35184591 TTCAGCACTTAAATT
1 TTCAGCACTTAATTT
35184606 TTCA
1 TTCA
35184610 AATTATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (15 bp):
TTCAGCACTTAATTT
Found at i:35185714 original size:13 final size:13
Alignment explanation
Indices: 35185696--35185742 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
35185686 TGATCATATT
*
35185696 TAAAAATATTAAA
1 TAAAAATATTACA
*
35185709 TAAAAATATTTTCA
1 TAAAAATA-TTACA
35185723 -AAAAATATTACA
1 TAAAAATATTACA
35185735 TAAAAATA
1 TAAAAATA
35185743 AAAAGGCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAATATTACA
Found at i:35186040 original size:20 final size:20
Alignment explanation
Indices: 35185998--35186041 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35185988 TCATATATGA
* *
35185998 AATTTAAGAAAATAACTCTT
1 AATTTAAGAAAATAACACGT
35186018 AATTTAAAGAAAATAA-ACGT
1 AATTT-AAGAAAATAACACGT
35186038 AATT
1 AATT
35186042 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (20 bp):
AATTTAAGAAAATAACACGT
Found at i:35190355 original size:21 final size:21
Alignment explanation
Indices: 35190314--35190355 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35190304 AATGTTTTGA
*
35190314 CATGTTTTGAGCTTGTTTAAT
1 CATGTTTTGAGCTTGTATAAT
35190335 CATGTTTTGAG-TTGGTATAAT
1 CATGTTTTGAGCTT-GTATAAT
35190356 TGATGGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (21 bp):
CATGTTTTGAGCTTGTATAAT
Found at i:35193292 original size:22 final size:22
Alignment explanation
Indices: 35193261--35193304 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35193251 AGAAAGAATG
*
35193261 TCCTTCTGAACAGTCGGACTAA
1 TCCTTCTGAACAATCGGACTAA
* *
35193283 TCCTTGTGAACAATCGGGCTAA
1 TCCTTCTGAACAATCGGACTAA
35193305 CATACTATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (22 bp):
TCCTTCTGAACAATCGGACTAA
Found at i:35194718 original size:20 final size:20
Alignment explanation
Indices: 35194687--35194745 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
35194677 CATCAGTAAT
*
35194687 AACAGAAACTTATCCATATC
1 AACAGTAACTTATCCATATC
* * *
35194707 AATAGTAACTTATACATACC
1 AACAGTAACTTATCCATATC
35194727 AACAGTAA-TTCATCCATAT
1 AACAGTAACTT-ATCCATAT
35194746 AATTACATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (20 bp):
AACAGTAACTTATCCATATC
Found at i:35194960 original size:23 final size:24
Alignment explanation
Indices: 35194934--35195008 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
35194924 AATCTCTATC
*
35194934 GAGCTGAAACGGTAAGCTCCGT-A
1 GAGCTGAAACGGTAAGCTCCATAA
* *
35194957 GAGCTGAAACAGTAAACT-CATAA
1 GAGCTGAAACGGTAAGCTCCATAA
* * *
35194980 GAGTTGAAATGGTAAGCT-CATAC
1 GAGCTGAAACGGTAAGCTCCATAA
35195003 GAGCTG
1 GAGCTG
35195009 TGGTGAGTCC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (24 bp):
GAGCTGAAACGGTAAGCTCCATAA
Done.