Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 64 of 129
Found at i:9784603 original size:3 final size:3
Alignment explanation
Indices: 9784597--9784643 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
9784587 TTTCCTTTTT
9784597 TTA TTA TTA TTA TTA TTA TTA TTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
9784643 T
1 T
9784644 CTTTTTTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9784624 original size:22 final size:22
Alignment explanation
Indices: 9784599--9784641 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9784589 TCCTTTTTTT
9784599 ATTATTATTATTATTATTATTC
1 ATTATTATTATTATTATTATTC
9784621 ATTATTATTATTATTATTATT
1 ATTATTATTATTATTATTATT
9784642 ATCTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTATTATTATTATTATTATTC
Found at i:9784839 original size:20 final size:22
Alignment explanation
Indices: 9784816--9784856 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9784806 TTTTTAGATT
9784816 ATTTTT-AT-TATTGTTTTAGC
1 ATTTTTAATATATTGTTTTAGC
*
9784836 ATTTTTAATATATTTTTTTAG
1 ATTTTTAATATATTGTTTTAG
9784857 TTATTATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (22 bp):
ATTTTTAATATATTGTTTTAGC
Found at i:9784930 original size:22 final size:24
Alignment explanation
Indices: 9784880--9784950 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 24
9784870 TTATTTCATT
* * *
9784880 TTATTATCAATGAAATAATCAAATAA
1 TTATTATGAAT-AAAT-ATTAAAAAA
*
9784906 TTATTCT-AATAAAT-TTAAAAAA
1 TTATTATGAATAAATATTAAAAAA
*
9784928 TTATTATGCATAAATATTAAAAA
1 TTATTATGAATAAATATTAAAAA
9784951 TAAAACTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 12 0.32
23 6 0.16
24 11 0.29
25 3 0.08
26 6 0.16
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (24 bp):
TTATTATGAATAAATATTAAAAAA
Found at i:9784933 original size:25 final size:24
Alignment explanation
Indices: 9784900--9784950 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
9784890 TGAAATAATC
*
9784900 AAATAATTATTCTAATAAAT-TTAAA
1 AAATAATTATGC--ATAAATATTAAA
*
9784925 AAATTATTATGCATAAATATTAAA
1 AAATAATTATGCATAAATATTAAA
9784949 AA
1 AA
9784951 TAAAACTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 7 0.30
25 10 0.43
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAATTATGCATAAATATTAAA
Found at i:9785658 original size:19 final size:21
Alignment explanation
Indices: 9785615--9785658 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
9785605 AGGGGAGGAC
*
9785615 TGTGTTTGATTTTTTTTTTAG
1 TGTGTTTGATGTTTTTTTTAG
9785636 TGTGTTTG-TGTTTTTTTTA-
1 TGTGTTTGATGTTTTTTTTAG
9785655 TGTG
1 TGTG
9785659 GCTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.07, C:0.00, G:0.23, T:0.70
Consensus pattern (21 bp):
TGTGTTTGATGTTTTTTTTAG
Found at i:9786647 original size:13 final size:13
Alignment explanation
Indices: 9786610--9786649 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
9786600 TTTGATATAA
9786610 TATCAATGAAATT
1 TATCAATGAAATT
* **
9786623 TATTAAAAAAATT
1 TATCAATGAAATT
9786636 TATCAATGAAATT
1 TATCAATGAAATT
9786649 T
1 T
9786650 TTTTAATCGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (13 bp):
TATCAATGAAATT
Found at i:9786717 original size:15 final size:15
Alignment explanation
Indices: 9786697--9786725 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9786687 ATTTGAATAA
9786697 ATTGACGGAAAAATT
1 ATTGACGGAAAAATT
9786712 ATTGACGGAAAAAT
1 ATTGACGGAAAAAT
9786726 CCATCAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (15 bp):
ATTGACGGAAAAATT
Found at i:9788647 original size:6 final size:6
Alignment explanation
Indices: 9788636--9788665 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9788626 CAATAAACTT
*
9788636 GTAAAA GTAAAA GTAAAA GTAAAA GCAAAA
1 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
9788666 AATAAAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (6 bp):
GTAAAA
Found at i:9789412 original size:20 final size:20
Alignment explanation
Indices: 9789384--9789425 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9789374 TGTATCTAAA
* *
9789384 TTTTAATATTTTTTTTGTTG
1 TTTTAATATTTATATTGTTG
*
9789404 TTTTGATATTTATATTGTTG
1 TTTTAATATTTATATTGTTG
9789424 TT
1 TT
9789426 AATTCTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTAATATTTATATTGTTG
Found at i:9790019 original size:25 final size:27
Alignment explanation
Indices: 9789964--9790019 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
9789954 ATTTTTGAGT
* * *
9789964 AATTATTGAAGATTGTATTTATTATAT
1 AATTATTGAAGAGTGTATTTATGATAA
*
9789991 AATTATTGAA-AGT-TATTTGTGATAA
1 AATTATTGAAGAGTGTATTTATGATAA
9790016 AATT
1 AATT
9790020 TTTACATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 13 0.52
26 2 0.08
27 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
AATTATTGAAGAGTGTATTTATGATAA
Found at i:9793088 original size:6 final size:6
Alignment explanation
Indices: 9793079--9793115 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
9793069 TTTAAGTCTA
* *
9793079 GATGAT GATGAT GATGGT GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT G
9793116 CGAATTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (6 bp):
GATGGT
Found at i:9793096 original size:27 final size:27
Alignment explanation
Indices: 9793045--9793096 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9793035 GTCCAACACC
* *
9793045 AAGTCAGATTGATGATGGTGGTGGTTT
1 AAGTCAGATTGATGATGATGATGGTTT
9793072 AAGTCTAGA-TGATGATGATGATGGT
1 AAGTC-AGATTGATGATGATGATGGT
9793097 GATGGTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.27, C:0.04, G:0.35, T:0.35
Consensus pattern (27 bp):
AAGTCAGATTGATGATGATGATGGTTT
Found at i:9800104 original size:17 final size:17
Alignment explanation
Indices: 9800070--9800107 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9800060 TTAATGTTTA
*
9800070 GAAAGAAAGAATGCTTT
1 GAAAGAAAGAATGATTT
9800087 GAAAGAAAGAGAT-ATTT
1 GAAAGAAAGA-ATGATTT
9800104 GAAA
1 GAAA
9800108 AATAACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (17 bp):
GAAAGAAAGAATGATTT
Found at i:9801817 original size:68 final size:68
Alignment explanation
Indices: 9801681--9801810 Score: 260
Period size: 68 Copynumber: 1.9 Consensus size: 68
9801671 TCATAGTACA
9801681 TAAGTAAGTACAATTGAGTTATGTAAAAATAAAAGAAGGGATAATAATACTAATAAAAAAATACT
1 TAAGTAAGTACAATTGAGTTATGTAAAAATAAAAGAAGGGATAATAATACTAATAAAAAAATACT
9801746 TAT
66 TAT
9801749 TAAGTAAGTACAATTGAGTTATGTAAAAATAAAAGAAGGGATAATAATACTAATAAAAAAAT
1 TAAGTAAGTACAATTGAGTTATGTAAAAATAAAAGAAGGGATAATAATACTAATAAAAAAAT
9801811 GTTTATTGCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (68 bp):
TAAGTAAGTACAATTGAGTTATGTAAAAATAAAAGAAGGGATAATAATACTAATAAAAAAATACT
TAT
Found at i:9805046 original size:16 final size:17
Alignment explanation
Indices: 9805025--9805065 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
9805015 GTATGCAAAT
* *
9805025 AAGAAAAGATCAAA-GA
1 AAGAAAAAATCAAACAA
9805041 AAGAAAAAATCAAACAA
1 AAGAAAAAATCAAACAA
9805058 AAGAAAAA
1 AAGAAAAA
9805066 GAGTCTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (17 bp):
AAGAAAAAATCAAACAA
Found at i:9815476 original size:2 final size:2
Alignment explanation
Indices: 9815428--9815458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9815418 TTCATGCAAG
9815428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9815459 CAAACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9818416 original size:14 final size:15
Alignment explanation
Indices: 9818382--9818413 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9818372 TTTCGTAGAC
*
9818382 AAATTTTGTCAATAA
1 AAATTTTATCAATAA
9818397 AAATTTTATCAATAA
1 AAATTTTATCAATAA
9818412 AA
1 AA
9818414 TTTAGCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTATCAATAA
Found at i:9819022 original size:29 final size:29
Alignment explanation
Indices: 9818984--9819042 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9818974 GAGAAACTAG
9818984 ATTTTTTTTTATTTGTTCACCAAAAAAAA
1 ATTTTTTTTTATTTGTTCACCAAAAAAAA
9819013 ATTTTTTTTTATTTGTTCACCAAAAAAAA
1 ATTTTTTTTTATTTGTTCACCAAAAAAAA
9819042 A
1 A
9819043 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTTTTTTTTATTTGTTCACCAAAAAAAA
Found at i:9819049 original size:29 final size:29
Alignment explanation
Indices: 9818988--9819051 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
9818978 AACTAGATTT
***
9818988 TTTTTTATTTGTTCACCAAAAAAAAATTT
1 TTTTTTATTTGTTCACCAAAAAAAAAAAA
9819017 TTTTTTATTTGTTCACCAAAAAAAAAAAA
1 TTTTTTATTTGTTCACCAAAAAAAAAAAA
9819046 TTTTTT
1 TTTTTT
9819052 TTTTTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (29 bp):
TTTTTTATTTGTTCACCAAAAAAAAAAAA
Found at i:9820990 original size:14 final size:14
Alignment explanation
Indices: 9820971--9821000 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9820961 AAAGATCAAG
*
9820971 TTTTTTCCTTTTTT
1 TTTTTTACTTTTTT
9820985 TTTTTTACTTTTTT
1 TTTTTTACTTTTTT
9820999 TT
1 TT
9821001 CCTTCAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTACTTTTTT
Found at i:9828019 original size:23 final size:23
Alignment explanation
Indices: 9827992--9828036 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9827982 GTGTTCTAGG
*
9827992 TGGCTTAAGTATTCACCACCTCA
1 TGGCTTAAGTATTAACCACCTCA
*
9828015 TGGCTTAGGTATTAACCACCTC
1 TGGCTTAAGTATTAACCACCTC
9828037 GATCAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (23 bp):
TGGCTTAAGTATTAACCACCTCA
Found at i:9834441 original size:17 final size:16
Alignment explanation
Indices: 9834419--9834453 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9834409 AGGGTCTAAG
9834419 GGTAATTAAGGTTTGAA
1 GGTAATTAAGGTTT-AA
*
9834436 GGTAATTAGGGTTTAA
1 GGTAATTAAGGTTTAA
9834452 GG
1 GG
9834454 ATTTGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
GGTAATTAAGGTTTAA
Found at i:9838464 original size:11 final size:11
Alignment explanation
Indices: 9838432--9838564 Score: 69
Period size: 11 Copynumber: 13.2 Consensus size: 11
9838422 ATTTAATGTT
9838432 TTAATAATATT-
1 TTAA-AATATTA
*
9838443 TTATAATATTA
1 TTAAAATATTA
9838454 TTAAAATATTA
1 TTAAAATATTA
* *
9838465 CTATAATATTA
1 TTAAAATATTA
9838476 --AAAATATTA
1 TTAAAATATTA
9838485 TT----TATTA
1 TTAAAATATTA
* *
9838492 TGAAAATAATA
1 TTAAAATATTA
*
9838503 TTAAAATATGA
1 TTAAAATATTA
9838514 TT-AAA-ATTA
1 TTAAAATATTA
9838523 -TATAAA-A--A
1 TTA-AAATATTA
* *
9838531 TTCAAATATGA
1 TTAAAATATTA
*
9838542 TTAAAATAATA
1 TTAAAATATTA
9838553 TT-AAATATTA
1 TTAAAATATTA
9838563 TT
1 TT
9838565 TGTAGATACT
Statistics
Matches: 93, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
7 6 0.06
8 5 0.05
9 13 0.14
10 22 0.24
11 47 0.51
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
TTAAAATATTA
Found at i:9838497 original size:19 final size:20
Alignment explanation
Indices: 9838456--9838497 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
9838446 TAATATTATT
*
9838456 AAAATATTACTATAATATTA
1 AAAATATTACTATAATATGA
* *
9838476 AAAATATTA-TTTATTATGA
1 AAAATATTACTATAATATGA
9838495 AAA
1 AAA
9838498 TAATATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATATTACTATAATATGA
Found at i:9840769 original size:7 final size:7
Alignment explanation
Indices: 9840745--9840791 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
9840735 TAAACCAAAA
9840745 CCCTAA-
1 CCCTAAG
*
9840751 CCCTAAA
1 CCCTAAG
*
9840758 TCCTAAG
1 CCCTAAG
9840765 CCCTAAG
1 CCCTAAG
*
9840772 CCTTAAG
1 CCCTAAG
*
9840779 CTCTAAG
1 CCCTAAG
9840786 CCCTAA
1 CCCTAA
9840792 ACTTTAAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.32, C:0.38, G:0.09, T:0.21
Consensus pattern (7 bp):
CCCTAAG
Found at i:9840887 original size:19 final size:19
Alignment explanation
Indices: 9840830--9840902 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
9840820 CCTAAATTTC
* *
9840830 AAACCTAAACTTGAA-CCT
1 AAACCTAACCTTAAACCCT
* *
9840848 AAACCTTAAATCTCAAACCCT
1 AAACC-T-AACCTTAAACCCT
9840869 AAACCTAACCTTAAACCCT
1 AAACCTAACCTTAAACCCT
*
9840888 -AACTTAGACCTTAAA
1 AAACCTA-ACCTTAAA
9840903 TTAACCTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 10 0.22
19 20 0.44
20 7 0.16
21 8 0.18
ACGTcount: A:0.44, C:0.30, G:0.03, T:0.23
Consensus pattern (19 bp):
AAACCTAACCTTAAACCCT
Found at i:9840893 original size:12 final size:12
Alignment explanation
Indices: 9840830--9840890 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
9840820 CCTAAATTTC
*
9840830 AAACCTAAACTT
1 AAACCTAACCTT
*
9840842 GAACCTAAACCTT
1 AAACCT-AACCTT
* *
9840855 AAATCTCAAACCCT
1 AAA-C-CTAACCTT
9840869 AAACCTAACCTT
1 AAACCTAACCTT
9840881 AAACCCTAAC
1 AAA-CCTAAC
9840891 TTAGACCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
12 14 0.37
13 14 0.37
14 9 0.24
15 1 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (12 bp):
AAACCTAACCTT
Found at i:9840915 original size:7 final size:7
Alignment explanation
Indices: 9840789--9840920 Score: 56
Period size: 7 Copynumber: 20.6 Consensus size: 7
9840779 CTCTAAGCCC
*
9840789 TAAACTT
1 TAAACCT
*
9840796 TAAACCA
1 TAAACCT
9840803 TAAACC-
1 TAAACCT
*
9840809 CAAACC-
1 TAAACCT
*
9840815 TAAACCC
1 TAAACCT
*
9840822 TAAA-TT
1 TAAACCT
9840828 TCAAACC-
1 T-AAACCT
9840835 TAAA-CT
1 TAAACCT
*
9840841 TGAACC-
1 TAAACCT
9840847 TAAACCT
1 TAAACCT
*
9840854 TAAATCT
1 TAAACCT
* *
9840861 CAAACCC
1 TAAACCT
9840868 TAAACC-
1 TAAACCT
9840874 T-AACCT
1 TAAACCT
*
9840880 TAAACCC
1 TAAACCT
9840887 T-AA-CT
1 TAAACCT
*
9840892 TAGACCT
1 TAAACCT
9840899 TAAA--T
1 TAAACCT
9840904 T-AACCT
1 TAAACCT
*
9840910 TAAACCC
1 TAAACCT
9840917 TAAA
1 TAAA
9840921 TTTAGTCCTA
Statistics
Matches: 93, Mismatches: 19, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
4 2 0.02
5 9 0.10
6 29 0.31
7 53 0.57
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:9842509 original size:17 final size:17
Alignment explanation
Indices: 9842489--9842521 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9842479 AACACATTTT
9842489 CAAAAAATAAAAAATAA
1 CAAAAAATAAAAAATAA
9842506 CAAAAAATAAAAAATA
1 CAAAAAATAAAAAATA
9842522 GAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
CAAAAAATAAAAAATAA
Found at i:9842773 original size:38 final size:38
Alignment explanation
Indices: 9842720--9842911 Score: 217
Period size: 38 Copynumber: 5.1 Consensus size: 38
9842710 GAGTTAAAAA
* * *
9842720 TAATAAGATAGTACATGCACTCCATCTTATCCACATTT
1 TAATAAGATAATACATGCACTCCATCTCATGCACATTT
* *
9842758 TAATAAGATAATACATGCATTCCATCTCATGCATATTT
1 TAATAAGATAATACATGCACTCCATCTCATGCACATTT
* * * ** * *
9842796 TAATAAAATAATACATCCATTATATCTCATGCACCTCT
1 TAATAAGATAATACATGCACTCCATCTCATGCACATTT
* * *
9842834 T-ATAAGATAATGCAAGCACTCCATCTCATGCACCTTT
1 TAATAAGATAATACATGCACTCCATCTCATGCACATTT
* *
9842871 T-ATAAGATAATGCATGCACTTCATCTCATGCACATTT
1 TAATAAGATAATACATGCACTCCATCTCATGCACATTT
9842908 TAAT
1 TAAT
9842912 GGAAGTGTCA
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
37 63 0.48
38 67 0.52
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (38 bp):
TAATAAGATAATACATGCACTCCATCTCATGCACATTT
Found at i:9842872 original size:75 final size:74
Alignment explanation
Indices: 9842760--9842903 Score: 182
Period size: 75 Copynumber: 1.9 Consensus size: 74
9842750 CCACATTTTA
* * * *
9842760 ATAAGATAATACATGCATTCCATCTCATGCATATTTTAATAAAATAATACATCCA-TTATATCTC
1 ATAAGATAATACAAGCACTCCATCTCATGCACATTTT-ATAAAATAATACATCCACTT-CATCTC
9842824 ATGCACCTCTT
64 ATGCACCTCTT
* * * * *
9842835 ATAAGATAATGCAAGCACTCCATCTCATGCACCTTTTATAAGATAATGCATGCACTTCATCTCAT
1 ATAAGATAATACAAGCACTCCATCTCATGCACATTTTATAAAATAATACATCCACTTCATCTCAT
9842900 GCAC
66 GCAC
9842904 ATTTTAATGG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
74 25 0.42
75 34 0.58
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (74 bp):
ATAAGATAATACAAGCACTCCATCTCATGCACATTTTATAAAATAATACATCCACTTCATCTCAT
GCACCTCTT
Found at i:9842909 original size:37 final size:37
Alignment explanation
Indices: 9842722--9842909 Score: 191
Period size: 37 Copynumber: 5.0 Consensus size: 37
9842712 GTTAAAAATA
* * * *
9842722 ATAAGATAGTACATGCACTCCATCTTATCCACATTTT
1 ATAAGATAATACATGCACTTCATCTCATGCACATTTT
*
9842759 AATAAGATAATACATGCA-TTCCATCTCATGCATATTTT
1 -ATAAGATAATACATGCACTT-CATCTCATGCACATTTT
* * * * *
9842797 AATAAAATAATACATCCA-TTATATCTCATGCACCTCTT
1 -ATAAGATAATACATGCACTT-CATCTCATGCACATTTT
* * * *
9842835 ATAAGATAATGCAAGCACTCCATCTCATGCACCTTTT
1 ATAAGATAATACATGCACTTCATCTCATGCACATTTT
*
9842872 ATAAGATAATGCATGCACTTCATCTCATGCACATTTT
1 ATAAGATAATACATGCACTTCATCTCATGCACATTTT
9842909 A
1 A
9842910 ATGGAAGTGT
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
37 64 0.51
38 62 0.49
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (37 bp):
ATAAGATAATACATGCACTTCATCTCATGCACATTTT
Found at i:9845046 original size:72 final size:72
Alignment explanation
Indices: 9844913--9845050 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
9844903 TTGAAATCGA
*
9844913 TGCATCTAGAACCTTTTAAACCTCTTTACCTAAGATGGTATGATGCTCATGCATGATCAATTACC
1 TGCATCTAGAACCTTTTAAACCTCTTTACCTAAGATGATATGATGCTCATGCATGATCAATTACC
9844978 AAATTGG
66 AAATTGG
*
9844985 TGCATCTAGAACCTTTTAAGCCTCTTTACCTAAGATGATA-GATGCTCATGCATGATGCAATTAC
1 TGCATCTAGAACCTTTTAAACCTCTTTACCTAAGATGATATGATGCTCATGCATGAT-CAATTAC
9845049 CA
65 CA
9845051 TAACAGGAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 16 0.25
72 47 0.75
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (72 bp):
TGCATCTAGAACCTTTTAAACCTCTTTACCTAAGATGATATGATGCTCATGCATGATCAATTACC
AAATTGG
Found at i:9846812 original size:13 final size:12
Alignment explanation
Indices: 9846787--9846835 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
9846777 GAAAGAAATG
*
9846787 AAAAATGAAAAA
1 AAAAAAGAAAAA
9846799 AAAAAAGAACAAA
1 AAAAAAGAA-AAA
*
9846812 AGAAAAGAAAGAAA
1 AAAAAAG-AA-AAA
9846826 AAAAAAGAAA
1 AAAAAAGAAA
9846836 TGGATGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 9 0.29
13 11 0.35
14 11 0.35
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:9846812 original size:14 final size:13
Alignment explanation
Indices: 9846794--9846835 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9846784 ATGAAAAATG
9846794 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
* *
9846807 ACAAAAGAAAAGA
1 AAAAAAAAAAAGA
9846820 AAGAAAAAAAAAGA
1 AA-AAAAAAAAAGA
9846834 AA
1 AA
9846836 TGGATGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:9848657 original size:40 final size:38
Alignment explanation
Indices: 9848489--9848828 Score: 139
Period size: 40 Copynumber: 8.7 Consensus size: 38
9848479 GCATCTTCGA
* *
9848489 GCAAAACCTTAGATTTTTTACTGATTCCCAAGGCCTCCAG
1 GCAAAACCTTAGATTTTTGAATGATT-CCAA-GCCTCCAG
* * * * **
9848529 GCAAAACCTAAGATCTTTGAGTGACTTTCAAGGCCT-TTG
1 GCAAAACCTTAGATTTTTGAATGA-TTCCAA-GCCTCCAG
** * *
9848568 AAAAAAGCCTTAGACTTTTGAATGATTTCTAAG------G
1 GCAAAA-CCTTAGATTTTTGAATGA-TTCCAAGCCTCCAG
9848602 GCAAAACC-TAGGATTTTTGAATGATTCCTAAAGCCTCCAG
1 GCAAAACCTTA-GATTTTTGAATGATTCC--AAGCCTCCAG
* * ***
9848642 GCAAAACCTTAGATTTTTTTTAATGATTTCCAATCCTTTTG
1 GCAAAACCTTAGA--TTTTTGAATGA-TTCCAAGCCTCCAG
* * * * *
9848683 AGCAAAACATTAGACTTTTGAAT-ATCTCTAAGGCT-AACG
1 -GCAAAACCTTAGATTTTTGAATGAT-TCCAAGCCTCCA-G
* ** *
9848722 AGTAAAATTTTAGACTTTTGAATGATTTCCAAGACCTCTGCA-
1 -GCAAAACCTTAGATTTTTGAATGA-TTCCAAG-CCTC--CAG
* *
9848764 -CAAAA-CTTAGGATTTTTGAATGATTCCCAGGCCTCTAG
1 GCAAAACCTTA-GATTTTTGAATGATT-CCAAGCCTCCAG
9848802 GCAAAACCTTAGATTTTTGAATGATTC
1 GCAAAACCTTAGATTTTTGAATGATTC
9848829 ACAATACCTC
Statistics
Matches: 227, Mismatches: 44, Indels: 60
0.69 0.13 0.18
Matches are distributed among these distances:
32 5 0.02
33 14 0.06
34 8 0.04
37 1 0.00
38 2 0.01
39 63 0.28
40 94 0.41
41 13 0.06
42 22 0.10
43 4 0.02
44 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
GCAAAACCTTAGATTTTTGAATGATTCCAAGCCTCCAG
Found at i:9848817 original size:39 final size:39
Alignment explanation
Indices: 9848601--9848828 Score: 146
Period size: 39 Copynumber: 5.7 Consensus size: 39
9848591 GATTTCTAAG
* *
9848601 GGCAAAACC-TAGGATTTTTGAATGATTCCTAAAGCCTCCA
1 GGCAAAACCTTA-GATTTTTGAATGATTCC-AAGGCCTCTA
* * * *
9848641 GGCAAAACCTTAGATTTTTTTTAATGATTTCCAA-TCCTTTT
1 GGCAAAACCTTAGA--TTTTTGAATGA-TTCCAAGGCCTCTA
* * * *
9848682 GAGCAAAACATTAGACTTTTGAAT-ATCTCTAAGG-CT-AA
1 G-GCAAAACCTTAGATTTTTGAATGAT-TCCAAGGCCTCTA
* ** * *
9848720 CGAGTAAAATTTTAGACTTTTGAATGATTTCCAAGACCTCT-
1 -G-GCAAAACCTTAGATTTTTGAATGA-TTCCAAGGCCTCTA
* *
9848761 -GCACAAAACTTAGGATTTTTGAATGATTCCCAGGCCTCTA
1 GGCA-AAACCTTA-GATTTTTGAATGATTCCAAGGCCTCTA
9848801 GGCAAAACCTTAGATTTTTGAATGATTC
1 GGCAAAACCTTAGATTTTTGAATGATTC
9848829 ACAATACCTC
Statistics
Matches: 147, Mismatches: 25, Indels: 33
0.72 0.12 0.16
Matches are distributed among these distances:
38 3 0.02
39 61 0.41
40 43 0.29
41 12 0.08
42 24 0.16
43 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (39 bp):
GGCAAAACCTTAGATTTTTGAATGATTCCAAGGCCTCTA
Found at i:9848838 original size:79 final size:79
Alignment explanation
Indices: 9848602--9848838 Score: 209
Period size: 79 Copynumber: 3.0 Consensus size: 79
9848592 ATTTCTAAGG
* * * *
9848602 GCAAAACCTAGGATTTTTGAATGATTCCTAAAGCCTCCAGGCAAAACCTTAGATTTTTTTTAATG
1 GCAAAACTTAGGATTTTTGAATGATTCC-AAGGCCTCAAGGCAAAACCTTAGA--TTTTTGAATG
*
9848667 ATTTCCAAT-CCTTTTGA
63 ATTTCCAATACC-TCTGA
* * * ** *
9848684 GCAAAACATTA-GACTTTTGAAT-ATCTCTAAGG-CT-AACGAGTAAAATTTTAGACTTTTGAAT
1 GCAAAAC-TTAGGATTTTTGAATGAT-TCCAAGGCCTCAA-G-GCAAAACCTTAGATTTTTGAAT
*
9848745 GATTTCCAAGACCTCTGCA
62 GATTTCCAATACCTCTG-A
* *
9848764 -CAAAACTTAGGATTTTTGAATGATTCCCAGGCCTCTAGGCAAAACCTTAGATTTTTGAATGA-T
1 GCAAAACTTAGGATTTTTGAATGATTCCAAGGCCTCAAGGCAAAACCTTAGATTTTTGAATGATT
9848827 TCACAATACCTC
66 TC-CAATACCTC
9848839 CTAGCTTAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
78 6 0.05
79 69 0.56
80 11 0.09
81 16 0.13
82 19 0.15
83 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (79 bp):
GCAAAACTTAGGATTTTTGAATGATTCCAAGGCCTCAAGGCAAAACCTTAGATTTTTGAATGATT
TCCAATACCTCTGA
Found at i:9848862 original size:4 final size:4
Alignment explanation
Indices: 9848853--9848878 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9848843 CTTAATCCTA
9848853 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
9848879 TTATCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9849876 original size:144 final size:142
Alignment explanation
Indices: 9849718--9849980 Score: 384
Period size: 144 Copynumber: 1.8 Consensus size: 142
9849708 GCGAAATGCA
* * * * *
9849718 CCAAATCATAGTTTTATATTATTTCATAATTTTTGGTGCATTAAAAACCTTGATCGCACCTTAGA
1 CCAAATCATAGTTTTATATTATTTCACAATTTTTAGTGCACTAAAAACCTTGATCACACCTCAG-
* * *
9849783 AATGTGTGAAATTACTAAAATATCCTT-AGGCTTATTTTCGTAATTTGACTTTTTCAAGCTTGGT
65 AATGTATG-AATTACTAAAATATCCTTAAGGCTAATTTT-GTAATTTGACCTTTTCAAGCTTGGT
9849847 TTTTCGTGAAACATT
128 TTTTCGTGAAACATT
*
9849862 CCAAATCATGGTTTTATATTATTTCACAATTTTTAGTGCACTAAAAACCTTGATCACACCTCAGA
1 CCAAATCATAGTTTTATATTATTTCACAATTTTTAGTGCACTAAAAACCTTGATCACACCTCAGA
* *
9849927 ATGTATGAATTACTAAAATGTCCTTAAAGGGTAATTTTGTAATTTGACCTTTTC
66 ATGTATGAATTACTAAAATATCCTT-AAGGCTAATTTTGTAATTTGACCTTTTC
9849981 GATGTCAATT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
142 17 0.16
143 22 0.21
144 67 0.63
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (142 bp):
CCAAATCATAGTTTTATATTATTTCACAATTTTTAGTGCACTAAAAACCTTGATCACACCTCAGA
ATGTATGAATTACTAAAATATCCTTAAGGCTAATTTTGTAATTTGACCTTTTCAAGCTTGGTTTT
TCGTGAAACATT
Found at i:9851467 original size:26 final size:27
Alignment explanation
Indices: 9851438--9851572 Score: 83
Period size: 26 Copynumber: 5.2 Consensus size: 27
9851428 CTCCAAATCC
* *
9851438 AAACCCTAAA-TTGAAACCCT-AACACT
1 AAACCCTAAACCTCAAACCCTAAAC-CT
9851464 AAA-CCTAAACCTCAAACCCTAAACCT
1 AAACCCTAAACCTCAAACCCTAAACCT
*
9851490 AAA-CCTCAAACC-CTAAA-CCT-AACTT
1 AAACCCT-AAACCTC-AAACCCTAAACCT
* * ** *
9851515 GAACCTTAAATGTAAAAACCCTAAACCT
1 AAACCCTAAACCT-CAAACCCTAAACCT
*
9851543 -AACCCTAAA-CTCAAACCCT-AACTT
1 AAACCCTAAACCTCAAACCCTAAACCT
9851567 AAACCC
1 AAACCC
9851573 CAAATTAACC
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
24 4 0.05
25 27 0.31
26 29 0.34
27 22 0.26
28 4 0.05
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (27 bp):
AAACCCTAAACCTCAAACCCTAAACCT
Found at i:9851471 original size:6 final size:6
Alignment explanation
Indices: 9851462--9851511 Score: 64
Period size: 6 Copynumber: 7.7 Consensus size: 6
9851452 AACCCTAACA
9851462 CTAAAC CTAAAC CTCAAACC CTAAAC CTAAAC CTCAAACC CTAAAC CTAA
1 CTAAAC CTAAAC CT-AAA-C CTAAAC CTAAAC CT-AAA-C CTAAAC CTAA
9851512 CTTGAACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 22 0.55
7 12 0.30
8 6 0.15
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (6 bp):
CTAAAC
Found at i:9851487 original size:7 final size:7
Alignment explanation
Indices: 9851451--9851508 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 7
9851441 CCCTAAATTG
9851451 AAACCCT
1 AAACCCT
*
9851458 -AACACT
1 AAACCCT
9851464 AAA-CCT
1 AAACCCT
9851470 AAA-CCT
1 AAACCCT
9851476 CAAACCCT
1 -AAACCCT
9851484 AAA-CCT
1 AAACCCT
9851490 AAA-CCT
1 AAACCCT
9851496 CAAACCCT
1 -AAACCCT
9851504 AAACC
1 AAACC
9851509 TAACTTGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 22 0.50
7 16 0.36
8 6 0.14
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:9851487 original size:20 final size:20
Alignment explanation
Indices: 9851462--9851511 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
9851452 AACCCTAACA
9851462 CTAAACCTAAACCTCAAACC
1 CTAAACCTAAACCTCAAACC
9851482 CTAAACCTAAACCTCAAACC
1 CTAAACCTAAACCTCAAACC
9851502 CTAAACCTAA
1 CTAAACCTAA
9851512 CTTGAACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (20 bp):
CTAAACCTAAACCTCAAACC
Found at i:9851493 original size:13 final size:13
Alignment explanation
Indices: 9851438--9851594 Score: 75
Period size: 13 Copynumber: 12.2 Consensus size: 13
9851428 CTCCAAATCC
*
9851438 AAACCCTAAA-TT
1 AAACCCTAAACCT
9851450 GAAACCCT-AACACT
1 -AAACCCTAAAC-CT
9851464 AAA-CCTAAACCT
1 AAACCCTAAACCT
9851476 CAAACCCTAAACCT
1 -AAACCCTAAACCT
9851490 AAA-CCTCAAACCCT
1 AAACCCT-AAA-CCT
*
9851504 AAA-CCT-AACTT
1 AAACCCTAAACCT
* * **
9851515 GAACCTTAAATGT
1 AAACCCTAAACCT
9851528 AAAAACCCTAAACCT
1 --AAACCCTAAACCT
9851543 -AACCCTAAA-CT
1 AAACCCTAAACCT
*
9851554 CAAACCCT-AACTT
1 -AAACCCTAAACCT
*
9851567 AAACCCCAAA--T
1 AAACCCTAAACCT
*
9851578 TAACCCTAAACCCT
1 AAACCCTAAA-CCT
9851592 AAA
1 AAA
9851595 TTTATTCTTA
Statistics
Matches: 111, Mismatches: 15, Indels: 35
0.69 0.09 0.22
Matches are distributed among these distances:
11 15 0.14
12 31 0.28
13 34 0.31
14 22 0.20
15 9 0.08
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:9851548 original size:12 final size:12
Alignment explanation
Indices: 9851531--9851589 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
9851521 TAAATGTAAA
9851531 AACCCTAAACCT
1 AACCCTAAACCT
*
9851543 AACCCTAAACTCA
1 AACCCTAAAC-CT
*
9851556 AACCCT-AACTT
1 AACCCTAAACCT
* *
9851567 AAACCCCAAA-TT
1 -AACCCTAAACCT
9851579 AACCCTAAACC
1 AACCCTAAACC
9851590 CTAAATTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 8 0.22
12 20 0.54
13 9 0.24
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (12 bp):
AACCCTAAACCT
Found at i:9851695 original size:17 final size:19
Alignment explanation
Indices: 9851652--9851697 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
9851642 CTCCTAAGCC
9851652 AAACCTCAAACCCTAACCTA
1 AAACCT-AAACCCTAACCTA
* *
9851672 GACCCTAAA-CC-AACCTA
1 AAACCTAAACCCTAACCTA
9851689 AAACCTAAA
1 AAACCTAAA
9851698 TCAAACCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 13 0.59
18 2 0.09
19 3 0.14
20 4 0.18
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (19 bp):
AAACCTAAACCCTAACCTA
Found at i:9852674 original size:29 final size:28
Alignment explanation
Indices: 9852601--9852679 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
9852591 AGTCCAACAT
9852601 TATTCAAATATTATTAAAATAATATTAAA
1 TATTCAAATA-TATTAAAATAATATTAAA
* * * *
9852630 T-TTTAGATAATGATTAAATTAATATTTAA
1 TATTCAAAT-AT-ATTAAAATAATATTAAA
9852659 TATTCAAATCATATTAAAATA
1 TATTCAAAT-ATATTAAAATA
9852680 TTAAAAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
28 6 0.15
29 26 0.67
30 7 0.18
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (28 bp):
TATTCAAATATATTAAAATAATATTAAA
Found at i:9852736 original size:15 final size:16
Alignment explanation
Indices: 9852688--9852744 Score: 71
Period size: 15 Copynumber: 3.5 Consensus size: 16
9852678 TATTAAAAAC
*
9852688 AATATTTTTATAAATT
1 AATATTTATATAAATT
9852704 AATATTTAATAGTAAATT
1 AATATTT-ATA-TAAATT
9852722 AATATTTAT-TAAATT
1 AATATTTATATAAATT
*
9852737 TATATTTA
1 AATATTTA
9852745 GGCATATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.35
16 7 0.19
17 4 0.11
18 13 0.35
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTATATAAATT
Found at i:9852777 original size:25 final size:24
Alignment explanation
Indices: 9852723--9852769 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
9852713 TAGTAAATTA
*
9852723 ATATTTATTAAATTTATATTTAGG
1 ATATTTATTAAATTAATATTTAGG
9852747 CATATTTATTAAATTAATATTTA
1 -ATATTTATTAAATTAATATTTA
9852770 ATGGTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATTTATTAAATTAATATTTAGG
Found at i:9852816 original size:38 final size:38
Alignment explanation
Indices: 9852748--9852847 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 38
9852738 ATATTTAGGC
*
9852748 ATAT-TTATTAAATTAATATTTAATGGTATTAAATTTA-
1 ATATATTATTAAATTAATATTTAAT-GTATTAAATTGAT
9852785 ATATATTATTAAATTAATATTTACCAT-TATTAAATTGAT
1 ATATATTATTAAATTAATATTTA--ATGTATTAAATTGAT
* *
9852824 ATAAATTA-AAATATTAATATTTAA
1 ATATATTATTAA-ATTAATATTTAA
9852848 AATTATTCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
37 5 0.09
38 30 0.55
39 18 0.33
40 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (38 bp):
ATATATTATTAAATTAATATTTAATGTATTAAATTGAT
Found at i:9852910 original size:40 final size:41
Alignment explanation
Indices: 9852847--9852934 Score: 119
Period size: 40 Copynumber: 2.1 Consensus size: 41
9852837 TTAATATTTA
9852847 AAATTATTCATTTAATCTTAATTAA-TAATTAATTTTTA-AATT
1 AAATTATTCA-TTAATCTTAATTAATTAA-TAATTTTTATAA-T
*
9852889 AAATTATTC-TTAATTTTAATTAATTAATAATTTTTATAAT
1 AAATTATTCATTAATCTTAATTAATTAATAATTTTTATAAT
9852929 AAATTA
1 AAATTA
9852935 CAAGGGTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
40 29 0.67
41 5 0.12
42 9 0.21
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (41 bp):
AAATTATTCATTAATCTTAATTAATTAATAATTTTTATAAT
Found at i:9856835 original size:29 final size:29
Alignment explanation
Indices: 9856803--9856873 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
9856793 GATTTTTGTA
*
9856803 TATATTTATATTAGTTATGTCTATTCATG
1 TATATTTATATTAGTTATATCTATTCATG
* *
9856832 TATATTTGTATTAGTTATATCTATTTATG
1 TATATTTATATTAGTTATATCTATTCATG
9856861 TATATTTATATTA
1 TATATTTATATTA
9856874 TTCGTATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (29 bp):
TATATTTATATTAGTTATATCTATTCATG
Found at i:9856885 original size:29 final size:27
Alignment explanation
Indices: 9856803--9856898 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 27
9856793 GATTTTTGTA
* *
9856803 TATATTTATATTAGTTATGTCTATTCATG
1 TATATTTATATTATTTAT-T-TATTTATG
* *
9856832 TATATTTGTATTAGTTATATCTATTTATG
1 TATATTTATATTA-TT-TATTTATTTATG
*
9856861 TATATTTATATTATTCGTATTTATTTGTG
1 TATATTTATATTATT--TATTTATTTATG
9856890 TCATATTTA
1 T-ATATTTA
9856899 AACAAATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.04
29 42 0.76
30 8 0.15
31 3 0.05
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (27 bp):
TATATTTATATTATTTATTTATTTATG
Found at i:9856896 original size:15 final size:15
Alignment explanation
Indices: 9856848--9856898 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9856838 TGTATTAGTT
*
9856848 ATATCTATTTATGT-
1 ATATTTATTTATGTC
9856862 ATATTTATATTAT-TC
1 ATATTTAT-TTATGTC
* *
9856877 GTATTTATTTGTGTC
1 ATATTTATTTATGTC
9856892 ATATTTA
1 ATATTTA
9856899 AACAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (15 bp):
ATATTTATTTATGTC
Found at i:9858239 original size:2 final size:2
Alignment explanation
Indices: 9858232--9858269 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9858222 ATGGCGGCAG
9858232 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9858270 AATTGTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9861047 original size:3 final size:3
Alignment explanation
Indices: 9861039--9861084 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9861029 TATGAATGAG
9861039 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9861085 CTATAAAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9863375 original size:10 final size:9
Alignment explanation
Indices: 9863350--9863379 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9863340 ATATTTTATC
9863350 AATTAAAAT
1 AATTAAAAT
9863359 AATTAAAAT
1 AATTAAAAT
9863368 ATATTAAAAT
1 A-ATTAAAAT
9863378 AA
1 AA
9863380 AAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAAAAT
Found at i:9864486 original size:16 final size:16
Alignment explanation
Indices: 9864453--9864487 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9864443 TAATGAACAA
**
9864453 ATATATCTTTACTTTT
1 ATATATCTTTACACTT
9864469 ATATATCTTTACACTT
1 ATATATCTTTACACTT
9864485 ATA
1 ATA
9864488 GACAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATATCTTTACACTT
Found at i:9866903 original size:19 final size:20
Alignment explanation
Indices: 9866883--9867103 Score: 148
Period size: 19 Copynumber: 11.6 Consensus size: 20
9866873 TTTAGTGATT
9866883 TTTA-ATGATTAATTATTT-
1 TTTACATGATTAATTATTTA
* *
9866901 TTTGCATCATTAATTA-TTA
1 TTTACATGATTAATTATTTA
* *
9866920 TTTATATGGTTAATTA-TTA
1 TTTACATGATTAATTATTTA
*
9866939 TTTACATAATTAATTA-TTA
1 TTTACATGATTAATTATTTA
** *
9866958 TTTGTATAATTAA-TATTATA
1 TTTACATGATTAATTATT-TA
9866978 TTTACATGATT-ATATATTT-
1 TTTACATGATTAAT-TATTTA
* * * *
9866997 TTTA-ATAAATTTAGTGTTT-
1 TTTACAT-GATTAATTATTTA
9867016 TTTA-ATGATTAATTA-TTA
1 TTTACATGATTAATTATTTA
*
9867034 TTTACATTATTAATTA-TTA
1 TTTACATGATTAATTATTTA
*
9867053 TTTATATGATTAATTA-TTA
1 TTTACATGATTAATTATTTA
** *
9867072 TTTGTATAATTAA-TATTATA
1 TTTACATGATTAATTATT-TA
9867092 TTTACATGATTA
1 TTTACATGATTA
9867104 TATATTATCT
Statistics
Matches: 162, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.01
18 20 0.12
19 113 0.70
20 23 0.14
21 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACATGATTAATTATTTA
Found at i:9867134 original size:41 final size:41
Alignment explanation
Indices: 9866951--9867165 Score: 134
Period size: 41 Copynumber: 5.4 Consensus size: 41
9866941 TACATAATTA
* *
9866951 ATTATTATTTGTATAATTAATATTATATTTACATGATTATAT
1 ATTA-TATTTGCATGATTAATATTATATTTACATGATTATAT
* * * *
9866993 ATT-T-TTT-AATAAATTTAGTGTT-T-TTTA-ATGA-T-TA-
1 ATTATATTTGCAT-GA-TTAATATTATATTTACATGATTATAT
* * *
9867027 ATTATTATTTACATTATT-A-ATTATTATTTATATGA-T-TA-
1 ATTA-TATTTGCATGATTAATATTA-TATTTACATGATTATAT
* *
9867065 ATTATTATTTGTATAATTAATATTATATTTACATGATTATAT
1 ATTA-TATTTGCATGATTAATATTATATTTACATGATTATAT
* * ***
9867107 ATTATCTTTGCGTGATTAATATTATATTTGTTTGATTATAT
1 ATTATATTTGCATGATTAATATTATATTTACATGATTATAT
9867148 ATTATATTTGCATGATTA
1 ATTATATTTGCATGATTA
9867166 TTTATTATTT
Statistics
Matches: 138, Mismatches: 20, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
34 5 0.04
35 2 0.01
36 5 0.04
37 12 0.09
38 30 0.22
39 17 0.12
40 12 0.09
41 48 0.35
42 7 0.05
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (41 bp):
ATTATATTTGCATGATTAATATTATATTTACATGATTATAT
Found at i:9867176 original size:19 final size:19
Alignment explanation
Indices: 9866887--9867179 Score: 112
Period size: 19 Copynumber: 15.1 Consensus size: 19
9866877 GTGATTTTTA
* *
9866887 ATGATTAATTATTTTTTGC
1 ATGATTATTTATTATTTGC
* * **
9866906 ATCATTAATTATTATTTAT
1 ATGATTATTTATTATTTGC
* * *
9866925 ATGGTTAATTATTATTTAC
1 ATGATTATTTATTATTTGC
* * *
9866944 ATAATTAATTATTATTTGT
1 ATGATTATTTATTATTTGC
* *
9866963 ATAATTAATATTA-TATTTAC
1 ATGATT-AT-TTATTATTTGC
* **
9866983 ATGATTATATATT-TTTTA
1 ATGATTATTTATTATTTGC
* * **
9867001 AT-A-AATTTAGTGTTTTTTA
1 ATGATTATTTA-T-TATTTGC
* *
9867020 ATGATTAATTATTATTTAC
1 ATGATTATTTATTATTTGC
* * **
9867039 ATTATTAATTATTATTTAT
1 ATGATTATTTATTATTTGC
* *
9867058 ATGATTAATTATTATTTGT
1 ATGATTATTTATTATTTGC
* *
9867077 ATAATTAATATTA-TATTTAC
1 ATGATT-AT-TTATTATTTGC
*
9867097 ATGATTATATATTATCTTTGC
1 ATGATTATTTATTA--TTTGC
* *
9867118 GTGATTAATATTA-TATTTGT
1 ATGATT-AT-TTATTATTTGC
* *
9867138 TTGATTATATATTATATTTGC
1 ATGATTATTTA-T-TATTTGC
9867159 ATGATTATTTATTATTTGC
1 ATGATTATTTATTATTTGC
9867178 AT
1 AT
9867180 AATATACACT
Statistics
Matches: 212, Mismatches: 44, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.02
17 2 0.01
18 12 0.06
19 120 0.57
20 34 0.16
21 34 0.16
22 4 0.02
23 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (19 bp):
ATGATTATTTATTATTTGC
Found at i:9867197 original size:62 final size:60
Alignment explanation
Indices: 9866934--9867182 Score: 177
Period size: 62 Copynumber: 4.3 Consensus size: 60
9866924 TATGGTTAAT
*
9866934 TATTA-TTTACATAATT-A-ATTATTATTTGTATAATTAATATTATATTTACATGATTATA
1 TATTACTTTGCATAATTAATATTA-TATTTGTATAATTAATATTATATTTACATGATTATA
* * * * * *
9866992 TATT--TTT---TAATAAAT-TTAGTGTTT-TTTAATGATTAATTATTATTTACATTATTA-A
1 TATTACTTTGCATAATTAATATTA-TATTTGTATAATTAAT-ATTA-TATTTACATGATTATA
** *
9867047 TTATTA-TTTATATGATT-A-ATTATTATTTGTATAATTAATATTATATTTACATGATTATA
1 -TATTACTTTGCATAATTAATATTA-TATTTGTATAATTAATATTATATTTACATGATTATA
* * * * * *
9867106 TATTATCTTTGCGTGATTAATATTATATTTGTTTGATTATATATTATATTTGCATGATTATT
1 TATTA-CTTTGCATAATTAATATTATATTTGTATAATTA-ATATTATATTTACATGATTATA
9867168 TATTA-TTTGCATAAT
1 TATTACTTTGCATAAT
9867183 ATACACTTTG
Statistics
Matches: 150, Mismatches: 24, Indels: 32
0.73 0.12 0.16
Matches are distributed among these distances:
54 11 0.07
55 13 0.09
56 17 0.11
57 6 0.04
58 22 0.15
59 13 0.09
60 26 0.17
61 13 0.09
62 29 0.19
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (60 bp):
TATTACTTTGCATAATTAATATTATATTTGTATAATTAATATTATATTTACATGATTATA
Found at i:9868351 original size:27 final size:27
Alignment explanation
Indices: 9868287--9868351 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
9868277 CCAGCAACAG
*
9868287 CAACAACAATGGCTACTCAAAGCAGCTA
1 CAACAACAATAGCTAC-CAAAGCAGCTA
*
9868315 TAA-AACCAATAGCTA-CAGAAGCAGCTA
1 CAACAA-CAATAGCTACCA-AAGCAGCTA
9868342 CAACAACAAT
1 CAACAACAAT
9868352 GTCTATGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 17 0.55
28 12 0.39
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (27 bp):
CAACAACAATAGCTACCAAAGCAGCTA
Found at i:9869126 original size:20 final size:19
Alignment explanation
Indices: 9869096--9869143 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9869086 TAGGTTAATT
9869096 AATATTTTAT-TT--ATAGC
1 AATATTTTATATTAAATA-C
9869113 AATAATTTTATATTAAATAC
1 AAT-ATTTTATATTAAATAC
9869133 AATATTTTATA
1 AATATTTTATA
9869144 ATTTTATGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 10 0.37
20 4 0.15
21 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
AATATTTTATATTAAATAC
Found at i:9869694 original size:22 final size:21
Alignment explanation
Indices: 9869656--9869713 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
9869646 AATAATATAC
**
9869656 AAAATAAATATACAATATTTTTA
1 AAAATAAATA-A-AATAAGTTTA
9869679 AAAACTAAATAAAATAAGTTTA
1 AAAA-TAAATAAAATAAGTTTA
9869701 AAAATATAATAAA
1 AAAATA-AATAAA
9869714 TAAAACCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.06
22 18 0.58
23 5 0.16
24 6 0.19
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATAAATAAAATAAGTTTA
Found at i:9869938 original size:16 final size:18
Alignment explanation
Indices: 9869917--9869959 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
9869907 AATTTTCATT
9869917 AAAAATAAA-AT-ATAAA
1 AAAAATAAATATAATAAA
9869933 AAAAATAAATTATAATAAA
1 AAAAATAAA-TATAATAAA
9869952 AAAAATAA
1 AAAAATAA
9869960 CCAAACTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATAAATATAATAAA
Found at i:9869942 original size:15 final size:15
Alignment explanation
Indices: 9869917--9869958 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
9869907 AATTTTCATT
9869917 AAAAATAAAATATAAA
1 AAAAAT-AAATATAAA
*
9869933 AAAAATAAATTATAAT
1 AAAAATAAA-TATAAA
9869949 AAAAA-AAATA
1 AAAAATAAATA
9869959 ACCAAACTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 6 0.25
16 16 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAAATATAAA
Found at i:9873944 original size:15 final size:16
Alignment explanation
Indices: 9873912--9873945 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9873902 CTGTATGTAC
9873912 GCATGAGTTTGAATGT
1 GCATGAGTTTGAATGT
*
9873928 GCATGTGTTTG-ATGT
1 GCATGAGTTTGAATGT
9873943 GCA
1 GCA
9873946 GGACATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (16 bp):
GCATGAGTTTGAATGT
Found at i:9873976 original size:20 final size:20
Alignment explanation
Indices: 9873951--9874002 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9873941 GTGCAGGACA
*
9873951 TTATGTACTTTATTTG-TTGT
1 TTATGTA-TTTATGTGTTTGT
9873971 TTATGTATTTATGTGTTTGT
1 TTATGTATTTATGTGTTTGT
9873991 TTA-GTTATTTAT
1 TTATG-TATTTAT
9874003 TTATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.65
Consensus pattern (20 bp):
TTATGTATTTATGTGTTTGT
Found at i:9875172 original size:2 final size:2
Alignment explanation
Indices: 9875165--9875194 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9875155 CAGGTATACA
9875165 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9875195 AATTAACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9880463 original size:2 final size:2
Alignment explanation
Indices: 9880456--9880480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9880446 TCGCAAGAGT
9880456 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9880481 TTGATGCGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9882437 original size:21 final size:21
Alignment explanation
Indices: 9882411--9882475 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
9882401 TAGAAATTTT
*
9882411 AAAAATCTCAAAATTTTAATA
1 AAAAATCTCAAAAATTTAATA
* * *
9882432 AAAAATCTTAAAAAATTCATA
1 AAAAATCTCAAAAATTTAATA
*
9882453 AAAAA--TCAAAACTTTAATA
1 AAAAATCTCAAAAATTTAATA
9882472 AAAA
1 AAAA
9882476 TAAAATTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 14 0.39
21 22 0.61
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATCTCAAAAATTTAATA
Found at i:9883236 original size:27 final size:28
Alignment explanation
Indices: 9883183--9883236 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
9883173 TCTTTTAATA
*
9883183 TTTTATTGCATGAAATTAAAATTTTGAAC
1 TTTTATTGCAT-AAATTAAAATATTGAAC
*
9883212 TTTTATTGCAT-AATTAGAATATTGA
1 TTTTATTGCATAAATTAAAATATTGA
9883237 CATTAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
29 11 0.48
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (28 bp):
TTTTATTGCATAAATTAAAATATTGAAC
Found at i:9883501 original size:29 final size:30
Alignment explanation
Indices: 9883452--9883516 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
9883442 GGACTTATTT
*
9883452 GTTAATGATCAAATTGTAAAA-TTTT-AAA
1 GTTAATGATCAAATAGTAAAATTTTTAAAA
9883480 GTTAAGTGATCATAATAG-AAAATTTTTAAAA
1 GTTAA-TGATCA-AATAGTAAAATTTTTAAAA
9883511 GTTAAT
1 GTTAAT
9883517 TGACCGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.16
29 10 0.31
30 9 0.28
31 8 0.25
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.38
Consensus pattern (30 bp):
GTTAATGATCAAATAGTAAAATTTTTAAAA
Found at i:9886937 original size:17 final size:16
Alignment explanation
Indices: 9886911--9886953 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
9886901 TTTTATTTTA
*
9886911 TTTTA-TTTATCATTT
1 TTTTATTTTATCATAT
*
9886926 TTTTATTATTATCCTAT
1 TTTTATT-TTATCATAT
9886943 TTTTATTTTAT
1 TTTTATTTTAT
9886954 TTTTATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 5 0.21
17 14 0.58
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTATCATAT
Found at i:9886954 original size:11 final size:11
Alignment explanation
Indices: 9886901--9886962 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
9886891 GTAATCAAAA
9886901 TTTTATTTTA-
1 TTTTATTTTAT
9886911 TTTTA-TTTAT
1 TTTTATTTTAT
*
9886921 CATTT-TTTTAT
1 -TTTTATTTTAT
* **
9886932 TATTATCCTAT
1 TTTTATTTTAT
9886943 TTTTATTTTAT
1 TTTTATTTTAT
9886954 TTTTATTTT
1 TTTTATTTT
9886963 CTTTCCCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 4 0.10
10 7 0.17
11 29 0.73
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:9887359 original size:22 final size:21
Alignment explanation
Indices: 9887324--9887375 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9887314 GAATTTAAAC
9887324 TTCTGGG-TTTAAGTTTGAAGT
1 TTCTGGGTTTTAAGTTTGAA-T
9887345 TTCTGGGTTTTAAGTTTGAAT
1 TTCTGGGTTTTAAGTTTGAAT
*
9887366 TTTTGGGTTT
1 TTCTGGGTTT
9887376 AGGTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.15, C:0.04, G:0.27, T:0.54
Consensus pattern (21 bp):
TTCTGGGTTTTAAGTTTGAAT
Found at i:9887448 original size:13 final size:13
Alignment explanation
Indices: 9887430--9887455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9887420 GTCTAAAGGT
9887430 TTGAATTTTTTGA
1 TTGAATTTTTTGA
9887443 TTGAATTTTTTGA
1 TTGAATTTTTTGA
9887456 CAAAGTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGAATTTTTTGA
Found at i:9887781 original size:23 final size:24
Alignment explanation
Indices: 9887737--9887781 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9887727 TCTTTTTTCT
*
9887737 TTTTATTTTCATTTTTTGATTTGG
1 TTTTATTTTCATTTTTTAATTTGG
9887761 TTTTA-TTT-ATTTTTGTAATTT
1 TTTTATTTTCATTTTT-TAATTT
9887782 TCATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 8 0.42
24 5 0.26
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (24 bp):
TTTTATTTTCATTTTTTAATTTGG
Found at i:9905293 original size:9 final size:10
Alignment explanation
Indices: 9905274--9905350 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 10
9905264 TTTCTAGAAA
*
9905274 TTTTAAAATT
1 TTTTAGAATT
9905284 TTTTAG-ATT
1 TTTTAGAATT
9905293 TTTT-GAATT
1 TTTTAGAATT
*
9905302 GTTTA-AATT
1 TTTTAGAATT
*
9905311 TTTTTGAATTT
1 TTTTAGAA-TT
9905322 TTTTAAGAATT
1 TTTT-AGAATT
* * *
9905333 TTTAAAAAAT
1 TTTTAGAATT
9905343 TTTTAGAA
1 TTTTAGAA
9905351 AATTTCAAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
8 1 0.02
9 20 0.38
10 17 0.33
11 11 0.21
12 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:9906168 original size:20 final size:20
Alignment explanation
Indices: 9906140--9906178 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9906130 TCCAATACTC
*
9906140 AAAATTAAAAAAATAAAAAT
1 AAAAATAAAAAAATAAAAAT
9906160 AAAAATAAAAAAATAAAAA
1 AAAAATAAAAAAATAAAAA
9906179 AACACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAAATAAAAAT
Found at i:9913384 original size:125 final size:126
Alignment explanation
Indices: 9913157--9913415 Score: 344
Period size: 125 Copynumber: 2.1 Consensus size: 126
9913147 TCTTTATGGT
** * * *
9913157 AAGAAATCTATTTTAGGGTATTTATTCACTTTTGCTAGAGGAGATGTGTCTTGGTAGTCTAAGTT
1 AAGAAATCTATTTTAAAGTATTTATTCACTTTTACTAGAGGAGA-CTATCTTGGTAGTCTAAGTT
* *
9913222 GCAAAAGTGTATTGCCTTGTCAATTGTAGAGAATGAATATATTACAGCAA-TCGAAGTAGATA
65 GCAAAAGTGTATTGCCTTGTCAATTATAGAGAATGAATATATTACAGCAACT-GAAGCAGATA
9913284 AAGAAATCTATTTTAAAGTATTTATTCACTTTTACT-GAAGGAG-CTATCTTGGTAGTCTAAGTT
1 AAGAAATCTATTTTAAAGTATTTATTCACTTTTACTAG-AGGAGACTATCTTGGTAGTCTAAGTT
* * ** ** *
9913347 GCATAAGTGTGTTGCCTTGTCAATTATAGAGGTTGAATATATTGTAGCAACTGAAGCAGGTA
65 GCAAAAGTGTATTGCCTTGTCAATTATAGAGAATGAATATATTACAGCAACTGAAGCAGATA
9913409 AAGAAAT
1 AAGAAAT
9913416 AATTTTGATG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
125 76 0.66
126 2 0.02
127 38 0.33
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (126 bp):
AAGAAATCTATTTTAAAGTATTTATTCACTTTTACTAGAGGAGACTATCTTGGTAGTCTAAGTTG
CAAAAGTGTATTGCCTTGTCAATTATAGAGAATGAATATATTACAGCAACTGAAGCAGATA
Found at i:9915470 original size:13 final size:13
Alignment explanation
Indices: 9915452--9915476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9915442 CAACAAATTA
9915452 AAATCAAATAAAC
1 AAATCAAATAAAC
9915465 AAATCAAATAAA
1 AAATCAAATAAA
9915477 AAGTTGAAGA
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:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATCAAATAAAC
Found at i:9932761 original size:20 final size:23
Alignment explanation
Indices: 9932736--9932777 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9932726 TAATAATAAA
9932736 AATT-AAA-AATAT-ATTAAAAG
1 AATTAAAATAATATAATTAAAAG
9932756 AATTAAAATAATATAATTAAAA
1 AATTAAAATAATATAATTAAAA
9932778 TGTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 5 0.26
23 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATTAAAATAATATAATTAAAAG
Found at i:9932770 original size:55 final size:51
Alignment explanation
Indices: 9932705--9932810 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 51
9932695 TCCTTTAATC
*
9932705 AAAATAATATAATTAAAATGTTAATAATAAAAATTAAAAATATATTAAAAGAATT
1 AAAATAATATAATTAAAATG-T--TAATAAAAATAAAAAATATATTAAAA-AATT
9932760 AAAATAATATAATTAAAATGTTAATAAAAATAAAAAATATATTAAAAAATT
1 AAAATAATATAATTAAAATGTTAATAAAAATAAAAAATATATTAAAAAATT
9932811 CCCAAAATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
51 4 0.08
52 25 0.50
54 1 0.02
55 20 0.40
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (51 bp):
AAAATAATATAATTAAAATGTTAATAAAAATAAAAAATATATTAAAAAATT
Found at i:9933008 original size:152 final size:149
Alignment explanation
Indices: 9932781--9933108 Score: 389
Period size: 152 Copynumber: 2.2 Consensus size: 149
9932771 ATTAAAATGT
*
9932781 TAATAAAAATAA--AAAATATATTAAAA-AATTCCCAAAATGCTTATATTTTGACAAATGTCCAA
1 TAATAAAAA-AATTAAAATATATTAAAATAATTCCCAAAATGATTATATTTTGACAAATGTCCAA
* * * ** * * *
9932843 TATTGTAACATGATCATTTTGCCC-TTTCTATTATTATAAAATGACTATTTTACTCTTTAATCAA
65 TATTATAAAATGATCATTTTACCCTTTTC-AACATTATAAAATAACCATTTTACTC--CAATCAA
* *
9932907 ATTAAAATAACCTAACATGT-TAA
127 ACTAAAATAACCTAAAATGTAT-A
* * **
9932930 TAATAAAAAATTTTAAAATATATTAAAATAATTCCCAAAGTGATTATATTTTGACACCTGTCCAA
1 TAATAAAAAA-ATTAAAATATATTAAAATAATTCCCAAAATGATTATATTTTGACAAATGTCCAA
** *
9932995 TATTATAAAATGATCATTTTATTCTTTTCAACATTATAAAATAACCATTTTACTCCAATGAAACT
65 TATTATAAAATGATCATTTTACCCTTTTCAACATTATAAAATAACCATTTTACTCCAATCAAACT
9933060 AAAATAACCTAAAATGTATA
130 AAAATAACCTAAAATGTATA
*
9933080 TAATAAAAAAATTAAAA-ATATGAAAATAA
1 TAATAAAAAAATTAAAATATATTAAAATAA
9933109 AAACATATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
148 12 0.08
149 15 0.10
150 34 0.22
151 15 0.10
152 73 0.48
153 4 0.03
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (149 bp):
TAATAAAAAAATTAAAATATATTAAAATAATTCCCAAAATGATTATATTTTGACAAATGTCCAAT
ATTATAAAATGATCATTTTACCCTTTTCAACATTATAAAATAACCATTTTACTCCAATCAAACTA
AAATAACCTAAAATGTATA
Found at i:9933237 original size:30 final size:31
Alignment explanation
Indices: 9933170--9933241 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
9933160 GTCTAGCGTT
* *
9933170 ATAAAATGATCATTTTTCCTTTTTCAACAAT
1 ATAAAATAATCATTTTTCCTTTTTCAACAAA
9933201 ATAAAATAATCATTTTAT-C-TTTT-AATCAAA
1 ATAAAATAATCATTTT-TCCTTTTTCAA-CAAA
9933231 ATAAAATAATC
1 ATAAAATAATC
9933242 TAAAATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.05
30 18 0.49
31 16 0.43
32 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.42
Consensus pattern (31 bp):
ATAAAATAATCATTTTTCCTTTTTCAACAAA
Found at i:9950648 original size:19 final size:19
Alignment explanation
Indices: 9950624--9950774 Score: 121
Period size: 19 Copynumber: 7.6 Consensus size: 19
9950614 TAATAAATAA
9950624 CAATAATATAATAATCATG
1 CAATAATATAATAATCATG
9950643 CAATAATATTAATAATCATGG
1 CAATAATA-TAATAATCAT-G
* *
9950664 AAATGTATATTAATAATCATG
1 CAAT-AATA-TAATAATCATG
* *
9950685 ATAAT-ATATTAACAATCATG
1 -CAATAATA-TAATAATCATG
9950705 CAAATAATA-AATAATCATG
1 C-AATAATATAATAATCATG
*
9950724 CAATTAATA-AATAATTATG
1 CAA-TAATATAATAATCATG
*
9950743 CAA-AATATAAAATATCATG
1 CAATAATATAATA-ATCATG
*
9950762 CAAAAATTATAAT
1 CAATAA-TATAAT
9950775 GCAATAAATC
Statistics
Matches: 111, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.04
18 5 0.05
19 43 0.39
20 29 0.26
21 13 0.12
22 17 0.15
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (19 bp):
CAATAATATAATAATCATG
Found at i:9950679 original size:42 final size:39
Alignment explanation
Indices: 9950625--9950732 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 39
9950615 AATAAATAAC
* *
9950625 AATAATATAATAATCATGCAATAATATTAATAATCATGGA
1 AATAAT-TAATAATCATGCAATAATATTAACAATCATGCA
*
9950665 AATGTATATTAATAATCATGATAAT-ATATTAACAATCATGCA
1 AA--TA-ATTAATAATCATG-CAATAATATTAACAATCATGCA
*
9950707 AATAATAAATAATCATGCAATTAATA
1 AATAATTAATAATCATGCAA-TAATA
9950733 AATAATTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
38 2 0.04
39 13 0.23
40 7 0.12
42 30 0.53
43 5 0.09
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (39 bp):
AATAATTAATAATCATGCAATAATATTAACAATCATGCA
Found at i:9952204 original size:19 final size:19
Alignment explanation
Indices: 9952163--9952205 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
9952153 CATAAAGAAT
**
9952163 ATAAAAACTAAAATTAAAA
1 ATAAAAACTAAAACCAAAA
* *
9952182 ATAAAATCTAAAACCAAAC
1 ATAAAAACTAAAACCAAAA
9952201 ATAAA
1 ATAAA
9952206 TTAAAAGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.19
Consensus pattern (19 bp):
ATAAAAACTAAAACCAAAA
Found at i:9952791 original size:18 final size:18
Alignment explanation
Indices: 9952754--9952922 Score: 85
Period size: 19 Copynumber: 9.2 Consensus size: 18
9952744 AAAATTCATC
* **
9952754 AAAGATTCAAGATTTGCA
1 AAAGATTTAAGATTCACA
9952772 AAAGATTTAAGATTCAC-
1 AAAGATTTAAGATTCACA
* * *
9952789 AAATATTTCAGGTTTCACA
1 AAAGATTT-AAGATTCACA
* **
9952808 AATG-TTTAAGATTTGC-
1 AAAGATTTAAGATTCACA
*
9952824 AAAGATTTAATATTCACA
1 AAAGATTTAAGATTCACA
9952842 AAA-ATTTCAAAGATTCACA
1 AAAGATTT--AAGATTCACA
* * *
9952861 AGAAAATTCCAAGATTCGCA
1 A-AAGATT-TAAGATTCACA
* *
9952881 AAGGATTTCAAGATTTACA
1 AAAGATTT-AAGATTCACA
* * *
9952900 AAAGGTTCCAAAATTCACA
1 AAAGATT-TAAGATTCACA
9952919 AAAG
1 AAAG
9952923 TTCCTAGATT
Statistics
Matches: 111, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.03
17 25 0.23
18 27 0.24
19 41 0.37
20 12 0.11
21 3 0.03
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAGATTTAAGATTCACA
Found at i:9952832 original size:17 final size:17
Alignment explanation
Indices: 9952753--9952848 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 17
9952743 AAAAATTCAT
* *
9952753 CAAAGATTCAAGATTTG
1 CAAAGATTTAAGATTTA
*
9952770 CAAAAGATTTAAGATTCA
1 C-AAAGATTTAAGATTTA
* * *
9952788 CAAATATTTCAGGTTTCA
1 CAAAGATTTAAGATTT-A
*
9952806 CAAATG-TTTAAGATTTG
1 CAAA-GATTTAAGATTTA
* *
9952823 CAAAGATTTAATATTCA
1 CAAAGATTTAAGATTTA
*
9952840 CAAAAATTT
1 CAAAGATTT
9952849 CAAAGATTCA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
16 1 0.02
17 32 0.53
18 27 0.45
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (17 bp):
CAAAGATTTAAGATTTA
Found at i:9952938 original size:56 final size:56
Alignment explanation
Indices: 9952761--9952967 Score: 146
Period size: 56 Copynumber: 3.8 Consensus size: 56
9952751 ATCAAAGATT
* * * * **
9952761 CAAGATTTGCAAAAGATTTAAGATTCACAAATATTTC-AGGTTTCAC-A-AATGTT-
1 CAAGATTTGC-AAAGATTTAAGATTCACAAAAATTCCAAAGATTCACAAGAAAATTC
* * *
9952814 TAAGATTTGCAAAGATTTAATATTCACAAAAATTTCAAAGATTCACAAGAAAATTC
1 CAAGATTTGCAAAGATTTAAGATTCACAAAAATTCCAAAGATTCACAAGAAAATTC
* * * *
9952870 CAAGATTCGCAAAGGATTTCAAGATTTACAAAAGGTTCCAAA-ATTCAC-A-AAAGTTC
1 CAAGATTTGCAAA-GATTT-AAGATTCACAAAA-ATTCCAAAGATTCACAAGAAAATTC
* * *
9952926 CTAGATTTGCAAATG-TTTATGATGT-ACAAAGATTCC-AAGATT
1 CAAGATTTGCAAA-GATTTAAGAT-TCACAAAAATTCCAAAGATT
9952968 TGCAAAGGTT
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
52 26 0.21
53 23 0.18
54 10 0.08
55 8 0.06
56 29 0.23
57 6 0.05
58 17 0.14
59 6 0.05
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (56 bp):
CAAGATTTGCAAAGATTTAAGATTCACAAAAATTCCAAAGATTCACAAGAAAATTC
Found at i:9952984 original size:18 final size:18
Alignment explanation
Indices: 9952962--9953004 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9952952 CAAAGATTCC
*
9952962 AAGATTTGCAAAGGTTTT
1 AAGATTCGCAAAGGTTTT
* *
9952980 GAGATTCGTAAAGGTTTT
1 AAGATTCGCAAAGGTTTT
9952998 AAGATTC
1 AAGATTC
9953005 TCAATGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (18 bp):
AAGATTCGCAAAGGTTTT
Found at i:9953262 original size:45 final size:45
Alignment explanation
Indices: 9953201--9953327 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 45
9953191 TTCCCTAATT
* * *
9953201 TTCAAAGATTCACATTTGAAAAATTTTAGAAATTCATAACTAAAA
1 TTCAAATATTCGCATTTGAAAAATTTTAGAGATTCATAACTAAAA
* * * *
9953246 TTCAAA-AGTTGGCATTTGAAAAGTTTTAGGGATTCATATCTAAAA
1 TTCAAATA-TTCGCATTTGAAAAATTTTAGAGATTCATAACTAAAA
* *
9953291 TTCAAATATTCTCATTTG-AAAACTTTAGAGATTCATA
1 TTCAAATATTCGCATTTGAAAAATTTTAGAGATTCATA
9953328 GATTCAAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 17 0.25
45 51 0.74
46 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (45 bp):
TTCAAATATTCGCATTTGAAAAATTTTAGAGATTCATAACTAAAA
Found at i:9953438 original size:44 final size:44
Alignment explanation
Indices: 9953388--9953525 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
9953378 ATTCGAAGAG
**
9953388 TTCAAAGATTTTCATTTGAGACTTTTTTATATTCTCATCCAAAA
1 TTCAAAGATTTTCATTTGAGACTTTTAAATATTCTCATCCAAAA
* * * *
9953432 TTCAAAGATTCTT-GTTTGAGACTTTTAGATATCCTGATCCAAAA
1 TTCAAAGATT-TTCATTTGAGACTTTTAAATATTCTCATCCAAAA
** * * *
9953476 TTCAAAGATTTTCATTAAAAACTTTTAAATGTTTTCATCCAAAA
1 TTCAAAGATTTTCATTTGAGACTTTTAAATATTCTCATCCAAAA
9953520 TTCAAA
1 TTCAAA
9953526 TATTCACATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.03
44 74 0.95
45 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (44 bp):
TTCAAAGATTTTCATTTGAGACTTTTAAATATTCTCATCCAAAA
Found at i:9954632 original size:166 final size:164
Alignment explanation
Indices: 9954347--9954656 Score: 498
Period size: 166 Copynumber: 1.9 Consensus size: 164
9954337 AGTCTTCTTT
* *
9954347 TTTTTCTCTTTTTTTTTTTGCATATTTTTTCTCATCATTTTATCTTATTTCTCGTTTCCCTTGAT
1 TTTTTCTCTTTTTTTTTTTGCATATTTTTTCTCATCATTTTATCTCATTTCTAGTTTCCCTTGAT
*
9954412 CCATCATTGACATTTCAATCAAAATTCTCAACAATCCTATTACAAGTCTACCTTAATTCAATTCA
66 CCATCATTAACATTTCAATCAAAATTCTCAACAATCCTATTACAAGTCTACCTTAATTCAATTCA
9954477 TGATTCTCCAATTTGATTATTCCAAATCTACCTA
131 TGATTCTCCAATTTGATTATTCCAAATCTACCTA
* *
9954511 TTTTTCTTTTTTCTTTTTTTGCATATCTTTTTCTCATC-TTTTCATCTCATTTCTATTTTCCCTT
1 TTTTTCTCTTTT-TTTTTTTGCATAT-TTTTTCTCATCATTTT-ATCTCATTTCTAGTTTCCCTT
* * *
9954575 GATCCATCATTAACATTTCGATCAAAATTC-CTAACAATGCTATTAGAAGTCTACCTTAATTCAA
63 GATCCATCATTAACATTTCAATCAAAATTCTC-AACAATCCTATTACAAGTCTACCTTAATTCAA
9954639 TTCATGATTCTCCAATTT
127 TTCATGATTCTCCAATTT
9954657 AAGTATTCAC
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
164 11 0.08
165 18 0.13
166 105 0.78
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (164 bp):
TTTTTCTCTTTTTTTTTTTGCATATTTTTTCTCATCATTTTATCTCATTTCTAGTTTCCCTTGAT
CCATCATTAACATTTCAATCAAAATTCTCAACAATCCTATTACAAGTCTACCTTAATTCAATTCA
TGATTCTCCAATTTGATTATTCCAAATCTACCTA
Found at i:9961128 original size:19 final size:20
Alignment explanation
Indices: 9961106--9961157 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
9961096 ATCACGTTCC
*
9961106 AAACCTTAAACCACCTCT-T
1 AAACCCTAAACCACCTCTCT
*
9961125 AAACCCTAAACCA-CTTTCT
1 AAACCCTAAACCACCTCTCT
9961144 AAACCCTAAACCAC
1 AAACCCTAAACCAC
9961158 ATTTCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 26 0.90
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCCTAAACCACCTCTCT
Found at i:9962215 original size:60 final size:57
Alignment explanation
Indices: 9962100--9962234 Score: 130
Period size: 60 Copynumber: 2.3 Consensus size: 57
9962090 GGAAATTTTG
* * **
9962100 AAAAAAATAAAAATAGTCAAAAAATGTTTTTATTTTAATTTCCTTTTTTGCAAAAATT
1 AAAAAAATAAAAA-AATCAAAAAATGTTTTAATTTTAATTTCCTTTTTTGCAAAAAAA
* *
9962158 AAAAAAATCAAAAAAATGAAAAATAGTGTTTTAATTTTAATTT--TTTTATTTCGAAAAAAA
1 AAAAAAAT-AAAAAAATCAAAAA-A-TGTTTTAATTTTAATTTCCTTTT-TTGC-AAAAAAA
9962218 ACAAAAAATTAAAAAAA
1 A-AAAAAA-TAAAAAAA
9962235 ATGCTGTTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
58 19 0.30
59 9 0.14
60 22 0.34
61 13 0.20
62 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (57 bp):
AAAAAAATAAAAAAATCAAAAAATGTTTTAATTTTAATTTCCTTTTTTGCAAAAAAA
Found at i:9963255 original size:37 final size:37
Alignment explanation
Indices: 9963182--9963268 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 37
9963172 TCTCCATGTC
* ** * *
9963182 ATGCACATTTTAATAGGTAGTACATACACTATATTTT
1 ATGCACATCTTAATAAATACTACATACACTACATTTT
* *
9963219 ATGCACATCTTAATAAATACTACATACATTCCATTTT
1 ATGCACATCTTAATAAATACTACATACACTACATTTT
**
9963256 ACACACATCTTAA
1 ATGCACATCTTAA
9963269 CACATGCATT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.37
Consensus pattern (37 bp):
ATGCACATCTTAATAAATACTACATACACTACATTTT
Found at i:9963336 original size:37 final size:36
Alignment explanation
Indices: 9963270--9963378 Score: 105
Period size: 37 Copynumber: 3.0 Consensus size: 36
9963260 ACATCTTAAC
* * * *
9963270 ACATGCATTCCATCTTATGTATATGTTAATAGATAGT
1 ACATGCATTCCATCTCA-CTACATCTTAATAGATAGT
* **
9963307 ACATGTATTTTATCTCA-TGCACATCTTAATAGATAGT
1 ACATGCATTCCATCTCACT--ACATCTTAATAGATAGT
*
9963344 ATATGCATTCCATCTCACTACATCTTAAT-GATAGT
1 ACATGCATTCCATCTCACTACATCTTAATAGATAGT
9963379 GTCAATTTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
35 7 0.12
36 10 0.17
37 41 0.69
38 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (36 bp):
ACATGCATTCCATCTCACTACATCTTAATAGATAGT
Found at i:9968546 original size:15 final size:14
Alignment explanation
Indices: 9968528--9968577 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
9968518 AAAAATTTTT
9968528 AAAAAGAAAAGAGAA
1 AAAAAGAAAAG-GAA
*
9968543 AAAAAAAAAAGGAA
1 AAAAAGAAAAGGAA
*
9968557 AAAATG-AAA-GAA
1 AAAAAGAAAAGGAA
*
9968569 AAAATGAAA
1 AAAAAGAAA
9968578 TGAAATGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 9 0.29
13 5 0.16
14 7 0.23
15 10 0.32
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAAGGAA
Found at i:9968566 original size:13 final size:12
Alignment explanation
Indices: 9968530--9968582 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
9968520 AAATTTTTAA
*
9968530 AAAGAAAAGA-G
1 AAAGAAAAAATG
9968541 AAA-AAAAAA--
1 AAAGAAAAAATG
9968550 AAAGGAAAAAATG
1 AAA-GAAAAAATG
9968563 AAAGAAAAAATG
1 AAAGAAAAAATG
9968575 AAATGAAA
1 AAA-GAAA
9968583 TGAAAAAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 3 0.08
10 5 0.14
11 9 0.25
12 12 0.33
13 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAGAAAAAATG
Found at i:9969096 original size:11 final size:11
Alignment explanation
Indices: 9969082--9969143 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
9969072 AGAAAATAGG
9969082 AAAAAAAAAGA
1 AAAAAAAAAGA
*
9969093 AAAACAAAAGA
1 AAAAAAAAAGA
* * *
9969104 TAGAAAAAAGG
1 AAAAAAAAAGA
*
9969115 AAAACAAAAGA
1 AAAAAAAAAGA
* **
9969126 AAAGAAGGAGA
1 AAAAAAAAAGA
9969137 AAAAAAA
1 AAAAAAA
9969144 TGAATGATTG
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:9970898 original size:30 final size:24
Alignment explanation
Indices: 9970829--9970900 Score: 63
Period size: 30 Copynumber: 2.7 Consensus size: 24
9970819 GTTTTTCTTG
9970829 TCTTTTATATTTTTTTTCTATTTGA
1 TCTTTTAT-TTTTTTTTCTATTTGA
*
9970854 TTTTTTATTGTTTTTGTTCTCATAGTTAGA
1 TCTTTTATT-TTTTT-TTCT-AT--TT-GA
9970884 TCTTTTATCTTTTTTTT
1 TCTTTTAT-TTTTTTTT
9970901 TTTTCTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
24 1 0.03
25 12 0.32
26 4 0.11
27 2 0.05
29 4 0.11
30 14 0.37
31 1 0.03
ACGTcount: A:0.14, C:0.08, G:0.07, T:0.71
Consensus pattern (24 bp):
TCTTTTATTTTTTTTTCTATTTGA
Found at i:9972048 original size:28 final size:30
Alignment explanation
Indices: 9972004--9972060 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
9971994 ATCTTCTACA
*
9972004 TGCAACAGCCCATAAGTGAGG-CCATTACG
1 TGCAACAGCCCACAAGTGAGGCCCATTACG
9972033 TGCAA-AGCCCACAAGTGAGGCCCATTAC
1 TGCAACAGCCCACAAGTGAGGCCCATTAC
9972061 ATGCGAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (30 bp):
TGCAACAGCCCACAAGTGAGGCCCATTACG
Found at i:9974762 original size:12 final size:11
Alignment explanation
Indices: 9974745--9974789 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
9974735 AAAAATCAAT
9974745 AAAATAAAAATG
1 AAAAT-AAAATG
*
9974757 AAAATAAAATA
1 AAAATAAAATG
9974768 ATAAATAAAATG
1 A-AAATAAAATG
9974780 AAAATGAAAA
1 AAAAT-AAAA
9974790 AAGAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:9975575 original size:3 final size:3
Alignment explanation
Indices: 9975564--9975640 Score: 65
Period size: 3 Copynumber: 26.3 Consensus size: 3
9975554 GGAGGAAGAA
*
9975564 AAT AA- AAT AAT AAT AAT AAT AAT GAT AAT AAAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
9975608 AATT GACT -AT AAT AGT AAT AAT -AT AAT -AT AAT A
1 AA-T -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9975641 TTTTGTACTA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.15
3 45 0.75
4 5 0.08
5 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9975753 original size:13 final size:13
Alignment explanation
Indices: 9975735--9975769 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9975725 ATACTATAGT
9975735 AATAATAATAACA
1 AATAATAATAACA
9975748 AATAATAAT-ACA
1 AATAATAATAACA
9975760 AA-AATAATAA
1 AATAATAATAA
9975770 TAGTAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAATAATAACA
Found at i:9975770 original size:17 final size:18
Alignment explanation
Indices: 9975748--9975782 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9975738 AATAATAACA
9975748 AATAATAAT-ACAAAAAT
1 AATAATAATAACAAAAAT
*
9975765 AATAATAGTAACAAAAAT
1 AATAATAATAACAAAAAT
9975783 CAACCCCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAATAATAACAAAAAT
Found at i:9976305 original size:56 final size:55
Alignment explanation
Indices: 9976245--9976370 Score: 139
Period size: 56 Copynumber: 2.3 Consensus size: 55
9976235 AATTATCTAG
* *
9976245 GCTGAGCCAAGATTGGTTGA-CTGAGACAGAACCACAAGTCTA-ATAAAATGATCAAA
1 GCTGAGCCAAGATCGGATGATC-GAGACAGAACCACAAGTCTAGA-AAAATGATC-AA
* * * * *
9976301 GCTGAGCTAAGATCGGATGATCGGGACAGAACCATAAGTCTAGAAAAATTATCTA
1 GCTGAGCCAAGATCGGATGATCGAGACAGAACCACAAGTCTAGAAAAATGATCAA
9976356 GACTGAGCCAAGATC
1 G-CTGAGCCAAGATC
9976371 AAGCACCCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
55 2 0.03
56 55 0.93
57 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (55 bp):
GCTGAGCCAAGATCGGATGATCGAGACAGAACCACAAGTCTAGAAAAATGATCAA
Found at i:9976446 original size:56 final size:55
Alignment explanation
Indices: 9976381--9976570 Score: 184
Period size: 55 Copynumber: 3.4 Consensus size: 55
9976371 AAGCACCCGA
* * * * * *
9976381 GATGGAACCACAAGTCATGAAAAAAAATTTGGATTTAGCCAAGATTGGGTGATTAG
1 GATGAAACCACAAGTC-TGAAAAAAAATCTGGATTGAGCCAAGATAGGATGATCAG
* ** * * * * *
9976437 GATGAAACCACAAGTATGAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAA
1 GATGAAACCACAAGTCTGAAAAAAAATCTGGATTGAGCCAAGATAGGATGATCAG
* * * *
9976492 GACGAAACCACAAGTCTAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCGG
1 GATGAAACCACAAGTCTGAAAAAA-AATCTGGATTGAGCCAAGATAGGATGATCAG
*
9976548 GATGGAACCACAAGTCT-AAAAAA
1 GATGAAACCACAAGTCTGAAAAAA
9976571 TGATCTGAAC
Statistics
Matches: 106, Mismatches: 27, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
55 54 0.51
56 52 0.49
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (55 bp):
GATGAAACCACAAGTCTGAAAAAAAATCTGGATTGAGCCAAGATAGGATGATCAG
Found at i:9976499 original size:55 final size:55
Alignment explanation
Indices: 9976440--9976598 Score: 183
Period size: 56 Copynumber: 2.9 Consensus size: 55
9976430 TGATTAGGAT
* *
9976440 GAAACCACAAGTATGAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGAC
1 GAAACCACAAGTCTAAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGAC
* * ** * * ** *
9976495 GAAACCACAAGTCTAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCGGGAT
1 GAAACCACAAGTCT-AAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGAC
* * *
9976551 GGAACCACAAGTCTAAAAAATGATCTGAACTGAACCAAGATCGAATGA
1 GAAACCACAAGTCTAAAAAATGATCTGAATTGAGCCAAGATCGAATGA
9976599 GTGATAAATG
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
55 40 0.48
56 44 0.52
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (55 bp):
GAAACCACAAGTCTAAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGAC
Found at i:9976501 original size:111 final size:111
Alignment explanation
Indices: 9976386--9976598 Score: 293
Period size: 111 Copynumber: 1.9 Consensus size: 111
9976376 CCCGAGATGG
* * * ** * *
9976386 AACCACAAGTCATGAAAAAA-AATTTGGATTTAGCCAAGATTGGGTGATTAGGATGAAACCACAA
1 AACCACAAGTC-TAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCAGGATGAAACCACAA
* * *
9976450 GTATGAAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGACGA
65 GTATAAAAAATGATCTGAACTGAACCAAGATCGAATGACCAAGACGA
* *
9976497 AACCACAAGTCTAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCGGGATGGAACCACAAG
1 AACCACAAGTCTAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCAGGATGAAACCACAAG
*
9976562 TCTAAAAAATGATCTGAACTGAACCAAGATCGAATGA
66 TATAAAAAATGATCTGAACTGAACCAAGATCGAATGA
9976599 GTGATAAATG
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 7 0.08
111 81 0.92
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (111 bp):
AACCACAAGTCTAAAAAAATAATCTGGATTGAGCCAAGAGAGGATGATCAGGATGAAACCACAAG
TATAAAAAATGATCTGAACTGAACCAAGATCGAATGACCAAGACGA
Found at i:9977322 original size:17 final size:16
Alignment explanation
Indices: 9977300--9977357 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
9977290 TTAAGTCTTC
9977300 TTTTTTTTCACTTTTT
1 TTTTTTTTCACTTTTT
*
9977316 ATTTTTTTTCATTTTTT
1 -TTTTTTTTCACTTTTT
*
9977333 TTGTTTTTTTATCTTTTT
1 TT-TTTTTTCA-CTTTTT
9977351 TTTTTTT
1 TTTTTTT
9977358 GTTTGCACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 2 0.06
17 27 0.75
18 7 0.19
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCACTTTTT
Found at i:9977357 original size:27 final size:27
Alignment explanation
Indices: 9977311--9977362 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9977301 TTTTTTTCAC
*
9977311 TTTTTATTTTTTTTCATTTTTTTTGTT
1 TTTTTATTTTTTTTCATTTTGTTTGTT
*
9977338 TTTTTATCTTTTTTT-TTTTTGTTTG
1 TTTTTAT-TTTTTTTCATTTTGTTTG
9977363 CACACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.85
Consensus pattern (27 bp):
TTTTTATTTTTTTTCATTTTGTTTGTT
Found at i:9982147 original size:14 final size:13
Alignment explanation
Indices: 9982128--9982204 Score: 79
Period size: 14 Copynumber: 6.0 Consensus size: 13
9982118 AAAAATGAAA
9982128 ATAAAATAATAAAT
1 ATAAAATAA-AAAT
*
9982142 ATAAAATTCAAAAT
1 ATAAAA-TAAAAAT
*
9982156 ATAAAATATAAA-
1 ATAAAATAAAAAT
9982168 AT-AAATAAAAAT
1 ATAAAATAAAAAT
*
9982180 A-AAAATAAAAAA
1 ATAAAATAAAAAT
*
9982192 ATAAAATGAAAAT
1 ATAAAATAAAAAT
9982205 GAAAAAAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
11 8 0.15
12 13 0.25
13 13 0.25
14 16 0.31
15 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (13 bp):
ATAAAATAAAAAT
Found at i:9982155 original size:32 final size:31
Alignment explanation
Indices: 9982119--9982197 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
9982109 CAATAAACAA
9982119 AAAAT-GAAAATAAAATAATAAATATAAAATTC
1 AAAATAGAAAATAAAA-AATAAATA-AAAATTC
* * *
9982151 AAAATATAAAATATAAAATAAATAAAAA-TA
1 AAAATAGAAAATAAAAAATAAATAAAAATTC
*
9982181 AAAATAAAAAAATAAAA
1 AAAAT-AGAAAATAAAA
9982198 TGAAAATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 13 0.32
32 13 0.32
33 8 0.20
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (31 bp):
AAAATAGAAAATAAAAAATAAATAAAAATTC
Done.