Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 278 of 316
Found at i:92118575 original size:40 final size:40
Alignment explanation
Indices: 92118392--92118561 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
92118382 TCCTCGTTCA
* * * *
92118392 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
92118431 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
92118471 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
92118511 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
92118551 AAGGCCTTCGG
1 AATGCCTTCGG
92118562 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:92126230 original size:5 final size:5
Alignment explanation
Indices: 92126220--92126253 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
92126210 TTACCTATTT
92126220 ATATA ATATA ATATA ATATA ATAT- ATAATA ATAT
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATAT
92126254 TCTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:92129238 original size:57 final size:57
Alignment explanation
Indices: 92129118--92129240 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 57
92129108 TTACAGAATG
* * *
92129118 GATTTAGCCTAGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGATA
1 GATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGAAA
* *
92129175 GAATTTAGCCCAGACGGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTTGAAA-ACAA
1 G-ATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCT-TGAGCATATGAT-AAAGA-AA
92129233 GATTTAGC
1 GATTTAGC
92129241 TTGGACAAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
56 1 0.02
57 27 0.47
58 29 0.51
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (57 bp):
GATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGAAA
Found at i:92137983 original size:26 final size:27
Alignment explanation
Indices: 92137933--92137986 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
92137923 TTGCCTCAAG
92137933 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAATCTTTTTGAGTCATCAAATAT
92137960 TTCAAA-CTTTTGTGA-TCAGT-AAATAT
1 TTCAAATCTTTT-TGAGTCA-TCAAATAT
92137986 T
1 T
92137987 CGACACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCATCAAATAT
Found at i:92142343 original size:16 final size:16
Alignment explanation
Indices: 92142324--92142354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92142314 CTTCTTCACT
92142324 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
92142340 TACTTACTTACTTAA
1 TACTCACTTACTTAA
92142355 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:92142360 original size:20 final size:20
Alignment explanation
Indices: 92142321--92142360 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
92142311 AAACTTCTTC
* *
92142321 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
92142341 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
92142361 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:92142784 original size:55 final size:54
Alignment explanation
Indices: 92142547--92142801 Score: 188
Period size: 55 Copynumber: 4.8 Consensus size: 54
92142537 ACACGGGTAC
* * * * *
92142547 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGATAT-CTT---TTTGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
92142596 CTTACC-ATTTCCATGTCTCGACAAGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * *
92142649 CTCACTAA-TGCCTTGCCTTGGCGTGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
** * ** **
92142704 CTTATTAA-TGTCATGTTTTGACATGGTCTTACATTATATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
92142757 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
92142802 AAACCCTAAT
Statistics
Matches: 156, Mismatches: 37, Indels: 20
0.73 0.17 0.09
Matches are distributed among these distances:
49 32 0.21
50 3 0.02
52 2 0.01
53 41 0.26
54 11 0.07
55 65 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:92146502 original size:4 final size:4
Alignment explanation
Indices: 92146480--92146517 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
92146470 ACAATGCTAA
*
92146480 ACAT AACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
92146518 AACTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:92146684 original size:10 final size:9
Alignment explanation
Indices: 92146662--92146785 Score: 65
Period size: 9 Copynumber: 14.6 Consensus size: 9
92146652 GCATAACATG
92146662 CATAATATA
1 CATAATATA
92146671 CATAATAGTA
1 CATAATA-TA
92146681 C---ATA-A
1 CATAATATA
92146686 CATAA-ATA
1 CATAATATA
92146694 CA-AATATA
1 CATAATATA
*
92146702 CAAAATA-A
1 CATAATATA
*
92146710 C-T-ATAAA
1 CATAATATA
*
92146717 CATAACATA
1 CATAATATA
*
92146726 CAT-GTATAA
1 CATAATAT-A
92146735 CACTACATA-A
1 CA-TA-ATATA
*
92146745 CAT-ACATA
1 CATAATATA
92146753 CATAATAGTA
1 CATAATA-TA
*
92146763 CATAACATA
1 CATAATATA
92146772 CATAATATA
1 CATAATATA
92146781 CATAA
1 CATAA
92146786 CAGTTTAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 34
0.67 0.08 0.26
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 10 0.11
8 18 0.20
9 38 0.43
10 15 0.17
12 2 0.02
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.26
Consensus pattern (9 bp):
CATAATATA
Found at i:92146743 original size:23 final size:23
Alignment explanation
Indices: 92146716--92146775 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
92146706 ATAACTATAA
**
92146716 ACATAACATACATGTATAACACT
1 ACATAACATACATACATAACACT
* *
92146739 ACATAACATACATACATAATAGT
1 ACATAACATACATACATAACACT
92146762 ACATAACATACATA
1 ACATAACATACATA
92146776 ATATACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.52, C:0.20, G:0.03, T:0.25
Consensus pattern (23 bp):
ACATAACATACATACATAACACT
Found at i:92146782 original size:18 final size:19
Alignment explanation
Indices: 92146744--92146787 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
92146734 ACACTACATA
92146744 ACAT-ACATACATAATAGT
1 ACATAACATACATAATAGT
92146762 ACATAACATACATAATA-T
1 ACATAACATACATAATAGT
92146780 ACATAACA
1 ACATAACA
92146788 GTTTAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (19 bp):
ACATAACATACATAATAGT
Found at i:92146829 original size:82 final size:80
Alignment explanation
Indices: 92146668--92146834 Score: 183
Period size: 82 Copynumber: 2.0 Consensus size: 80
92146658 CATGCATAAT
* * **
92146668 ATACATAATAGTACATAACATAAATACAAATATACAAAATAACTATAAACATAACATACATGTAT
1 ATACATAATAGTACATAACATAAAT--AAATATACAAAACAACTAAAAACATAACATACATACAT
* *
92146733 AACACTACATAACATAC
64 AACACTAAAAAACATAC
* * **
92146750 ATACATAATAGTACATAACATACAT-AATATACATAACAGTTTAAAAACATAACATACATACATA
1 ATACATAATAGTACATAACATAAATAAATATACAAAACA-ACTAAAAACATAACATACATACAT-
*
92146814 AACAGTAAAGAAACATAC
64 AACACTAAA-AAACATAC
92146832 ATA
1 ATA
92146835 ACAGACATAC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 11 0.15
80 19 0.27
81 7 0.10
82 34 0.48
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (80 bp):
ATACATAATAGTACATAACATAAATAAATATACAAAACAACTAAAAACATAACATACATACATAA
CACTAAAAAACATAC
Found at i:92155254 original size:45 final size:45
Alignment explanation
Indices: 92155198--92155296 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
92155188 AGCAGTAATA
*
92155198 GTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAACG
*
92155243 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
92155288 GTAACAGTA
1 GTAACAGTA
92155297 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
Found at i:92155291 original size:12 final size:12
Alignment explanation
Indices: 92155274--92155298 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92155264 AGTGTCGAAT
92155274 CGGTAACAGTAA
1 CGGTAACAGTAA
92155286 CGGTAACAGTAA
1 CGGTAACAGTAA
92155298 C
1 C
92155299 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:92156686 original size:3 final size:3
Alignment explanation
Indices: 92156678--92156744 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
92156668 AATTTATTTT
* * *
92156678 TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA T-A TAAA TTA TAA T-T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
92156721 TAA T-A GAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA
92156745 ATATCTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 5 0.10
3 40 0.80
4 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:92156702 original size:23 final size:23
Alignment explanation
Indices: 92156676--92156744 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 23
92156666 TTAATTTATT
92156676 TTTAATAATAATAATAATAATAA
1 TTTAATAATAATAATAATAATAA
*
92156699 TTTAATAAT-AT-A-AATTATAA
1 TTTAATAATAATAATAATAATAA
92156719 TTTAATAGAATAATAATAAATAATAA
1 TTTAAT--AATAATAAT-AATAATAA
92156745 ATATCTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 5 0.13
23 11 0.29
24 1 0.03
26 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (23 bp):
TTTAATAATAATAATAATAATAA
Found at i:92157725 original size:21 final size:21
Alignment explanation
Indices: 92157677--92157726 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
92157667 TAAAAGAAAA
*
92157677 GAAAAGATCTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
92157698 GAAAAGGTCTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
92157719 GAAAAGGT
1 GAAAAGGT
92157727 TTAGAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (21 bp):
GAAAAGGTCTTTTGGAGAGTT
Found at i:92165119 original size:70 final size:70
Alignment explanation
Indices: 92164980--92165130 Score: 218
Period size: 70 Copynumber: 2.2 Consensus size: 70
92164970 AAAAAAGTAT
* *
92164980 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATTTTTTA
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATATTGTA
92165045 TTGTA
66 TTGTA
*
92165050 TTCTATTGTATTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAAACT-AAAA-ATT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAAA-TGAAAATATT
92165113 GT-TTGTA
63 GTATTGTA
*
92165120 TTGTATTGTAT
1 TTCTATTGTAT
92165131 ACTTATTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
70 36 0.49
71 4 0.05
72 33 0.45
73 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (70 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATATTGTA
TTGTA
Found at i:92165174 original size:51 final size:52
Alignment explanation
Indices: 92165076--92165174 Score: 157
Period size: 51 Copynumber: 1.9 Consensus size: 52
92165066 ATCAATAATA
**
92165076 TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTGTATTGTATTG
1 TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTACATTGTATTG
92165128 TATACTTATTTACAATCTACG-AAAAAA-TGAAAAATTGTTTACATTGT
1 TATACTTATTTACAATCTACGAAAAAAACT-AAAAATTGTTTACATTGT
92165175 TTTCTAGGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 1 0.02
51 22 0.50
52 21 0.48
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (52 bp):
TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTACATTGTATTG
Found at i:92171273 original size:10 final size:10
Alignment explanation
Indices: 92171258--92171305 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
92171248 TAACGTGTTG
92171258 AATTTTAATT
1 AATTTTAATT
*
92171268 AATTTTGTAATA
1 AA-TTT-TAATT
92171280 AATTTTAATT
1 AATTTTAATT
*
92171290 AATTTTGATT
1 AATTTTAATT
*
92171300 TATTTT
1 AATTTT
92171306 CAACAGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:92202469 original size:33 final size:33
Alignment explanation
Indices: 92202427--92202493 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
92202417 GGATATCGTA
92202427 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
1 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
92202460 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
1 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
92202493 C
1 C
92202494 TTTTTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (33 bp):
CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
Found at i:92205457 original size:6 final size:6
Alignment explanation
Indices: 92205428--92205515 Score: 92
Period size: 6 Copynumber: 14.7 Consensus size: 6
92205418 TGTGTCTCTC
* *
92205428 AAAAT- AAAATAA TAAAATA GAAATG AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
92205477 AAAATA AAAAT- AAAAT- AAAATA AGAGTA AATAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAA
92205516 AATAGGAGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
5 15 0.21
6 44 0.63
7 6 0.09
8 5 0.07
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:92220934 original size:21 final size:21
Alignment explanation
Indices: 92220908--92220948 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92220898 ATGTGGAGTT
92220908 AAATGCAGTTTGCTCAGCCAA
1 AAATGCAGTTTGCTCAGCCAA
*
92220929 AAATGCAGTTTGCTTAGCCA
1 AAATGCAGTTTGCTCAGCCA
92220949 TACTACAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
AAATGCAGTTTGCTCAGCCAA
Found at i:92224315 original size:6 final size:6
Alignment explanation
Indices: 92224299--92224344 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
92224289 GTTTAAAGAC
* * *
92224299 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
92224345 ATCTTCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:92226881 original size:45 final size:44
Alignment explanation
Indices: 92226781--92226887 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
92226771 TGTCTTTGAC
** * * * *
92226781 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
*
92226825 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATA-TATAAT
92226870 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
92226888 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 32 0.58
45 23 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
Found at i:92228802 original size:65 final size:65
Alignment explanation
Indices: 92228698--92228823 Score: 252
Period size: 65 Copynumber: 1.9 Consensus size: 65
92228688 ACCATAATTT
92228698 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
92228763 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAA
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAA
92228824 TTCTATACTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (65 bp):
ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
Found at i:92229086 original size:13 final size:13
Alignment explanation
Indices: 92229068--92229094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92229058 GGAGAAATCA
92229068 CACACGGGCGTGT
1 CACACGGGCGTGT
92229081 CACACGGGCGTGT
1 CACACGGGCGTGT
92229094 C
1 C
92229095 CTTGTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:92234851 original size:14 final size:14
Alignment explanation
Indices: 92234831--92234864 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
92234821 TCTTGTCCCA
*
92234831 ACAATGGGCAGTCC
1 ACAATGGGCAATCC
*
92234845 GCAATGGGCAATCC
1 ACAATGGGCAATCC
92234859 ACAATG
1 ACAATG
92234865 AACTCTCCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.15
Consensus pattern (14 bp):
ACAATGGGCAATCC
Found at i:92236266 original size:2 final size:2
Alignment explanation
Indices: 92236259--92236288 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
92236249 AATAACCTTT
92236259 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92236289 TATATATAAA
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:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92238160 original size:30 final size:30
Alignment explanation
Indices: 92238102--92238160 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
92238092 ATTTTCGGGC
* **
92238102 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
92238132 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
92238161 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:92238544 original size:46 final size:46
Alignment explanation
Indices: 92238491--92238707 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
92238481 ACTGTGAGCT
*
92238491 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAAAGTC
* * *
92238537 AGTGTAAGACCATGTTTGGGACATGACATCGG-CATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CGAGATGAAAGT-C
* * * *
92238584 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
* * *
92238631 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATG--TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
*
92238675 AGTGCAAGACCATGTCTGGGACATTGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC
92238708 ACCTTACCCC
Statistics
Matches: 144, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 67 0.47
47 32 0.22
48 20 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
Found at i:92279230 original size:47 final size:47
Alignment explanation
Indices: 92279177--92279306 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
92279167 ACAATCGATA
*
92279177 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCT-G
* *
92279224 AGTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * *
92279271 AATACCTATACTATGGCCCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
92279307 TTATTTGCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 73 0.97
48 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:92287035 original size:18 final size:18
Alignment explanation
Indices: 92287012--92287063 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
92287002 TTCAGCATGC
*
92287012 ATATATATAATGATATAT
1 ATATATATAATCATATAT
* *
92287030 ATATATATTATCATATGT
1 ATATATATAATCATATAT
*
92287048 ATATATATTATCATAT
1 ATATATATAATCATAT
92287064 CTTTGCAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (18 bp):
ATATATATAATCATATAT
Found at i:92289845 original size:2 final size:2
Alignment explanation
Indices: 92289838--92289864 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92289828 GTGCAATTGT
92289838 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
92289865 GAGTCTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92291876 original size:69 final size:69
Alignment explanation
Indices: 92291765--92292029 Score: 300
Period size: 69 Copynumber: 3.8 Consensus size: 69
92291755 AAGAGGTTCT
* * * ** *
92291765 AGGTGTAAGGCCATAGCTTGACTATGGTAACCAATAGAGTCCATCAGGACAGTGAACACGAGGAT
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
92291830 TTCA
66 TTCA
* * *
92291834 AGGTGTAAGACCATAGTTCGGCTATGACAACCAATAGAGTCCACCAGGACAGTAAACACGAAGAT
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
92291899 TTCA
66 TTCA
** * * * *
92291903 AGGTGTAATTCCATAGCTCGGCTATGGA-AACCAATAAAGTTCATC-GAGACAATAAACACGGGG
1 AGGTGTAAGACCATAGCTCGGCTAT-GACAACCAATAGAGTCCATCAG-GACAGTAAACACGAGG
92291966 ATTTCA
64 ATTTCA
* * * * ** *
92291972 ATGCGTAAGACCATGGCTCAGCTATGACAACCAATAGAGTCTGTCAGGACATTAAACA
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACA
92292030 TTGGTTCATA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
68 3 0.02
69 157 0.96
70 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (69 bp):
AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
TTCA
Found at i:92301411 original size:56 final size:56
Alignment explanation
Indices: 92301325--92301436 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
92301315 CAAGAAGCTG
92301325 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
92301381 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
92301437 CATCCATCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
Found at i:92305664 original size:3 final size:3
Alignment explanation
Indices: 92305656--92305681 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92305646 GTAAGAGAAG
92305656 AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AG
92305682 AAACAACAAC
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:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:92305692 original size:6 final size:6
Alignment explanation
Indices: 92305683--92305725 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
92305673 CAGCAGCAGA
* * *
92305683 AACAAC AACACC AACACC AACACC AACATC AACCACC ACCACC
1 AACACC AACACC AACACC AACACC AACACC AA-CACC AACACC
92305726 TTGTGGGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (6 bp):
AACACC
Found at i:92305928 original size:24 final size:24
Alignment explanation
Indices: 92305876--92305930 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
92305866 GAGCGGTGAG
* *
92305876 GGAACAGGAAGGGATACCAGAGCTA
1 GGAAGAGGAAGGGATACCAAAGC-A
92305901 -GAAGAGGAAGGAGATACCAAAG-A
1 GGAAGAGGAAGG-GATACCAAAGCA
92305924 GGAAGAG
1 GGAAGAG
92305931 AAAAAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.45, C:0.11, G:0.38, T:0.05
Consensus pattern (24 bp):
GGAAGAGGAAGGGATACCAAAGCA
Found at i:92311159 original size:2 final size:2
Alignment explanation
Indices: 92311152--92311177 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92311142 ATACAGAAAA
92311152 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
92311178 GGTTGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:92314515 original size:34 final size:34
Alignment explanation
Indices: 92314472--92314539 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
92314462 CAAATTTAGA
92314472 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
92314506 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
92314540 AATCATCGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
Found at i:92325763 original size:17 final size:17
Alignment explanation
Indices: 92325741--92325775 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
92325731 CTATCTTCAA
92325741 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
92325758 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
92325775 G
1 G
92325776 TGCAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (17 bp):
GCCTCCTTATTTCAATG
Found at i:92326413 original size:21 final size:21
Alignment explanation
Indices: 92326387--92326431 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
92326377 AATATTTTTA
92326387 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
92326408 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
92326429 TAA
1 TAA
92326432 GGTGGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAAATATTTAAGGAATGTCAT
Found at i:92327963 original size:32 final size:32
Alignment explanation
Indices: 92327927--92327991 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
92327917 TGTATGCATT
92327927 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
92327959 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
92327991 T
1 T
92327992 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:92334747 original size:17 final size:17
Alignment explanation
Indices: 92334727--92334761 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
92334717 TATATTACTT
92334727 TTATTTTAATATAAATA
1 TTATTTTAATATAAATA
* *
92334744 TTATTTTTATATACATA
1 TTATTTTAATATAAATA
92334761 T
1 T
92334762 AAACCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTAATATAAATA
Found at i:92334761 original size:23 final size:22
Alignment explanation
Indices: 92334713--92334779 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
92334703 TAAAAAAATT
* * *
92334713 TATATATATTACTTTTATTTTAA
1 TATAAATATTATTTTTA-TATAA
92334736 TATAAATATTATTTTTATATACA
1 TATAAATATTATTTTTATATA-A
**
92334759 TATAAACCTTATTTATTATAT
1 TATAAATATTATTT-TTATAT
92334780 TATTATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.08
23 28 0.76
24 6 0.16
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAATATTATTTTTATATAA
Found at i:92334784 original size:8 final size:8
Alignment explanation
Indices: 92334767--92334844 Score: 56
Period size: 8 Copynumber: 9.5 Consensus size: 8
92334757 CATATAAACC
92334767 TTAT-TTA
1 TTATATTA
92334774 TTATATTA
1 TTATATTA
*
92334782 TTATTTTCA
1 TTATATT-A
92334791 -TATATTA
1 TTATATTA
92334798 TTTTATATTTA
1 --TTATA-TTA
92334809 TATATATTA
1 T-TATATTA
92334818 TTATATTA
1 TTATATTA
92334826 TT-TATT-
1 TTATATTA
*
92334832 TTAAATTA
1 TTATATTA
92334840 CTTAT
1 -TTAT
92334845 TATATAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.04
7 12 0.21
8 23 0.40
9 9 0.16
10 8 0.14
11 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATATTA
Found at i:92334798 original size:13 final size:12
Alignment explanation
Indices: 92334774--92334834 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
92334764 ACCTTATTTA
92334774 TTATATTATTATT
1 TTATA-TATTATT
92334787 TTCATATATTATT
1 TT-ATATATTATT
92334800 TTATAT-TTA--
1 TTATATATTATT
92334809 -TATATATTATT
1 TTATATATTATT
*
92334820 ATAT-TATTTATT
1 TTATATA-TTATT
92334832 TTA
1 TTA
92334835 AATTACTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
8 5 0.12
9 3 0.07
11 5 0.12
12 14 0.34
13 11 0.27
14 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATATTATT
Found at i:92334800 original size:28 final size:30
Alignment explanation
Indices: 92334767--92334831 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
92334757 CATATAAACC
*
92334767 TTATTTATTATA-TTAT-TATTTTCA-TATA
1 TTATTTATTATATTTATATATATT-ATTATA
92334795 TTATTT--TATATTTATATATATTATTATA
1 TTATTTATTATATTTATATATATTATTATA
92334823 TTATTTATT
1 TTATTTATT
92334832 TTAAATTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
26 4 0.13
27 5 0.16
28 21 0.68
30 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
TTATTTATTATATTTATATATATTATTATA
Found at i:92334811 original size:18 final size:18
Alignment explanation
Indices: 92334768--92334824 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
92334758 ATATAAACCT
92334768 TATTTAT-TATATTATTA
1 TATTTATATATATTATTA
92334785 T-TTTCATATATTATT-TTA
1 TATTT-ATATA-TATTATTA
92334803 TATTTATATATATTATTA
1 TATTTATATATATTATTA
92334821 TATT
1 TATT
92334825 ATTTATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.09
17 7 0.20
18 18 0.51
19 7 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTATATATATTATTA
Found at i:92334844 original size:26 final size:27
Alignment explanation
Indices: 92334791--92334854 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
92334781 ATTATTTTCA
*
92334791 TATATTATTTTATATTTATATATATTAT
1 TATATTA-TTTATATTTAAATATATTAT
92334819 TATATTATTTAT-TTTAAAT-TACTTAT
1 TATATTATTTATATTTAAATATA-TTAT
*
92334845 TATATAATTT
1 TATATTATTT
92334855 TTAAAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 5 0.15
28 7 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTATTTATATTTAAATATATTAT
Found at i:92340542 original size:36 final size:36
Alignment explanation
Indices: 92340495--92340567 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
92340485 CATAGAAAAC
92340495 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
1 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
92340531 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
1 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
92340567 T
1 T
92340568 TTAAAATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (36 bp):
TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
Found at i:92343500 original size:20 final size:19
Alignment explanation
Indices: 92343476--92343535 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
92343466 TTGATAGCTT
92343476 TTAAAAATTATCGATACCTGA
1 TTAAAAA-TATCGATACCT-A
*
92343497 -TAAAAAGTATTGATACCTA
1 TTAAAAA-TATCGATACCTA
92343516 TTTAAAAATATCGATACCTA
1 -TTAAAAATATCGATACCTA
92343536 CCGGGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 27 0.79
21 6 0.18
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (19 bp):
TTAAAAATATCGATACCTA
Found at i:92349802 original size:26 final size:26
Alignment explanation
Indices: 92349773--92349825 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
92349763 AATAGGTAAG
92349773 TTGGTATGAATATATGTGATAATAGT
1 TTGGTATGAATATATGTGATAATAGT
92349799 TTGGTATGAATATATGTGATAATAGT
1 TTGGTATGAATATATGTGATAATAGT
92349825 T
1 T
92349826 AATACCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (26 bp):
TTGGTATGAATATATGTGATAATAGT
Found at i:92350616 original size:26 final size:26
Alignment explanation
Indices: 92350577--92350626 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
92350567 TTGAGTTAAT
*
92350577 AAAATTCTCTTTGATTTTTCTTTTTA
1 AAAATTCTCTTTGACTTTTCTTTTTA
92350603 AAAATT-TCTCTTGACTTTTCTTTT
1 AAAATTCTCT-TTGACTTTTCTTTT
92350627 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (26 bp):
AAAATTCTCTTTGACTTTTCTTTTTA
Found at i:92353128 original size:7 final size:7
Alignment explanation
Indices: 92353116--92353143 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
92353106 CTGCTATTTG
92353116 GAATCCT
1 GAATCCT
92353123 GAATCCT
1 GAATCCT
92353130 GAATCCT
1 GAATCCT
92353137 GAATCCT
1 GAATCCT
92353144 TATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
GAATCCT
Found at i:92355564 original size:7 final size:7
Alignment explanation
Indices: 92355552--92355576 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
92355542 TTATGGGTAT
92355552 AATTTTA
1 AATTTTA
92355559 AATTTTA
1 AATTTTA
92355566 AATTTTA
1 AATTTTA
92355573 AATT
1 AATT
92355577 AATTTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:92363349 original size:4 final size:4
Alignment explanation
Indices: 92363322--92363354 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
92363312 TCATGCATGC
*
92363322 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
92363355 CAAATTAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:92366009 original size:25 final size:25
Alignment explanation
Indices: 92365979--92366037 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
92365969 TAGACATTTA
92365979 TTAAAGAATAAGAAGATTCTTTCAT
1 TTAAAGAATAAGAAGATTCTTTCAT
92366004 TTAAAGAATAAGAAGATTCTTTCAT
1 TTAAAGAATAAGAAGATTCTTTCAT
92366029 TTAAAGAAT
1 TTAAAGAAT
92366038 TCTTAGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (25 bp):
TTAAAGAATAAGAAGATTCTTTCAT
Found at i:92374463 original size:19 final size:19
Alignment explanation
Indices: 92374439--92374529 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
92374429 AATTATATCT
*
92374439 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
92374458 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
92374476 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
92374493 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
92374512 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
92374530 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:92374497 original size:35 final size:37
Alignment explanation
Indices: 92374439--92374529 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
92374429 AATTATATCT
*
92374439 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
92374476 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
92374512 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
92374530 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:92374508 original size:14 final size:15
Alignment explanation
Indices: 92374453--92374508 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
92374443 AGATTGTATA
92374453 TCATATCTAAGATTG
1 TCATATCTAAGATTG
92374468 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
92374486 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
92374503 -CATATC
1 TCATATC
92374509 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:92376501 original size:24 final size:22
Alignment explanation
Indices: 92376474--92376518 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
92376464 ATGTAACATA
*
92376474 TATTTTTAAATGATTACTATATTT
1 TATTATTAAAT-ATTA-TATATTT
*
92376498 TATTATTAAGTATTATATATT
1 TATTATTAAATATTATATATT
92376519 ATCAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATTATTAAATATTATATATTT
Found at i:92396790 original size:132 final size:132
Alignment explanation
Indices: 92396552--92396817 Score: 360
Period size: 132 Copynumber: 2.0 Consensus size: 132
92396542 AACCTATGAA
* ** * *
92396552 CTTACTAAACATTCAAAATGCTTCTTCTGTTTTGTTTTCTGTTTCTGTAGTGGTTTTTTTGCGAT
1 CTTACTAAACATTCAAAATGCTTCTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGAT
* * * *
92396617 CCATGTCGATTGGATCACCTTGGAGCTTAAACTACCTAGCTTCTGACTCGATAGACTTTTAAATG
66 ACACGTCGATTGGATCACCTTGGAGCTCAAACTACCTAGCTTCTGACTCGATAGACTTTTAAACG
92396682 TT
131 TT
* *
92396684 CTTACTAAGCATTCAAAATGCTTAC-TCTATTTCATTTTCTGTTTCTATAGTTGTTATTTTGCG-
1 CTTACTAAACATTCAAAATGCTT-CTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGA
*
92396747 TAACACGTCGATTGGATCA-CTTCGGAGCTCAAACTATCC-AGCTTCTGACTCGGTAGACTTTTA
65 T-ACACGTCGATTGGATCACCTT-GGAGCTCAAACTA-CCTAGCTTCTGACTCGATAGACTTTTA
92396810 AACGTT
127 AACGTT
92396816 CT
1 CT
92396818 GGACTCAGTT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
131 4 0.03
132 111 0.94
133 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (132 bp):
CTTACTAAACATTCAAAATGCTTCTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGAT
ACACGTCGATTGGATCACCTTGGAGCTCAAACTACCTAGCTTCTGACTCGATAGACTTTTAAACG
TT
Found at i:92397359 original size:20 final size:19
Alignment explanation
Indices: 92397291--92397359 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
92397281 TGCAAATTTG
92397291 GTATCGATAC-TAGTATAAA
1 GTATCGATACTTA-TATAAA
*
92397310 GTATCGATACTTAATCCTAAA
1 GTATCGATACTT-AT-ATAAA
**
92397331 G-ATTAATACTTATATAAAA
1 GTATCGATACTTATAT-AAA
92397350 GTATCGATAC
1 GTATCGATAC
92397360 AAATTAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.41
20 16 0.41
21 6 0.15
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (19 bp):
GTATCGATACTTATATAAA
Found at i:92399027 original size:19 final size:20
Alignment explanation
Indices: 92399003--92399049 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
92398993 TTAAGGTTAG
* *
92399003 TTAATTAAGCTTATTTA-AA
1 TTAATTAAGATTAATTAGAA
*
92399022 TTAATTAAGATTAATTAGAT
1 TTAATTAAGATTAATTAGAA
92399042 TTAATTAA
1 TTAATTAA
92399050 ATATTTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (20 bp):
TTAATTAAGATTAATTAGAA
Found at i:92399034 original size:10 final size:10
Alignment explanation
Indices: 92399003--92399049 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
92398993 TTAAGGTTAG
*
92399003 TTAATTAAGC
1 TTAATTAAGA
*
92399013 TTATTTAA-A
1 TTAATTAAGA
92399022 TTAATTAAGA
1 TTAATTAAGA
92399032 TTAATT-AGA
1 TTAATTAAGA
92399041 TTTAATTAA
1 -TTAATTAA
92399050 ATATTTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 10 0.32
10 20 0.65
11 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:92401545 original size:26 final size:26
Alignment explanation
Indices: 92401505--92401560 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
92401495 ATATAATAAT
92401505 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
92401531 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
92401557 AATA
1 AATA
92401561 GCATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:92414962 original size:90 final size:90
Alignment explanation
Indices: 92414809--92415094 Score: 360
Period size: 90 Copynumber: 3.2 Consensus size: 90
92414799 ACTATTATTC
* * *
92414809 AAAATGTTCATATTATTTTTGTATCC-GTAAATCAATTTTAGTCTGTATTATTTGTTGGTCGAAT
1 AAAATGTTCGTATTATTTTTGCA-CCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAAT
*
92414873 TTTATATTTTCGTATATCAGTTTTGT
65 TTTATATTTTCGTATATCAATTTTGT
* * ** * *
92414899 AAAATGTTTGTATTATTTTTGGATTTGTAAA-AATATTTTAGTCTGTATTATTTGTCGATCGAAT
1 AAAATGTTCGTATTATTTTTGCACCTGTAAATAA-ATTTTAGTCTGTATTATTTGTTGGTCGAAT
*
92414963 TTTATATTTTCGTATATCAATTTTAT
65 TTTATATTTTCGTATATCAATTTTGT
* * * *
92414989 AAAATGTTCGTATTATTTTTGCACCTGTAAATAAAATTTAGTCGGTATTATCTGTTGGTTGAATT
1 AAAATGTTCGTATTATTTTTGCACCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAATT
* * *
92415054 ATATATTTTTGTATATTAATTTTGT
66 TTATATTTTCGTATATCAATTTTGT
* *
92415079 AGAATATTCGTATTAT
1 AAAATGTTCGTATTAT
92415095 CTTGTATATG
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.01
90 164 0.98
91 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (90 bp):
AAAATGTTCGTATTATTTTTGCACCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAATT
TTATATTTTCGTATATCAATTTTGT
Found at i:92417851 original size:54 final size:53
Alignment explanation
Indices: 92417740--92417852 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
92417730 TTTTTATTGC
* * *
92417740 TTTTTAATTAAAATCTATCTATTCAATTATTTTTTATTTATACTTTAAATAAT
1 TTTTTAATTAAAATCGATCTACTCAATTATTTTTTATTTATACTTTAAATAAA
* * * *
92417793 TTTTTAATTAAAATCGATCTACTCGATTATTTTTTAATTTATGCTTTGATTAAA
1 TTTTTAATTAAAATCGATCTACTCAATTATTTTTT-ATTTATACTTTAAATAAA
92417847 TTTTTA
1 TTTTTA
92417853 TTCTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 32 0.62
54 20 0.38
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.56
Consensus pattern (53 bp):
TTTTTAATTAAAATCGATCTACTCAATTATTTTTTATTTATACTTTAAATAAA
Found at i:92417887 original size:118 final size:115
Alignment explanation
Indices: 92417703--92418276 Score: 492
Period size: 112 Copynumber: 4.8 Consensus size: 115
92417693 TATCTATACA
* *
92417703 ATTTTTTTATTTATACTTAAATTAATATTTTTATTGC-TTTTTAATTAAAATCTATCTATTCAAT
1 ATTTTTTAATTTATACTTTAATTAA-ATTTTTATT-CTTTTTTAATTAAAATCTATCTATTCAAT
* *
92417767 TATTTTTTATTTATACTTTAAATAA-TTTTTTAATTAAAATCGATCTACTCGATT
64 TATTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAAT--ATCTATTC-ATT
* * * * *
92417821 ATTTTTTAATTTATGCTTTGATTAAATTTTTATTCTTTTTTTAATAAAAATATATCTATTCGATT
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTC-TTTTTTAATTAAAATCTATCTATTCAATT
* *
92417886 ATTTTTTATTTATAC-TTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
65 ATTTTTAATTTATACTTTAAA-T-A------A-T-TTTTTTAAT-TAAA-ATATCTATTCA-TT
* * **
92417949 ATTTTTTAATTTATACTTTAATTGATTTTTTATTCTTTTTTAATTAAAATCTATCTATTTGATTA
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
** * *
92418014 CATTTAATTTATACTTTAATTAATTTTTTTAATT--AATATATATTCAATT
66 TTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAATATCTATTC-ATT
* * *
92418063 A-TTTTT-ATTTATAGTTTAATTAATTTTTTATTCCTTTTTAATTAAAATCTATCTATTCAATTA
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
* *
92418126 TTTTTAATATATACTTTAATTACTTTTTTTATTCTTTTTTAATTAAAATCTATCTATTCCATT
66 TTTTTAATTTATACTTTAA--A-------TAAT-TTTTTTAATTAAAA--TATCTATT-CATT
*
92418189 ATTTTTTAATTTATACTTTAAAT-AATTTTT-TTC-TTTTTAATTAAAA--TA--TATTCAATTA
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
* * * *
92418247 TTTTTTATTTATGCCTTAATTAATTTTTTT
66 TTTTTAATTTATACTTTAAATAATTTTTTT
92418277 CTTTTTTAAT
Statistics
Matches: 379, Mismatches: 42, Indels: 77
0.76 0.08 0.15
Matches are distributed among these distances:
111 6 0.02
112 71 0.19
113 5 0.01
114 12 0.03
115 2 0.01
116 1 0.00
117 14 0.04
118 71 0.19
119 2 0.01
120 1 0.00
121 28 0.07
122 10 0.03
123 2 0.01
124 2 0.01
125 14 0.04
126 15 0.04
127 52 0.14
128 66 0.17
129 3 0.01
130 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (115 bp):
ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
TTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAATATCTATTCATT
Found at i:92417891 original size:30 final size:29
Alignment explanation
Indices: 92417857--92417958 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 29
92417847 TTTTTATTCT
92417857 TTTTTTAATAAAAATATATCTATTCGATTA
1 TTTTTTAATAAAAATATATCTATTC-ATTA
* * * *
92417887 TTTTTTATTTATACTTAAAT-TAAT-TTTTTATTC
1 TTTTTTA---ATA--AAAATAT-ATCTATTCATTA
92417920 TTTTTTAATAAAAATATATCTATTCATTTA
1 TTTTTTAATAAAAATATATCTATTCA-TTA
92417950 TTTTTTAAT
1 TTTTTTAAT
92417959 TTATACTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
28 6 0.11
29 5 0.09
30 21 0.38
33 13 0.24
34 4 0.07
35 6 0.11
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTTTAATAAAAATATATCTATTCATTA
Found at i:92418043 original size:64 final size:63
Alignment explanation
Indices: 92417792--92418311 Score: 455
Period size: 64 Copynumber: 8.6 Consensus size: 63
92417782 CTTTAAATAA
* * * * *
92417792 TTTTTTAATTAAAATCGATCTACTCGATTATTTTTTAATTTATGCTTTGATTAAATTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCGATTA-TTTTTAATTTATACTTTAATTAATTTTTTATTC
* * * *
92417856 TTTTTTTAATAAAAATATATCTATTCGATTATTTTTTATTTATACTTAAATTAATTTTTTATTC
1 -TTTTTTAATTAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTAATTTTTTATTC
* * *
92417920 TTTTTTAATAAAAATATATCTATTC-ATTTATTTTTTAATTTATACTTTAATTGATTTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCGA-TTA-TTTTTAATTTATACTTTAATTAATTTTTTATTC
* **
92417984 TTTTTTAATTAAAATCTATCTATTTGATTACATTTAATTTATACTTTAATTAA---TTT-TT-
1 TTTTTTAATTAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTAATTTTTTATTC
** * * * * * * **
92418042 TTAATTAATATATATTCAAT-TATT--TTTATTTATAGTTTA-A--TTAATT--TTTTATTCCT-
1 TTTTTTAAT-TAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTAATTTT-TTATTC
* * *
92418098 TTTT--AATTAAAATCTATCTATTCAATTATTTTTAATATATACTTTAATTACTTTTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTA-ATTTTTTATTC
* *
92418160 TTTTTTAATTAAAATCTATCTATTCCATTATTTTTTAATTTATACTTTAAATAA-TTTTT-TTC
1 TTTTTTAATTAAAATCTATCTATTCGATTA-TTTTTAATTTATACTTTAATTAATTTTTTATTC
* * * *
92418222 -TTTTTAATTAAAA--TA--TATTCAATTATTTTTTATTTATGCCTTAATTAA-TTTTT-TTC
1 TTTTTTAATTAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTAATTTTTTATTC
* *
92418278 TTTTTTAATT-AAATCTATCTATTCAATTGTTTTT
1 TTTTTTAATTAAAATCTATCTATTCGATTATTTTT
92418312 TATCTAAATT
Statistics
Matches: 378, Mismatches: 50, Indels: 59
0.78 0.10 0.12
Matches are distributed among these distances:
53 13 0.03
54 8 0.02
55 3 0.01
56 54 0.14
57 19 0.05
58 13 0.03
59 17 0.04
60 17 0.04
61 16 0.04
62 12 0.03
63 53 0.14
64 106 0.28
65 47 0.12
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (63 bp):
TTTTTTAATTAAAATCTATCTATTCGATTATTTTTAATTTATACTTTAATTAATTTTTTATTC
Found at i:92418044 original size:25 final size:24
Alignment explanation
Indices: 92418016--92418091 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
92418006 TTTGATTACA
92418016 TTTAATTTATACTTTAATTAATTTT
1 TTTAATTTATA-TTTAATTAATTTT
* *
92418041 TTTAATTAATATAT-ATTCAATTATT
1 TTTAATTTATATTTAATT-AATT-TT
92418066 TTT-ATTTATAGTTTAATTAATTTT
1 TTTAATTTATA-TTTAATTAATTTT
92418090 TT
1 TT
92418092 ATTCCTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.07
24 16 0.37
25 21 0.49
26 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (24 bp):
TTTAATTTATATTTAATTAATTTT
Found at i:92418118 original size:176 final size:180
Alignment explanation
Indices: 92417872--92418313 Score: 598
Period size: 176 Copynumber: 2.5 Consensus size: 180
92417862 TAATAAAAAT
* * * * * *
92417872 ATATCTATTCGATTATTTTTTATTTATACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATAT
1 ATATATATTCAATTATTTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCT
* *
92417937 ATCTATTCATTTATTTTTTAATTTATACTTTAATTGA-TTTTTTATTCTTTTTTAATTAAAATCT
66 ATCTATTCAATTATTTTTTAATATATACTTTAATT-ACTTTTTTATTCTTTTTTAATTAAAATCT
** *
92418001 ATCTATTTGATTA-CATTTAATTTATACTTTAATTAA-TT-TTTTTAATTA
130 ATCTATTCCATTATCATTTAATTTATACTTTAAATAATTTCTTTTTAATTA
*
92418049 ATATATATTCAATTA-TTTTTATTTATAGTTTAATTAATTTTTTATTCCTTTTTAATTAAAATCT
1 ATATATATTCAATTATTTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCT
92418113 ATCTATTCAATTA-TTTTTAATATATACTTTAATTACTTTTTTTATTCTTTTTTAATTAAAATCT
66 ATCTATTCAATTATTTTTTAATATATACTTTAATTAC-TTTTTTATTCTTTTTTAATTAAAATCT
**
92418177 ATCTATTCCATTATTTTTTAATTTATACTTTAAATAATTTTTTTCTTTTTAATTA
130 ATCTATTCCATTATCATTTAATTTATACTTTAAATAA----TTTCTTTTTAATTA
* *
92418232 AAATATATTCAATTATTTTTTATTTAT-GCCTTAATTAA-TTTTT-TTCTTTTTTAATT-AAATC
1 ATATATATTCAATTATTTTTTATTTATAG-TTTAATTAATTTTTTATTCTTTTTTAATTAAAATC
*
92418293 TATCTATTCAATTGTTTTTTA
65 TATCTATTCAATTATTTTTTA
92418314 TCTAAATTTG
Statistics
Matches: 235, Mismatches: 18, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
174 1 0.00
175 20 0.09
176 94 0.40
177 33 0.14
181 18 0.08
182 20 0.09
183 30 0.13
184 19 0.08
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (180 bp):
ATATATATTCAATTATTTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCT
ATCTATTCAATTATTTTTTAATATATACTTTAATTACTTTTTTATTCTTTTTTAATTAAAATCTA
TCTATTCCATTATCATTTAATTTATACTTTAAATAATTTCTTTTTAATTA
Found at i:92418202 original size:240 final size:241
Alignment explanation
Indices: 92417703--92418235 Score: 686
Period size: 240 Copynumber: 2.2 Consensus size: 241
92417693 TATCTATACA
* *
92417703 ATTTTTTTATTTATACTTAAATTAATATTTTTATTGCTTTTTAATTAAAATCTATCTATTCAATT
1 ATTTTTTAATTTATACTTTAATT-AT-TTTTTATT-CTTTTTAATTAAAATCTATCTATTCAATT
** * * *
92417768 ATTTTTTATTTATACTTTAAATAATTTTTTAATTAAAATCGATCTACTCGATTATTTTTTAATTT
63 ACATTTAATTTATACTTTAAATAATTTTTTAATT-AAATC-ATATACTCAATTATTTTTTAATTT
* * * * *
92417833 ATGCTTTGATTAAATTTTTATTCTTTTTTTAATAAAAATATATCTATTCGATTATTTTTTATTTA
126 ATGCTTTAATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAATATA
92417898 TACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
191 TACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
**
92417949 ATTTTTTAATTTATACTTTAATTGATTTTTTATTCTTTTTTAATTAAAATCTATCTATTTGATTA
1 ATTTTTTAATTTATACTTTAATT-ATTTTTTATTC-TTTTTAATTAAAATCTATCTATTCAATTA
* *
92418014 CATTTAATTTATACTTTAATTAATTTTTTTAATT-AAT-ATATATTCAATTA-TTTTT-ATTTAT
64 CATTTAATTTATACTTTAAATAA-TTTTTTAATTAAATCATATACTCAATTATTTTTTAATTTAT
* * *
92418075 AG-TTTAATTAATTTTTTATTC-CTTTTTAATTAAAATCTATCTATTCAATTATTTTTAATATAT
128 -GCTTTAATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAATATAT
* * * *
92418138 ACTTTAATTACTTTTTTTATTCTTTTTTAATTAAAATCTATCTATTCCA-TT
192 ACTTAAATTA-ATTTTTTATTCTTTTTTAATAAAAATATATCTATT-CATTT
* *
92418189 ATTTTTTAATTTATACTTTAAATAATTTTT-TTCTTTTTAATTAAAAT
1 ATTTTTTAATTTATACTTTAATTATTTTTTATTCTTTTTAATTAAAAT
92418236 ATATTCAATT
Statistics
Matches: 256, Mismatches: 26, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
237 14 0.05
238 3 0.01
239 51 0.20
240 79 0.31
241 8 0.03
242 10 0.04
244 4 0.02
245 54 0.21
246 33 0.13
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (241 bp):
ATTTTTTAATTTATACTTTAATTATTTTTTATTCTTTTTAATTAAAATCTATCTATTCAATTACA
TTTAATTTATACTTTAAATAATTTTTTAATTAAATCATATACTCAATTATTTTTTAATTTATGCT
TTAATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAATATATACTT
AAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
Found at i:92420540 original size:39 final size:39
Alignment explanation
Indices: 92420482--92420561 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
92420472 TTCTGAAGTA
*
92420482 GAAAAATTTATTCCGATTAATTTTTATAATTTATTGAGT
1 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
92420521 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
1 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
92420560 GA
1 GA
92420562 TTAGATGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (39 bp):
GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
Found at i:92423654 original size:14 final size:14
Alignment explanation
Indices: 92423618--92423662 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
92423608 ATCTTGAAAC
92423618 AATACAAATTTAGAA
1 AATACAAATTTA-AA
*
92423633 AA-ATAAATTTAAA
1 AATACAAATTTAAA
*
92423646 AATACAAATTGAAA
1 AATACAAATTTAAA
92423660 AAT
1 AAT
92423663 CTTGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 20 0.77
15 2 0.08
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (14 bp):
AATACAAATTTAAA
Found at i:92423707 original size:19 final size:19
Alignment explanation
Indices: 92423667--92423707 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
92423657 AAAAATCTTG
*
92423667 AAAAAAATACAAATAGATC
1 AAAAAAATACAAATAGAAC
92423686 AAAAAAATA-AAATATGAAC
1 AAAAAAATACAAATA-GAAC
92423705 AAA
1 AAA
92423708 TCAATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAAAATACAAATAGAAC
Found at i:92426610 original size:29 final size:29
Alignment explanation
Indices: 92426547--92426614 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
92426537 TAATCAACCG
*
92426547 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
92426576 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
92426605 CGCACACTTA
1 CGCACACTTA
92426615 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:92426781 original size:29 final size:29
Alignment explanation
Indices: 92426721--92426788 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
92426711 TAATCAACCA
*
92426721 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
92426750 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
92426779 CGCACACTTA
1 CGCACACTTA
92426789 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:92426929 original size:29 final size:30
Alignment explanation
Indices: 92426890--92426968 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
92426880 CTTAATAATC
92426890 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
92426920 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
92426949 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
92426969 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:92426962 original size:174 final size:174
Alignment explanation
Indices: 92426436--92426937 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
92426426 AACTCAAGGT
* * * *
92426436 ACTTACCTTTTCCACTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
92426501 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
92426566 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
92426610 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
92426675 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
92426740 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
92426784 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
92426849 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
92426914 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
92426938 TGTACAATTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:92434916 original size:29 final size:29
Alignment explanation
Indices: 92434853--92434920 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
92434843 TAATCAACCG
*
92434853 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
92434882 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
92434911 CGCACACTTA
1 CGCACACTTA
92434921 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:92435087 original size:29 final size:29
Alignment explanation
Indices: 92435027--92435094 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
92435017 TAATCAACCA
*
92435027 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
92435056 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
92435085 CGCACACTTA
1 CGCACACTTA
92435095 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:92435235 original size:29 final size:30
Alignment explanation
Indices: 92435196--92435274 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
92435186 CTTAATAATC
92435196 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
92435226 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
92435255 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
92435275 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:92435268 original size:174 final size:174
Alignment explanation
Indices: 92434742--92435243 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
92434732 AACTCAAGGT
* * *
92434742 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
92434807 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
92434872 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
92434916 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
92434981 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
92435046 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
92435090 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
92435155 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
92435220 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
92435244 TGTACAATTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:92442760 original size:49 final size:49
Alignment explanation
Indices: 92442640--92442957 Score: 388
Period size: 49 Copynumber: 6.5 Consensus size: 49
92442630 ACTATGTGAT
* * * * *
92442640 TATGTGATCCCGTATAAGACCATATCTAGGATATGGCATCAGTGTGATTA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATG-TAA
* * *
92442690 TATGT--TTTCGTATAAGACCATATATGGGATATGGCATTGGTATGTAA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* *
92442737 TATGTGATTCCGTATAAGACCATATATGGGATATGGCATTGGTATGTAA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* *
92442786 TATGTGATTCCGTATAAGACCATATCTGGGATATGACATCGGTATGTGA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* * * *
92442835 TATATGATTCCGTATAATACCATATCTGGGATATGGCATCGGTACGTGA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* * * * *
92442884 TATGTGATTCCGTATAAGACCATATTTGGGCTATGGCATTGGTTTGTGAT
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT-AA
* * *
92442934 TATGTGACTCTGTTTAAGACCATA
1 TATGTGATTCCGTATAAGACCATA
92442958 GTTTTACTAT
Statistics
Matches: 236, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
47 7 0.03
48 32 0.14
49 171 0.72
50 26 0.11
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (49 bp):
TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
Found at i:92442872 original size:147 final size:147
Alignment explanation
Indices: 92442632--92442957 Score: 449
Period size: 147 Copynumber: 2.2 Consensus size: 147
92442622 AACATGTGAC
* * * *
92442632 TATGTGATTATGTGATCCCGTATAAGACCATATCTAGGATATGGCATCAGTGTGATTATATGTTT
1 TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAGTGTGATTATATGATT
* * *
92442697 TCGTATAAGACCATATATGGGATATGGCATTGGTATGTAATATGTGATTCCGTATAAGACCATAT
66 CCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCATAT
92442762 ATGGGATATGGCATTGG
131 ATGGGATATGGCATTGG
* *
92442779 TATGT-AATATGTGATTCCGTATAAGACCATATCTGGGATATGACATCGGTATGTGA-TATATGA
1 TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAG--TGTGATTATATGA
* * *
92442842 TTCCGTATAATACCATATCTGGGATATGGCATCGGTACGTGATATGTGATTCCGTATAAGACCAT
64 TTCCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCAT
* *
92442907 ATTTGGGCTATGGCATTGG
129 ATATGGGATATGGCATTGG
* * * * *
92442926 TTTGTGATTATGTGACTCTGTTTAAGACCATA
1 TATGTGAATATGTGATTCCGTATAAGACCATA
92442958 GTTTTACTAT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
146 39 0.25
147 91 0.58
148 27 0.17
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (147 bp):
TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAGTGTGATTATATGATT
CCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCATAT
ATGGGATATGGCATTGG
Found at i:92444852 original size:20 final size:20
Alignment explanation
Indices: 92444815--92444857 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
92444805 AAAATAAACA
* **
92444815 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
*
92444835 TATAACTATTCAAATAATTT
1 TATAACTATTCAAATAATAT
92444855 TAT
1 TAT
92444858 TTAAATAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:92446638 original size:53 final size:54
Alignment explanation
Indices: 92446523--92446651 Score: 165
Period size: 53 Copynumber: 2.4 Consensus size: 54
92446513 ATATATTAAA
* *
92446523 GGGGTGTC-AGCCATAAGTGTCCCAACACCTAATTTTTTTTTAAAAATCTGGTATT
1 GGGGTGTCGA-CCATCAGTGTCCCAACACCCAATTTTTTTTT-AAAATCTGGTATT
* * *
92446578 GGGGTGTCGATCATTAGTGTCCCAATACCCCAA-TTTTTTTT-AAATCTGGTATT
1 GGGGTGTCGACCATCAGTGTCCCAACA-CCCAATTTTTTTTTAAAATCTGGTATT
92446631 GGGGTGTCGACCATCAGTGTC
1 GGGGTGTCGACCATCAGTGTC
92446652 TGAGCACCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 31 0.47
55 30 0.45
56 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (54 bp):
GGGGTGTCGACCATCAGTGTCCCAACACCCAATTTTTTTTTAAAATCTGGTATT
Found at i:92448144 original size:17 final size:18
Alignment explanation
Indices: 92448113--92448146 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92448103 AATTTAACTT
92448113 TAATTAAATTATTTAAAC
1 TAATTAAATTATTTAAAC
*
92448131 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
92448147 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAC
Found at i:92455230 original size:15 final size:16
Alignment explanation
Indices: 92455210--92455239 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92455200 AAGGGCACTT
92455210 TTGTATT-TTTTTTCA
1 TTGTATTATTTTTTCA
92455225 TTGTATTATTTTTTC
1 TTGTATTATTTTTTC
92455240 CTATAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (16 bp):
TTGTATTATTTTTTCA
Found at i:92463947 original size:31 final size:31
Alignment explanation
Indices: 92463912--92463981 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
92463902 CTTGTCACTT
* * *
92463912 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
92463943 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
92463974 GTAGCCGA
1 GTAGCCGA
92463982 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:92464003 original size:46 final size:46
Alignment explanation
Indices: 92463936--92464027 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
92463926 CACTATTCAC
* *
92463936 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
92463982 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
92464028 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:92464020 original size:31 final size:31
Alignment explanation
Indices: 92463982--92464040 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
92463972 AAGTAGCCGA
92463982 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
92464013 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
92464041 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:92464117 original size:50 final size:50
Alignment explanation
Indices: 92464020--92464246 Score: 373
Period size: 50 Copynumber: 4.5 Consensus size: 50
92464010 CATTGATCAG
* * * *
92464020 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
92464071 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
92464121 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
92464171 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
92464221 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
92464247 GTTGCCATGG
Statistics
Matches: 166, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
50 144 0.87
51 22 0.13
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:92470434 original size:13 final size:14
Alignment explanation
Indices: 92470407--92470437 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
92470397 AGTATTTCCT
92470407 ATATAATATACAAA
1 ATATAATATACAAA
92470421 ATATAATA-ACAAA
1 ATATAATATACAAA
92470434 ATAT
1 ATAT
92470438 TTATAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAATATACAAA
Found at i:92470467 original size:17 final size:17
Alignment explanation
Indices: 92470433--92470479 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
92470423 ATAATAACAA
* * *
92470433 AATATTTATAAGAGAAT
1 AATAATTATAAAAAAAT
92470450 AATAATTATAAAAAAAT
1 AATAATTATAAAAAAAT
92470467 ATATAA-TATAAAA
1 A-ATAATTATAAAA
92470480 GTAGGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (17 bp):
AATAATTATAAAAAAAT
Found at i:92470587 original size:24 final size:25
Alignment explanation
Indices: 92470532--92470588 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
92470522 CATTTTAAAA
92470532 TAAAATA-ATACATAATTAATAATT
1 TAAAATATATACATAATTAATAATT
* *
92470556 TAATATATATACATAA-T-ATGAGTT
1 TAAAATATATACATAATTAAT-AATT
92470580 TAAAATATA
1 TAAAATATA
92470589 ATTTAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.07
24 18 0.64
25 8 0.29
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAAATATATACATAATTAATAATT
Found at i:92470697 original size:25 final size:24
Alignment explanation
Indices: 92470651--92470702 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
92470641 CATAACATAT
* *
92470651 ATAAAAAATAATAAGTAATATAGA
1 ATAAAAAATAATAAATAATATAAA
**
92470675 ATAAAAATATAATAAATGTTATAAA
1 ATAAAAA-ATAATAAATAATATAAA
92470700 ATA
1 ATA
92470703 TAATTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
ATAAAAAATAATAAATAATATAAA
Found at i:92472915 original size:29 final size:29
Alignment explanation
Indices: 92472829--92472915 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
92472819 AAAAAAAGAC
* *
92472829 ATAG-TGAGATGACCAAAAA--AAAGGAAA
1 ATAGTTGAG-TGACCAAAAACGAAAAGATA
* * *
92472856 ATAGTTGGGTGATC--AAACGAAAAAAATTA
1 ATAGTTGAGTGACCAAAAACG-AAAAGA-TA
92472885 ATAGTTGAGTGACCAAAAACGAAAAGATA
1 ATAGTTGAGTGACCAAAAACGAAAAGATA
92472914 AT
1 AT
92472916 TGGGTGACCT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 3 0.07
27 8 0.18
28 7 0.16
29 17 0.38
30 5 0.11
31 5 0.11
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.18
Consensus pattern (29 bp):
ATAGTTGAGTGACCAAAAACGAAAAGATA
Found at i:92474856 original size:29 final size:28
Alignment explanation
Indices: 92474824--92474887 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
92474814 ACATGACATG
* * *
92474824 AAAATATCAAAAATAATAAAAGAAATAAT
1 AAAATAACAAAAACAAAAAAAGAAA-AAT
* *
92474853 AAAATAACAAGAACAAAAAAATAAAAAT
1 AAAATAACAAAAACAAAAAAAGAAAAAT
92474881 AAAATAA
1 AAAATAA
92474888 TAATTGTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.16
Consensus pattern (28 bp):
AAAATAACAAAAACAAAAAAAGAAAAAT
Found at i:92474858 original size:17 final size:16
Alignment explanation
Indices: 92474831--92474878 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
92474821 ATGAAAATAT
92474831 CAAAAATAATAAAAGAA
1 CAAAAA-AATAAAAGAA
92474848 -ATAATAAAATAACAAGAA
1 CA-AA-AAAATAA-AAGAA
92474866 CAAAAAAATAAAA
1 CAAAAAAATAAAA
92474879 ATAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.11
17 14 0.52
18 9 0.33
19 1 0.04
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.12
Consensus pattern (16 bp):
CAAAAAAATAAAAGAA
Found at i:92478113 original size:44 final size:44
Alignment explanation
Indices: 92478056--92478384 Score: 327
Period size: 44 Copynumber: 7.6 Consensus size: 44
92478046 CTCGACTTGT
* * *
92478056 TCTCTGTCCATACAGAGACGCCAAGTCTGCTATCTTTGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
* *
92478100 TCTCTGACAATACAGAGATGCCAAATCTGCT-TCTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
* *
92478143 TCTCTGACAATACAGAGACGCCAAATCTG-TTTCTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
* * *
92478186 TCTCTGACAATACAGAGACGCCAAATTTGCT-TCTTGGATTTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
* * *
92478229 TC-CTCGTCAAATAC-GAAGATGCCAAA--T-C-ATCTTAGATCTGC
1 TCTCT-GAC-AATACAG-AGACGCCAAATCTGCTATCTTTGATCTGC
* * * * *
92478270 TCTTTAACAATATAGAGATGGCAAATCTGCTAT-TTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTT-GATCTGC
* * * * *
92478314 TCTCCGACAATATAGAGATGCCAAATCTGTTATCTTTGATCTGT
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
* *
92478358 TCTCTGCCAATACAGAGACACCAAATC
1 TCTCTGACAATACAGAGACGCCAAATC
92478385 ATCTTAGATT
Statistics
Matches: 241, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
40 13 0.05
41 15 0.06
42 6 0.02
43 97 0.40
44 107 0.44
45 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
Found at i:92478333 original size:84 final size:84
Alignment explanation
Indices: 92478085--92478384 Score: 309
Period size: 86 Copynumber: 3.5 Consensus size: 84
92478075 GCCAAGTCTG
* *
92478085 CTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTTCTTCGATCTGCTCTCTGA
1 CTATCTTAGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTTCTTCGATCTGCTCTCCGA
* *
92478150 CAATACAGAGACGCCAAAT
66 CAATATAGAGATGCCAAAT
* * * * * *
92478169 CTGTTTCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTTCTTGGATTTGCTC-CT
1 C--TATCTTAGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTTCTTCGATCTGCTCTC-
*
92478233 CGTCAA-ATACGAAGATGCCAAAT
63 CGACAATATA-G-AGATGCCAAAT
* * * * *
92478256 C-ATCTTAGATCTGCTCTTTAACAATATAGAGATGGCAAATCTGCTATTTTCGATCTGCTCTCCG
1 CTATCTTAGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCT-TCTTCGATCTGCTCTCCG
92478320 ACAATATAGAGATGCCAAAT
65 ACAATATAGAGATGCCAAAT
* * * **
92478340 CTGTTATCTTTGATCTGTTCTCTGCCAATACAGAGACACCAAATC
1 C---TATCTTAGATCTGCTCTCTGACAATACAGAGATGCCAAATC
92478385 ATCTTAGATT
Statistics
Matches: 173, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
84 49 0.28
85 20 0.12
86 62 0.36
87 11 0.06
88 31 0.18
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (84 bp):
CTATCTTAGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTTCTTCGATCTGCTCTCCGA
CAATATAGAGATGCCAAAT
Found at i:92478370 original size:128 final size:127
Alignment explanation
Indices: 92478065--92478398 Score: 379
Period size: 128 Copynumber: 2.6 Consensus size: 127
92478055 TTCTCTGTCC
* *
92478065 ATACAGAGACGCCAAGTCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGC
1 ATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAA--T-C
* * * *
92478130 TTCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTTCTTCGATCTGCTCTCTGACA
63 ATCTTAGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGTTTCTTCGATCTGCTCTCCGACA
* * * *
92478195 ATACAGAGACGCCAAATTTGCT-TCTTGGATTTGCTC-CTCGTCAAATAC-GAAGATGCCAAATC
1 ATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCT-G-CCAATACAG-AGATGCCAAATC
* * * *
92478257 ATCTTAGATCTGCTCTTTAACAATATAGAGATGGCAAATCTGCTATT-TTCGATCTGCTCTCCGA
63 ATCTTAGATCTGCTCTCTAACAATACAGAGACGCCAAATCTG-T-TTCTTCGATCTGCTCTCCGA
92478321 CA
126 CA
* * * * **
92478323 ATATAGAGATGCCAAATCTGTTATCTTTGATCTGTTCTCTGCCAATACAGAGACACCAAATCATC
1 ATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
*
92478388 TTAGATTTGCT
66 TTAGATCTGCT
92478399 TCAACGTAAA
Statistics
Matches: 171, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
127 36 0.21
128 69 0.40
129 29 0.17
130 37 0.22
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (127 bp):
ATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
TTAGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGTTTCTTCGATCTGCTCTCCGACA
Found at i:92478504 original size:215 final size:212
Alignment explanation
Indices: 92478067--92478555 Score: 544
Period size: 215 Copynumber: 2.3 Consensus size: 212
92478057 CTCTGTCCAT
* *
92478067 ACAGAGACGCCAAGTCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTT
1 ACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTT
* * * *
92478132 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTTCTTCGATCTGCTCTCTGACAAT
66 CTTCGATCTGCTCTCTGACAATACAGAGACACCAAATC--TATCTTAGATCTGCTCTCTAACAAT
* * * * * *
92478197 ACAGAGACGCCAAATTTGCTTCTTGGATTTGCTCCTCGTCAAATACGAAGATGCCAAATCATCTT
129 ACAGAGAAGCCAAATCTGCTTCTTCGATCTGCTCCTCATCAAACACGAAGATGCCAAATCATCTT
* *
92478262 AGATCTGCTCTTTAACAAT
194 AGATCTGCTCTCTAACAAA
* * * * *
92478281 ATAGAGATGGCAAATCTGCTAT-TTTCGATCTGCTCTCCGACAATATAGAGATGCCAAATCTGTT
1 ACAGAGATGCCAAATCTGCTATCTTT-GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCT
* * * *
92478345 ATCTTTGATCTGTTCTCTGCCAATACAGAGACACCAAATC-ATCTTAGATTTGCT-TC-AACGTA
65 -TCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTATCTTAGATCTGCTCTCTAAC--A
* *
92478407 A-ACGCGTGAAAGCCAAATCTGCTATATCTTCGATCTGCTCCTCAT-AAACAC-AAGGATGCCAA
127 ATAC-AGAG-AAGCCAAATCTGC--T-TCTTCGATCTGCTCCTCATCAAACACGAA-GATGCCAA
* * *
92478469 ATCATCTTCGATTTGTTCTCTAACAAA
186 ATCATCTTAGATCTGCTCTCTAACAAA
*
92478496 ACAGAGATGCCAAATCTG-TCATCTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATC
1 ACAGAGATGCCAAATCTGCT-ATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATC
92478556 ATCTTAGATT
Statistics
Matches: 230, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
210 2 0.01
211 4 0.02
212 15 0.07
213 14 0.06
214 56 0.24
215 120 0.52
216 19 0.08
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (212 bp):
ACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTT
CTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTATCTTAGATCTGCTCTCTAACAATAC
AGAGAAGCCAAATCTGCTTCTTCGATCTGCTCCTCATCAAACACGAAGATGCCAAATCATCTTAG
ATCTGCTCTCTAACAAA
Found at i:92478526 original size:44 final size:44
Alignment explanation
Indices: 92478470--92478686 Score: 137
Period size: 44 Copynumber: 5.0 Consensus size: 44
92478460 GGATGCCAAA
* * * *
92478470 TCATCTTCGATTTGTTCTCTAACAAAACAGAGATGCCAAATCTG
1 TCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* *
92478514 TCATCTTTGATTTGCTCTCTGACAATACAGAGATGCCAAA----
1 TCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * * * * * *
92478554 TCATCTTAGATTTGCT-TC-AACGTAAATAC-GTGAAAGCTAAATCAG
1 TCATCTTCGATCTGCTCTCTGAC---AATACAGAG-ATGCCAAATCTG
* *
92478599 -CTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCCAAATCTG
1 TC-A--TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTG
* * *
92478646 T-TTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
1 TCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATC
92478687 ATCTTGGATC
Statistics
Matches: 134, Mismatches: 24, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 17 0.13
41 11 0.08
43 19 0.14
44 53 0.40
45 1 0.01
47 25 0.19
48 3 0.02
49 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
TCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
Found at i:92478610 original size:131 final size:131
Alignment explanation
Indices: 92478473--92478718 Score: 350
Period size: 131 Copynumber: 1.9 Consensus size: 131
92478463 TGCCAAATCA
* * * *
92478473 TCTTCGATTTGTTCTCTAAC-AAAACAGAGATGCCAAATCTGTCATCTTTGATTTGCTCTCTGAC
1 TCTTCGATCTGCTCCCTAACGAAAACAGAGATGCCAAATCTGT-ATCTTCGATTTGCTCTCTGAC
*
92478537 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAAGCTAAATCAGCTA
65 AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAATACGTGAAAGCTAAATCAGCTA
92478602 TG
130 TG
** * * *
92478604 TCTTCGATCTGCTCCCTGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCCCTAACGAAAACAGAGATGCCAAATCTGTATCTTCGATTTGCTCTCTGACA
* ** *
92478669 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAATACTTGAA
66 ATACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAATACGTGAA
92478719 GGTCAGATCT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 79 0.79
132 21 0.21
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (131 bp):
TCTTCGATCTGCTCCCTAACGAAAACAGAGATGCCAAATCTGTATCTTCGATTTGCTCTCTGACA
ATACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAATACGTGAAAGCTAAATCAGCTAT
G
Found at i:92478691 original size:171 final size:169
Alignment explanation
Indices: 92478075--92478700 Score: 573
Period size: 171 Copynumber: 3.7 Consensus size: 169
92478065 ATACAGAGAC
* * * * *
92478075 GCCAAGTCTGCTA-TCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTTCTTCGAT
1 GCCAAATC-GCTATTCTTCGATCTGCTCCCTAACAATACAGAGATGCCAAATCTGTTTCTTCGAT
* * *
92478139 CTGCTCTCTGACAATACAGAGACGCCAAATCTGTTTCTTCGATCTGCTCTCTGACAATACAGAGA
65 CTGCTCTCTGACAATACAGAGATGCCAAATC--TATCTTTGATCTGCTCTCTGACAATACAGAGA
* * **
92478204 CGCCAAATTTGCTTCTTGGATTTGC-TCCTCGTCAAATAC--GAAGA
128 CGCCAAA--T-CATCTTAGATTTGCTTCAACGT-AAATACGTGAA-A
* ** * *
92478248 TGCCAAAT--C-A-TCTTAGATCTGCTCTTTAACAATATAGAGATGGCAAATCTGCTATT-TTCG
1 -GCCAAATCGCTATTCTTCGATCTGCTCCCTAACAATACAGAGATGCCAAATCTG-T-TTCTTCG
* * * *
92478308 ATCTGCTCTCCGACAATATAGAGATGCCAAATCTGTTATCTTTGATCTGTTCTCTGCCAATACAG
63 ATCTGCTCTCTGACAATACAGAGATGCCAAATC---TATCTTTGATCTGCTCTCTGACAATACAG
* **
92478373 AGACACCAAATCATCTTAGATTTGCTTCAACGTAAACGCGTGAAA
125 AGACGCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
* *
92478418 GCCAAATCTGCTATATCTTCGATCTGCT-CCTCATA-AACACA-AGGATGCCAAATC---ATCTT
1 GCCAAATC-GCTAT-TCTTCGATCTGCTCCCT-A-ACAATACAGA-GATGCCAAATCTGTTTCTT
* * * * *
92478477 CGATTTGTTCTCTAACAAAACAGAGATGCCAAATCTGTCATCTTTGATTTGCTCTCTGACAATAC
61 CGATCTGCTCTCTGACAATACAGAGATGCCAAATC--T-ATCTTTGATCTGCTCTCTGACAATAC
*
92478542 AGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
123 AGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
* **
92478589 GCTAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCCAAATCTGTTTCTTCG
1 GCCAAATC-GCTAT-TCTTCGATCTGCTCCCTAAC-AATACAGAGATGCCAAATCTGTTTCTTCG
* * *
92478654 ATTTGTTCTCTGACAATACAGAGATGCCAAATC-ATCTTGGATCTGCT
63 ATCTGCTCTCTGACAATACAGAGATGCCAAATCTATCTTTGATCTGCT
92478701 TCAGTGTAAA
Statistics
Matches: 372, Mismatches: 56, Indels: 51
0.78 0.12 0.11
Matches are distributed among these distances:
169 23 0.06
170 46 0.12
171 172 0.46
172 56 0.15
173 2 0.01
174 8 0.02
175 64 0.17
176 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (169 bp):
GCCAAATCGCTATTCTTCGATCTGCTCCCTAACAATACAGAGATGCCAAATCTGTTTCTTCGATC
TGCTCTCTGACAATACAGAGATGCCAAATCTATCTTTGATCTGCTCTCTGACAATACAGAGACGC
CAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
Found at i:92490139 original size:24 final size:23
Alignment explanation
Indices: 92490090--92490139 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
92490080 AAAAAAAACC
*
92490090 TTTTGAAATGAGATATTTTTTGT
1 TTTTGAAATGAGATATATTTTGT
*
92490113 TTTTGAAAATGATGATGTATTTT-T
1 TTTTG-AAATGA-GATATATTTTGT
92490137 TTT
1 TTT
92490140 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 10 0.43
25 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (23 bp):
TTTTGAAATGAGATATATTTTGT
Found at i:92490862 original size:17 final size:17
Alignment explanation
Indices: 92490827--92490879 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
92490817 GATAAAATGT
**
92490827 ATATAATATATAA-AAA
1 ATATAATATGGAATAAA
* *
92490843 ATATCATATGGAGTAAA
1 ATATAATATGGAATAAA
*
92490860 ATATAATATGTAATAAA
1 ATATAATATGGAATAAA
92490877 ATA
1 ATA
92490880 ATATGAAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (17 bp):
ATATAATATGGAATAAA
Found at i:92492572 original size:4 final size:4
Alignment explanation
Indices: 92492565--92492601 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
92492555 ATAAAGAAGT
92492565 AATA AATA AATA AATA AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
92492602 ATAATTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:92507023 original size:6 final size:6
Alignment explanation
Indices: 92507014--92507042 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
92507004 ATTTTATTCC
92507014 AAAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAAT
92507043 AGATAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:92517957 original size:14 final size:14
Alignment explanation
Indices: 92517938--92517965 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92517928 TCCTTTAAGT
92517938 TTGAAAAAAAATTA
1 TTGAAAAAAAATTA
92517952 TTGAAAAAAAATTA
1 TTGAAAAAAAATTA
92517966 ATATCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
TTGAAAAAAAATTA
Found at i:92518204 original size:62 final size:61
Alignment explanation
Indices: 92518044--92518262 Score: 320
Period size: 60 Copynumber: 3.6 Consensus size: 61
92518034 GAAGAATTTT
* *
92518044 TTTTTTTAAATTTCGAAT-AAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAAACAAAG
1 TTTTTATAAAGTTCGAATAAAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAAACAAAG
* * *
92518104 TTTTTA-AAAGTTCGAATAAAAAATTAATATCAAAATTTGAAAGTTAGAAGAAAAATAATG
1 TTTTTATAAAGTTCGAATAAAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAAACAAAG
* * *
92518164 TTTTTATAAAATTTGAATAAAAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAGACAAAG
1 TTTTTATAAAGTTCGAAT-AAAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAAACAAAG
*
92518226 TTTTT-TAAAGTTCGAATAAAAAA-TAATATTAAAATTT
1 TTTTTATAAAGTTCGAATAAAAAATTAATATCAAAATTT
92518263 ATAACAGAAA
Statistics
Matches: 142, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
59 23 0.16
60 56 0.39
61 19 0.13
62 44 0.31
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (61 bp):
TTTTTATAAAGTTCGAATAAAAAATTAATATCAAAATTTGTAAGTTAGAAGAAAAACAAAG
Found at i:92525480 original size:20 final size:20
Alignment explanation
Indices: 92525455--92525493 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
92525445 AATCAACATG
92525455 TTAGTATTCTCTTAGGCCAT
1 TTAGTATTCTCTTAGGCCAT
92525475 TTAGTATTCTCTTAGGCCA
1 TTAGTATTCTCTTAGGCCA
92525494 AGATTGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (20 bp):
TTAGTATTCTCTTAGGCCAT
Found at i:92531564 original size:33 final size:33
Alignment explanation
Indices: 92531522--92531587 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
92531512 AAACCCTCTG
92531522 GTTGTTGCATGTAAATATCCTCCTCAAGTTCTC
1 GTTGTTGCATGTAAATATCCTCCTCAAGTTCTC
92531555 GTTGTTGCATGTAAATATCCTCCTCAAGTTCTC
1 GTTGTTGCATGTAAATATCCTCCTCAAGTTCTC
92531588 CATGCAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (33 bp):
GTTGTTGCATGTAAATATCCTCCTCAAGTTCTC
Found at i:92538159 original size:17 final size:17
Alignment explanation
Indices: 92538100--92538159 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
92538090 TAATAAATTT
92538100 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
92538119 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
92538133 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
92538151 AAAATATAA
1 AAAATATAA
92538160 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Done.