Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014356.1 Kokia drynarioides strain JFW-HI SEQ_129393, 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: 151103
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:1129 original size:21 final size:22
Alignment explanation
Indices: 1091--1136 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1081 TAAAGTCCAC
1091 TAAACTTTTGTATAATTAAGCT
1 TAAACTTTTGTATAATTAAGCT
* *
1113 TAAAGTTTTGT-TAATTAAGTT
1 TAAACTTTTGTATAATTAAGCT
1134 TAA
1 TAA
1137 GTATAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TAAACTTTTGTATAATTAAGCT
Found at i:3123 original size:16 final size:16
Alignment explanation
Indices: 3099--3149 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
3089 AATTTTATCA
*
3099 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
**
3115 TTATAAATTATAAAAAG
1 TTATAAATT-TAAAATT
3132 TT-TAAA-TTAAAATT
1 TTATAAATTTAAAATT
3146 TTAT
1 TTAT
3150 CATTTTAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 12 0.43
17 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:14743 original size:23 final size:23
Alignment explanation
Indices: 14710--14777 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
14700 TTACTGTTCA
*
14710 GCACTGTGTGTGCTTACTATTTT
1 GCACTGCGTGTGCTTACTATTTT
* *
14733 GCATTGCGTGTGCCTACTGA-TTT
1 GCACTGCGTGTGCTTACT-ATTTT
*
14756 GCACTGTGTGTGCTTACTATTT
1 GCACTGCGTGTGCTTACTATTT
14778 CCCCAGTACT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (23 bp):
GCACTGCGTGTGCTTACTATTTT
Found at i:16709 original size:47 final size:45
Alignment explanation
Indices: 16633--16776 Score: 117
Period size: 53 Copynumber: 3.0 Consensus size: 45
16623 TCATGACACT
* ***
16633 ATATTGTGTAAGACCATAGTTGTATTATGGCATCATATGGAAAGACC
1 ATATTGTGTAAGACCATA-ATGGGCTATGGCATCATATGGAAA-ACC
*
16680 ATATTGTGTAAGACCATAACTGGGCTATGGCAATTGACATTTTATGGAAAACT
1 ATATTGTGTAAGACCATAA-TGGGCTATGGC-A-T--CA---TATGGAAAACC
* **
16733 ATATTGTGTAAAACCATAGATGGGCTATAACATCATATGGAAAA
1 ATATTGTGTAAGACCATA-ATGGGCTATGGCATCATATGGAAAA
16777 AAACTAAAGG
Statistics
Matches: 80, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
46 9 0.11
47 26 0.32
48 1 0.01
49 3 0.04
51 3 0.04
52 1 0.01
53 28 0.35
54 9 0.11
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (45 bp):
ATATTGTGTAAGACCATAATGGGCTATGGCATCATATGGAAAACC
Found at i:16957 original size:27 final size:27
Alignment explanation
Indices: 16889--16964 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
16879 GAAAATGTCA
* * *
16889 GAAATGAAAACCTTTTTGGTAATTTAT
1 GAAATGAAAGCCTTTATGGTGATTTAT
* *
16916 GAAATAAAAGTCTTTATGGTGATTTAT
1 GAAATGAAAGCCTTTATGGTGATTTAT
*
16943 GAAATGGAAGCCTTTATGGTGA
1 GAAATGAAAGCCTTTATGGTGA
16965 ATCTTGAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (27 bp):
GAAATGAAAGCCTTTATGGTGATTTAT
Found at i:22282 original size:4 final size:4
Alignment explanation
Indices: 22273--22306 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
22263 TCCTAGACAA
22273 AAAT AAAT AAAT AAAT AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22307 AATAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:25092 original size:22 final size:22
Alignment explanation
Indices: 25056--25116 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
25046 CGATCTAAGG
25056 AAAAATAAAAG-AAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
25077 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
25099 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
25117 GGAAGTCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:25107 original size:15 final size:16
Alignment explanation
Indices: 25082--25111 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25072 GAATTAAAAA
25082 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
25098 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
25112 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:25945 original size:19 final size:19
Alignment explanation
Indices: 25921--25963 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25911 AAACATAAAT
25921 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
25940 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
25959 TAAAT
1 TAAAT
25964 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:28793 original size:13 final size:13
Alignment explanation
Indices: 28777--28840 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
28767 TAAATCAAAA
28777 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
* *
28790 TTTTAAAAATTAC
1 TTTTCAAAAGTAC
28803 TTTTCCAAAA-TAC
1 TTTT-CAAAAGTAC
* * *
28816 TTTTTAAAAATAT
1 TTTTCAAAAGTAC
28829 TTTTCAAAAGTA
1 TTTTCAAAAGTA
28841 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.10
13 34 0.81
14 4 0.10
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:28806 original size:26 final size:26
Alignment explanation
Indices: 28777--28840 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
28767 TAAATCAAAA
28777 TTTTCAAAAGTAC-TTTTAAAAATTAC
1 TTTTCAAAAGTACTTTTTAAAAA-TAC
*
28803 TTTTCCAAAA-TACTTTTTAAAAATAT
1 TTTT-CAAAAGTACTTTTTAAAAATAC
28829 TTTTCAAAAGTA
1 TTTTCAAAAGTA
28841 ATGCTAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 5 0.15
26 15 0.44
27 14 0.41
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (26 bp):
TTTTCAAAAGTACTTTTTAAAAATAC
Found at i:37881 original size:9 final size:9
Alignment explanation
Indices: 37848--37881 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
37838 CTTGAAACCC
37848 AAGAAAA-A
1 AAGAAAAGA
*
37856 AAGAAAAAA
1 AAGAAAAGA
37865 AAGAAAAGA
1 AAGAAAAGA
37874 AAGAAAAG
1 AAGAAAAG
37882 TACTTATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:38468 original size:18 final size:18
Alignment explanation
Indices: 38447--38485 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
38437 AAAGTAAANA
38447 AAAAAAGAAAAAAAAAAG
1 AAAAAAGAAAAAAAAAAG
* *
38465 AAAAAAGAAACAAAAAGG
1 AAAAAAGAAAAAAAAAAG
38483 AAA
1 AAA
38486 GGTCGAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAAG
Found at i:38480 original size:12 final size:11
Alignment explanation
Indices: 38431--38480 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
38421 AGATACTCAC
38431 AAAAAAAAAGTA
1 AAAAAAAAAG-A
38443 AANAAAAAAAGA
1 AA-AAAAAAAGA
38455 AAAAAAAAAGA
1 AAAAAAAAAGA
* *
38466 AAAAAGAAACA
1 AAAAAAAAAGA
38477 AAAA
1 AAAA
38481 GGAAAGGTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
11 22 0.63
12 5 0.14
13 8 0.23
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:39398 original size:50 final size:49
Alignment explanation
Indices: 39323--39477 Score: 181
Period size: 50 Copynumber: 3.1 Consensus size: 49
39313 GACAGGAAGG
* *
39323 GTTGAGGTCGCAACGGCGAACTCGGTACCTCAGAAGATGTAATGGGAAAC
1 GTTGAGGCCGCAACGGCGAACTCGGTACCTCAGAAGATGTAAT-GGAAAA
* *
39373 GTTGAGGCCGTAACGGCGAACTCGGTA-C-CATGAAGAT-TAAATGGAAAG
1 GTTGAGGCCGCAACGGCGAACTCGGTACCTCA-GAAGATGT-AATGGAAAA
* * * *
39421 GTTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATGTGATGGAAAA
1 GTTGAGGCCGCAACGGCGAACTCGGTACCTCAGAAGATGTAATGGAAAA
39470 GATTGAGG
1 G-TTGAGG
39478 TCGTAAAGGC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
48 32 0.36
49 25 0.28
50 33 0.37
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (49 bp):
GTTGAGGCCGCAACGGCGAACTCGGTACCTCAGAAGATGTAATGGAAAA
Found at i:39439 original size:48 final size:48
Alignment explanation
Indices: 39317--39581 Score: 191
Period size: 48 Copynumber: 5.4 Consensus size: 48
39307 AGACGTGACA
*
39317 GGAAGGGTTGAGGTCGCAACGGCGAACTCGGTACC-TCAGAAGATGT-AAT
1 GGAAAGGTTGAGGTCGCAACGGCGAACTCGGTACCAT--GAAGAT-TAAAT
* * *
39366 GGGAAACGTTGAGGCCGTAACGGCGAACTCGGTACCATGAAGATTAAAT
1 -GGAAAGGTTGAGGTCGCAACGGCGAACTCGGTACCATGAAGATTAAAT
* * * * *
39415 GGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATGT-GAT
1 GGAAAGGTTGAGGTCGCAACGGCGAACTCGGTACCAT-GAAGAT-TAAAT
* * * * * * *
39464 GGAAAAGATTGAGGTCGTAAAGGC-AAATCCGATACCATG-ATA-TATGAT
1 GG-AAAGGTTGAGGTCGCAACGGCGAACT-CGGTACCATGAAGATTA-AAT
*** * *
39512 GGGAAAGGTTGAGGTCGCAACGATTAACCCGGTACCATGAAGATTTAAAG
1 -GGAAAGGTTGAGGTCGCAACGGCGAACTCGGTACCATGAAGA-TTAAAT
*
39562 GGGAAGGTTGAGGTCGCAAC
1 GGAAAGGTTGAGGTCGCAAC
39582 AGCAAAAACG
Statistics
Matches: 171, Mismatches: 31, Indels: 27
0.75 0.14 0.12
Matches are distributed among these distances:
46 1 0.01
48 63 0.37
49 47 0.27
50 57 0.33
51 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (48 bp):
GGAAAGGTTGAGGTCGCAACGGCGAACTCGGTACCATGAAGATTAAAT
Found at i:39500 original size:98 final size:98
Alignment explanation
Indices: 39317--39547 Score: 245
Period size: 98 Copynumber: 2.4 Consensus size: 98
39307 AGACGTGACA
* * * *
39317 GGAAGGGTTGAGGTCGCAACGGCGAACTCGGTACCTCAGAAGATGTAATGGGAAACGTTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTCAGAAGATGTAATGGGAAAAGTTGAGGCC
* * *
39382 GTAACGGCGAACTCGGTACCATGAAGATTAAAT
66 GTAAAGGCAAACTCGATACCATGAAGATTAAAT
* * * *
39415 GGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATGTGAT-GGAAAAGATTGAGGT
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTCAGAAGATGTAATGGGAAAAG-TTGAGGC
* *
39479 CGTAAAGGCAAA-TCCGATACCATG-ATA-TATGAT
65 CGTAAAGGCAAACT-CGATACCATGAAGATTA-AAT
* ***
39512 GGGAAAGGTTGAGGTCGCAACGATTAACCCGGTACC
1 -GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC
39548 ATGAAGATTT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
96 2 0.02
97 11 0.10
98 98 0.88
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.19
Consensus pattern (98 bp):
GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTCAGAAGATGTAATGGGAAAAGTTGAGGCC
GTAAAGGCAAACTCGATACCATGAAGATTAAAT
Found at i:39874 original size:41 final size:41
Alignment explanation
Indices: 39780--40285 Score: 527
Period size: 41 Copynumber: 12.4 Consensus size: 41
39770 AAACTACATC
* * *
39780 ATTCTAATCTTTTACCAC-TAATCAAG-AGGGCAGATTTAAT
1 ATTCCAATCTTTTACC-CTTAATCAAGAAGGGCAGATTGAAG
** * * * * * *
39820 ATTTTAGTCTTTTACCCCTAATCAAGAGGGGCGGATTTAAT
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* *
39861 ATTCCAATATTTTACCCTTAATCAAGAAGAGCAGATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* * * *
39902 ATCCCAGTCTCTTACCCTTAATCAAGAAGGGCAAATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
*
39943 ATCCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* * *
39984 ATTCCAATCTTTTACCCTTAGTTAAGAAGGGCATATT-AGAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGA-AG
* *
40025 ATTTCAATCTTTTACCCTTAATCAAGAAGGACAGATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* * ** * * *
40066 ATTTCAGTCCATTACCCTTAATCAAGAAGGACAGATTAAAT
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* * * * *
40107 ATTTCAATCTCTTACCCTTAATCAAGAAGGGCAAATTAAAT
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
** * *
40148 ATTCCAATCACTTGCCTTTAATCAAGAAGGGCAGATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* *
40189 ATTCTAATTTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* * * * * * *
40230 ATTTCAGTCTCTTACCTTTGATCAAGAA-GGCAAATTAAAG
1 ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
40270 ATTCCAATC-TTTACCC
1 ATTCCAATCTTTTACCC
40286 CGATCATGGG
Statistics
Matches: 394, Mismatches: 68, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
39 6 0.02
40 40 0.10
41 347 0.88
42 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (41 bp):
ATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
Found at i:40387 original size:78 final size:78
Alignment explanation
Indices: 40305--40674 Score: 413
Period size: 78 Copynumber: 4.7 Consensus size: 78
40295 GACAGATTAT
* *
40305 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
1 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCTCTTACCCCGCGAC
* *
40370 AGAGGCAAATTAC
66 AGAGGCAGATTGC
** ** * **
40383 AACCA-TCTGATCACTTACCCCGATCATGGGGCAGATCACC-TCCGTCTAATCTCTTACATCGCG
1 AACCATTC-GATCTTTTACCCCGATCATGGGGCAGATCACCGT-CAACCAATCTCTTACCCCGCG
*
40446 ACA-AGGGTAGATTGC
64 ACAGA-GGCAGATTGC
* * * * * *
40461 AACCATCCGATCTTTTACCCTGATAATAGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
1 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCTCTTACCCCGCGAC
* * *
40526 AAAGGCATATTGT
66 AGAGGCAGATTGC
* * * *
40539 AACCATCCGATCTTTTACCCCGATCATGGGGTAGATCATCGTCAACCAATCTCTTACACCGCGAC
1 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCTCTTACCCCGCGAC
*
40604 AGGGGCAGATTGC
66 AGAGGCAGATTGC
* * ** *
40617 AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACTATCAGCCAATCTCTTACC
1 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCTCTTACC
40675 TCGATCATGG
Statistics
Matches: 237, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
77 4 0.02
78 230 0.97
79 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (78 bp):
AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCTCTTACCCCGCGAC
AGAGGCAGATTGC
Found at i:40524 original size:156 final size:156
Alignment explanation
Indices: 40305--40674 Score: 508
Period size: 156 Copynumber: 2.4 Consensus size: 156
40295 GACAGATTAT
* *
40305 AACCATTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
1 AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
* * ** *
40370 AGAGGCAAATTACAACCATCTGATCACTTACCCCGATCATGGGGCAGATCA-CCTCCGTCTAATC
66 AAAGGCAAATTACAACCATCCGATCACTTACCCCGATCATGGGGCAGATCATCCT-CAACCAATC
* *
40434 TCTTACATCGCGACAAGGGTAGATTGC
130 TCTTACACCGCGACAAGGGCAGATTGC
* * *
40461 AACCATCCGATCTTTTACCCTGATAATAGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
1 AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
* ** ** * *
40526 AAAGGCATATTGTAACCATCCGATCTTTTACCCCGATCATGGGGTAGATCATCGTCAACCAATCT
66 AAAGGCAAATTACAACCATCCGATCACTTACCCCGATCATGGGGCAGATCATCCTCAACCAATCT
*
40591 CTTACACCGCGACAGGGGCAGATTGC
131 CTTACACCGCGACAAGGGCAGATTGC
** * *
40617 AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACTATCAGCCAATCTCTTACC
1 AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACCGTTAACCAATCTCTTACC
40675 TCGATCATGG
Statistics
Matches: 187, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
156 185 0.99
157 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (156 bp):
AACCATTCGATCTTTTACCCAGATAATGGGGCAGATCACCGTTAACCAATCTCTTACCCCGTGAC
AAAGGCAAATTACAACCATCCGATCACTTACCCCGATCATGGGGCAGATCATCCTCAACCAATCT
CTTACACCGCGACAAGGGCAGATTGC
Found at i:40687 original size:78 final size:77
Alignment explanation
Indices: 40273--40699 Score: 382
Period size: 78 Copynumber: 5.5 Consensus size: 77
40263 ATTAAAGATT
* **
40273 CCAATCT-TTACCCCGATCATGGGACAGATTATAACCATTCGATCTTTTACCCCGATCATGGGGC
1 CCAATCTCTTACCCCGATCA-GGGGCAGATTGCAACCATTCGATCTTTTACCCCGATCATGGGGC
*
40337 AGATCACCGTTAA
65 AGATCACCGTCAA
* * * **
40350 CCAATCTCTTACCCCG-TGACAGAGGCAAATTACAACCA-TCTGATCACTTACCCCGATCATGGG
1 CCAATCTCTTACCCCGAT--CAGGGGCAGATTGCAACCATTC-GATCTTTTACCCCGATCATGGG
**
40413 GCAGATCACC-TCCGT
63 GCAGATCACCGT-CAA
* * * * * * * *
40428 CTAATCTCTTACATCGCGA-CAAGGGTAGATTGCAACCATCCGATCTTTTACCCTGATAATAGGG
1 CCAATCTCTTAC--CCCGATCAGGGGCAGATTGCAACCATTCGATCTTTTACCCCGATCATGGGG
*
40492 CAGATCACCGTTAA
64 CAGATCACCGTCAA
** * * *
40506 CCAATCTCTTACCCCG-TGACAAAGGCATATTGTAACCATCCGATCTTTTACCCCGATCATGGGG
1 CCAATCTCTTACCCCGAT--CAGGGGCAGATTGCAACCATTCGATCTTTTACCCCGATCATGGGG
* *
40570 TAGATCATCGTCAA
64 CAGATCACCGTCAA
* *
40584 CCAATCTCTTACACCGCGA-CAGGGGCAGATTGCAACCATTCGATCTTTTACCCAGATAATGGGG
1 CCAATCTCTTAC-CC-CGATCAGGGGCAGATTGCAACCATTCGATCTTTTACCCCGATCATGGGG
** *
40648 CAGATCACTATCAG
64 CAGATCACCGTCAA
* * *
40662 CCAATCTCTTACCTCGATCATGGGGCAAATTGAAACCA
1 CCAATCTCTTACCCCGATCA-GGGGCAGATTGCAACCA
40700 CAAATCTCAT
Statistics
Matches: 280, Mismatches: 52, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
76 6 0.02
77 14 0.05
78 249 0.89
79 6 0.02
80 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (77 bp):
CCAATCTCTTACCCCGATCAGGGGCAGATTGCAACCATTCGATCTTTTACCCCGATCATGGGGCA
GATCACCGTCAA
Found at i:43135 original size:24 final size:25
Alignment explanation
Indices: 43082--43135 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
43072 CACGTGGCTT
*
43082 TCCTTTTTATTTTACATATTTTAAA
1 TCCTTTTTAATTTACATATTTTAAA
* * *
43107 T-CTTTTTAATTT-CTTTTTTTATA
1 TCCTTTTTAATTTACATATTTTAAA
43130 TCCTTT
1 TCCTTT
43136 AATATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.38
24 14 0.58
25 1 0.04
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (25 bp):
TCCTTTTTAATTTACATATTTTAAA
Found at i:54449 original size:23 final size:22
Alignment explanation
Indices: 54422--54474 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
54412 TAACATTGTA
*
54422 TATATTTTAGAAGATTTTAACA-T
1 TATATTTT-GAA-ATTATAACAGT
*
54445 TATATATTTGAAATTATAAGAGT
1 TATAT-TTTGAAATTATAACAGT
54468 TATATTT
1 TATATTT
54475 GTATGTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TATATTTTGAAATTATAACAGT
Found at i:54512 original size:20 final size:21
Alignment explanation
Indices: 54489--54541 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
54479 GTAATTCTAA
*
54489 TATTTAAAATATAA-TTTATT
1 TATTTAAAATAAAATTTTATT
* *
54509 TATTCAAATTAAAATTTTATT
1 TATTTAAAATAAAATTTTATT
* *
54530 AATTTATAATAA
1 TATTTAAAATAA
54542 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTAAAATAAAATTTTATT
Found at i:57124 original size:22 final size:21
Alignment explanation
Indices: 57099--57161 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
57089 GAAAATAATC
*
57099 TATTTAATTTAGAATCAGATTT
1 TATTTAATTTA-AATCAGAATT
* * *
57121 TA-TTACTATTAAATAATAATT
1 TATTTAAT-TTAAATCAGAATT
57142 TATTTAATTTAAAATCAGAA
1 TATTTAATTT-AAATCAGAA
57162 AATTGAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
TATTTAATTTAAATCAGAATT
Found at i:57153 original size:21 final size:21
Alignment explanation
Indices: 57092--57154 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
57082 TTATACCGAA
*
57092 AATAATCTATTTAATTTAGAAT
1 AATAATTTATTTAATTTA-AAT
* * * *
57114 CAGATTTTA-TTACTATTAAAT
1 AATAATTTATTTAAT-TTAAAT
57135 AATAATTTATTTAATTTAAA
1 AATAATTTATTTAATTTAAA
57155 ATCAGAAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 5
0.68 0.20 0.11
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (21 bp):
AATAATTTATTTAATTTAAAT
Found at i:58310 original size:26 final size:26
Alignment explanation
Indices: 58252--58310 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
58242 CTCAAGCTTT
*
58252 TCAAAAGTATTTTTCAAAATCACTTA
1 TCAAAAGTATTTTTCAAAAGCACTTA
* *
58278 TCCAAAGTACTTTTT-AAAAGCACTTC
1 TCAAAAGTA-TTTTTCAAAAGCACTTA
58304 TCAAAAG
1 TCAAAAG
58311 CAATACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (26 bp):
TCAAAAGTATTTTTCAAAAGCACTTA
Found at i:61268 original size:19 final size:17
Alignment explanation
Indices: 61246--61286 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
61236 TTTAGCCATG
61246 TTTTATTTTAATTTTAAT
1 TTTTATTTTAA-TTTAAT
*
61264 ATTTTTTTTTAATTTAAT
1 -TTTTATTTTAATTTAAT
61282 TTTTA
1 TTTTA
61287 CAATCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTTAATTTAAT
Found at i:63413 original size:2 final size:2
Alignment explanation
Indices: 63408--63432 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63398 TATCATTGTC
63408 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 A
63433 GGTTAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74138 original size:19 final size:16
Alignment explanation
Indices: 74105--74141 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
74095 ACTATATTTT
74105 TTATTTGATTTAAAAA
1 TTATTTGATTTAAAAA
74121 TTATTATGACTTTAAAAA
1 TTATT-TGA-TTTAAAAA
74139 TTA
1 TTA
74142 AAGTATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 11 0.58
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (16 bp):
TTATTTGATTTAAAAA
Found at i:74655 original size:18 final size:18
Alignment explanation
Indices: 74623--74674 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
74613 TTGGGATGAG
74623 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
74639 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
*
74657 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
74675 CAATTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.28
17 5 0.16
18 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:75405 original size:31 final size:29
Alignment explanation
Indices: 75367--75447 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 29
75357 AGCGAGGAAA
* *
75367 AAATTTTAGAGGTTGAAATTAATATTTTTAT
1 AAATTTTAAAGATT-AAATTAA-ATTTTTAT
75398 AAATTTTAAAAAGATTAAATTAAATTTTTAT
1 AAATTTT--AAAGATTAAATTAAATTTTTAT
*
75429 AATTTTTAAGAGTATTAAA
1 AAATTTTAA-AG-ATTAAA
75448 GTGTACTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 2 0.05
30 2 0.05
31 27 0.63
32 7 0.16
33 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (29 bp):
AAATTTTAAAGATTAAATTAAATTTTTAT
Found at i:75489 original size:17 final size:17
Alignment explanation
Indices: 75467--75500 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
75457 TATTTTTATT
75467 AATTTAAATATTTAAAA
1 AATTTAAATATTTAAAA
75484 AATTTAAATATTTAAAA
1 AATTTAAATATTTAAAA
75501 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAAATATTTAAAA
Found at i:75505 original size:7 final size:7
Alignment explanation
Indices: 75467--75510 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
75457 TATTTTTATT
75467 AATTTAA
1 AATTTAA
75474 ATATTTAAAA
1 A-ATTT--AA
75484 AATTTAA
1 AATTTAA
75491 ATATTTAA
1 A-ATTTAA
75499 AATTTAA
1 AATTTAA
75506 AATTT
1 AATTT
75511 TCATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 15 0.45
8 11 0.33
9 4 0.12
10 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATTTAA
Found at i:87925 original size:94 final size:94
Alignment explanation
Indices: 87821--87998 Score: 245
Period size: 94 Copynumber: 1.9 Consensus size: 94
87811 AAAATTTTAA
* * * *
87821 GGGTCAAAATATGA-TTTTGGAAAAGTTTAGGGGTCAAAA-TGTGATTTTGGAAAAGTTTGGGGT
1 GGGTCAAAATATAATTTTTGG-AAAGTTT-GGGGGCAAAATTGTAATTTTGGAAAAGTTTGAGGT
*
87884 TAAAATGTAA-TTTTTGGAAAAAAAAAATTAG
64 CAAAATGTAACTTTTT-GAAAAAAAAAATTAG
* *
87915 GGGTCAAAATATAATTTTTGGAAAGTTTGGGGGCAAAATTGTAATTTTTGAAATGTTTGAGGTCA
1 GGGTCAAAATATAATTTTTGGAAAGTTTGGGGGCAAAATTGTAATTTTGGAAAAGTTTGAGGTCA
87980 AAATGTAACTTTTTGAAAA
66 AAATGTAACTTTTTGAAAA
87999 GTTTGAGAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 9 0.12
94 54 0.73
95 11 0.15
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (94 bp):
GGGTCAAAATATAATTTTTGGAAAGTTTGGGGGCAAAATTGTAATTTTGGAAAAGTTTGAGGTCA
AAATGTAACTTTTTGAAAAAAAAAATTAG
Found at i:88023 original size:30 final size:30
Alignment explanation
Indices: 87766--88024 Score: 195
Period size: 30 Copynumber: 8.5 Consensus size: 30
87756 ACTCGAGATG
* * * * *
87766 AAAATGAAATTTTAGAGAAGTTCGAGGGTT
1 AAAATGTAATTTTTGAAAAGTTTGAGGGTC
* ** * *
87796 AAAATGTGATTTTAAAAAATTTTAAGGGTC
1 AAAATGTAATTTTTGAAAAGTTTGAGGGTC
* * *
87826 AAAATATGATTTTGGAAAAGTTT-AGGGGTC
1 AAAATGTAATTTTTGAAAAGTTTGA-GGGTC
* * *
87856 AAAATGTGATTTTGGAAAAGTTTG-GGGTT
1 AAAATGTAATTTTTGAAAAGTTTGAGGGTC
**
87885 AAAATGTAATTTTTGGAAAAAAAAAATT-AGGGGTC
1 AAAATGTAATTTTT-G----AAAAGTTTGA-GGGTC
* * *
87920 AAAATATAATTTTTGGAAAGTTTG-GGGGC
1 AAAATGTAATTTTTGAAAAGTTTGAGGGTC
*
87949 AAAATTGTAATTTTTGAAATGTTTGA-GGTC
1 AAAA-TGTAATTTTTGAAAAGTTTGAGGGTC
*
87979 AAAATGTAACTTTTTGAAAAGTTTGAGAGTC
1 AAAATGTAA-TTTTTGAAAAGTTTGAGGGTC
88010 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
88025 GATAGTTAAA
Statistics
Matches: 185, Mismatches: 30, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
29 30 0.16
30 119 0.64
31 12 0.06
34 7 0.04
35 17 0.09
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTGAGGGTC
Found at i:90334 original size:75 final size:77
Alignment explanation
Indices: 90203--90419 Score: 253
Period size: 75 Copynumber: 2.8 Consensus size: 77
90193 TTGTAATTTG
* *
90203 CCTCAAACTCGAGGTAAGAGATTGGTTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAA
1 CCTCAAGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGCC-CAGGCTCGGGGTAAAAGATCGAA
*
90268 CGGTTGCAATCTA
65 CGGCTGCAATCTA
*
90281 CCTCAAGCTCGAGGTAA-A-A-TGGTTGATGGTGATCTGCTCCAGGTTCGGGGTAAAAGATCGAA
1 CCTCAAGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGC-CCAGGCTCGGGGTAAAAGATCGAA
* * *
90343 TGGCTGTAATCTG
65 CGGCTGCAATCTA
* * * ** *
90356 CCCCAGGCTCAAGGTAAGAGATTGGCTT-ATAATGATCTGCCCCAGGCTCGGGGTAAGAGATCGA
1 CCTCAAGCTCGAGGTAAGAGATTGG-TTGATGGTGATCTG-CCCAGGCTCGGGGTAAAAGATCGA
90420 GGTTTTTAAT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
75 62 0.52
76 3 0.03
77 2 0.02
78 49 0.41
79 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (77 bp):
CCTCAAGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGCCCAGGCTCGGGGTAAAAGATCGAAC
GGCTGCAATCTA
Found at i:90967 original size:98 final size:98
Alignment explanation
Indices: 90642--91187 Score: 758
Period size: 98 Copynumber: 5.6 Consensus size: 98
90632 TCAATCAGCA
* * * * *
90642 TGGTACTAAATTCGCCATT-ATGGCTTAAATTTTTCCTTTCATGCTTCGGAGGTATAAGGTTCGC
1 TGGTACTAGATTCGCCGTTGA-GGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGC
* *
90706 CATTGCGACTTAAACCTTTCCCTTTGTGTATTTG
65 CATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
* * * *
90740 TGGTATTGGATTCGTCG-TAACGGCTTAAATCTTTCCCTTTCATGCTTCTGAGGTATAAGGTTCG
1 TGGTACTAGATTCGCCGTTGA-GGCTTAAATCTTTCCC-TTCATGCTTCTGAGGTATAAGGTTCG
* *
90804 CCATTGCTACTTAAACCTTTCTCTTTTGTGTCTTCG
64 CCATTGCGACTTAAACCTTTC-CCTTTGTGTCTTCG
* * *
90840 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCTTTCATG-TCTCTGAGGTATAAGGTTCGC
1 TGGTACTAGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCATGCT-TCTGAGGTATAAGGTTCGC
* *
90904 CATTGCGACTTGAA-CTATTCCCTTTATGTCTTCG
65 CATTGCGACTTAAACCT-TTCCCTTTGTGTCTTCG
* * * *
90938 TGGTACTAAATTCGTCGTTGAGGCTTAAATATTTCCCTTCATGCTTTTGAGGTATAAGGTTCGCC
1 TGGTACTAGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGCC
*
91003 ATTACGACTTAAACCTTTCCCTTTGTGTCTTCG
66 ATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
* * *
91036 TGGTACTAGATTCGTCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGCC
1 TGGTACTAGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGCC
91101 ATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
66 ATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
* *
91134 TGGTACTAGATTCGCCGTTGCGGGTTAAATCTTTCCCTTCATGCTTCTGAGGTA
1 TGGTACTAGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTA
91188 CAAGTCTTCC
Statistics
Matches: 399, Mismatches: 41, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
97 1 0.00
98 268 0.67
99 88 0.22
100 41 0.10
101 1 0.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (98 bp):
TGGTACTAGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGCC
ATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
Found at i:91188 original size:49 final size:49
Alignment explanation
Indices: 90643--91188 Score: 369
Period size: 49 Copynumber: 11.1 Consensus size: 49
90633 CAATCAGCAT
* ** * * *
90643 GGTACTAAATTCGCCATTATGGCTTAAATTTTTCCTTTCATGCTTCGGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
* * * ** * *
90692 GGTA-TAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTGTG-TATTTGT
1 GGTACT-AGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TCTGA
* * * * **
90741 GGTATTGGATTCGTCGTAACGGCTTAAATCTTTCCCTTTCATGCTTCTGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCC-TTCATGCTTCTGA
* ** * * ** *
90791 GGTA-TAAGGTTCGCCATTGCTACTTAAACCTTTCTCTTTTGTGTCTTC-GT
1 GGTACT-AGATTCGCCATTGCGGCTTAAATCTTTC-CCTTCATG-CTTCTGA
* * *
90841 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCTTTCATG-TCTCTGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TCTGA
* * * * *
90890 GGTA-TAAGGTTCGCCATTGCGACTTGAA-CTATTCCCTTTATGTCTTC-GT
1 GGTACT-AGATTCGCCATTGCGGCTTAAATCT-TTCCCTTCATG-CTTCTGA
* * * * * *
90939 GGTACTAAATTCGTCGTTGAGGCTTAAATATTTCCCTTCATGCTTTTGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
* * * * ** *
90988 GGTA-TAAGGTTCGCCATTACGACTTAAACCTTTCCCTTTGTGTCTTC-GT
1 GGTACT-AGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCTGA
*
91037 GGTACTAGATTCGTCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
* * * ** *
91086 GGTA-TAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTGTGTCTTC-GT
1 GGTACT-AGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCTGA
* *
91135 GGTACTAGATTCGCCGTTGCGGGTTAAATCTTTCCCTTCATGCTTCTGA
1 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
91184 GGTAC
1 GGTAC
91189 AAGTCTTCCC
Statistics
Matches: 369, Mismatches: 102, Indels: 52
0.71 0.20 0.10
Matches are distributed among these distances:
47 1 0.00
48 20 0.05
49 265 0.72
50 75 0.20
51 8 0.02
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.40
Consensus pattern (49 bp):
GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
Found at i:92988 original size:15 final size:15
Alignment explanation
Indices: 92968--93008 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
92958 TTCATCTTGA
*
92968 CTTTCTTTTTTTTCT
1 CTTTCTTTTTATTCT
92983 CTTTC-TTTTATTCT
1 CTTTCTTTTTATTCT
92997 CTTT-TTTTTATT
1 CTTTCTTTTTATT
93009 ATTTTTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (15 bp):
CTTTCTTTTTATTCT
Found at i:98803 original size:57 final size:58
Alignment explanation
Indices: 98738--98856 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 58
98728 ACCCATCAAA
*
98738 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTAAA-AACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
*
98795 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
98853 AAAC
1 AAAC
98857 AACTCATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 46 0.78
58 13 0.22
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:104744 original size:23 final size:23
Alignment explanation
Indices: 104713--104756 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
104703 TTATAATAAG
* *
104713 AACAGATACGATAAGAACTTAAA
1 AACAGATACAATAAAAACTTAAA
*
104736 AACATATACAATAAAAACTTA
1 AACAGATACAATAAAAACTTA
104757 TAATGAGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (23 bp):
AACAGATACAATAAAAACTTAAA
Found at i:114595 original size:2 final size:2
Alignment explanation
Indices: 114590--114615 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114580 ACAAATCTGC
114590 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
114616 TATTTAATCA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115001 original size:19 final size:20
Alignment explanation
Indices: 114977--115018 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
114967 AGATACTTAA
114977 AAAC-AATACTTTACTTTAT
1 AAACAAATACTTTACTTTAT
* *
114996 AAACAAATATTTTACTTTTT
1 AAACAAATACTTTACTTTAT
115016 AAA
1 AAA
115019 AATGTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (20 bp):
AAACAAATACTTTACTTTAT
Found at i:116259 original size:60 final size:59
Alignment explanation
Indices: 116114--116592 Score: 461
Period size: 59 Copynumber: 8.0 Consensus size: 59
116104 GATAAAAACA
* * * * *
116114 CAATTTTTTTGTGTTAGCCATACAATGGCCGACACCCCTATTTATCCGATAAAAAAATT
1 CAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAATT
* * * * * *
116173 AAATTTTTGGGTGTGGGTCATACAATGGCCGACACCCTTTTTTTTATCAGAT-AAAAAATT
1 CAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCC--CTTTTTATCAGATAAAAAAATT
** * *
116233 CAATTTTTTGGTGTTGATCATGCAATGGCCGACACCCCTATTTATCTGATAAAAAAA-T
1 CAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAATT
* * *
116291 CAAATTTTTTTGTGTTGGCCATGCAATGGCCGCCACCCCTTTTT-TCAAATAAAAAAATT
1 C-AATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAATT
* * *
116350 GC-ATTTTTTGGATATTGGCCATGCAATGGCCGACACCTC-TTTT-TCAAATAAAAAAATTT
1 -CAATTTTTTGG-TGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAA-TT
** * * * *
116409 CAAAAAATTTTGGTATTGGCCATGCCATGGCCGACACCCCATTTTCTCAGATAAAAAAATTT
1 C--AATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAA-TT
* * *
116471 CAAAATTTTTTTGTGTT-GCTATGCAATGACCGACA-CCCTCTTTTATCAGATAAAAAAATT
1 C--AATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTTTATCAGATAAAAAAATT
* * * *
116531 TAATTTTTTTTTGGTGTTGGCCATGCAATAGTCGACACCCCTTTTTTTCAGATAAAAAAATT
1 CAA---TTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAATT
116593 GCATTTGGGT
Statistics
Matches: 352, Mismatches: 49, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
58 51 0.14
59 101 0.29
60 71 0.20
61 64 0.18
62 61 0.17
63 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (59 bp):
CAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTATCAGATAAAAAAATT
Found at i:116318 original size:119 final size:117
Alignment explanation
Indices: 116114--116592 Score: 486
Period size: 119 Copynumber: 4.0 Consensus size: 117
116104 GATAAAAACA
* * *
116114 CAATTTTTTTGTGTT-AGCCATACAATGGCCGACACCCCTATTTATCCGATAAAAAAATT-AAAT
1 CAATTTTTTGGTGTTGA-CCATGCAATGGCCGACACCCCT-TTTATCAGATAAAAAAATTCAAAT
* * * * *
116177 TTTTGGGTGTGGGTCATACAATGGCCGACACCCTTTTTTTTATCAGAT-AAAAAATT
64 TTTTTGGTGTTGGCCATGCAATGGCCGACACCC--CTTTTT-TCAGATAAAAAAATT
* *
116233 CAATTTTTTGGTGTTGATCATGCAATGGCCGACACCCCTATTTATCTGATAAAAAAA-TCAAATT
1 CAATTTTTTGGTGTTGACCATGCAATGGCCGACACCCCT-TTTATCAGATAAAAAAATTCAAATT
* * *
116297 TTTTTGTGTTGGCCATGCAATGGCCGCCACCCCTTTTTTCAAATAAAAAAATT
65 TTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATT
* * * *
116350 GC-ATTTTTTGGATATTGGCCATGCAATGGCCGACACCTCTTTT-TCAAATAAAAAAATTTCAAA
1 -CAATTTTTTGG-TGTTGACCATGCAATGGCCGACACCCCTTTTATCAGATAAAAAAA-TTC-AA
** * * *
116413 AAATTTTGGTATTGGCCATGCCATGGCCGACACCCCATTTTCTCAGATAAAAAAATTT
62 ATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC-TTTTTTCAGATAAAAAAA-TT
* * * *
116471 CAAAATTTTTTTGTGTTG-CTATGCAATGACCGACACCCTCTTTTATCAGATAAAAAAATTTAAT
1 C--AATTTTTTGGTGTTGACCATGCAATGGCCGACACCC-CTTTTATCAGATAAAAAAATTCAA-
* * *
116535 TTTTTTTTGGTGTTGGCCATGCAATAGTCGACACCCCTTTTTTTCAGATAAAAAAATT
62 -ATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCC-TTTTTTCAGATAAAAAAATT
116593 GCATTTGGGT
Statistics
Matches: 301, Mismatches: 42, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
116 16 0.05
117 25 0.08
118 28 0.09
119 114 0.38
120 18 0.06
121 21 0.07
122 13 0.04
123 66 0.22
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (117 bp):
CAATTTTTTGGTGTTGACCATGCAATGGCCGACACCCCTTTTATCAGATAAAAAAATTCAAATTT
TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATT
Found at i:116689 original size:62 final size:63
Alignment explanation
Indices: 116614--116759 Score: 206
Period size: 64 Copynumber: 2.3 Consensus size: 63
116604 TTGGCCATTG
* *
116614 CTTTTTCAGATAAAAAAATTTTAAAA-TTTTTTGGTGTTAGCCATGCCATGGCCGACAC-CCT
1 CTTTTTCAGATAAAAAAATTTCAAAATTTTTTTGGTGTTAGCCATGCAATGGCCGACACTCCT
* * *
116675 CTTTTCTCAGATAAAAAAATTTCAAAATTTTTTTTTGTGTTGGCCATGCAATGGTCGACACTCCT
1 CTTTT-TCAGATAAAAAAATTTCAAAA-TTTTTTTGGTGTTAGCCATGCAATGGCCGACACTCCT
*
116740 TTTTTTCAGATAAAAAAATT
1 CTTTTTCAGATAAAAAAATT
116760 ACATTTTTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
61 5 0.07
62 20 0.27
64 43 0.57
65 7 0.09
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (63 bp):
CTTTTTCAGATAAAAAAATTTCAAAATTTTTTTGGTGTTAGCCATGCAATGGCCGACACTCCT
Found at i:116768 original size:62 final size:62
Alignment explanation
Indices: 116615--116992 Score: 222
Period size: 62 Copynumber: 6.3 Consensus size: 62
116605 TGGCCATTGC
*
116615 TTTTTCAGATAAAAAAATTTTAAAA--TTTTTTGGTGTTAGCCATGCCATGGCCGACACCCTCT
1 TTTTTCAGATAAAAAAA--TTAAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACACCCTCT
* * * *
116677 TTTCTCAGATAAAAAAATTTCAAAATTTTTTTTTGTGTTGGCCATGCAATGGTCGACACTCCT-T
1 TTTTTCAGATAAAAAAA-TT-AAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACAC-CCTCT
* * *
116741 TTTTTCAGATAAAAAAATT-ACA-TTTTTTGGGTGTTGGCCAT----T----G---CCCT-T
1 TTTTTCAGATAAAAAAATTAAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACACCCTCT
*** * * ** * * * *
116789 TTTCAGATAGAAAAATTTTAAAATT--TTTTGGTGTTGGTCATGCCATAGCCGACATCCC-CT
1 TTTTTCAGATAAAAAAATTAAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACA-CCCTCT
* * * * * * **
116849 TTTCTCAGATAAAAAAATTTCAAATTTTTTTTTTTGTGTTGGCTATGCAATAGCTAACACTCC-C
1 TTTTTCAGATAAAAAAA-TT-AAA-ATTTTTTTTGGTGTTAGCCATGCAATGGCCGACAC-CCTC
116913 T
62 T
* ** * * *
116914 TTTCTCAGATAAAAAAATTTCAATTTTTTTTGGTGTTGGCCATGCAATGGTCGACACCCACT
1 TTTTTCAGATAAAAAAATTAAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACACCCTCT
116976 TTTTTCAGATAAAAAAA
1 TTTTTCAGATAAAAAAA
116993 ATTCATGGCC
Statistics
Matches: 248, Mismatches: 42, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
48 30 0.12
49 3 0.01
50 1 0.00
52 2 0.01
56 2 0.01
60 32 0.13
61 9 0.04
62 69 0.28
63 5 0.02
64 48 0.19
65 47 0.19
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (62 bp):
TTTTTCAGATAAAAAAATTAAAATTTTTTTTGGTGTTAGCCATGCAATGGCCGACACCCTCT
Found at i:116853 original size:172 final size:169
Alignment explanation
Indices: 116450--116956 Score: 681
Period size: 172 Copynumber: 3.0 Consensus size: 169
116440 CGACACCCCA
* * * *
116450 TTTTCTCAGATAAAAAAATTTCAAAATTTTTTTGTGTTGCT-ATGCAATGACCGACACCCTCTTT
1 TTTT-TCAGATAAAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCCATG-CCGACACCCTCTTT
* *
116514 TATCAGATAAAAAAATTT---AATTTTTTTTTGGTGTTGGCCATGCAATAGTCGACACCCCTTTT
64 TCTCAGATAAAAAAATTTCAAAATTTTTTTTT-GTGTTGGCCATGCAATAGTCGACACTCCTTTT
*
116576 TTTCAGATAAAAAAATTGCA---TTTGGGTGTTGGCCATTGC
128 TTTCAGATAAAAAAATTACATTTTTTGGGTGTTGGCCATTGC
* *
116615 TTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGTTAGCCATGCCATGGCCGACACCCTCTTTT
1 TTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCCAT-GCCGACACCCTCTTTT
*
116680 CTCAGATAAAAAAATTTCAAAATTTTTTTTTGTGTTGGCCATGCAATGGTCGACACTCCTTTTTT
65 CTCAGATAAAAAAATTTCAAAATTTTTTTTTGTGTTGGCCATGCAATAGTCGACACTCCTTTTTT
116745 TCAGATAAAAAAATTACATTTTTTGGGTGTTGGCCATTGCCC
130 TCAGATAAAAAAATTACATTTTTTGGGTGTTGGCCATTG--C
*
116787 TTTTTCAGATAGAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCCATAGCCGACATCCC-CTTT
1 TTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCCAT-GCCGACA-CCCTCTTT
* * * *
116851 TCTCAGATAAAAAAATTTCAAATTTTTTTTTTTGTGTTGGCTATGCAATAG-CTAACACTCCCTT
64 TCTCAGATAAAAAAATTTCAAA-ATTTTTTTTTGTGTTGGCCATGCAATAGTC-GACACTCCTTT
* * *
116915 TTCTCAGATAAAAAAATTTCAATTTTTTTTGGTGTTGGCCAT
127 TTTTCAGATAAAAAAATTAC-A-TTTTTTGGGTGTTGGCCAT
116957 GCAATGGTCG
Statistics
Matches: 305, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
164 31 0.10
165 41 0.13
166 1 0.00
167 49 0.16
168 11 0.04
170 18 0.06
172 80 0.26
173 55 0.18
174 1 0.00
175 18 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (169 bp):
TTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCCATGCCGACACCCTCTTTTC
TCAGATAAAAAAATTTCAAAATTTTTTTTTGTGTTGGCCATGCAATAGTCGACACTCCTTTTTTT
CAGATAAAAAAATTACATTTTTTGGGTGTTGGCCATTGC
Found at i:117942 original size:30 final size:30
Alignment explanation
Indices: 117882--117971 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
117872 TAATAATTAG
117882 AATATACAAGAAATTAGGAAA--AAA-TTAA
1 AATATACAAGAAATTA-GAAATTAAATTTAA
*
117910 AATATACAGGAAATTAGAAATTAAATTTAA
1 AATATACAAGAAATTAGAAATTAAATTTAA
* *
117940 AATA-AAAATGAAATTACAAATTAAATTTAA
1 AATATACAA-GAAATTAGAAATTAAATTTAA
117970 AA
1 AA
117972 AGTAAACGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
27 4 0.07
28 15 0.28
29 5 0.09
30 30 0.56
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (30 bp):
AATATACAAGAAATTAGAAATTAAATTTAA
Found at i:119196 original size:20 final size:20
Alignment explanation
Indices: 119153--119196 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
119143 TAAAAATTCG
* * *
119153 AAAATATAAAAAACATTTTG
1 AAAATAGAAAAAACATTATA
*
119173 AAAATAGAAAAAATATTATA
1 AAAATAGAAAAAACATTATA
119193 AAAA
1 AAAA
119197 ATTCGAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATAGAAAAAACATTATA
Found at i:120263 original size:22 final size:22
Alignment explanation
Indices: 120234--120289 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
120224 TTGAGGTGTT
* * *
120234 GGTGAGCTGGAATTTCGGTTTT
1 GGTGAGCTGGAATATCGATTTA
*
120256 GTTGAGCTGGAATATCGATTTA
1 GGTGAGCTGGAATATCGATTTA
120278 GGTGAGCTGGAA
1 GGTGAGCTGGAA
120290 ATTGGGTGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.09, G:0.36, T:0.34
Consensus pattern (22 bp):
GGTGAGCTGGAATATCGATTTA
Found at i:120403 original size:16 final size:17
Alignment explanation
Indices: 120384--120416 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
120374 ATAAATTTAA
*
120384 AATATGATAA-AATTGT
1 AATATAATAATAATTGT
120400 AATATAATAATAATTGT
1 AATATAATAATAATTGT
120417 TGATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AATATAATAATAATTGT
Found at i:120625 original size:84 final size:84
Alignment explanation
Indices: 120388--121008 Score: 811
Period size: 84 Copynumber: 7.3 Consensus size: 84
120378 ATTTAAAATA
*
120388 TGAT-AAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
120452 GTCAAATCAACACATTATT
66 GTCAAATCAACACATTATT
* * *
120471 TGATAAAAATTGTAATATAATAATAATAATATTTTTTATTTAAATATTTAAATTTAGTAAATAAT
1 TGATAAAAATTGTAATATAATAATAAT--TA---TTGATTTAAATATTTAAAATTAATAAATAAT
* *
120536 GTATTATCAAATCAACACATTATT
61 ATATTGTCAAATCAACACATTATT
* *
120560 TAATAAAAATTGTACTATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
* *
120625 ATCAAATCAACATATTATT
66 GTCAAATCAACACATTATT
* * * * * *
120644 TGATAAAAGTTATAATATAATAATAATATTTTTATTTAAATATTTAAATTTAATAAATAATGTAT
1 TGATAAAAATTGTAATATAATAATAAT-TATTGATTTAAATATTTAAAATTAATAAATAATATAT
120709 TGTCAAATCAACACATTATT
65 TGTCAAATCAACACATTATT
* *
120729 TGATAATAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
120794 GTCAAATCAACACATTATT
66 GTCAAATCAACACATTATT
* * * * *
120813 TGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTT-AATTTAGTAAATAATGTA
1 TGATAAAAATTGTAATATAATAATAA--TTATTGATTTAAATATTTAAAATTAATAAATAATATA
*
120877 TTGTCAAATCAACCCATTATT
64 TTGTCAAATCAACACATTATT
* * *
120898 TGATAAAAATTGTAATGTAATAATAA-T-TTGTACTTTAAATA-TGAAAATTTGATAAATAATAT
1 TGATAAAAATTGTAATATAATAATAATTATTG-A-TTTAAATATTTAAAA-TTAATAAATAATAT
* * * *
120960 ATTGCCAAATGAACAAAATATT
63 ATTGTCAAATCAACACATTATT
* *
120982 TAATATAAATTGTAATATAATAATAAT
1 TGATAAAAATTGTAATATAATAATAAT
121009 CTTTTTTATT
Statistics
Matches: 472, Mismatches: 52, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
81 2 0.00
82 3 0.01
83 14 0.03
84 224 0.47
85 135 0.29
86 17 0.04
87 2 0.00
89 75 0.16
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (84 bp):
TGATAAAAATTGTAATATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
GTCAAATCAACACATTATT
Found at i:120764 original size:169 final size:170
Alignment explanation
Indices: 120388--121034 Score: 973
Period size: 169 Copynumber: 3.8 Consensus size: 170
120378 ATTTAAAATA
120388 TGAT-AAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
*
120452 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATAATATTTTTTATTTAAATA
66 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAAT--CA-TTTTTATTTAAATA
*
120517 TTTAAATTTAGTAAATAATGTATTATCAAATCAACACATTATT
128 TTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* * *
120560 TAATAAAAATTGTACTATAATAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
* * * *
120625 ATCAAATCAACATATTATTTGATAAAAGTTATAATATAATAATAAT-ATTTTTATTTAAATATTT
66 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCATTTTTATTTAAATATTT
*
120689 AAATTTAATAAATAATGTATTGTCAAATCAACACATTATT
131 AAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
*
120729 TGATAATAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
*
120794 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTT
66 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCATTTTTATTTAAATATTT
*
120859 -AATTTAGTAAATAATGTATTGTCAAATCAACCCATTATT
131 AAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
* * *
120898 TGATAAAAATTGTAATGTAATAATAA-T-TTGTACTTTAAATA-TGAAAATTTGATAAATAATAT
1 TGATAAAAATTGTAATATAATAATAATTGTTG-A-TTTAAATATTTAAAA-TTAATAAATAATAT
* * * * * * *
120960 ATTGCCAAATGAACAAAATATTTAATATAAATTGTAATATAATAATAATCTTTTTTATTTAAATA
63 ATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCATTTTTATTTAAAT-
121025 ATGTTAAATT
127 AT-TTAAATT
121035 AATTTTAAAT
Statistics
Matches: 437, Mismatches: 30, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
167 3 0.01
168 7 0.02
169 298 0.68
170 20 0.05
171 2 0.00
172 7 0.02
173 100 0.23
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (170 bp):
TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATATATT
GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCATTTTTATTTAAATATTT
AAATTTAGTAAATAATGTATTGTCAAATCAACACATTATT
Found at i:120955 original size:253 final size:251
Alignment explanation
Indices: 120388--121008 Score: 811
Period size: 253 Copynumber: 2.4 Consensus size: 251
120378 ATTTAAAATA
120388 TGAT-AAAATTGTAATATAATAATAA-TTGTTGATTTAAATATTTAAAA-TTAATAAATAATATA
1 TGATAAAAATTGTAATATAATAATAATTTG-T-ATTTAAATA-TTAAAATTTAATAAATAATATA
* * *
120450 TTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATAATATTTTTTATTTAAA
63 TTGTCAAATCAACACATTATTTGATAATAATTGT-A-AT-ATAATAAT-A-ATTGTTGATTTAAA
* * * *
120515 TATTTAAATTTAGTAAATAATGTATTATCAAATCAACACATTATTTAATAAAAATTGTACTATAA
123 TATTTAAAATTAATAAATAATATATTATCAAATCAACACATTATTTAATAAAAATTGTAATATAA
*
120580 TAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATTATCAAATCAACATATTATT
188 TAATAATTATTGATTTAAATATTTAAAATTAATAAATAATATATTATCAAATCAACACATTATT
* * * * *
120644 TGATAAAAGTTATAATATAATAATAATATTTTTATTTAAATATTTAAATTTAATAAATAATGTAT
1 TGATAAAAATTGTAATATAATAAT-A-ATTTGTATTTAAATATTAAAATTTAATAAATAATATAT
120709 TGTCAAATCAACACATTATTTGATAATAATTGTAATATAATAATAATTGTTGATTTAAATATTTA
64 TGTCAAATCAACACATTATTTGATAATAATTGTAATATAATAATAATTGTTGATTTAAATATTTA
* *
120774 AAATTAATAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAA
129 AAATTAATAAATAATATATTATCAAATCAACACATTATTTAATAAAAATTGTAATATAATAATAA
* * * * * * *
120839 TCTTTTTTATTTAAATATTT-AATTTAGTAAATAATGTATTGTCAAATCAACCCATTATT
194 --TTATTGATTTAAATATTTAAAATTAATAAATAATATATTATCAAATCAACACATTATT
* * *
120898 TGATAAAAATTGTAATGTAATAATAATTTGTACTTTAAATATGAAAATTTGATAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTTGTA-TTTAAATATTAAAATTTAATAAATAATATATT
* * * * *
120963 GCCAAATGAACAAAATATTTAAT-ATAAATTGTAATATAATAATAAT
65 GTCAAATCAACACATTATTTGATAAT-AATTGTAATATAATAATAAT
121009 CTTTTTTATT
Statistics
Matches: 321, Mismatches: 35, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
252 8 0.02
253 144 0.45
254 55 0.17
255 24 0.07
256 6 0.02
257 23 0.07
258 57 0.18
259 2 0.01
260 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (251 bp):
TGATAAAAATTGTAATATAATAATAATTTGTATTTAAATATTAAAATTTAATAAATAATATATTG
TCAAATCAACACATTATTTGATAATAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAA
ATTAATAAATAATATATTATCAAATCAACACATTATTTAATAAAAATTGTAATATAATAATAATT
ATTGATTTAAATATTTAAAATTAATAAATAATATATTATCAAATCAACACATTATT
Found at i:121070 original size:7 final size:6
Alignment explanation
Indices: 121028--121073 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
121018 TTAAATAATG
* *
121028 TTAAA- TTAATT TTAAAT GT-AAT TTAAAT TTAAAT TTCAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
121074 GTAGAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
5 8 0.24
6 20 0.59
7 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:121070 original size:13 final size:12
Alignment explanation
Indices: 121028--121073 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
121018 TTAAATAATG
*
121028 TTAAA-TTAATT
1 TTAAATTTAAAT
*
121039 TTAAATGT-AAT
1 TTAAATTTAAAT
121050 TTAAATTTAAAT
1 TTAAATTTAAAT
121062 TTCAAATTTAAA
1 TT-AAATTTAAA
121074 GTAGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.48
12 6 0.21
13 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:121160 original size:11 final size:12
Alignment explanation
Indices: 121138--121186 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
121128 AAACATGTTC
121138 ATTAATTTTCAA
1 ATTAATTTTCAA
*
121150 ATTAATTTCAACTTAA
1 ATTAATTT----TCAA
121166 ATTAATTTTCAA
1 ATTAATTTTCAA
121178 ATTAATTTT
1 ATTAATTTT
121187 TACACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 20 0.65
16 11 0.35
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAATTTTCAA
Found at i:121184 original size:16 final size:16
Alignment explanation
Indices: 121148--121182 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
121138 ATTAATTTTC
*
121148 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
121164 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
121181 AA
1 AA
121183 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:121195 original size:28 final size:28
Alignment explanation
Indices: 121138--121195 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
121128 AAACATGTTC
**
121138 ATTAATTTTCAAATTAATTTCAACTTAA
1 ATTAATTTTCAAATTAATTTCAACACAA
**
121166 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTTCAAATTAATTTCAACACAA
121194 AT
1 AT
121196 ATTCTTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAATTTTCAAATTAATTTCAACACAA
Found at i:125047 original size:62 final size:60
Alignment explanation
Indices: 124934--125637 Score: 534
Period size: 61 Copynumber: 11.4 Consensus size: 60
124924 TCGGTTGTTA
* **
124934 CATGGCCAACACCAAAAAATTT--AA-TTTTTTACCAAATAAAAAGGGGGTGTCGACCATTG
1 CATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGA-AAAAA-GGGGTGTCGACCATTG
* *
124993 CATGACCAACACCAAAAAATTTTGAAATTTTTTTATCTGAGAAAAAGGGGTGTCG-GC----
1 CATGGCCAACACCAAAAAA-TTTGAAATTTTTTTATCTGA-AAAAAGGGGTGTCGACCATTG
* *
125050 CATGGCCCACACCAAAAAATTTTGAAA-TTTTTTATCTGAAAAAGGGGGTGTC-AGCCATTG
1 CATGGCCAACACCAAAAAA-TTTGAAATTTTTTTATCTGAAAAAAGGGGTGTCGA-CCATTG
* * *
125110 CATGGTCAACACCCAAAAAATGT-AATTTTTTTTATCTGAAAAAAGGGGGTGTCGACCATTG
1 CATGGCCAACA-CCAAAAAATTTGAAATTTTTTTATCTGAAAAAA-GGGGTGTCGACCATTG
*
125171 CATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGAGAAAAAGGGGTGTCGACCATGG
1 CATGGCCAACACC-AAAAAATTTGAAATTTTTTTATCTGA-AAAAAGGGGTGTCGACCATTG
* * * *
125233 CATGGCCAACACCAAAAAATTTCGAAATTTTTTTTTTTGAAAAAAGAGGTGTCGGCCATTG
1 CATGGCCAACACCAAAAAATTT-GAAATTTTTTTATCTGAAAAAAGGGGTGTCGACCATTG
**
125294 CATGGCCAACACTGGCCGACACCCAAAAAATGCAAA--TTTTTATCTGAAAAAAGAGGTGATGTC
1 CATGGCCAACA----CC-A-A---AAAATTTG-AAATTTTTTTATCTGAAAAAAG-GG-G-TGTC
*
125357 GGCCATTG
53 GACCATTG
* **
125365 CATGACCAACACTGGCCGACACCCAAAAAATGCAAA--TTTTTATCTGAAAAAAGGGGTGTC-AG
1 CATGGCCAACA----CC-A-A---AAAATTTG-AAATTTTTTTATCTGAAAAAAGGGGTGTCGA-
125427 CCATTG
55 CCATTG
* * * *
125433 CATGGCCAACACCAAAAAAAATTGAAATTTTTTTATTTGAGAACAGGGGGTGTCGACCATTG
1 CATGGCCAACACC-AAAAAATTTGAAATTTTTTTATCTGA-AAAAAGGGGTGTCGACCATTG
* * * * **
125495 CATGACCAACACCCAAAAATTTG--ATTTTTTTATCAGATAAATAGGGGTGTCGGTCATTG
1 CATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGA-AAAAAGGGGTGTCGACCATTG
* * * * *
125554 CATGACCAACA-CAAAAAAATT-AAA-TTTTTTATTTGATAAAAAAGAGAGTGTCGGCCATTG
1 CATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTG--AAAAAAG-GGGTGTCGACCATTG
* *
125614 CATGACCTACACTC-AAAAATTTGA
1 CATGGCCAACAC-CAAAAAATTTGA
125638 TTTTTTATCA
Statistics
Matches: 544, Mismatches: 57, Indels: 85
0.79 0.08 0.12
Matches are distributed among these distances:
55 12 0.02
56 13 0.02
57 25 0.05
58 17 0.03
59 68 0.12
60 63 0.12
61 104 0.19
62 101 0.19
63 21 0.04
64 3 0.01
65 2 0.00
66 1 0.00
67 1 0.00
68 35 0.06
69 3 0.01
70 11 0.02
71 64 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (60 bp):
CATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAAAAAAGGGGTGTCGACCATTG
Found at i:125347 original size:68 final size:68
Alignment explanation
Indices: 125270--125444 Score: 296
Period size: 71 Copynumber: 2.5 Consensus size: 68
125260 TTTTTTTTTT
125270 TGAAAAAAGAGGTGTCGGCCATTGCATGGCCAACACTGGCCGACACCCAAAAAATGCAAATTTTT
1 TGAAAAAAGAGGTGTCGGCCATTGCATGGCCAACACTGGCCGACACCCAAAAAATGCAAATTTTT
125335 ATC
66 ATC
*
125338 TGAAAAAAGAGGTGATGTCGGCCATTGCATGACCAACACTGGCCGACACCCAAAAAATGCAAATT
1 TGAAAAAAGA-G-G-TGTCGGCCATTGCATGGCCAACACTGGCCGACACCCAAAAAATGCAAATT
125403 TTTATC
63 TTTATC
* *
125409 TGAAAAAAGGGGTGTCAGCCATTGCATGGCCAACAC
1 TGAAAAAAGAGGTGTCGGCCATTGCATGGCCAACAC
125445 CAAAAAAAAT
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
68 32 0.32
69 2 0.02
70 2 0.02
71 64 0.64
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (68 bp):
TGAAAAAAGAGGTGTCGGCCATTGCATGGCCAACACTGGCCGACACCCAAAAAATGCAAATTTTT
ATC
Found at i:125513 original size:60 final size:58
Alignment explanation
Indices: 125383--125646 Score: 216
Period size: 60 Copynumber: 4.4 Consensus size: 58
125373 ACACTGGCCG
* *
125383 ACACCCAAAAAATGCAAA-TTTTTATCTGAAAAAAGGGGTGTC-AGCCATTGCATGGCCA
1 ACACCCAAAAATTG-AAATTTTTTATCTGAAAAAAGGGGTGTCGA-CCATTGCATGACCA
* * * *
125441 ACACCAAAAAAAATTGAAATTTTTTTATTTGAGAACAGGGGGTGTCGACCATTGCATGACCA
1 ACACC--CAAAAATTGAAA-TTTTTTATCTGA-AAAAAGGGGTGTCGACCATTGCATGACCA
* * * **
125503 ACACCCAAAAATTTG-ATTTTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCA
1 ACACCCAAAAA-TTGAAATTTTTTATCTGA-AAAAAGGGGTGTCGACCATTGCATGACCA
** * * * *
125562 ACACAAAAAAATT-AAATTTTTTATTTGATAAAAAAGAGAGTGTCGGCCATTGCATGACCT
1 ACACCCAAAAATTGAAATTTTTTATCTG--AAAAAAG-GGGTGTCGACCATTGCATGACCA
*
125622 ACACTCAAAAATTTG--ATTTTTTATC
1 ACACCCAAAAA-TTGAAATTTTTTATC
125647 AGACAATGGC
Statistics
Matches: 165, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
58 17 0.10
59 51 0.31
60 52 0.32
61 15 0.09
62 29 0.18
63 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (58 bp):
ACACCCAAAAATTGAAATTTTTTATCTGAAAAAAGGGGTGTCGACCATTGCATGACCA
Found at i:125522 original size:59 final size:58
Alignment explanation
Indices: 125401--125643 Score: 206
Period size: 59 Copynumber: 4.1 Consensus size: 58
125391 AAAATGCAAA
* * *
125401 TTTTTATCTGAAAAAAGGGGTGTC-AGCCATTGCATGGCCAACACCAAAAAAAATTGAAATT
1 TTTTTATTTGAAAAAGGGGGTGTCGA-CCATTGCATGACCAACACC-AAAAAAATTG--ATT
* * *
125462 TTTTTATTTGAGAACAGGGGGTGTCGACCATTGCATGACCAACACCCAAAAATTTGATT
1 TTTTTATTTGA-AAAAGGGGGTGTCGACCATTGCATGACCAACACCAAAAAAATTGATT
** ** * *
125521 TTTTTATCAGATAAATA-GGGGTGTCGGTCATTGCATGACCAACA-CAAAAAAATTAAAT
1 TTTTTATTTGA-AAA-AGGGGGTGTCGACCATTGCATGACCAACACCAAAAAAATTGATT
* * * * *
125579 TTTTTATTTGATAAAAAAGAGAGTGTCGGCCATTGCATGACCTACACTC-AAAAATTTGATT
1 TTTTTATTTG---AAAAAGGGGGTGTCGACCATTGCATGACCAACAC-CAAAAAAATTGATT
125640 TTTT
1 TTTT
125644 ATCAGACAAT
Statistics
Matches: 148, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
58 18 0.12
59 40 0.27
60 27 0.18
61 32 0.22
62 30 0.20
63 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (58 bp):
TTTTTATTTGAAAAAGGGGGTGTCGACCATTGCATGACCAACACCAAAAAAATTGATT
Found at i:125605 original size:119 final size:119
Alignment explanation
Indices: 125401--125649 Score: 326
Period size: 119 Copynumber: 2.1 Consensus size: 119
125391 AAAATGCAAA
* *
125401 TTTTTATCTGAAAAAAGGGGTGTCAGCCATTGCATGGCCAACACCAAAAAAAATTGAAATTTTTT
1 TTTTTATCAGAAAAAAGGGGTGTCAGCCATTGCATGACCAACACCAAAAAAAATTGAAATTTTTT
* * * *
125466 TATTTGAGAACAGGGGGTGTCGACCATTGCATGACCAACACCCAAAAATTTGATT
66 TATTTGAAAAAAGAGAGTGTCGACCATTGCATGACCAACACCCAAAAATTTGA-T
* * *
125521 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACA-C-AAAAAAATT-AAA-TTTT
1 TTTTTATCAGA-AAAAAGGGGTGTCAGCCATTGCATGACCAACACCAAAAAAAATTGAAATTTTT
* * *
125582 TTATTTGATAAAAAAGAGAGTGTCGGCCATTGCATGACCTACACTCAAAAATTTGAT
65 TTATTTG--AAAAAAGAGAGTGTCGACCATTGCATGACCAACACCCAAAAATTTGAT
125639 TTTTTATCAGA
1 TTTTTATCAGA
125650 CAATGGCCGA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
117 11 0.10
118 15 0.13
119 49 0.43
120 11 0.10
121 28 0.25
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (119 bp):
TTTTTATCAGAAAAAAGGGGTGTCAGCCATTGCATGACCAACACCAAAAAAAATTGAAATTTTTT
TATTTGAAAAAAGAGAGTGTCGACCATTGCATGACCAACACCCAAAAATTTGAT
Found at i:131148 original size:2 final size:2
Alignment explanation
Indices: 131143--131170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131133 AATCCCCCCT
131143 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
131171 CCTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:136543 original size:3 final size:3
Alignment explanation
Indices: 136535--136565 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
136525 CTCTTATTCC
*
136535 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
136566 TTATTATCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:145805 original size:3 final size:3
Alignment explanation
Indices: 145797--145825 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
145787 AATTTGTACT
145797 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
145826 TAAAACCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:150350 original size:4 final size:4
Alignment explanation
Indices: 150339--150377 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
150329 AAAACGGAAG
*
150339 GAAA -AAA GAAA GAAA AAATA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAA
150378 GAAGGAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 25 0.81
5 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:151098 original size:16 final size:16
Alignment explanation
Indices: 151053--151102 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
151043 TAAACCTAAC
151053 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
*
151069 T-A-TAA-TATAAAAAA
1 TAATTAATTAT-CAAAA
151083 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
151099 TAAT
1 TAAT
151103 A
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 2 0.07
16 12 0.43
17 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Done.