Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 190 of 322
Found at i:62379382 original size:25 final size:24
Alignment explanation
Indices: 62379319--62379390 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
62379309 AGTAATCCCT
*
62379319 AAACTCCCCGTTTCATTTAATCCCTA
1 AAACTCCCCGTTTCATTTAA--ACTA
62379345 AAACTCCCCGTTTCATTTAAACTA
1 AAACTCCCCGTTTCATTTAAACTA
*
62379369 GAAAC-CCCCTGTTTTATTTAAA
1 -AAACTCCCC-GTTTCATTTAAA
62379391 AAAGTTGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.17
25 15 0.36
26 20 0.48
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (24 bp):
AAACTCCCCGTTTCATTTAAACTA
Found at i:62383573 original size:9 final size:10
Alignment explanation
Indices: 62383545--62383572 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62383535 TTTATTTCAA
62383545 AAAAAAAAAG
1 AAAAAAAAAG
62383555 AAAAAAAAAG
1 AAAAAAAAAG
62383565 AAAAAAAA
1 AAAAAAAA
62383573 GGTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:62389857 original size:21 final size:22
Alignment explanation
Indices: 62389818--62389859 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
62389808 TTTTGAGTAG
* *
62389818 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
62389840 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
62389860 GAGAGATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:62389991 original size:24 final size:25
Alignment explanation
Indices: 62389964--62390015 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
62389954 GCTATAAGAA
62389964 AAACGCACCG-TTTAAGTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
* * **
62389988 AAACTCCCCGTTTTATTTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
62390013 AAA
1 AAA
62390016 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.31
Consensus pattern (25 bp):
AAACGCACCGTTTTAAGTAATCCCT
Found at i:62390024 original size:26 final size:26
Alignment explanation
Indices: 62389980--62390057 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
62389970 ACCGTTTAAG
62389980 TAATCCCT-AAACTCCCCGTTTTATT
1 TAATCCCTAAAACTCCCCGTTTTATT
*
62390005 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTTATT
* *
62390031 TAA--ACTAGAAC-CCCCTGTTTTATT
1 TAATCCCTAAAACTCCCC-GTTTTATT
62390055 TAA
1 TAA
62390058 AAGAGTTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.09
24 16 0.34
25 8 0.17
26 19 0.40
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.37
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTTATT
Found at i:62390539 original size:14 final size:14
Alignment explanation
Indices: 62390520--62390561 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
62390510 AGATTTTTAT
62390520 TTAATATTAATATA
1 TTAATATTAATATA
62390534 TTAATATTAA-ATGA
1 TTAATATTAATAT-A
*
62390548 TAAATATTAATATA
1 TTAATATTAATATA
62390562 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TTAATATTAATATA
Found at i:62391334 original size:18 final size:18
Alignment explanation
Indices: 62391301--62391348 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
62391291 AAAGTAAATG
* *
62391301 TATTTTTAAATATTTTT-
1 TATTTTTTAATTTTTTTC
*
62391318 AATTTTTTAATTTTTTTC
1 TATTTTTTAATTTTTTTC
*
62391336 TATTTTTGAATTT
1 TATTTTTTAATTT
62391349 AAATTTAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTTTTAATTTTTTTC
Found at i:62402697 original size:6 final size:6
Alignment explanation
Indices: 62402686--62402746 Score: 68
Period size: 6 Copynumber: 9.5 Consensus size: 6
62402676 CCTCTTTATG
*
62402686 TTTTTC TTTTTC TTTTTC TTTTTC TTTTCC TTTCCCTTC TCTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT---TTC T-TTTTC TTTTTC
*
62402738 TTTTCC TTT
1 TTTTTC TTT
62402747 CGCTTTTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 39 0.81
7 4 0.08
9 3 0.06
10 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:62402758 original size:28 final size:28
Alignment explanation
Indices: 62402695--62402747 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
62402685 GTTTTTCTTT
62402695 TTCT-TTTTCTTTTTCTTTTCCTTTCCC
1 TTCTCTTTTCTTTTTCTTTTCCTTTCCC
62402722 TTCTCTTTTCTTTTTCTTTTCCTTTC
1 TTCTCTTTTCTTTTTCTTTTCCTTTC
62402748 GCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (28 bp):
TTCTCTTTTCTTTTTCTTTTCCTTTCCC
Found at i:62404970 original size:27 final size:27
Alignment explanation
Indices: 62404940--62405010 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
62404930 GTTTATAAAG
62404940 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
62404967 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
* *
62404994 TTATTTTGT-TTTATTTT
1 TTAGTTTGTAATTATTTT
62405011 ATTTTGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 7 0.17
27 35 0.83
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (27 bp):
TTAGTTTGTAATTATTTTTATATAACT
Found at i:62409294 original size:103 final size:104
Alignment explanation
Indices: 62409050--62409315 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
62409040 GTTGTACATA
** *
62409050 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
62409115 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
62409154 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
62409219 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
62409257 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
62409316 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:62416786 original size:103 final size:104
Alignment explanation
Indices: 62416542--62416807 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
62416532 GTTGTACATA
** *
62416542 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
62416607 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
62416646 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
62416710 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
62416749 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
62416808 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:62418799 original size:21 final size:21
Alignment explanation
Indices: 62418775--62418817 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
62418765 ACAAGAACCA
62418775 AATTTAA-TGTTAAGTGTGAAC
1 AATTTAATTGTT-AGTGTGAAC
62418796 AATTTAATTGTTAGTGTGAAC
1 AATTTAATTGTTAGTGTGAAC
62418817 A
1 A
62418818 TATCTAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
AATTTAATTGTTAGTGTGAAC
Found at i:62421348 original size:32 final size:32
Alignment explanation
Indices: 62421307--62421367 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
62421297 TTCCAATGGC
*
62421307 AAGATTACAATAACCATTTACATGCCAACATT
1 AAGATTACAACAACCATTTACATGCCAACATT
*
62421339 AAGATTACAACAATCATTTACATGCCAAC
1 AAGATTACAACAACCATTTACATGCCAAC
62421368 GTTGGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (32 bp):
AAGATTACAACAACCATTTACATGCCAACATT
Found at i:62428377 original size:48 final size:47
Alignment explanation
Indices: 62428322--62428546 Score: 209
Period size: 48 Copynumber: 4.7 Consensus size: 47
62428312 AGGGTGAATT
* * *
62428322 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-TCGAG
* * * * * *
62428370 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGTTCTCATCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-TCGAG
** * * *
62428418 ATCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTTTATTAC-ATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATT-CGA-G
* * * * * *
62428466 ACCAATGCCACGTTCCAAACACGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-TCGAG
*
62428514 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
62428547 AGTGTACATA
Statistics
Matches: 140, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
47 2 0.01
48 137 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATTCGAG
Found at i:62448050 original size:328 final size:329
Alignment explanation
Indices: 62447404--62448059 Score: 1224
Period size: 328 Copynumber: 2.0 Consensus size: 329
62447394 AACGGCATTA
* *
62447404 GTATTGAAGCCCCGTGCAGGGAGATATTCAAGTCGTAATGGGCAAAGGTCAGTGTAGTCGACCCC
1 GTATTGAAGCCCCGTGCAGGGAGATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
* *
62447469 TGCAACATGGGCGACTTTGACTAATAAACTGTACTAATTGGCCTGACCAAAAATTCTAGAAAAAA
66 TGCAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAA
* *
62447534 ATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTTTCGAGTTACGA
131 ATACATAGATAGGCACATGAGTCTAGTTTCTGAGAAAAATTACGAAACTGATTTTCGAGTTACGA
62447599 AACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTT
196 AACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTT
62447664 ATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCAGTTTCGGGTTCGGGGTGT
261 ATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCAGTTTCGGGTTCGGGGTGT
62447729 TACT
326 TACT
* *
62447733 GTATTGAAGCCCCTTGCAGGGAGATATCCAAGTTGTAATGGGAAAAGG-CAGTGTAGTCGACCCC
1 GTATTGAAGCCCCGTGCAGGGAGATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
*
62447797 TGCAACTTGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAA
66 TGCAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAA
62447862 ATACATAGATAGGCACATGAGTCTAGTTTCTGAGAAAAATTACGAAACTGATTTTCGAGTTACGA
131 ATACATAGATAGGCACATGAGTCTAGTTTCTGAGAAAAATTACGAAACTGATTTTCGAGTTACGA
62447927 AACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTT
196 AACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTT
62447992 ATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCAGTTTCGGGTTCGGGGTGT
261 ATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCAGTTTCGGGTTCGGGGTGT
62448057 TAC
326 TAC
62448060 ATTTGATTGG
Statistics
Matches: 318, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
328 274 0.86
329 44 0.14
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (329 bp):
GTATTGAAGCCCCGTGCAGGGAGATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
TGCAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAA
ATACATAGATAGGCACATGAGTCTAGTTTCTGAGAAAAATTACGAAACTGATTTTCGAGTTACGA
AACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTT
ATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCAGTTTCGGGTTCGGGGTGT
TACT
Found at i:62454022 original size:27 final size:27
Alignment explanation
Indices: 62453991--62454387 Score: 260
Period size: 27 Copynumber: 14.6 Consensus size: 27
62453981 TAAATTGTAC
62453991 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62454018 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62454044 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62454072 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62454100 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62454127 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
62454154 AGCACTGAGTGTGCG----GACTCAATAT
1 AGCACTAAGTGTGCGATTTGACT--ATGT
**
62454179 A-CA-TTCGTGAAT-C-ATTATGGACACTATGT
1 AGCACTAAGTG--TGCGATT-T-G--ACTATGT
* *
62454208 GTGCGAC-ACTATTG-GCGATTTGACTATGT
1 -AGC-ACTA--AGTGTGCGATTTGACTATGT
* * ** *
62454237 TGCAGTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62454263 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62454291 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62454319 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62454346 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62454373 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62454388 GACTCAATAT
Statistics
Matches: 294, Mismatches: 48, Indels: 56
0.74 0.12 0.14
Matches are distributed among these distances:
23 7 0.02
24 3 0.01
25 6 0.02
26 3 0.01
27 201 0.68
28 50 0.17
29 11 0.04
31 5 0.02
32 3 0.01
33 3 0.01
34 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62454378 original size:82 final size:81
Alignment explanation
Indices: 62453991--62454387 Score: 251
Period size: 82 Copynumber: 4.9 Consensus size: 81
62453981 TAAATTGTAC
* * *
62453991 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGT
* * *
62454055 GTGCGAATTGACCATGC
65 GTGCGATTTGACTATGT
* * * *
62454072 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGT
* * *
62454137 GTGCGAGTTGATTATAT
65 GTGCGATTTGACTATGT
* * ** * *
62454154 AGCACTGAGTGTGCG----GACTCAATATA-CA-TTCGTGAAT-C-ATTATGGACACTATGTGTG
1 AGCACTAAGTGTGCGATTTGACT--ATGTAGCACTAAGTG--TGCGA--ATTG--ACTATGT-AG
* *
62454211 CGAC--ACTATTGGCGATTTGACTATGT
57 C-ACTAAGT-GT-GCGATTTGACTATGT
* * ** * * **
62454237 TGCAGTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTA-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGT
62454301 GTGCGAGTTTGACTATGT
65 GTGCGA-TTTGACTATGT
* * * * * *
62454319 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTG
62454384 TGCG
66 TGCG
62454388 GACTCAATAT
Statistics
Matches: 237, Mismatches: 52, Indels: 53
0.69 0.15 0.15
Matches are distributed among these distances:
77 9 0.04
78 3 0.01
79 7 0.03
81 28 0.12
82 137 0.58
83 35 0.15
84 1 0.00
85 6 0.03
86 3 0.01
87 8 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTG
TGCGATTTGACTATGT
Found at i:62454382 original size:219 final size:219
Alignment explanation
Indices: 62454003--62454420 Score: 827
Period size: 219 Copynumber: 1.9 Consensus size: 219
62453993 CACTAAGTGT
62454003 GCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACC
1 GCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACC
62454068 ATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACT
66 ATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACT
62454133 AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATG
131 AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATG
62454198 GACACTATGTGTGCGACACTATTG
196 GACACTATGTGTGCGACACTATTG
*
62454222 GCGATTTGACTATGTTGCAGTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACC
1 GCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACC
62454287 ATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACT
66 ATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACT
62454352 AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATG
131 AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATG
62454417 GACA
196 GACA
62454421 AATATACTTG
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
219 198 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (219 bp):
GCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACC
ATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACT
AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATG
GACACTATGTGTGCGACACTATTG
Found at i:62454948 original size:150 final size:150
Alignment explanation
Indices: 62454677--62454976 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
62454667 TGATGGATGG
62454677 TAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAG
1 TAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAG
62454742 GTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCGTCATCGAAGTCATCACACCGGATAGCAA
66 GTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCGTCATCGAAGTCATCACACCGGATAGCAA
*
62454807 GTTTTGGTACTTTCTTCTTA
131 GTTTTGGTACTTTCTCCTTA
62454827 TAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAG
1 TAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAG
62454892 GTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCGTCATCGAAGTCATCACACCGGATAGCAA
66 GTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCGTCATCGAAGTCATCACACCGGATAGCAA
62454957 GTTTTGGTACTTTCTCCTTA
131 GTTTTGGTACTTTCTCCTTA
62454977 GTTGGCTTAG
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (150 bp):
TAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAG
GTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCGTCATCGAAGTCATCACACCGGATAGCAA
GTTTTGGTACTTTCTCCTTA
Found at i:62461632 original size:66 final size:66
Alignment explanation
Indices: 62461555--62461687 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
62461545 CATGCCATAC
*
62461555 TTCAATATATACATTTTCAAAAGGTACCAAAATATAATTCGATAGTGTAGTGATGATCTTTGACA
1 TTCAATATATACATTTTCAAAAGGTACCAAAATATAATTCGATAGTGTAGTGATGATCCTTGACA
62461620 A
66 A
* *
62461621 TTCAATATATACATTTTCAAAAGGTATCAAAATATAGTTCGATAGTGTAGTGATGATCCTTGACA
1 TTCAATATATACATTTTCAAAAGGTACCAAAATATAATTCGATAGTGTAGTGATGATCCTTGACA
62461686 A
66 A
62461687 T
1 T
62461688 CTCCGAGCTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (66 bp):
TTCAATATATACATTTTCAAAAGGTACCAAAATATAATTCGATAGTGTAGTGATGATCCTTGACA
A
Found at i:62466297 original size:11 final size:11
Alignment explanation
Indices: 62466281--62466309 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
62466271 TACCGATTTG
62466281 ATTAAAAAATT
1 ATTAAAAAATT
62466292 ATT-AAAAATT
1 ATTAAAAAATT
62466302 ATTAAAAA
1 ATTAAAAA
62466310 TTAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:62466308 original size:9 final size:10
Alignment explanation
Indices: 62466285--62466312 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62466275 GATTTGATTA
62466285 AAAAATTATT
1 AAAAATTATT
62466295 AAAAATTATT
1 AAAAATTATT
62466305 AAAAATTA
1 AAAAATTA
62466313 AAAAATCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:62474452 original size:21 final size:22
Alignment explanation
Indices: 62474410--62474451 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62474400 CAGTACACAC
*
62474410 TGGTTGAACCAAGTTAAAAAAT
1 TGGTTGAACCAAGCTAAAAAAT
*
62474432 TGGTTGAACGAAGCTAAAAA
1 TGGTTGAACCAAGCTAAAAA
62474452 TCAATTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (22 bp):
TGGTTGAACCAAGCTAAAAAAT
Found at i:62480648 original size:53 final size:53
Alignment explanation
Indices: 62480591--62480694 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
62480581 AACAGATAAA
62480591 CTACTACTGTGTGCTTCATGTAGAATTTTCTAAATAAGCTTAGAATTTCTCGG
1 CTACTACTGTGTGCTTCATGTAGAATTTTCTAAATAAGCTTAGAATTTCTCGG
*
62480644 CTACTACTGTGTGCTTCATGTAGAATTTTCTAAATAAGTTTAGAATTTCTC
1 CTACTACTGTGTGCTTCATGTAGAATTTTCTAAATAAGCTTAGAATTTCTC
62480695 AGCACACAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (53 bp):
CTACTACTGTGTGCTTCATGTAGAATTTTCTAAATAAGCTTAGAATTTCTCGG
Found at i:62486617 original size:31 final size:31
Alignment explanation
Indices: 62486582--62486643 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
62486572 AGGCTCGTAT
62486582 TAAGAAATGCATGAAATTTCTAAGTTACCCA
1 TAAGAAATGCATGAAATTTCTAAGTTACCCA
62486613 TAAGAAATGCATGAAATTTCTAAGTTACCCA
1 TAAGAAATGCATGAAATTTCTAAGTTACCCA
62486644 AGCCTAGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (31 bp):
TAAGAAATGCATGAAATTTCTAAGTTACCCA
Found at i:62491915 original size:27 final size:27
Alignment explanation
Indices: 62491884--62492061 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62491874 TAAATTGTAC
62491884 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62491911 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62491937 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62491965 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62491993 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62492020 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62492047 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62492062 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62491998 original size:82 final size:81
Alignment explanation
Indices: 62491885--62492040 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62491875 AAATTGTACA
* *
62491885 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62491949 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62491966 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62492031 TGCGAGTTGA
65 TGCGAATTGA
62492041 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62492052 original size:82 final size:81
Alignment explanation
Indices: 62491881--62492061 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62491871 GATTAAATTG
* *
62491881 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62491946 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
62491962 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62492026 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62492044 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62492062 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62494853 original size:30 final size:30
Alignment explanation
Indices: 62494813--62494871 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
62494803 CCTACACTCC
*
62494813 ATGTGGGGAATAGCTCAACCCACCCAGCCT
1 ATGTGAGGAATAGCTCAACCCACCCAGCCT
62494843 ATGTGAGGAATAGCTCAACCCACCCAGCC
1 ATGTGAGGAATAGCTCAACCCACCCAGCC
62494872 CTACACTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.34, G:0.22, T:0.15
Consensus pattern (30 bp):
ATGTGAGGAATAGCTCAACCCACCCAGCCT
Found at i:62496379 original size:11 final size:11
Alignment explanation
Indices: 62496363--62496390 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62496353 AAGAGAAAAG
62496363 AAAAAAGAAGA
1 AAAAAAGAAGA
62496374 AAAAAAGAAGA
1 AAAAAAGAAGA
62496385 AAAAAA
1 AAAAAA
62496391 CTGAATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:62497373 original size:25 final size:26
Alignment explanation
Indices: 62497320--62497379 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
62497310 AATAATAATT
*
62497320 ATAATAATAATTTTATAAATATATCTA
1 ATAATAA-AAATTTATAAATATATCTA
* * *
62497347 ATCATAAAAATTTA-AAATATCTGTA
1 ATAATAAAAATTTATAAATATATCTA
62497372 ATAATAAA
1 ATAATAAA
62497380 TACAGTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 16 0.57
26 6 0.21
27 6 0.21
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAATAAAAATTTATAAATATATCTA
Found at i:62534892 original size:40 final size:40
Alignment explanation
Indices: 62534740--62534885 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
62534730 TTGAACGATG
* * * *
62534740 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
62534780 TCTGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62534820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62534861 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62534886 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 78 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62542671 original size:47 final size:44
Alignment explanation
Indices: 62542555--62542676 Score: 129
Period size: 48 Copynumber: 2.6 Consensus size: 44
62542545 TTTGTGTGCC
* *
62542555 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCAG-C-CATTACGAGAGCT
* * *
62542601 AGTGTAAGATGATGTCTAGGACATGGCATCAG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCATT---ACGAGAGCT
62542649 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTTTGGGACATGCATC
62542677 GGCTACGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.06
46 14 0.22
47 22 0.35
48 23 0.37
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCATTACGAGAGCT
Found at i:62542736 original size:46 final size:47
Alignment explanation
Indices: 62542645--62542765 Score: 115
Period size: 50 Copynumber: 2.6 Consensus size: 47
62542635 TTGAGACGAG
* * * *
62542645 AGCTAGTGTAAGA-CATGTTTGGGAC-ATGCATCGGCTACGAGATGT
1 AGCTAGTGTAAGACCACGTCTAGGACAAGGCATCGGCTACGAGATGT
* *
62542690 -GTTAGTGTAAGACCACGTCTAGGACAAGGCATCGGC-ACGGATATGT
1 AGCTAGTGTAAGACCACGTCTAGGACAAGGCATCGGCTAC-GAGATGT
*
62542736 GAGAGCTAGTGTAAGACCATGTCTAGGACA
1 ---AGCTAGTGTAAGACCACGTCTAGGACA
62542766 TGGCGTCGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.18
45 11 0.18
46 15 0.25
50 24 0.39
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (47 bp):
AGCTAGTGTAAGACCACGTCTAGGACAAGGCATCGGCTACGAGATGT
Found at i:62542740 original size:94 final size:93
Alignment explanation
Indices: 62542555--62542767 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 93
62542545 TTTGTGTGCC
* ** *
62542555 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGATGATGTCTAG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATGAT-AGAGCTAGTGTAAGACCACGTCTAG
* **
62542620 GACATGGCATCAGCATTGAGACGAGAGCT
65 GACAAGGCATCAGCACGGAGACGAGAGCT
* * *
62542649 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GAT-GTGTTAGTGTAAGACCACGTCTAG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATGATAGAGCTAGTGTAAGACCACGTCTAG
* * *
62542712 GACAAGGCATCGGCACGGATATGTGAGAGCT
65 GACAAGGCATCAGCACGGAGA--CGAGAGCT
* *
62542743 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
62542768 GCGTCGACCT
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 35 0.35
94 51 0.51
95 14 0.14
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCACATGATAGAGCTAGTGTAAGACCACGTCTAGG
ACAAGGCATCAGCACGGAGACGAGAGCT
Found at i:62554131 original size:16 final size:15
Alignment explanation
Indices: 62554098--62554139 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
62554088 AAATGATAAT
62554098 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
62554114 TATTCATTATAATATA
1 TATTAATTATAAT-TA
62554130 TATTAATTAT
1 TATTAATTAT
62554140 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:62554143 original size:19 final size:22
Alignment explanation
Indices: 62554096--62554144 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
62554086 AAAAATGATA
62554096 ATTATTAATATATAATTATATTC
1 ATTA-TAATATATAATTATATTC
62554119 ATTATAATATAT-ATTA-ATT-
1 ATTATAATATATAATTATATTC
62554138 ATTATAA
1 ATTATAA
62554145 ATTTTAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATAATATATAATTATATTC
Found at i:62554915 original size:25 final size:24
Alignment explanation
Indices: 62554868--62554921 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
62554858 TAGTTTTCTT
*
62554868 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTCATTCAATTA
*
62554892 GTTAATTTTTCAA-TTCATTGAATTA
1 -TTAATTTTT-AATTTCATTCAATTA
62554917 TTAAT
1 TTAAT
62554922 AATTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 19 0.73
26 2 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
TTAATTTTTAATTTCATTCAATTA
Found at i:62570702 original size:21 final size:20
Alignment explanation
Indices: 62570676--62570714 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
62570666 ATATGTTTTG
62570676 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
62570697 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
62570715 ACAAGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:62573669 original size:47 final size:47
Alignment explanation
Indices: 62573594--62573998 Score: 623
Period size: 47 Copynumber: 8.5 Consensus size: 47
62573584 TTCGGGACTT
* * * * * * *
62573594 ATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGCC-C
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
62573640 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
62573688 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
62573735 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
62573782 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
62573829 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
62573876 ATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGTCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
62573925 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
62573974 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
62573999 CAATGAATAA
Statistics
Matches: 339, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 248 0.73
48 1 0.00
49 90 0.27
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:62575626 original size:13 final size:13
Alignment explanation
Indices: 62575608--62575632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62575598 TACTAAATTT
62575608 TCATGGATTCAAA
1 TCATGGATTCAAA
62575621 TCATGGATTCAA
1 TCATGGATTCAA
62575633 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:62578117 original size:40 final size:40
Alignment explanation
Indices: 62578026--62578246 Score: 252
Period size: 40 Copynumber: 5.6 Consensus size: 40
62578016 ATCCAAGTAT
* ** *
62578026 CTTCGGGATTTAG-CCGGATATAACCACTAGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
62578064 CTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
62578104 CTTCGGGACTTAGCCTGGATATAGTCGCTATCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
62578144 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
62578184 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
62578224 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATA
62578247 ATTCGAATAA
Statistics
Matches: 151, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.07
39 19 0.13
40 118 0.78
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62578202 original size:120 final size:118
Alignment explanation
Indices: 62578026--62578246 Score: 320
Period size: 120 Copynumber: 1.9 Consensus size: 118
62578016 ATCCAAGTAT
* *
62578026 CTTCGGGATTTAGCCGGATATAACCACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTCA
* *
62578091 CTAGCATAAATGCCTTCGGGACTTAGCCTGGATATAGTCGCTATCACAAATGC
66 CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTATCACAAATGC
* * * *
62578144 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCG-GATCTTAGTCCGGATATA
1 CTTCGGGAT-TTAG-CCGGATATAACAACTAGCAC-AAGGCCTTCGAG-TCTTAGCCCGGATATA
62578207 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATA
62 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATA
62578247 ATTCGAATAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 18 0.20
120 61 0.67
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTCA
CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTATCACAAATGC
Found at i:62588134 original size:671 final size:671
Alignment explanation
Indices: 62587145--62588480 Score: 2334
Period size: 671 Copynumber: 2.0 Consensus size: 671
62587135 GTTAATAGCG
* *
62587145 GAGTTAAAAGAAAAACCGTTATTAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATT
1 GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
*
62587210 AGTTGCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
66 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
*
62587275 GTTTGAGGCTCAGAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
131 GTTTGAGGCTCAAAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
*
62587340 GAGGATCATAGCAGCCGAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
196 GAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
* *
62587405 TCAGTATTGGTGGCATGGTATGAAACGAGACATTTCTGACTTTGTTTCGAACTGTTTGATATGTC
261 TCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATATC
* * **
62587470 AATAAGTGAAAGCGGAACATCAAGTGCCTTCGGGATTACTTCATTCGATCATGATACTCGAGTGG
326 AACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTGG
62587535 AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
391 AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
**
62587600 GATCTGGGTTGTGGTTGATAGATTGAAAAAGTTGGCTCATTTTATTCCCGTACGTACGGATTATT
456 GATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTATT
*
62587665 CACTTGATAAGTTAGTCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
521 CACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
62587730 ATTGTATCGGATAGAGATCCGAGATTCACAAT-GCGATTTTGGAAGAAATTGCAAGAAGCATTGG
586 ATTGTATCGGATAGAGATCCGAGATTCAC-ATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGG
*
62587794 GTACTAGGTTGCATTTAGTATT
650 GTACTAAGTTGCATTTAGTATT
* * * *
62587816 GAGTTAAAAGCAAAACCGTTATGGATGCAACAAATCCGTGAAGCTGAAAAAGTTGATAATGAATG
1 GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
* *
62587881 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTTAGAATTTTTAATTGATAGTAATGATT
66 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
* *
62587946 GTTTGAGGTTCAAAAATCGATTATGTGTT-TCGAGAAATTCAGAGCTTATTCTGATGATTTTGAG
131 GTTTGAGGCTCAAAAATCGATTATGTGTTCT-GAGAAATTCAGAGCTTATTCCGATGATTTTGAG
* * *
62588010 CGAGGCTCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTGAAAT
195 CGAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAAC
*
62588075 GTCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAAGTGTTTGATATAT
260 GTCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATAT
62588140 CAACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTG
325 CAACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTG
62588205 GAAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATG
390 GAAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATG
* *
62588270 TGATCTGGGTTGTGGTTGATAGATTGACAAAGTCAGCTCATTTTATTCCCGTACGTATGGATTAT
455 TGATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTAT
62588335 TCACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTC
520 TCACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTC
* ** *
62588400 TATTGTGTCGGATAGAGATTTGAGATTCACATCGCGGTTTTGGAAGAAATTGCAAGAAGCATTGG
585 TATTGTATCGGATAGAGATCCGAGATTCACATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGG
*
62588465 GTACTAAGTTGTATTT
650 GTACTAAGTTGCATTT
62588481 TAGCACCGCT
Statistics
Matches: 629, Mismatches: 34, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
670 3 0.00
671 626 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (671 bp):
GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
GTTTGAGGCTCAAAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
GAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
TCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATATC
AACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTGG
AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
GATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTATT
CACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
ATTGTATCGGATAGAGATCCGAGATTCACATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGGG
TACTAAGTTGCATTTAGTATT
Found at i:62591195 original size:45 final size:45
Alignment explanation
Indices: 62591131--62591299 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
62591121 CGCACAGTAT
*
62591131 TATTCGGGTCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
62591175 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
62591221 TA-TCGGGC-TTCGAGCCTAGCAGGCGA-AATGCCGGTG-AATGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
** * ** *
62591262 -ATTCATGTTTTTAAACCTAGCAGGCTA-AATGCCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
62591300 TTTGATAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 8 0.07
42 33 0.31
43 17 0.16
44 10 0.09
45 38 0.35
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:62598418 original size:20 final size:20
Alignment explanation
Indices: 62598393--62598436 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
62598383 ATTCGAGGAT
*
62598393 TATCGGAGACTTTGTCACAC
1 TATCGGAAACTTTGTCACAC
62598413 TATCGGAAACTTTGTCACAC
1 TATCGGAAACTTTGTCACAC
62598433 TATC
1 TATC
62598437 TTACTATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
TATCGGAAACTTTGTCACAC
Found at i:62603434 original size:48 final size:48
Alignment explanation
Indices: 62603359--62603463 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
62603349 ACACATGTAG
* * * *
62603359 GATGCCAATGCCATATCCCAGATATGGTCTTACGTGGGATCGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
* *
62603407 GATGCCAATGCCATGTCCTAGACATGGTATTACATGGGATAGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
62603455 GATGCCAAT
1 GATGCCAAT
62603464 AGCCCAACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
Found at i:62611022 original size:21 final size:21
Alignment explanation
Indices: 62610996--62611037 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62610986 CCCAAAATGT
*
62610996 ACATCGGGTATAATTCAGGAC
1 ACATCGAGTATAATTCAGGAC
*
62611017 ACATCGAGTATAATTCGGGAC
1 ACATCGAGTATAATTCAGGAC
62611038 TAAACCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
ACATCGAGTATAATTCAGGAC
Found at i:62612820 original size:27 final size:26
Alignment explanation
Indices: 62612772--62612823 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62612762 GCGAGGCTGC
*
62612772 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
62612798 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
62612824 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62615308 original size:49 final size:49
Alignment explanation
Indices: 62615249--62615480 Score: 230
Period size: 49 Copynumber: 4.7 Consensus size: 49
62615239 CTGGTACGCA
* * *
62615249 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
62615298 TAGTAACCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * ** * *
62615347 TAGTAGCCTGTACTTAGTACTACAGACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * * * *
62615397 TAGTAGCCTACAATTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACG
* * *
62615448 AAGTAGCCTGCATTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
62615481 TCACAATAGA
Statistics
Matches: 151, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.50
50 40 0.26
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:62622648 original size:46 final size:46
Alignment explanation
Indices: 62622598--62622773 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62622588 TGGTTGAGCA
62622598 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62622644 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62622689 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62622737 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62622774 GCTGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62622754 original size:93 final size:93
Alignment explanation
Indices: 62622595--62622766 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62622585 GGATGGTTGA
* *
62622595 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62622660 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62622688 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62622753 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62622767 CTTATGGGCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62629377 original size:93 final size:92
Alignment explanation
Indices: 62629218--62629388 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
62629208 GGATGGTTGA
* * *
62629218 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATACGAAAGCCCGAACTCGTTGAGTT
*
62629283 GAGTTCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
62629310 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATACGAAAGCCCGAACTCGTTGAGT
62629375 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
62629389 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 28 0.39
93 44 0.61
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATACGAAAGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62629380 original size:46 final size:46
Alignment explanation
Indices: 62629222--62629395 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
62629212 GGTTGAGCAT
* * *
62629222 CCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
* * * * * *
62629267 CCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAAAGC
*
62629312 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAAAGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
* *
62629360 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62629396 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 27 0.26
46 40 0.39
47 32 0.31
48 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
Found at i:62632614 original size:27 final size:28
Alignment explanation
Indices: 62632569--62632647 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
62632559 AGGCTGCCAG
* *
62632569 ATAT-TGTGACGAAGTCACCAGATACAA
1 ATATGTGTGGCGAAGCCACCAGATACAA
* * * *
62632596 ATAT-TGTGGCTAGGCCACCAGAATATAT
1 ATATGTGTGGCGAAGCCACCAG-ATACAA
62632624 ATATGTGTGGCGAAGCCACCAGAT
1 ATATGTGTGGCGAAGCCACCAGAT
62632648 TACAGCGAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 17 0.40
28 10 0.24
29 15 0.36
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (28 bp):
ATATGTGTGGCGAAGCCACCAGATACAA
Found at i:62632642 original size:29 final size:28
Alignment explanation
Indices: 62632569--62632651 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 28
62632559 AGGCTGCCAG
* *
62632569 ATATTGTGACGAAGTCACCAG-ATACAA
1 ATATTGTGGCGAAGCCACCAGAATACAA
* * * *
62632596 ATATTGTGGCTAGGCCACCAGAATATAT
1 ATATTGTGGCGAAGCCACCAGAATACAA
*
62632624 ATATGTGTGGCGAAGCCACCAGATTACA
1 ATAT-TGTGGCGAAGCCACCAGAATACA
62632652 GCGAGGCTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 17 0.39
28 8 0.18
29 19 0.43
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (28 bp):
ATATTGTGGCGAAGCCACCAGAATACAA
Found at i:62633363 original size:27 final size:27
Alignment explanation
Indices: 62633307--62633363 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
62633297 ATAGTCATTT
*
62633307 TACCCTCTAGGGGTAAATCGGTAGTCC
1 TACCCTCTAGGGGTAAATCGGTAATCC
** *
62633334 TACCCTAC-AGGGGTATTTCGGTAATTC
1 TACCCT-CTAGGGGTAAATCGGTAATCC
62633361 TAC
1 TAC
62633364 AACTTATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (27 bp):
TACCCTCTAGGGGTAAATCGGTAATCC
Found at i:62634753 original size:48 final size:48
Alignment explanation
Indices: 62634678--62634856 Score: 172
Period size: 48 Copynumber: 3.8 Consensus size: 48
62634668 GATGTGGTAG
* * * *
62634678 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
62634726 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
62634774 GATGCCAAT---A--TCTCA-ACTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
62634817 GATGCCAAAGCCATGTCCTAGACATGGTCTTATATGGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
62634857 TGCACATAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 30 0.29
45 1 0.01
46 1 0.01
48 66 0.65
49 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:62646281 original size:810 final size:810
Alignment explanation
Indices: 62644711--62646330 Score: 2979
Period size: 810 Copynumber: 2.0 Consensus size: 810
62644701 GAAATTTGAC
* **
62644711 CAATTTCTAAGTGATGGACAAAAATTGGACATGGATGGAATTTTTGAAAGTTTAGTAAGGAAGGG
1 CAATTTATAAGTGATGGACAAAAATTGGACACAGATGGAATTTTTGAAAGTTTAGTAAGGAAGGG
62644776 CATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTT
66 CATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTT
62644841 TTTCATGGAGGCCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCAAGCTCA
131 TTTCATGGAGGCCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCAAGCTCA
* * *
62644906 ATAGTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAATCCCGGTAATTTGAT
196 ATAGTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACATTTTTAGAATCCCGGTAACTTGAT
* * * *
62644971 TAAGCTTATTCTAGCAATAATTTAAGCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATG
261 TAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTAAAATG
* * * *
62645036 TGTTTATTTTGTTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
326 TGTGTATTCTGGTGTTTTATGATACAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
* *
62645101 CGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATAT
391 CGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATAT
*
62645166 GTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAAGTGATCAGCATGTCATAAAACATAAGA
456 GTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCAGCATGTCATAAAACATAAGA
62645231 ATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGC
521 ATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGC
62645296 AAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGT
586 AAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGT
* *
62645361 AAAATATGATGTTTTAGATCCCGAAAAACGAGATTTGAACCTAGACTGAGAGAAAAATTGAAAAT
651 AAAATATGATGTTTTAGATCCCGAAAAACGAGATTTGAACCTAGAATGAGAGAAAAATCGAAAAT
* *
62645426 TGGGAAAGTTGGTAAAATGGCCGTTTTAGTATCCAGGTAAGTTCATATGTATAATAAGCATTAAT
716 TGGGAAAGTTGGTAAAATGGCCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAAT
62645491 TTATGCATGTTTCAATGTAAAATTAATATA
781 TTATGCATGTTTCAATGTAAAATTAATATA
*
62645521 CAATTTATAATTGATGGACAAAAATTGGACACAGATGGAATTTTTGAAAGTTTAGTAAGGAAGGG
1 CAATTTATAAGTGATGGACAAAAATTGGACACAGATGGAATTTTTGAAAGTTTAGTAAGGAAGGG
*
62645586 TATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTT
66 CATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTT
62645651 TTTCATGGAGGCCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCAAGCTCA
131 TTTCATGGAGGCCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCAAGCTCA
*
62645716 ATAGTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACATTTTTAGAGTCCCGGTAACTTGAT
196 ATAGTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACATTTTTAGAATCCCGGTAACTTGAT
* *
62645781 TTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTAAAATT
261 TAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTAAAATG
62645846 TGTGTATTCTGGTGTTTTATGATACAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
326 TGTGTATTCTGGTGTTTTATGATACAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
62645911 CGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATAT
391 CGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATAT
*
62645976 GTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCATCATGTCATAAAACATAAGA
456 GTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCAGCATGTCATAAAACATAAGA
62646041 ATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGC
521 ATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGC
62646106 AAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGT
586 AAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGT
*
62646171 AAAATATGATGTTTTAGATCCCGGAAAACGAGATTTGAACCTAGAATGAGAGAAAAATCGAAAAT
651 AAAATATGATGTTTTAGATCCCGAAAAACGAGATTTGAACCTAGAATGAGAGAAAAATCGAAAAT
62646236 TGGGAAAGTTGGTAAAATGGCCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAAT
716 TGGGAAAGTTGGTAAAATGGCCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAAT
*
62646301 TTATGCATGTTTCAATGTAAAATTGATATA
781 TTATGCATGTTTCAATGTAAAATTAATATA
62646331 TTTACTATGA
Statistics
Matches: 781, Mismatches: 29, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
810 781 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (810 bp):
CAATTTATAAGTGATGGACAAAAATTGGACACAGATGGAATTTTTGAAAGTTTAGTAAGGAAGGG
CATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTT
TTTCATGGAGGCCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCAAGCTCA
ATAGTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACATTTTTAGAATCCCGGTAACTTGAT
TAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTAAAATG
TGTGTATTCTGGTGTTTTATGATACAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
CGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATAT
GTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCAGCATGTCATAAAACATAAGA
ATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGC
AAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGT
AAAATATGATGTTTTAGATCCCGAAAAACGAGATTTGAACCTAGAATGAGAGAAAAATCGAAAAT
TGGGAAAGTTGGTAAAATGGCCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAAT
TTATGCATGTTTCAATGTAAAATTAATATA
Found at i:62652870 original size:42 final size:42
Alignment explanation
Indices: 62652821--62652929 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
62652811 GAGATTTATG
* * *
62652821 TGTAAGACCATATCTTGGATATGGCATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGATC-ACA
* * *
62652863 TGTAAGACCATAGCTGGGCTATTGGCATTGATACGAGATCACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATCACA
* *
62652906 TTTAAGACCATATATGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
62652930 GATTGGTACG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.38
43 33 0.60
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGATCACA
Found at i:62658480 original size:11 final size:11
Alignment explanation
Indices: 62658448--62658492 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
62658438 TTTTTAGAAC
*
62658448 ATAAAACTAGAA
1 ATAAAA-TAAAA
62658460 ATAGAAATAAAA
1 ATA-AAATAAAA
62658472 ATAAAATAAAA
1 ATAAAATAAAA
62658483 ATAAAA-AAAA
1 ATAAAATAAAA
62658493 GGAAAAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 4 0.13
11 14 0.45
12 10 0.32
13 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:62658484 original size:17 final size:18
Alignment explanation
Indices: 62658448--62658489 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
62658438 TTTTTAGAAC
* *
62658448 ATAAAACTAGAAATAGAA
1 ATAAAAATAGAAATAAAA
62658466 ATAAAAATA-AAATAAAA
1 ATAAAAATAGAAATAAAA
62658483 ATAAAAA
1 ATAAAAA
62658490 AAAGGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (18 bp):
ATAAAAATAGAAATAAAA
Found at i:62658486 original size:6 final size:6
Alignment explanation
Indices: 62658448--62658489 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
62658438 TTTTTAGAAC
* * *
62658448 ATAAAA CTAGAA ATAGAA ATAAAA AT-AAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
62658490 AAAGGAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:62662961 original size:40 final size:40
Alignment explanation
Indices: 62662856--62663110 Score: 317
Period size: 40 Copynumber: 6.5 Consensus size: 40
62662846 CGGATGATAA
* **
62662856 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
62662896 CTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62662935 CCGAGCTAAGTCGCGAAGGCATTTGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62662974 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
62663014 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62663054 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
62663093 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62663111 TACTTGGTTG
Statistics
Matches: 189, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
38 16 0.08
39 74 0.39
40 99 0.52
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62662991 original size:79 final size:79
Alignment explanation
Indices: 62662860--62663110 Score: 305
Period size: 79 Copynumber: 3.2 Consensus size: 79
62662850 TGATAACCGG
* ** *
62662860 GCTAAGTCCCGAAGGCATTTGTGCAAGCGACTAATTCTGGGCTAAG-CCCGAAGGCAATTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATTCCGGGCTAAGTCCCGAAGGCAATTGTGCG
*
62662924 -AGTTATTATATCCGA
65 AAG-TACTATATCCGA
* * *
62662939 GCTAAGTCGCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTTTTGCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCAATTGTGCGA
*
62663004 AGTACTATATCCGG
66 AGTACTATATCCGA
* *
62663018 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC-ATT-TGAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCCGGGCTAAGTCCCGAAGGCAATTGTGCG
*
62663081 CAGTAGCTATATCCG-
65 AAGTA-CTATATCCGA
**
62663096 GCTAAACCCCGAAGG
1 GCTAAGTCCCGAAGG
62663111 TACTTGGTTG
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
78 32 0.21
79 98 0.64
80 22 0.14
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCAATTGTGCGA
AGTACTATATCCGA
Found at i:62670004 original size:38 final size:40
Alignment explanation
Indices: 62669905--62670006 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
62669895 NNNNNNNNNN
*
62669905 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
*
62669945 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-C
**
62669984 TATATCC-GGCTAAACCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
62670007 TACTTGGTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 16 0.29
39 9 0.16
40 31 0.55
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
Found at i:62677030 original size:16 final size:16
Alignment explanation
Indices: 62677009--62677040 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62676999 AATGTAACAC
62677009 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
62677025 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
62677041 TCCTAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:62678392 original size:18 final size:19
Alignment explanation
Indices: 62678359--62678394 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62678349 ATTTGGCCAT
*
62678359 ATGGGCCGGAATGGGCTAA
1 ATGGGCCCGAATGGGCTAA
62678378 ATGGGCCCG-ATGGGCTA
1 ATGGGCCCGAATGGGCTA
62678395 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.19, G:0.42, T:0.17
Consensus pattern (19 bp):
ATGGGCCCGAATGGGCTAA
Found at i:62678516 original size:29 final size:28
Alignment explanation
Indices: 62678474--62678544 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 28
62678464 TGAATGTGAC
*
62678474 TGGGCCTAACGGGCCATATAAATATGATT
1 TGGGCCTAATGGGCCATATAAATATGA-T
*
62678503 TGGGCCTAATGGGCCATATGAATATGAT
1 TGGGCCTAATGGGCCATATAAATATGAT
* *
62678531 TAGGCTTAATGGGC
1 TGGGCCTAATGGGC
62678545 TAGATACAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 13 0.34
29 25 0.66
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATATGAT
Found at i:62687840 original size:15 final size:15
Alignment explanation
Indices: 62687808--62687846 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
62687798 GGCTTCCTTC
*
62687808 TTATTATTATTTGGA
1 TTATTATTATTTGCA
*
62687823 TTATTATTATTTTCA
1 TTATTATTATTTGCA
*
62687838 TTATAATTA
1 TTATTATTA
62687847 CAGGAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (15 bp):
TTATTATTATTTGCA
Found at i:62688046 original size:17 final size:18
Alignment explanation
Indices: 62688014--62688047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62688004 TTTAATAAGG
62688014 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
62688032 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
62688048 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:62688999 original size:15 final size:15
Alignment explanation
Indices: 62688979--62689015 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
62688969 CCAAGGGAAG
62688979 TATGTGGGTGCAAGC
1 TATGTGGGTGCAAGC
62688994 TATGTGGGTGCAAGC
1 TATGTGGGTGCAAGC
62689009 TATGTGG
1 TATGTGG
62689016 ATGCTAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.11, G:0.41, T:0.30
Consensus pattern (15 bp):
TATGTGGGTGCAAGC
Found at i:62689885 original size:8 final size:8
Alignment explanation
Indices: 62689856--62689888 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
62689846 GTAACGCTCT
62689856 CAAAATCC
1 CAAAATCC
62689864 CAAAA-CC
1 CAAAATCC
62689871 CAAAAATCC
1 C-AAAATCC
62689880 CAAAATCC
1 CAAAATCC
62689888 C
1 C
62689889 GAACTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.13
8 17 0.74
9 3 0.13
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (8 bp):
CAAAATCC
Found at i:62691326 original size:29 final size:28
Alignment explanation
Indices: 62691282--62691391 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 28
62691272 CATGATTATG
* *
62691282 AATGTGACTGGGCCTAACGGGCCATAAA
1 AATGTGATTGGGCCTAATGGGCCATAAA
* *
62691310 AATGTGATTCGGGCCTAATAGGCCATATA
1 AATGTGATT-GGGCCTAATGGGCCATAAA
* * **
62691339 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATAAA
* * *
62691368 AATATGATTAGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
62691392 GATACATGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.34
29 42 0.63
30 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATAAA
Found at i:62704040 original size:17 final size:18
Alignment explanation
Indices: 62704008--62704041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62703998 TTTAAGAAGG
62704008 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
62704026 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
62704042 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:62711999 original size:44 final size:45
Alignment explanation
Indices: 62711912--62712001 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 45
62711902 AATTATCGTG
* * * *
62711912 ATCTGAACTCATTGAGTTTTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
*
62711957 ATCTAAACTCATTGAGTTGTAGT-TGAGTTCATGATGTCTGTGAC
1 ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
62712001 A
1 A
62712002 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 20 0.50
45 20 0.50
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
Found at i:62716829 original size:19 final size:19
Alignment explanation
Indices: 62716805--62716841 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
62716795 CAATTACTTA
62716805 GTTTTAACAACGAATTTAT
1 GTTTTAACAACGAATTTAT
62716824 GTTTTAACAACGAATTTA
1 GTTTTAACAACGAATTTA
62716842 AGTAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
GTTTTAACAACGAATTTAT
Found at i:62726593 original size:39 final size:39
Alignment explanation
Indices: 62726536--62726681 Score: 204
Period size: 39 Copynumber: 3.7 Consensus size: 39
62726526 ATGATATTTG
* * *
62726536 GAATTA-ATCTGGACTTAAGGTCCGCAGGCTATATGATG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTA
*
62726574 GAATTATATCCAGACTTAAGGTCCGCAGGCTATATGCTA
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTA
* *
62726613 GAAATATATCCGGGCTTAAGGTCCGCAGGCTATATGCTA
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTA
* *
62726652 GAATTATAATTCGGACTTAAGGTTCGCAGG
1 GAATTAT-ATCCGGACTTAAGGTCCGCAGG
62726682 TTACGTGTAG
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.06
39 70 0.74
40 19 0.20
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTA
Found at i:62726709 original size:79 final size:78
Alignment explanation
Indices: 62726549--62726710 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 78
62726539 TTAATCTGGA
* *
62726549 CTTAAGGTCCGCAGGCTATATGATGGAATTATATCCAGACTTAAGGTCCGCAGGCTATATGCTAG
1 CTTAAGGTCCGCAGGCTATATGATAGAATTATATCCAGACTTAAGGTCCGCAGGCTACATGCTAG
*
62726614 AAATATATCCGGG
66 AAATATATCCGAG
* * * * * *
62726627 CTTAAGGTCCGCAGGCTATATGCTAGAATTATAATTCGGACTTAAGGTTCGCAGGTTACGTG-TA
1 CTTAAGGTCCGCAGGCTATATGATAGAATTAT-ATCCAGACTTAAGGTCCGCAGGCTACATGCTA
62726691 GGAAATATATCCGAG
65 -GAAATATATCCGAG
62726706 CTTAA
1 CTTAA
62726711 AGTGTAGAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
78 32 0.44
79 41 0.56
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (78 bp):
CTTAAGGTCCGCAGGCTATATGATAGAATTATATCCAGACTTAAGGTCCGCAGGCTACATGCTAG
AAATATATCCGAG
Found at i:62733243 original size:11 final size:12
Alignment explanation
Indices: 62733225--62733253 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
62733215 TGAGCATTCG
62733225 ACATTACTTATA
1 ACATTACTTATA
62733237 A-ATTACTTATA
1 ACATTACTTATA
62733248 ACATTA
1 ACATTA
62733254 GAAATGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (12 bp):
ACATTACTTATA
Found at i:62734278 original size:39 final size:39
Alignment explanation
Indices: 62734218--62734433 Score: 254
Period size: 39 Copynumber: 5.5 Consensus size: 39
62734208 GCATGATATT
* *
62734218 TGGAATTA-ATCTGGACTTAAGGTCCGCAAGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
* *
62734256 TGGAATTATATCCGAACTTAAGGTCCGCAGGCTATATGT
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
62734295 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * *
62734334 TGGAAATATATCTGGACTTAAGGTCCGCAGGCTATATGT
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
** ** * * **
62734373 TGGAATTATAATTTGGACTTAAGGTTTGTAGGTTACGTGC
1 TGGAATTAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
* *
62734413 TGGAAATATATCCGGGCTTAA
1 TGGAATTATATCCGGACTTAA
62734434 AGTTCCGAAG
Statistics
Matches: 152, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 8 0.05
39 114 0.75
40 30 0.20
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (39 bp):
TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:62734345 original size:78 final size:78
Alignment explanation
Indices: 62734213--62734426 Score: 297
Period size: 78 Copynumber: 2.8 Consensus size: 78
62734203 AATATGCATG
* * *
62734213 ATAT-TTGGAATTA-ATCTGGACTTAAGGTCCGCAAGCTATATGCTGGAATTATATCCGAACTTA
1 ATATGTTGGAATTATATCTGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCCGAACTTA
62734276 AGGTCCGCAGGCT
66 AGGTCCGCAGGCT
* * *
62734289 ATATGTTGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCTGGACTTA
1 ATATGTTGGAATTATATCTGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCCGAACTTA
62734354 AGGTCCGCAGGCT
66 AGGTCCGCAGGCT
* ** * **
62734367 ATATGTTGGAATTATAATTTGGACTTAAGGTTTGTAGGTTACGTGCTGGAAATATATCCG
1 ATATGTTGGAATTAT-ATCTGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCCG
62734427 GGCTTAAAGT
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
76 4 0.03
77 9 0.07
78 72 0.60
79 36 0.30
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (78 bp):
ATATGTTGGAATTATATCTGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCCGAACTTA
AGGTCCGCAGGCT
Found at i:62738030 original size:81 final size:81
Alignment explanation
Indices: 62737895--62738057 Score: 267
Period size: 81 Copynumber: 2.0 Consensus size: 81
62737885 GTAACACCCT
62737895 TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
1 TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
62737960 AATTTCGGGCTATACA
66 AATTTCGGGCTATACA
* *
62737976 TATCCGTATTCAACGTCAGAATAG-GT-TACGAGGCATTATCGGACTTATCACACAAACAAACAT
1 TATCCGTATTCAACGTCAGAACAGAGTATA--AGGCATTATCAGACTTATCACACAAACAAACAT
*
62738039 ACAATTTCGGGTTATACA
64 ACAATTTCGGGCTATACA
62738057 T
1 T
62738058 TTGCGTCCAA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
79 2 0.03
80 2 0.03
81 73 0.95
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (81 bp):
TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
AATTTCGGGCTATACA
Found at i:62748866 original size:26 final size:27
Alignment explanation
Indices: 62748830--62748882 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62748820 TGTCAGCTAG
* *
62748830 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
62748856 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
62748883 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:62749737 original size:48 final size:48
Alignment explanation
Indices: 62749666--62749831 Score: 323
Period size: 48 Copynumber: 3.5 Consensus size: 48
62749656 AATTGTAAAA
62749666 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
1 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
62749714 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
1 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
62749762 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
1 GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
*
62749810 GCTAGTGTGAAATATGTATGAG
1 GCTAATGTGAAATATGTATGAG
62749832 ATGTGTATAT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (48 bp):
GCTAATGTGAAATATGTATGAGCCATGCATATGTGGTAAAGCCAAATG
Found at i:62752294 original size:39 final size:40
Alignment explanation
Indices: 62752186--62752370 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
62752176 TCGAATGATG
* * * *
62752186 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
62752225 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
62752266 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
62752305 TCCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
62752344 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
62752371 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.29
40 76 0.64
41 9 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:62752323 original size:79 final size:81
Alignment explanation
Indices: 62752186--62752368 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
62752176 TCGAATGATG
*
62752186 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
62752250 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
62752265 TTCCGGGCTAAG-CCTGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
62752327 TTTTTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
62752345 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62752369 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:62752392 original size:79 final size:79
Alignment explanation
Indices: 62752239--62752403 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
62752229 GGACTAAGAT
* * **
62752239 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
62752304 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
62752318 CCGAAGGCATTTTTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
62752381 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
62752397 CCGAAGG
1 CCGAAGG
62752404 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:62759971 original size:40 final size:40
Alignment explanation
Indices: 62759733--62759957 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
62759723 TCGAATGATG
* * * *
62759733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
62759773 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62759813 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62759852 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62759892 TCCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62759933 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62759958 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62763116 original size:42 final size:42
Alignment explanation
Indices: 62763069--62763152 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
62763059 CACAAACATC
* *
62763069 TTTCCCTGCTTCAATTCAAGGAACTCCTTCCATTTTTGATCA
1 TTTCCCTACCTCAATTCAAGGAACTCCTTCCATTTTTGATCA
62763111 TTTCCCTACCTCAATTCAAGGAACTCCTTCCATTTTTGATCA
1 TTTCCCTACCTCAATTCAAGGAACTCCTTCCATTTTTGATCA
62763153 ATAAGTTGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.08, T:0.39
Consensus pattern (42 bp):
TTTCCCTACCTCAATTCAAGGAACTCCTTCCATTTTTGATCA
Found at i:62765644 original size:27 final size:27
Alignment explanation
Indices: 62765605--62765686 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
62765595 GAAAGCGTCT
62765605 TGGTGGCTATGCCACAATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGTTC
* *
62765632 TGGTGGCTCTGCCACAAATATCTGTATC
1 TGGTGGCTATGCCACAATTATCTGT-TC
* * *
62765660 TGGTGACTAAGTCAC-ATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGTTC
62765686 T
1 T
62765687 AGCAGCCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 3 0.06
27 31 0.66
28 13 0.28
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGTTC
Found at i:62775245 original size:36 final size:36
Alignment explanation
Indices: 62775175--62775248 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
62775165 GAAGGAGCGC
* *
62775175 ATCAGTCAAAATAGATCCAAAAAGCTATTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
* * * *
62775211 ATCAGTCAGAATAGATCTAAAAGGCTGCTAAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
62775247 AT
1 AT
62775249 AGAGTTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
Found at i:62776014 original size:26 final size:28
Alignment explanation
Indices: 62775981--62776035 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
62775971 AAATTATTAA
62775981 AATTTTGC-ATCAAATTGTTAAG-TTAT
1 AATTTTGCAATCAAATTGTTAAGCTTAT
* *
62776007 AATTTTGCAATTAATTTGTTAAGCTTAT
1 AATTTTGCAATCAAATTGTTAAGCTTAT
62776035 A
1 A
62776036 TAGTCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 12 0.48
28 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (28 bp):
AATTTTGCAATCAAATTGTTAAGCTTAT
Found at i:62776438 original size:31 final size:31
Alignment explanation
Indices: 62776403--62776496 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
62776393 GACCACATTG
62776403 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
*
62776434 ATATATCATAAGAAAAGTAACAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
62776465 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
62776496 A
1 A
62776497 AGTTCGGTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
ATATATCATAAGAAAAGTACCAAGAGGTGCT
Found at i:62781466 original size:40 final size:40
Alignment explanation
Indices: 62781394--62781608 Score: 373
Period size: 40 Copynumber: 5.4 Consensus size: 40
62781384 AACCCAAGTA
*
62781394 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
62781433 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62781473 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62781512 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62781552 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62781592 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
62781609 AGATGTCATC
Statistics
Matches: 168, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 52 0.31
40 115 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:62781525 original size:79 final size:80
Alignment explanation
Indices: 62781394--62781608 Score: 373
Period size: 79 Copynumber: 2.7 Consensus size: 80
62781384 AACCCAAGTA
*
62781394 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
62781457 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
62781473 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
62781537 TCACTAGCACAAATG
66 TCAATAGCACAAATG
*
62781552 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
62781609 AGATGTCATC
Statistics
Matches: 130, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
79 90 0.69
80 39 0.30
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:62783907 original size:27 final size:27
Alignment explanation
Indices: 62783808--62783899 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
62783798 CCTTAATCGA
*
62783808 TAAAATGACTGTTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
62783835 TAAAATGACTGTTTTGCCCATATGTGA
1 TAAAATGACTGTTTTGCCCTTATGAGG
62783862 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
62783889 TAAAACGACTG
1 TAAAATGACTG
62783900 AAATGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:62783925 original size:54 final size:54
Alignment explanation
Indices: 62783806--62783939 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
62783796 ACCCTTAATC
* * *** **
62783806 GATAAAATGACTGTTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCATATGT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* *
62783860 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAACGACTGAAATGCCCCTACAT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* * * *
62783914 GGTAAATTGACTATTTTACCCCTATG
1 GATAAAATGACTGTTTTACCCTTATG
62783940 TGAGGTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (54 bp):
GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
Found at i:62785993 original size:27 final size:27
Alignment explanation
Indices: 62785869--62786001 Score: 115
Period size: 27 Copynumber: 5.0 Consensus size: 27
62785859 CCTTAATCGA
* * * * *
62785869 TAAAATGATTGTTTGGCTCTTATGAGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
*
62785896 TAAAATGACTGTTTTACCCCTATGTGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
* * *
62785923 TAAAATGACTATTTTGCCCTTATGCGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
* *** **
62785950 T-AAATGATTGAAATGCCCCTACATGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
*
62785976 TAAATTGACTGTTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCCTATGTG
62786002 AGGTATTTAT
Statistics
Matches: 79, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
26 17 0.22
27 62 0.78
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCCTATGTGG
Found at i:62797637 original size:48 final size:49
Alignment explanation
Indices: 62797565--62797663 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
62797555 TCAGAGTTAG
62797565 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
*
62797614 TTTC-AAATGTTTGATTTGTCAACAAGTAAAGGCTGAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
62797662 TT
1 TT
62797664 CGGGTATACT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 45 0.92
49 4 0.08
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
Found at i:62800019 original size:19 final size:20
Alignment explanation
Indices: 62799997--62800035 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62799987 GTCATACTTA
62799997 TTAGCCACA-ATT-CATTCAT
1 TTAG-CACATATTCCATTCAT
62800016 TTAGCACATATTCCATTCAT
1 TTAGCACATATTCCATTCAT
62800036 CTCACATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAGCACATATTCCATTCAT
Found at i:62801075 original size:25 final size:25
Alignment explanation
Indices: 62801047--62801100 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
62801037 TTCAATATCC
* *
62801047 ATAACACTAATTGCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
62801072 ATAACACCAATTCCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
62801097 ATAA
1 ATAA
62801101 TCAAAGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (25 bp):
ATAACACCAATTCCATACTCATGGA
Found at i:62804514 original size:40 final size:40
Alignment explanation
Indices: 62804455--62804642 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
62804445 GAGCATTGGA
* *
62804455 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
62804495 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
62804535 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
62804575 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
62804615 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
62804643 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:62808020 original size:93 final size:93
Alignment explanation
Indices: 62807908--62808079 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62807898 CGCCCATAAG
* *
62807908 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62807973 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
62808001 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62808066 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
62808080 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62808076 original size:46 final size:46
Alignment explanation
Indices: 62807901--62808076 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62807891 TGTAACCCGC
* * *
62807901 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62807947 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
62807997 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62808040 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62808077 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62815126 original size:93 final size:93
Alignment explanation
Indices: 62815014--62815185 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
62815004 CGCCCATAAG
* *
62815014 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
62815078 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
62815107 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
62815172 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
62815186 TAAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62815180 original size:46 final size:46
Alignment explanation
Indices: 62815007--62815182 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
62814997 TGTAACCCGC
* *
62815007 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
62815053 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
62815103 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62815146 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62815183 TGCTAAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62815201 original size:46 final size:48
Alignment explanation
Indices: 62815050--62815201 Score: 158
Period size: 46 Copynumber: 3.2 Consensus size: 48
62815040 CAGGCGTTCG
*
62815050 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTAATTA
* * *
62815100 CAT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--C--ATTCG
1 CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAATT-A
* *
62815143 CATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTAAAT-
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAATTA
62815191 CATCCT-AGTGA
1 CATCCTAAGTGA
62815202 CATGTCACTT
Statistics
Matches: 86, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 33 0.38
47 30 0.35
48 8 0.09
49 1 0.01
50 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (48 bp):
CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAATTA
Found at i:62816820 original size:7 final size:7
Alignment explanation
Indices: 62816808--62816835 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
62816798 GCCGAAGCCT
62816808 TTTCATA
1 TTTCATA
62816815 TTTCATA
1 TTTCATA
62816822 TTTCATA
1 TTTCATA
62816829 TTTCATA
1 TTTCATA
62816836 ACACTGGGCC
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:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:62819516 original size:39 final size:37
Alignment explanation
Indices: 62819473--62819577 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 37
62819463 TAGGCAAATA
62819473 CAGTTTGGGCCTAAGCCCATTTCAGTAACAGTCTAGTAC
1 CAGTTTGGGCCTAAGCCCATTTCA-TAACAGTC-AGTAC
* * * * *
62819512 CAGTTAGGGCCTCAGCCCATTACA-ATC--TCAGTAT
1 CAGTTTGGGCCTAAGCCCATTTCATAACAGTCAGTAC
* *
62819546 CAGTGTGGGCCTTAGCCCATTTCAATAACAGT
1 CAGTTTGGGCCTAAGCCCATTTC-ATAACAGT
62819578 AATAGAAATG
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
34 23 0.44
35 3 0.06
36 2 0.04
37 2 0.04
38 1 0.02
39 21 0.40
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (37 bp):
CAGTTTGGGCCTAAGCCCATTTCATAACAGTCAGTAC
Found at i:62822101 original size:12 final size:12
Alignment explanation
Indices: 62822086--62822111 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62822076 TGATAAGTTA
62822086 GTTGAATTGTAC
1 GTTGAATTGTAC
62822098 GTTGAATTGTAC
1 GTTGAATTGTAC
62822110 GT
1 GT
62822112 CAGTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (12 bp):
GTTGAATTGTAC
Found at i:62826145 original size:47 final size:48
Alignment explanation
Indices: 62826037--62826206 Score: 149
Period size: 47 Copynumber: 3.6 Consensus size: 48
62826027 CATTGTGGGC
* * * * * *
62826037 TAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA-GATGATAGT
* *
62826083 CAGTGAAAGACCATGTCTGGGACATGGCATCGG-TATCGAGAT-A-AGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGATAGT
*
62826129 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACGAGATGATAGT
1 --TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGATAGT
* *
62826177 TAGTGTAAGACCATGTATTGGACATGGCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCAT
62826207 TAACATGAGA
Statistics
Matches: 101, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
46 32 0.32
47 44 0.44
48 24 0.24
49 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGATAGT
Found at i:62826200 original size:94 final size:94
Alignment explanation
Indices: 62826035--62826206 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
62826025 GTCATTGTGG
* * *
62826035 GCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGAAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGAAAGACCATGTA
62826100 TGGGACATGGCATCGGTATCGAGATAAGT
66 TGGGACATGGCATCGGTATCGAGATAAGT
** * * ** *
62826129 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCTACGA-GATGATAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGAAAGACCATGT
*
62826193 ATTGGACATGGCAT
65 ATGGGACATGGCAT
62826207 TAACATGAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
94 65 0.98
95 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGAAAGACCATGTA
TGGGACATGGCATCGGTATCGAGATAAGT
Found at i:62831375 original size:25 final size:25
Alignment explanation
Indices: 62831342--62831409 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
62831332 TCAAAATGAA
62831342 AATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
* * *
62831367 AGTCAGAATCAAAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
*
62831392 AATTAGAATCAGAATCAG
1 AATCAGAATCAGAATCAG
62831410 TATCAGGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTGACAG
Found at i:62831404 original size:31 final size:31
Alignment explanation
Indices: 62831369--62831437 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
62831359 GGTGACAGAG
* * * *
62831369 TCAGAATCAAAATTAGGTGACAGAATTAGAA
1 TCAGAATCAAAATCAGGTAACAGAATCAAAA
**
62831400 TCAGAATCAGTATCAGGTAACAGAATCAAAA
1 TCAGAATCAAAATCAGGTAACAGAATCAAAA
62831431 TCAGAAT
1 TCAGAAT
62831438 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
TCAGAATCAAAATCAGGTAACAGAATCAAAA
Found at i:62831971 original size:27 final size:27
Alignment explanation
Indices: 62831941--62832320 Score: 390
Period size: 27 Copynumber: 14.2 Consensus size: 27
62831931 AACACCCTAG
* *
62831941 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
62831968 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* ** *
62831995 AGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * * *
62832022 TGGT-AAATGATAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
62832048 GGGTAAAATAGTAA-TTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
62832074 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
62832101 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* ** *
62832128 GTGTAAAACAGT-TTTTCTGTAAATCGA
1 GGGTAAAATGGTAATTT-TGTAAATCGA
**
62832155 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
62832182 GGGTAAAATGGTAATTTTGTAAAT-TA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
62832208 GGGTAAAACAGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
62832235 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
62832262 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*** ** *
62832289 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
62832316 GGGTA
1 GGGTA
62832321 TTTCAGGAAT
Statistics
Matches: 297, Mismatches: 51, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 66 0.22
27 228 0.77
28 3 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:62832052 original size:80 final size:81
Alignment explanation
Indices: 62831941--62832293 Score: 453
Period size: 80 Copynumber: 4.4 Consensus size: 81
62831931 AACACCCTAG
* * * * *
62831941 GGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAACAG
1 GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
*
62832006 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * * **
62832022 TGGT-AAATGATAATTCTATAAATTGAGGGTAAAATAGTAATT-TGTAAATCGAGGGTAAAATGG
1 GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
62832085 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * * ** * *
62832101 GGGTAAAACGATAATTCTGTAAATCGAGTGTAAAACAGTTTTTCTGTAAATCGAGGGTAAAATAA
1 GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
62832166 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * *
62832182 GGGTAAAATGGTAATTTTGTAAATT-AGGGTAAAACAGTAATTTTTTAAATCGAGGGTAAAACGG
1 GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
62832246 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
62832262 GGGTAAAAT-AGTAATTTTGTAAATTGAGGGTA
1 GGGTAAAATGA-TAATTTTGTAAATTGAGGGTA
62832294 CTTTGGTAAT
Statistics
Matches: 235, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
79 35 0.15
80 135 0.57
81 65 0.28
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (81 bp):
GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:62834492 original size:6 final size:6
Alignment explanation
Indices: 62834438--62834568 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
62834428 AAGAAACATT
* * * *
62834438 ATCAGA A-CTAGA ATCAAA ATGAAA ATCAGA ATTAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
62834487 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
62834536 ATCAGTA TTAAGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAG-A ATCAG-A ATCAGA ATCAGA ATCAGA AT
62834569 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
5 6 0.06
6 74 0.78
7 12 0.13
8 3 0.03
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:62834499 original size:31 final size:31
Alignment explanation
Indices: 62834461--62834568 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 31
62834451 TCAAAATGAA
62834461 AATCAGAATTAGAATCAGGTAACAGAATCAG
1 AATCAGAATTAGAATCAGGTAACAGAATCAG
* *
62834492 AATCAGAATTAGAATCAGAATTAGGTGACAGAATTAG
1 AATCAGAATTAGAATC------AGGTAACAGAATCAG
* * * * *
62834529 AATCAGAATCAGTATTAAGTAACAGAATCAA
1 AATCAGAATTAGAATCAGGTAACAGAATCAG
62834560 AATCAGAAT
1 AATCAGAAT
62834569 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 36 0.58
37 26 0.42
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (31 bp):
AATCAGAATTAGAATCAGGTAACAGAATCAG
Done.