Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3694.1
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: 110089
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.32
Warning! 1682 characters in sequence are not A, C, G, or T
Found at i:2530 original size:40 final size:40
Alignment explanation
Indices: 2486--2572 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
2476 TAACGACATA
*
2486 TCGGCTAAGA-GTGACACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAA-ATGTGACACTTAGTGTGCGATTTGAAATAGCT
* * *
2526 TCGGCTAAATGTGGCACTTGGTGTGCGATTTGAGATAGCT
1 TCGGCTAAATGTGACACTTAGTGTGCGATTTGAAATAGCT
2566 TCGGCTA
1 TCGGCTA
2573 TATATATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (40 bp):
TCGGCTAAATGTGACACTTAGTGTGCGATTTGAAATAGCT
Found at i:2655 original size:28 final size:28
Alignment explanation
Indices: 2583--2659 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
2573 TATATATATC
* *
2583 TATGGCACTTAGTGTGTGAAATATTGAG
1 TATGGCACTTAGTGTGCGAGATATTGAG
*
2611 AATGGCACTT-GATGTGCGAGATATTGAG
1 TATGGCACTTAG-TGTGCGAGATATTGAG
*
2639 TATGGCACTTAGCGTGCGAGA
1 TATGGCACTTAGTGTGCGAGA
2660 CATCGAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 40 0.95
29 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGATATTGAG
Found at i:4135 original size:164 final size:164
Alignment explanation
Indices: 3857--4184 Score: 584
Period size: 164 Copynumber: 2.0 Consensus size: 164
3847 ATTTTCATTT
3857 ATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGAGGGTTAAGTACATACCTGTTCAA
1 ATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGAGGGTTAAGTACATACCTGTTCAA
* *
3922 AGTATTCATTTCACAACACTTACCAATACGTCCCTTTCATCTCGAGTATTCCTCCATTTGAGTAG
66 AGTATCCATTTCACAACACTTACCAATACATCCCTTTCATCTCGAGTATTCCTCCATTTGAGTAG
*
3987 AATTTTACCCGTTGAACACATCGGAATATAATTC
131 AACTTTACCCGTTGAACACATCGGAATATAATTC
* *
4021 ATCATCTTACCATATTGTTGTTATATCGATTTTTCAACCTGAGGGTTAAGTACATACCTGTTCAA
1 ATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGAGGGTTAAGTACATACCTGTTCAA
* * *
4086 CGTATCCATTTCACAACACTTACCAATACATCTCTTTCATCTTGAGTATTCCTCCATTTGAGTAG
66 AGTATCCATTTCACAACACTTACCAATACATCCCTTTCATCTCGAGTATTCCTCCATTTGAGTAG
4151 AACTTTACCCGTTGAACACATCGGAATATAATTC
131 AACTTTACCCGTTGAACACATCGGAATATAATTC
4185 GGATACATGG
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (164 bp):
ATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGAGGGTTAAGTACATACCTGTTCAA
AGTATCCATTTCACAACACTTACCAATACATCCCTTTCATCTCGAGTATTCCTCCATTTGAGTAG
AACTTTACCCGTTGAACACATCGGAATATAATTC
Found at i:4361 original size:93 final size:93
Alignment explanation
Indices: 4253--4611 Score: 576
Period size: 93 Copynumber: 3.9 Consensus size: 93
4243 CGCCCATAAG
* * * * *
4253 CGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
4318 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
4346 CGAACTCGGACTCAACTCAACGAGTTCAGG-CATTCGCATCTATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
4410 AACGAGCTCAGATGCCTAGTTACATCTCT
65 AACGAGCTCAGATGCCTAGTTACATCTCT
* *
4439 CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4504 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
* *
4532 CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
4597 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
4612 CAACCATCCT
Statistics
Matches: 252, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
92 2 0.01
93 248 0.98
94 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:4367 original size:47 final size:47
Alignment explanation
Indices: 4301--4553 Score: 245
Period size: 47 Copynumber: 5.4 Consensus size: 47
4291 TCCATAAGTA
4301 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
* * * * *
4348 AACTCGGACTCAACTCAACGAGTTCAGGCATTCGC-A--T-C-TATAAGTG
1 AACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTTACATCTCA-CG
* *
4394 AACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCTCG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
* * * * * *
4441 AACTCGGACTCAACTCAACGTGTTCGGA---C-ATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-CG
* *
4487 AACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCTCG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
4534 AACTCGGACTCAACTCAACG
1 AACTCGGACTCAACTCAACG
4554 TGTTCGGACA
Statistics
Matches: 162, Mismatches: 28, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
43 7 0.04
44 6 0.04
45 5 0.03
46 53 0.33
47 73 0.45
48 5 0.03
49 6 0.04
50 7 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
Found at i:4607 original size:46 final size:46
Alignment explanation
Indices: 4246--4607 Score: 271
Period size: 46 Copynumber: 7.8 Consensus size: 46
4236 TGTAACCCGC
* * * *
4246 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
** * *
4292 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
4342 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * * * *
4385 CTATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* *
4435 CTC-T---CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
4478 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* *
4528 CTC-T---CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
4571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
4608 TGCCCAACCA
Statistics
Matches: 247, Mismatches: 43, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.01
43 21 0.09
44 5 0.02
45 2 0.01
46 114 0.46
47 73 0.30
48 5 0.02
49 5 0.02
50 19 0.08
51 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:10511 original size:25 final size:25
Alignment explanation
Indices: 10434--10525 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 25
10424 CTCTCGAGCA
* * *
10434 TATAATAGGAAGCTCATGTGAGCCA
1 TATAACAGGAAGCTCATGAGAGCCG
* * * * **
10459 TGTAACGGGAAGCTTATTCAG-GTTG
1 TATAACAGGAAGCTCA-TGAGAGCCG
10484 TATAACAGGAAGCTCATGAGAGCCG
1 TATAACAGGAAGCTCATGAGAGCCG
*
10509 TAT-TCAGGAAGCTCATG
1 TATAACAGGAAGCTCATG
10526 CGATCCAATA
Statistics
Matches: 49, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
24 16 0.33
25 31 0.63
26 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (25 bp):
TATAACAGGAAGCTCATGAGAGCCG
Found at i:14687 original size:38 final size:38
Alignment explanation
Indices: 14635--14723 Score: 142
Period size: 38 Copynumber: 2.3 Consensus size: 38
14625 CTCCGTCCAG
*
14635 CCCTACACTCCATGTGAGGATAACCTCAACCCACCCAT
1 CCCTACACTCCATGTGAGGATAACATCAACCCACCCAT
* *
14673 CCCTACACTGCATGTGAGGATAACATCATCCCACCCAT
1 CCCTACACTCCATGTGAGGATAACATCAACCCACCCAT
*
14711 CACTACACTCCAT
1 CCCTACACTCCAT
14724 AATAGCACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.29, C:0.40, G:0.10, T:0.20
Consensus pattern (38 bp):
CCCTACACTCCATGTGAGGATAACATCAACCCACCCAT
Found at i:20713 original size:68 final size:68
Alignment explanation
Indices: 20604--20739 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
20594 GCAAGAATTG
*
20604 ACGGATAGAGGTTTTGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTCGTGAAAAA
1 ACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTCGTGAAAAA
20669 GAA
66 GAA
20672 ACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTCGTGAAAAA
1 ACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTCGTGAAAAA
20737 GAA
66 GAA
20740 GGACAGAACC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (68 bp):
ACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTCGTGAAAAA
GAA
Found at i:25087 original size:39 final size:41
Alignment explanation
Indices: 24992--25175 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
24982 TTGAATGATG
*
24992 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
25031 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
25071 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
25110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
25150 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25176 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:25197 original size:79 final size:79
Alignment explanation
Indices: 25044--25208 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
25034 GGACTAAGAT
* **
25044 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
25109 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25123 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-G
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATA
* *
25185 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
25202 CCGAAGG
1 CCGAAGG
25209 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.61
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:28606 original size:47 final size:47
Alignment explanation
Indices: 28543--29119 Score: 913
Period size: 47 Copynumber: 12.3 Consensus size: 47
28533 CCCTTCGGGA
* * * *
28543 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
* * * * *
28590 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
* * **
28637 CTTATCTCATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28684 CTTGTCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28731 TTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28778 TTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28825 TTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28872 TTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
28919 TTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
* * *
28966 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
* *
29013 CATATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
*
29060 CTTGTCACATATATACACTTTCACATTCATCC-CATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCA-CCACATTGGCCATTAGGC
29107 CTTATCACATATA
1 CTTATCACATATA
29120 CATATCTTGT
Statistics
Matches: 503, Mismatches: 26, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 502 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCACCACATTGGCCATTAGGC
Found at i:40020 original size:31 final size:31
Alignment explanation
Indices: 39977--40036 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
39967 AAATAAGGTT
*
39977 TTAAACGGGTGTTGTTTACCTTAAAAGTGCC
1 TTAAACGAGTGTTGTTTACCTTAAAAGTGCC
*
40008 TTAAACGAGTGTTGTTTACTTTAAAAGTG
1 TTAAACGAGTGTTGTTTACCTTAAAAGTG
40037 TCGAATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (31 bp):
TTAAACGAGTGTTGTTTACCTTAAAAGTGCC
Found at i:44947 original size:22 final size:22
Alignment explanation
Indices: 44920--44994 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
44910 CATGTGTATG
44920 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
44942 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
44967 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
44989 TGTGAT
1 TGTGAT
44995 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:45009 original size:47 final size:47
Alignment explanation
Indices: 44025--45001 Score: 1794
Period size: 47 Copynumber: 20.7 Consensus size: 47
44015 AGTATATATA
* * * * *
44025 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA-CATGTGTATG
* *
44074 CGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
44121 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
44168 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44215 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44262 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44309 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44356 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44403 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44450 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44497 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44544 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44591 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44638 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44685 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44732 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44779 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44826 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
44873 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
44920 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
*
44967 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
45002 GAAGTGTATA
Statistics
Matches: 907, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
46 1 0.00
47 873 0.96
48 2 0.00
49 31 0.03
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:48505 original size:10 final size:10
Alignment explanation
Indices: 48491--48564 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 10
48481 GGAAAAAAAT
*
48491 AAATAAAATA
1 AAATATAATA
*
48501 TAATA-AATA
1 AAATATAATA
48510 AAATATAAT-
1 AAATATAATA
*
48519 AAGTATAATA
1 AAATATAATA
* *
48529 AACTATATTTA
1 AAATATA-ATA
*
48540 AAATTATTATA
1 AAA-TATAATA
48551 AAATATATATA
1 AAATATA-ATA
48562 AAA
1 AAA
48565 AGAAATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 16 0.32
10 16 0.32
11 15 0.30
12 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATATAATA
Found at i:48514 original size:23 final size:23
Alignment explanation
Indices: 48486--48530 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48476 CGGTAGGAAA
48486 AAAATA-AATAAAATATAATAAAT
1 AAAATATAAT-AAATATAATAAAT
*
48509 AAAATATAATAAGTATAATAAA
1 AAAATATAATAAATATAATAAA
48531 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATATAATAAATATAATAAAT
Found at i:48528 original size:14 final size:14
Alignment explanation
Indices: 48488--48520 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
48478 GTAGGAAAAA
48488 AATAAATAAAATAT
1 AATAAATAAAATAT
48502 AATAAATAAAATAT
1 AATAAATAAAATAT
48516 AATAA
1 AATAA
48521 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:50274 original size:46 final size:46
Alignment explanation
Indices: 50222--50364 Score: 138
Period size: 46 Copynumber: 3.2 Consensus size: 46
50212 AGTGGCTAAA
50222 ATCTGCTCCATTGCCGATACATGGAGATAAGACTTGCCAAAATTTG
1 ATCTGCTCCATTGCCGATACATGGAGATAAGACTTGCCAAAATTTG
* * * * * *
50268 ATCTGCTTCACT-CCTGCT-CAGTGAAGATAAGGA-TAGTGGCTAAA----
1 ATCTGCTCCATTGCC-GATACA-TGGAGATAA-GACT--TGCCAAAATTTG
50312 ATCTGCTCCATTGCCGATACATGGAGATAAGACTTGCCAAAATTTG
1 ATCTGCTCCATTGCCGATACATGGAGATAAGACTTGCCAAAATTTG
50358 ATCTGCT
1 ATCTGCT
50365 TCACTCCTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
42 6 0.08
43 2 0.03
44 21 0.29
45 8 0.11
46 28 0.38
47 2 0.03
48 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
ATCTGCTCCATTGCCGATACATGGAGATAAGACTTGCCAAAATTTG
Found at i:50276 original size:90 final size:90
Alignment explanation
Indices: 50180--50388 Score: 418
Period size: 90 Copynumber: 2.3 Consensus size: 90
50170 TATGTTTAGC
50180 CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
50245 GAGATAAGACTTGCCAAAATTTGAT
66 GAGATAAGACTTGCCAAAATTTGAT
50270 CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
50335 GAGATAAGACTTGCCAAAATTTGAT
66 GAGATAAGACTTGCCAAAATTTGAT
50360 CTGCTTCACTCCTGCTCAGTGAAGATAAG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAG
50389 ATCTGGTATG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 119 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (90 bp):
CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
GAGATAAGACTTGCCAAAATTTGAT
Found at i:50431 original size:135 final size:135
Alignment explanation
Indices: 50270--50706 Score: 682
Period size: 135 Copynumber: 3.2 Consensus size: 135
50260 AAAATTTGAT
* *
50270 CTGCTTCACTCCTGCTCAGTGAAGATAAGGATAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* *
50335 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGT
66 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATGT
50400 TTAGC
131 TTAGC
*
50405 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
50470 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATGT
66 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATGT
50535 TTAGC
131 TTAGC
* ** ** ** * *
50540 TTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-GATGATTGGAATCTGCTCCATCACCGGTACGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAG-TGGCTAAAATCTGCTCCATTGCCGATACAT
*
50604 GGAGATAAGA-TT-CATCAAAATTCGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTA
65 GGAGATAAGACTTGC--CAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTA
*
50667 TTTTTAGC
128 TGTTTAGC
50675 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
50707 GATGATATCT
Statistics
Matches: 281, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
133 1 0.00
134 3 0.01
135 277 0.99
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (135 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATGT
TTAGC
Found at i:50558 original size:45 final size:46
Alignment explanation
Indices: 50357--50703 Score: 180
Period size: 45 Copynumber: 7.7 Consensus size: 46
50347 GCCAAAATTT
* * *
50357 GATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
* * ** * * * *
50403 G-CCTACTCCACTCCTGCTCAGTGAAGATAAG-GCTAGT-GGCTAA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
* * * * * ** ** *
50446 AATCTGCTCCATTGCC-GATACA-TGGAGATAAGACTTGCCAAAATTT
1 GATCTGCTCCACT-CCTGCT-CAGTGAAGATAAGATTTGGTATGATTA
* * *
50492 GATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATGTTTA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
* ** *
50538 GCT-TGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-G-ATGATTG
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
* * * ** ** *
50580 GAATCTGCTCCA-TCACCGGT-ACGTGGAGATAAGA-TTCATCAAAATTC
1 G-ATCTGCTCCACTC-CTGCTCA-GTGAAGATAAGATTTGGT-ATGATTA
* * **
50627 GATCTGCTTCACTCCTACTCAGTGAAGATAAGATTTGGTATTTTTA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
*
50673 G-CCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAG
50704 GCTGATGATA
Statistics
Matches: 216, Mismatches: 67, Indels: 37
0.68 0.21 0.12
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
44 45 0.21
45 89 0.41
46 57 0.26
47 11 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (46 bp):
GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTTGGTATGATTA
Found at i:62356 original size:10 final size:10
Alignment explanation
Indices: 62342--62415 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 10
62332 GGAAAAAAAT
*
62342 AAATAAAATA
1 AAATATAATA
*
62352 TAATA-AATA
1 AAATATAATA
62361 AAATATAAT-
1 AAATATAATA
*
62370 AAGTATAATA
1 AAATATAATA
* *
62380 AACTATATTTA
1 AAATATA-ATA
*
62391 AAATTATTATA
1 AAA-TATAATA
62402 AAATATATATA
1 AAATATA-ATA
62413 AAA
1 AAA
62416 GGAAATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 16 0.32
10 16 0.32
11 15 0.30
12 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATATAATA
Found at i:62365 original size:23 final size:23
Alignment explanation
Indices: 62337--62381 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62327 CGGTAGGAAA
62337 AAAATA-AATAAAATATAATAAAT
1 AAAATATAAT-AAATATAATAAAT
*
62360 AAAATATAATAAGTATAATAAA
1 AAAATATAATAAATATAATAAA
62382 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATATAATAAATATAATAAAT
Found at i:62379 original size:14 final size:14
Alignment explanation
Indices: 62339--62371 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
62329 GTAGGAAAAA
62339 AATAAATAAAATAT
1 AATAAATAAAATAT
62353 AATAAATAAAATAT
1 AATAAATAAAATAT
62367 AATAA
1 AATAA
62372 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:88340 original size:27 final size:27
Alignment explanation
Indices: 88302--89213 Score: 1075
Period size: 27 Copynumber: 33.8 Consensus size: 27
88292 ATTACCAAAG
* *
88302 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * *
88329 TGCCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* **
88356 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * * *
88383 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88410 TACCCTCGATTTACAGAATTA-CTGGTT
1 TACCCTCGATTTATAGAATTATC-GTTT
*
88437 TACCCTC-AGTTTACAGAATTATCGTTT
1 TACCCTCGA-TTTATAGAATTATCGTTT
* *
88464 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTATAGAATTATC-GTTT
* * * **
88491 TAACCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * *
88518 TACCCTCGATTTACAAAATTACTAG-TT
1 TACCCTCGATTTATAGAATTA-TCGTTT
* *
88545 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTATAGAATTATC-GTTT
**
88572 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * *
88599 TACCCTTGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88626 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88653 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88680 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTATAGAATTATC-GTTT
* * *
88707 TACCCTTGATTTACAGAATTACTAG-TT
1 TACCCTCGATTTATAGAATTA-TCGTTT
* * * *
88734 TACCCTTGGTTTACAGAATTATCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88761 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88788 TGCCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88815 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88842 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88869 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88896 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88923 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
88950 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
88977 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
89004 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
89031 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
89058 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
89085 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
89112 TACCGTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
89139 TACCCTCGGTTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* *
89166 TACCCTC-AGTTTACAGAATTACCGTTT
1 TACCCTCGA-TTTATAGAATTATCGTTT
*
89193 TACCCTCGATTTACAGAATTA
1 TACCCTCGATTTATAGAATTA
89214 CTGAAATACC
Statistics
Matches: 771, Mismatches: 98, Indels: 32
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 762 0.99
28 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCGTTT
Found at i:89237 original size:27 final size:27
Alignment explanation
Indices: 89207--89322 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
89197 CTCGATTTAC
* *
89207 AGAATTACTGAAATACCCCTATAGGTT
1 AGAATTACTGAAATACCCCTGTAGGGT
89234 AGAATTACTGAAATACCCCTGTAGGGT
1 AGAATTACTGAAATACCCCTGTAGGGT
*
89261 AGAATTACTAAAATACCCCTGTAGGGT
1 AGAATTACTGAAATACCCCTGTAGGGT
* * * *
89288 AGAATTACCGAGATACCCTTGTGGGGT
1 AGAATTACTGAAATACCCCTGTAGGGT
*
89315 AAAATTAC
1 AGAATTAC
89323 CATTTTGCCC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AGAATTACTGAAATACCCCTGTAGGGT
Found at i:90027 original size:27 final size:27
Alignment explanation
Indices: 89973--90054 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
89963 TATTCTGTTA
* *
89973 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
*
90000 GGTGGCTCTGCCACAATATTTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
90027 GGTGACTCTGTCACGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
90053 GG
1 GG
90055 CAGTCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.11
27 41 0.87
28 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:91066 original size:68 final size:67
Alignment explanation
Indices: 90987--91177 Score: 192
Period size: 68 Copynumber: 2.8 Consensus size: 67
90977 GTCCTGATGG
* * *
90987 ACTTCATATGTTGTCATAGCCCAACAATGGTCTTATGTAATATGATGTCATGTTTACTAT-CTTG
1 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTAT-TAATATGATGTCATGTTTACTATCCTTG
91051 -GTAA
65 CG--A
* * ** *
91055 ACTTCATATGTTGCCATTGCCGAGCTACAGTCTT-TCACTATATGATGTCATGTTTACTATCCTT
1 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTATTA--ATATGATGTCATGTTTACTATCCTT
*
91119 GCGG
64 GCGA
* *
91123 ACTTCATATGTTGCCATAGCTCAGCTATGGTCTTACATAATATGATAG-CATGTTT
1 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTA-TTAATATGAT-GTCATGTTT
91178 TCCCATGAAC
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
66 1 0.01
67 1 0.01
68 91 0.91
69 5 0.05
70 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (67 bp):
ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTATTAATATGATGTCATGTTTACTATCCTTGC
GA
Found at i:96524 original size:40 final size:41
Alignment explanation
Indices: 96439--96598 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
96429 AAAACACAAA
* * ** *
96439 CAGAGCAATAGCGGCGTTTTTTACTAAAACGCCGCTAAA-AA
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
**
96480 CAGAGCA-TAGCGGCGCTTTTGGTAAAACGCTACTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
96520 CAGAGCATTAGTGGCGCTTTTGGTAAAACGCCGCTACAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
96561 CAGAGCATTAGTGGCGCTTTTGGTAAAACGTCGCTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
96599 AGTTATATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 17 0.16
40 16 0.15
41 72 0.69
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:96544 original size:41 final size:41
Alignment explanation
Indices: 96463--96598 Score: 204
Period size: 41 Copynumber: 3.4 Consensus size: 41
96453 CGTTTTTTAC
* *
96463 TAAAACGCCGCTAAA-AACAGAGCA-TAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTTTGG
**
96502 TAAAACGCTACTAAAGACCAGAGCATTAGTGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTTTGG
*
96543 TAAAACGCCGCTACAGACCAGAGCATTAGTGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTTTGG
*
96584 TAAAACGTCGCTAAA
1 TAAAACGCCGCTAAA
96599 AGTTATATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.15
40 8 0.09
41 65 0.76
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (41 bp):
TAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTTTGG
Found at i:96778 original size:14 final size:14
Alignment explanation
Indices: 96756--96855 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 14
96746 TTAATTATCA
*
96756 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
96770 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
96784 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
96798 TTAAGGTTTATGAGT
1 TTATGGTTTAAG-GT
*
96813 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGGT
* *
96830 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
96844 TTAAGGTTTAAG
1 TTATGGTTTAAG
96856 AGTTAACTAG
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 52 0.80
15 3 0.05
17 1 0.02
18 9 0.14
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:96791 original size:21 final size:21
Alignment explanation
Indices: 96767--96848 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
96757 TATAGTTTAA
*
96767 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
96788 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
96809 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
96834 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
96849 GTTTAAGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 3 0.06
25 15 0.30
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:96821 original size:46 final size:46
Alignment explanation
Indices: 96771--96864 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
96761 GTTTAAGGTT
*
96771 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
96817 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
96863 TA
1 TA
96865 GTATTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:96854 original size:7 final size:7
Alignment explanation
Indices: 96761--96855 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
96751 TATCATTATA
96761 GTTTAAG
1 GTTTAAG
*
96768 GTTTATG
1 GTTTAAG
96775 GTTTAAG
1 GTTTAAG
* * *
96782 ATATATG
1 GTTTAAG
*
96789 GTTTAGG
1 GTTTAAG
96796 GTTTAAG
1 GTTTAAG
*
96803 GTTTATG
1 GTTTAAG
*
96810 AGTTAACTATG
1 -GTT---TAAG
96821 GTTTAAG
1 GTTTAAG
* * *
96828 ATATATG
1 GTTTAAG
*
96835 GTTTAGG
1 GTTTAAG
96842 GTTTAAG
1 GTTTAAG
96849 GTTTAAG
1 GTTTAAG
96856 AGTTAACTAG
Statistics
Matches: 66, Mismatches: 18, Indels: 8
0.72 0.20 0.09
Matches are distributed among these distances:
7 56 0.85
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (7 bp):
GTTTAAG
Found at i:99441 original size:14 final size:14
Alignment explanation
Indices: 99422--99452 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
99412 TGTCATGTAT
99422 TTCTTGAAATATGA
1 TTCTTGAAATATGA
99436 TTCTTGAAATATGA
1 TTCTTGAAATATGA
99450 TTC
1 TTC
99453 GATTGATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (14 bp):
TTCTTGAAATATGA
Found at i:102296 original size:19 final size:19
Alignment explanation
Indices: 102274--102314 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
102264 TTTATTGATA
102274 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
102292 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
102311 TTTT
1 TTTT
102315 GATTCTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:102333 original size:19 final size:20
Alignment explanation
Indices: 102303--102346 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
102293 TTTTATTATT
102303 TATTTTAGTTTTGATTCTAA
1 TATTTTAGTTTTGATTCTAA
* *
102323 TATTTTA-TTTTTATTTTAA
1 TATTTTAGTTTTGATTCTAA
102342 TATTT
1 TATTT
102347 AAGATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TATTTTAGTTTTGATTCTAA
Found at i:102640 original size:43 final size:43
Alignment explanation
Indices: 102574--102657 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
102564 TTTGAATTTG
102574 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCA
1 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCA
* * **
102617 TGACCTTTAGCGGTGTTTGTGGGAAAAGCTTCGCTAAAGGC
1 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
102658 TGTAACACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCA
Found at i:103533 original size:37 final size:37
Alignment explanation
Indices: 103474--103619 Score: 213
Period size: 37 Copynumber: 3.9 Consensus size: 37
103464 AGCTCAGATG
* *
103474 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
103511 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
** *
103547 TATTTTTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
103585 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
103620 ATATATTTCC
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 94 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:103572 original size:74 final size:74
Alignment explanation
Indices: 103479--103630 Score: 259
Period size: 74 Copynumber: 2.1 Consensus size: 74
103469 AGATGAAATC
*
103479 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
*
103544 GAATATTTT
66 GAATATATT
* * *
103553 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
103618 GAATATATT
66 GAATATATT
103627 TCCA
1 TCCA
103631 AGTTTCATGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (74 bp):
TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
GAATATATT
Found at i:103819 original size:48 final size:48
Alignment explanation
Indices: 103766--103967 Score: 296
Period size: 48 Copynumber: 4.2 Consensus size: 48
103756 CCACACCTCC
* * * *
103766 TACATACTTAACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
103814 TACATATTTCACACTAGCCATTCGGGTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
103864 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
103912 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
103960 TACATATT
1 TACATATT
103968 ACCACATATA
Statistics
Matches: 140, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
48 96 0.69
50 44 0.31
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:103882 original size:98 final size:98
Alignment explanation
Indices: 103780--103966 Score: 311
Period size: 98 Copynumber: 1.9 Consensus size: 98
103770 TACTTAACAC
* * * **
103780 TAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGGTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGACTTTAC
*
103845 CACATATACATATCTCATATATATATTTCACAT
66 CACATATACATATCTCATACATATATTTCACAT
*
103878 TAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGACTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGACTTTAC
103943 CACATATACATATCTCATACATAT
66 CACATATACATATCTCATACATAT
103967 TACCACATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (98 bp):
TAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGACTTTAC
CACATATACATATCTCATACATATATTTCACAT
Found at i:103980 original size:16 final size:16
Alignment explanation
Indices: 103959--104036 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 16
103949 TACATATCTC
103959 ATACATATTACCACAT
1 ATACATATTACCACAT
*
103975 ATACATA-T--CTC--
1 ATACATATTACCACAT
103986 ATACATATTACCACAT
1 ATACATATTACCACAT
*
104002 ATACATA-T--CTC--
1 ATACATATTACCACAT
104013 ATACATATTACCACAT
1 ATACATATTACCACAT
104029 ATACATAT
1 ATACATAT
104037 CTCATACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
11 14 0.29
12 2 0.04
13 4 0.08
14 4 0.08
15 2 0.04
16 22 0.46
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (16 bp):
ATACATATTACCACAT
Found at i:104002 original size:48 final size:48
Alignment explanation
Indices: 103966--104720 Score: 1413
Period size: 48 Copynumber: 15.6 Consensus size: 48
103956 CTCATACATA
* * *
103966 TTACCACATATACATATCTCATACATATTACCACATATA-CATATCTCATACAT
1 TTACCACATATACATATCTCATACATATT-TCACAT-TAGC-CAT-TC-GAC-T
104019 ATTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 -TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104068 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104116 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104164 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104212 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104260 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104308 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104356 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104404 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104452 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104500 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104548 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104596 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104644 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104692 TTACCACATATACATATCTCATACATATT
1 TTACCACATATACATATCTCATACATATT
104721 ACCACATATA
Statistics
Matches: 697, Mismatches: 3, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
48 653 0.94
49 1 0.00
50 2 0.00
51 2 0.00
52 4 0.01
53 6 0.01
54 29 0.04
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (48 bp):
TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
Found at i:104186 original size:225 final size:220
Alignment explanation
Indices: 103793--104832 Score: 1039
Period size: 240 Copynumber: 4.5 Consensus size: 220
103783 CCCTTCGGCT
* **
103793 TTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGGTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATAT
* *
103858 CTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
66 CTCA-ATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCCCATACATATTTCA
*
103923 CATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTACCACATATA-CATATCTCA
130 CATTAGCCATTCGACTTTACCACATATACATATCTCATACATATT-CCACAT-TAGC-CAT-TC-
*
103987 TACATATTACCACATATACATATCTCATACATA
190 GAC-T-TTACCACATATACATATCTCATACATA
*
104020 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATAT
*
104085 CTC-ATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCAC
66 CTCAATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCCCATACATATTTCAC
*
104149 ATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTT
131 ATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTCCACATTAGCCATTCGACTTT
104214 ACCACATATACATATCTCATACATA
196 ACCACATATACATATCTCATACATA
* * * * * * * * * *
104239 TT-TCACAT-TAGCCAT-TCGACTTTACCACATATACATATCTCATACATATTTC-ACATTAGC-
1 TTACCACATATA--CATATC-TC-ATA-CATAT-TTCACA-CT-A-GC-CA-TTCGACTTTACCA
* * * *
104299 CAT-TCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCAC
55 CATAT--AC-ATATCTCA-ATACATAT-T--T-CACA-TT---A---GCCATTCGACTTTACCAC
*
104363 ATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATAC
105 ATATACATATCCCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATAC
*
104428 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
170 ATATTCCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
* * * * * * * * * *
104479 TT-TCACAT-TAGCCAT-TCGACTTTACCACATATACATATCTCATACATATTTC-ACATTAGC-
1 TTACCACATATA--CATATC-TC-ATA-CATAT-TTCACA-CT-A-GC-CA-TTCGACTTTACCA
* * * *
104539 CAT-TCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCAC
55 CATAT--AC-ATATCTCA-ATACATAT-T--T-CACA-TT---A---GCCATTCGACTTTACCAC
*
104603 ATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATAC
105 ATATACATATCCCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATAC
*
104668 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
170 ATATTCCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
*
104719 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATAT
*
104784 CTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
66 CTCAATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATC
104833 TTTATCTTGT
Statistics
Matches: 738, Mismatches: 41, Indels: 76
0.86 0.05 0.09
Matches are distributed among these distances:
217 2 0.00
218 7 0.01
219 61 0.08
220 3 0.00
221 6 0.01
222 7 0.01
223 5 0.01
224 8 0.01
225 108 0.15
226 12 0.02
227 72 0.10
229 9 0.01
230 9 0.01
232 8 0.01
233 12 0.02
234 6 0.01
235 2 0.00
236 1 0.00
237 5 0.01
238 4 0.01
239 2 0.00
240 380 0.51
241 7 0.01
242 2 0.00
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (220 bp):
TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATAT
CTCAATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCCCATACATATTTCAC
ATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTCCACATTAGCCATTCGACTTT
ACCACATATACATATCTCATACATA
Found at i:104730 original size:75 final size:75
Alignment explanation
Indices: 104644--104795 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
104634 CCATTCGACT
104644 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
104709 CTCATACATA
66 CTCATACATA
104719 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
104784 CTCATACATA
66 CTCATACATA
104794 TT
1 TT
104796 TCACATTAGC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (75 bp):
TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
CTCATACATA
Found at i:104740 original size:123 final size:123
Alignment explanation
Indices: 104596--104833 Score: 467
Period size: 123 Copynumber: 1.9 Consensus size: 123
104586 CCATTCGACT
104596 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
104661 CTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
66 CTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
104719 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
*
104784 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
66 CTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCT
104834 TTATCTTGTG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 114 1.00
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (123 bp):
TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
CTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATA
Found at i:104772 original size:48 final size:48
Alignment explanation
Indices: 104719--104833 Score: 221
Period size: 48 Copynumber: 2.4 Consensus size: 48
104709 CTCATACATA
104719 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
*
104767 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
1 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
104815 TTACCACATATACATATCT
1 TTACCACATATACATATCT
104834 TTATCTTGTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (48 bp):
TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACT
Found at i:108848 original size:40 final size:40
Alignment explanation
Indices: 108759--109915 Score: 1818
Period size: 40 Copynumber: 29.0 Consensus size: 40
108749 GAATACACAT
*
108759 CACCAGCAT-GAATGCTCTTCGAGACTTAGCCCGG--ATAA
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
108797 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
108837 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
108877 CACTAGCAT-GAATGCTCTTCGGGACTTAGCCCTGATATAT
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
108917 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
108957 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
108997 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109037 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109077 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109117 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109157 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109197 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109237 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109277 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109317 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109357 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109397 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109437 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109477 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109517 CACCAACTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
109557 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
109597 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
109637 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
109677 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
109717 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
109757 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
109797 CACTAGCACGAATGATCCTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
109837 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
109877 CACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATA
109916 TCACTCTCAA
Statistics
Matches: 1031, Mismatches: 83, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
37 1 0.00
38 28 0.03
40 1001 0.97
41 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
Done.