Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 198 of 202
Found at i:60536079 original size:14 final size:14
Alignment explanation
Indices: 60536060--60536087 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60536050 TTAAAAATAT
60536060 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
60536074 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
60536088 AAATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:60544445 original size:25 final size:24
Alignment explanation
Indices: 60544409--60544527 Score: 69
Period size: 25 Copynumber: 4.7 Consensus size: 24
60544399 CGAAATGATT
* *
60544409 AAAAACTTGATGGAAAATTTTATG
1 AAAAACTTGATGAAAAACTTTATG
*
60544433 AAAAGACTTGATGAAAAACTTTA-A
1 AAAA-ACTTGATGAAAAACTTTATG
* * * *
60544457 AAAGAACTTGCTGCAAAACTTGATAA
1 AAA-AACTTGATGAAAAACTTTAT-G
* * *
60544483 AAAAACTTGGTAATTAAAAACTTGATA
1 AAAAACTT-G--ATGAAAAACTTTATG
*
60544510 AAAGAACTAGATGAAAAA
1 AAA-AACTTGATGAAAAA
60544528 TACTTGAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
24 22 0.29
25 29 0.38
26 5 0.07
27 5 0.07
28 15 0.20
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.25
Consensus pattern (24 bp):
AAAAACTTGATGAAAAACTTTATG
Found at i:60544448 original size:13 final size:12
Alignment explanation
Indices: 60544404--60544527 Score: 70
Period size: 12 Copynumber: 9.8 Consensus size: 12
60544394 AAAAACGAAA
*
60544404 TGATTAAAAACT
1 TGATGAAAAACT
* *
60544416 TGATGGAAAATT
1 TGATGAAAAACT
*
60544428 TTATGAAAAGACT
1 TGATGAAAA-ACT
60544441 TGATGAAAAACT
1 TGATGAAAAACT
* *
60544453 TTA-AAAAGAACT
1 TGATGAAA-AACT
* *
60544465 TGCTGCAAAACT
1 TGATGAAAAACT
*
60544477 TGATAAAAAAACT
1 TGAT-GAAAAACT
*
60544490 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
60544505 TGATAAAAGAACT
1 TGATGAAA-AACT
*
60544518 AGATGAAAAA
1 TGATGAAAAA
60544528 TACTTGAAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
11 3 0.04
12 40 0.48
13 29 0.35
14 2 0.02
15 8 0.10
16 2 0.02
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:60544503 original size:15 final size:13
Alignment explanation
Indices: 60544471--60544534 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 13
60544461 AACTTGCTGC
60544471 AAAACTTGATAAA
1 AAAACTTGATAAA
*
60544484 AAAACTTGGTAATTA
1 AAAACTTGATAA--A
60544499 AAAACTTGATAAA
1 AAAACTTGATAAA
* *
60544512 AGAACTAGATGAAA
1 AAAACTTGAT-AAA
*
60544526 AATACTTGA
1 AAAACTTGA
60544535 AGAATGAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
13 20 0.49
14 9 0.22
15 12 0.29
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (13 bp):
AAAACTTGATAAA
Found at i:60545443 original size:14 final size:14
Alignment explanation
Indices: 60545424--60545450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60545414 ATTATTCATT
60545424 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
60545438 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
60545451 TTTGAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:60545913 original size:17 final size:18
Alignment explanation
Indices: 60545881--60545928 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
60545871 GTTTTCCTGT
60545881 AAAAATAAAA-ATGAAAA
1 AAAAATAAAATATGAAAA
*
60545898 TAAAATAAAATA-GAAAA
1 AAAAATAAAATATGAAAA
60545915 AATAAATAATAATA
1 AA-AAATAA-AATA
60545929 ATAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 15 0.58
18 7 0.27
19 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAAATAAAATATGAAAA
Found at i:60549236 original size:12 final size:12
Alignment explanation
Indices: 60549154--60549283 Score: 57
Period size: 12 Copynumber: 10.2 Consensus size: 12
60549144 AAAAACGAAA
*
60549154 TGATTAAAAACT
1 TGATAAAAAACT
** *
60549166 TGATGGAAAATT
1 TGATAAAAAACT
* *
60549178 TTATAAAAAGATT
1 TGATAAAAA-ACT
*
60549191 TGATGAAAAACT
1 TGATAAAAAACT
*
60549203 TTA-AAAAGAACT
1 TGATAAAA-AACT
**
60549215 T-ACTGCAAAACT
1 TGA-TAAAAAACT
60549227 TGATAAAAAACT
1 TGATAAAAAACT
*
60549239 TGGTAATTAAAAACT
1 T-G--ATAAAAAACT
60549254 TGATAAAAGAACT
1 TGATAAAA-AACT
*
60549267 AGATGAAAAATACT
1 TGAT-AAAAA-ACT
60549281 TGA
1 TGA
60549284 AGAAAGAAAA
Statistics
Matches: 88, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
11 4 0.05
12 42 0.48
13 22 0.25
14 10 0.11
15 10 0.11
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (12 bp):
TGATAAAAAACT
Found at i:60549294 original size:18 final size:18
Alignment explanation
Indices: 60549271--60549308 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
60549261 AGAACTAGAT
*
60549271 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
60549289 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
60549307 GA
1 GA
60549309 CTTAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:60554377 original size:45 final size:46
Alignment explanation
Indices: 60554310--60554414 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
60554300 TTATGATCAG
*
60554310 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCAC
1 TTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
60554353 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
60554399 TTTTCACTTTGTCACC
1 TTATCACTTTGTCACC
60554415 ACTTATCACT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 7 0.13
44 5 0.09
45 20 0.36
46 23 0.42
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (46 bp):
TTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:60554471 original size:61 final size:64
Alignment explanation
Indices: 60554348--60554474 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 64
60554338 TAGCTAGGCT
* *
60554348 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTTTCACTTTGTC
1 ACCACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
*
60554412 ACCACTTATCAC-TTGTTC-C-TGATCAAATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTG-TCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
60554473 AC
1 AC
60554475 TTGATTAGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
61 23 0.39
62 18 0.31
63 4 0.07
64 14 0.24
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.35
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
Found at i:60554499 original size:107 final size:107
Alignment explanation
Indices: 60554310--60554628 Score: 530
Period size: 107 Copynumber: 3.0 Consensus size: 107
60554300 TTATGATCAG
*
60554310 TTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCA
1 TTATCACTTGTTCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCA
*
60554375 GATAAGTGTAGCTAAAGCTACCACTTTTCACTTTGTCACCAC
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACCAC
* *
60554417 TTATCACTTGTTCCTGATCAAATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATTA
1 TTATCACTTGTTCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCA
* * *
60554482 GATAAGCGTAGCGAAAGCTACCACTTATCACTTTGTCACCAT
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACCAC
* * *
60554524 TTATCACTTGTTCCTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCATTTTGTCACTTGATC
1 TTATCACTTGTTCCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTGATC
*
60554589 AGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCAC
65 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
60554629 TTGATCAGAT
Statistics
Matches: 196, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
107 131 0.67
108 65 0.33
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (107 bp):
TTATCACTTGTTCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCA
GATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACCAC
Found at i:60554675 original size:45 final size:46
Alignment explanation
Indices: 60554538--60554682 Score: 229
Period size: 46 Copynumber: 3.2 Consensus size: 46
60554528 CACTTGTTCC
*
60554538 TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCATTTTGTCACT
1 TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCACT
60554584 TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCACT
* * * *
60554630 TGATCAGATAATTGTAGCT-AGGCTATCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCACT
*
60554675 TAATCAGA
1 TGATCAGA
60554683 AGTACTCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 31 0.33
46 62 0.67
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (46 bp):
TGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCACT
Found at i:60556249 original size:11 final size:13
Alignment explanation
Indices: 60556229--60556260 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60556219 AATAAATTAA
60556229 TAAAATATCAT-T
1 TAAAATATCATAT
60556241 TAAAA-ATCATAT
1 TAAAATATCATAT
60556253 TAAAATAT
1 TAAAATAT
60556261 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:60564263 original size:26 final size:26
Alignment explanation
Indices: 60564233--60564282 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
60564223 TTTAATGAAA
* *
60564233 ATTTTAATTTTTTTAAATTTCAAAGC
1 ATTTTAATTTTTTAAAATTGCAAAGC
*
60564259 ATTTTTATTTTTTAAAATTGCAAA
1 ATTTTAATTTTTTAAAATTGCAAA
60564283 ATTTGAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTTTAATTTTTTAAAATTGCAAAGC
Found at i:60566072 original size:94 final size:93
Alignment explanation
Indices: 60565957--60566144 Score: 258
Period size: 94 Copynumber: 2.0 Consensus size: 93
60565947 TTAAGCAAGT
* *
60565957 TAAATTTGTACTGGAGGTCTTGCTGTTAGCTAAAGTTGGCTAA-T-TTGATGATTGCCT-ATGTT
1 TAAACTTGTACTGGAGATCTTGCTGTTAGCTAAAGTTGG--AATTATTGATGATTG-CTGATGTT
*
60566019 TCTTTTAATTCCAAAAGA-TAACCGTTACCTAG
63 T-TTTTAA-TCCAAAAGATTAAACGTTACCTAG
60566051 TAAACTTGTACTGGAGATCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCTGATGTTTTT
1 TAAACTTGTACTGGAGATCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCTGATGTTTTT
* *
60566116 TTTATCCAAAAGATTAAACGTTACGTAG
66 TTAATCCAAAAGATTAAACGTTACCTAG
60566144 T
1 T
60566145 TGATGGTTTT
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
92 11 0.13
93 21 0.25
94 53 0.62
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (93 bp):
TAAACTTGTACTGGAGATCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCTGATGTTTTT
TTAATCCAAAAGATTAAACGTTACCTAG
Found at i:60570703 original size:67 final size:67
Alignment explanation
Indices: 60570626--60570760 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
60570616 TTCACTTTTG
60570626 TGTCTCTCTTTCATTTATCACCATGCAGTTTATTACTATGTACTTGGACTTAGGTGTGAGGGTAG
1 TGTCTCTCTTTCATTTATCACCATGCAGTTTATTACTATGTACTTGGACTTAGGTGTGAGGGTAG
60570691 GA
66 GA
60570693 TGTCTCTCTTTCATTTATCACCATGCAGTTTATTACTATGTACTTGGACTTAGGTGTGAGGGTAG
1 TGTCTCTCTTTCATTTATCACCATGCAGTTTATTACTATGTACTTGGACTTAGGTGTGAGGGTAG
60570758 GA
66 GA
60570760 T
1 T
60570761 ACAGTCATGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (67 bp):
TGTCTCTCTTTCATTTATCACCATGCAGTTTATTACTATGTACTTGGACTTAGGTGTGAGGGTAG
GA
Found at i:60580452 original size:8 final size:8
Alignment explanation
Indices: 60580439--60580469 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
60580429 TATATATTTT
60580439 ATATAAAA
1 ATATAAAA
60580447 ATATAAAA
1 ATATAAAA
60580455 ATATAAAA
1 ATATAAAA
60580463 A-ATAAAA
1 ATATAAAA
60580470 TATTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
ATATAAAA
Found at i:60588543 original size:21 final size:21
Alignment explanation
Indices: 60588519--60588571 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
60588509 TTCTCTTATG
60588519 CTTCTCCATTTGTTTTCCTCC
1 CTTCTCCATTTGTTTTCCTCC
*
60588540 CTTCTCCATTTGTTTTCCTCT
1 CTTCTCCATTTGTTTTCCTCC
60588561 CTTCTCCATTT
1 CTTCTCCATTT
60588572 CTTTCAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.06, C:0.36, G:0.04, T:0.55
Consensus pattern (21 bp):
CTTCTCCATTTGTTTTCCTCC
Found at i:60590854 original size:20 final size:20
Alignment explanation
Indices: 60590831--60590877 Score: 80
Period size: 18 Copynumber: 2.5 Consensus size: 20
60590821 TTTGGCGAAA
60590831 TCGTGTTTTGATCTTCGAGC
1 TCGTGTTTTGATCTTCGAGC
60590851 TCGTG--TTGATCTTCGAGC
1 TCGTGTTTTGATCTTCGAGC
60590869 TCGTGTTTT
1 TCGTGTTTT
60590878 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 18 0.72
20 7 0.28
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.47
Consensus pattern (20 bp):
TCGTGTTTTGATCTTCGAGC
Found at i:60597285 original size:18 final size:17
Alignment explanation
Indices: 60597259--60597293 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60597249 ATAATTAGAA
*
60597259 TATTTAATTTTAAATAT
1 TATTTAATTTAAAATAT
60597276 TATTTGAATTTAAAATAT
1 TATTT-AATTTAAAATAT
60597294 CTGAATCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTTAATTTAAAATAT
Found at i:60599485 original size:31 final size:31
Alignment explanation
Indices: 60599450--60599520 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
60599440 TAAAGTTTTT
* **
60599450 ATTCAATGGCTTAAATGAAAACTTTTGAATA
1 ATTCAATGACTTAAATGAAAACTTTCAAATA
* * *
60599481 ATTCAGTAATTTAAATGAAAACTTTCAAATA
1 ATTCAATGACTTAAATGAAAACTTTCAAATA
60599512 ATTCAATGA
1 ATTCAATGA
60599521 TTATTTTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (31 bp):
ATTCAATGACTTAAATGAAAACTTTCAAATA
Found at i:60600939 original size:112 final size:113
Alignment explanation
Indices: 60600745--60600958 Score: 283
Period size: 111 Copynumber: 1.9 Consensus size: 113
60600735 TCAAAACCTT
*
60600745 AAATTTATTTCCAATTTTGCATAAAAAAATCATATTTTTTTCAAGGACAAAACACATAAAACACG
1 AAATTTATTCCCAATTTTGCATAAAAAAATCATATTTTTTTCAAGGACAAAACACATAAAACACG
*
60600810 AAATATAGCTGAATAAAACG-ACCCCAGAAGCTTACATTTCAATGCCTCC
66 AAATATAGCTAAATAAAA-GAACCCCA-AAGCTTACATTTCAATGCCTCC
* * * * * * *
60600859 AAATTTA-TCCCAATTTTGCATCAAAAATTCA-ATTTTTTTTAAGGATAAAACA-ATGAAATATG
1 AAATTTATTCCCAATTTTGCATAAAAAAATCATATTTTTTTCAAGGACAAAACACATAAAACACG
*
60600921 AAATATAGCTAAATTAAAAGAACCCCAAAGTTTACATT
66 AAATATAGCTAAA-TAAAAGAACCCCAAAGCTTACATT
60600959 ACAGCAAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
111 30 0.34
112 30 0.34
113 21 0.24
114 7 0.08
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.30
Consensus pattern (113 bp):
AAATTTATTCCCAATTTTGCATAAAAAAATCATATTTTTTTCAAGGACAAAACACATAAAACACG
AAATATAGCTAAATAAAAGAACCCCAAAGCTTACATTTCAATGCCTCC
Found at i:60601601 original size:44 final size:42
Alignment explanation
Indices: 60601553--60601644 Score: 96
Period size: 44 Copynumber: 2.1 Consensus size: 42
60601543 GATACATGTC
60601553 TATTTAAATTTTGTTG-GAAAACATATGTTTCAATATTTTTAATG
1 TATTTAAA-TTTGTTGAG-AAACATATGTTTCAAT-TTTTTAATG
* * * **
60601597 TATTTTCAATTTGTTGAGAAACATTTGTTTTAATTTTTTTGTG
1 TA-TTTAAATTTGTTGAGAAACATATGTTTCAATTTTTTAATG
60601640 TATTT
1 TATTT
60601645 GATATATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
42 3 0.07
43 9 0.22
44 23 0.56
45 6 0.15
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.55
Consensus pattern (42 bp):
TATTTAAATTTGTTGAGAAACATATGTTTCAATTTTTTAATG
Found at i:60602473 original size:21 final size:21
Alignment explanation
Indices: 60602431--60602472 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
60602421 AAAATAAAAA
60602431 TAAAAATAAAAAAAAGTATTT
1 TAAAAATAAAAAAAAGTATTT
60602452 TAAAAATAAAAAAAA-TATTT
1 TAAAAATAAAAAAAAGTATTT
60602472 T
1 T
60602473 TTATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAATAAAAAAAAGTATTT
Found at i:60608007 original size:3 final size:3
Alignment explanation
Indices: 60607999--60608035 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
60607989 GTTGCTTTTC
* *
60607999 TTG TTG TTG TTG TTG TTG TTG CTG CTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
60608036 CGAACCTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.05, G:0.32, T:0.62
Consensus pattern (3 bp):
TTG
Found at i:60609361 original size:18 final size:17
Alignment explanation
Indices: 60609338--60609379 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
60609328 CACAAATAAT
*
60609338 TTAAAAATTATAAACATA
1 TTAAAAATTA-AAAAATA
60609356 TTAAAAAATTAAAAAATA
1 TT-AAAAATTAAAAAATA
60609374 -TAAAAA
1 TTAAAAA
60609380 GTTCGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 8 0.36
19 8 0.36
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAATTAAAAAATA
Found at i:60610789 original size:14 final size:15
Alignment explanation
Indices: 60610740--60610791 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60610730 ATAAAATATA
60610740 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60610755 TATTAAATATATTAT
1 AATTAAATATATTAT
60610770 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60610783 AATTTAATA
1 AATTAAATA
60610792 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:60610842 original size:59 final size:59
Alignment explanation
Indices: 60610779--60610962 Score: 175
Period size: 60 Copynumber: 3.1 Consensus size: 59
60610769 TAATTAAAAT
60610779 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATA
* * * * * *
60610838 ATAT-ATGATACTATAAAA-TATAAATTAA-C-ATAATTATTAT-T-AAATATA-TTATAATTAA
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAAAT-TACTCA-AA-TCA
*
60610896 AA
58 TA
60610898 TATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATA
60610958 ATATA
1 ATATA
60610963 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
58 8 0.08
59 27 0.28
60 30 0.32
61 22 0.23
62 8 0.08
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATA
Found at i:60610909 original size:14 final size:15
Alignment explanation
Indices: 60610860--60610911 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60610850 ATAAAATATA
60610860 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60610875 TATTAAATATATTAT
1 AATTAAATATATTAT
60610890 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60610903 AATTTAATA
1 AATTAAATA
60610912 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:60610932 original size:120 final size:120
Alignment explanation
Indices: 60610719--60611020 Score: 595
Period size: 120 Copynumber: 2.5 Consensus size: 120
60610709 NNNNNNNNNN
60610719 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATA
1 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATA
60610784 ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATAA
66 ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATAA
60610839 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATA
1 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATA
60610904 ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATAA
66 ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATAA
*
60610959 TATATGATACTATAAAATATAAATTAACATAATAATTATTAAATATATTATAATTAAAATAT
1 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATAT
60611021 CACAGAGCTT
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 181 1.00
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (120 bp):
TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATA
ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAATTACTCAAATCATAA
Found at i:60613187 original size:43 final size:43
Alignment explanation
Indices: 60613140--60613346 Score: 224
Period size: 43 Copynumber: 4.8 Consensus size: 43
60613130 GACTAATACA
60613140 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
* * *
60613183 TTTAGTGGCATTTTTGCGCT--AAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-G-TAAAAGCGCCGCTATAGATCAAGGTC
* *
60613226 TTTAGCAGCGTTTTTGGTAAAAGTGCCGCTATAGATC-AGAGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAG-GTC
* * *
60613269 TTTAGTGGCGTTTTTGCG-CAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAAGGTC
* * ** * *
60613312 TTTATCGGCGCTTTTACTAAAAACGCCGCAATAGA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGA
60613347 CCATGCTCTA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 128 0.95
44 3 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTC
Found at i:60613262 original size:86 final size:86
Alignment explanation
Indices: 60613140--60613315 Score: 300
Period size: 86 Copynumber: 2.0 Consensus size: 86
60613130 GACTAATACA
* *
60613140 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCA-AGGTCTTTAGTGGCATTTTTGCGCTA
1 TTTAGCAGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGA-GTCTTTAGTGGCATTTTTGCGCAA
60613204 AGCGCCGCTATAGATCAGGGTC
65 AGCGCCGCTATAGATCAGGGTC
* *
60613226 TTTAGCAGCGTTTTTGGTAAAAGTGCCGCTATAGATCAGAGTCTTTAGTGGCGTTTTTGCGCAAA
1 TTTAGCAGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGAGTCTTTAGTGGCATTTTTGCGCAAA
60613291 GCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTC
60613312 TTTA
1 TTTA
60613316 TCGGCGCTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
86 84 0.99
87 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (86 bp):
TTTAGCAGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGAGTCTTTAGTGGCATTTTTGCGCAAA
GCGCCGCTATAGATCAGGGTC
Found at i:60613333 original size:86 final size:86
Alignment explanation
Indices: 60613157--60613346 Score: 274
Period size: 86 Copynumber: 2.2 Consensus size: 86
60613147 GCGTTTTTGG
*
60613157 TAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCTAAGCGCCGCTATAGATCAG
1 TAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCAAAGCGCCGCTATAGATCAG
* **
60613222 GGTCTTTAGCAGCGTTTTTGG
66 GGTCTTTAGCAGCGCTTTTAC
* *
60613243 TAAAAGTGCCGCTATAGATC-AGAGTCTTTAGTGGCGTTTTTGCGCAAAGCGCCGCTATAGATCA
1 TAAAAGCGCCGCTATAGATCAAG-GTCTTTAGTGGCATTTTTGCGCAAAGCGCCGCTATAGATCA
* *
60613307 GGGTCTTTATCGGCGCTTTTAC
65 GGGTCTTTAGCAGCGCTTTTAC
* *
60613329 TAAAAACGCCGCAATAGA
1 TAAAAGCGCCGCTATAGA
60613347 CCATGCTCTA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 2 0.02
86 90 0.98
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (86 bp):
TAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCATTTTTGCGCAAAGCGCCGCTATAGATCAG
GGTCTTTAGCAGCGCTTTTAC
Found at i:60613434 original size:44 final size:44
Alignment explanation
Indices: 60613317--60613436 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 44
60613307 GGGTCTTTAT
* *
60613317 CGGCGC-TTTTACTAAAAACGCCGC-AATAGACCATGCTCTATAG
1 CGGCGCTTTTTACCAAAAACGCCGCTAA-AGACCATGATCTATAG
* ** * * *
60613360 CGGTGCTTCGGT--CACAAACGCCACTAAAGACCCTGATCTATAG
1 CGGCGCTT-TTTACCAAAAACGCCGCTAAAGACCATGATCTATAG
60613403 CGGCGCTTTTTACCAAAAACGCCGCTAAAGACCA
1 CGGCGCTTTTTACCAAAAACGCCGCTAAAGACCA
60613437 ACACCTTTAG
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.02
43 35 0.60
44 21 0.36
45 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (44 bp):
CGGCGCTTTTTACCAAAAACGCCGCTAAAGACCATGATCTATAG
Found at i:60613811 original size:21 final size:21
Alignment explanation
Indices: 60613782--60613893 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
60613772 TTTGACGCTG
60613782 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
60613803 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
60613824 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
60613845 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
60613866 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
60613887 ATCTGCT
1 CTCTGCT
60613894 CTAAGCTGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:60613829 original size:42 final size:42
Alignment explanation
Indices: 60613782--60613883 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
60613772 TTTGACGCTG
**
60613782 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* * *
60613824 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* *
60613866 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
60613884 CGCATCTGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.34
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
Found at i:60613949 original size:66 final size:66
Alignment explanation
Indices: 60613865--60614011 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
60613855 CTCGCTGCCG
* * *
60613865 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCTA-CTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCCGCTCTAAGCTG-TAGCTGGAGTTCTTCATATC-TTCGTT
60613928 GAA
64 GAA
* * * *
60613931 CCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCCGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGA
60613996 A
66 A
* *
60613997 CATCAACTTCTCTCG
1 CCTCAGCTTCTCTCG
60614012 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.03
66 67 0.96
67 1 0.01
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.38
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCCGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGA
A
Found at i:60614024 original size:66 final size:66
Alignment explanation
Indices: 60613905--60614034 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
60613895 TAAGCTGCTA
* * *
60613905 CTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTA
1 CTGGAGTTCTTCATACTTTCGTTGAACATCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTGTA
60613970 G
66 G
* * *
60613971 CTGGAGTTCTTCATA-TCTTCTTTGAACATCAACTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CTGGAGTTCTTCATACT-TTCGTTGAACATCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
60614035 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (66 bp):
CTGGAGTTCTTCATACTTTCGTTGAACATCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTGTA
G
Found at i:60619666 original size:16 final size:16
Alignment explanation
Indices: 60619645--60619728 Score: 62
Period size: 16 Copynumber: 5.8 Consensus size: 16
60619635 ACTAAGCTAC
60619645 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
60619661 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
60619677 G-AA---A---ATTAT
1 GTAAGTTATGTATTAT
*
60619686 GTAAGTTGTGTATTA-
1 GTAAGTTATGTATTAT
*
60619701 GTCAAATTATG--TTAT
1 GT-AAGTTATGTATTAT
60619716 GTAAGTTATGTAT
1 GTAAGTTATGTAT
60619729 GTCGTATAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
12 1 0.02
14 10 0.19
15 6 0.12
16 27 0.52
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:60619707 original size:25 final size:25
Alignment explanation
Indices: 60619656--60619728 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
60619646 TAAGTTATGT
*
60619656 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
60619681 ATTATGTAAGTTGTGTATTAGTCAAA
1 ATTATGTAAGTTATGTATTA-TGAAA
60619707 TTATGTTATGTAAGTTATGTAT
1 --A--TTATGTAAGTTATGTAT
60619729 GTCGTATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
28 1 0.03
30 16 0.41
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:60619842 original size:31 final size:31
Alignment explanation
Indices: 60619804--60619916 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 31
60619794 ACTGAGTAAT
60619804 TAATTAAGTTATGTAATTTATGTATATTAAC
1 TAATTAAGTTATGTAATTTATGTATATTAAC
60619835 TAATTAAGTTATGTAA--T-T-TATATTAAC
1 TAATTAAGTTATGTAATTTATGTATATTAAC
* *
60619862 TAATTAAGTTATGTAATTTATGAATAATTAAAA
1 TAATTAAGTTATGTAATTTATGTAT-ATT-AAC
* *
60619895 AAATGTAAGTTATGTAAGTTAT
1 TAAT-TAAGTTATGTAATTTAT
60619917 TTAAGTTGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
27 25 0.35
28 1 0.01
29 2 0.03
30 1 0.01
31 18 0.25
32 3 0.04
33 5 0.07
34 16 0.23
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (31 bp):
TAATTAAGTTATGTAATTTATGTATATTAAC
Found at i:60619911 original size:9 final size:9
Alignment explanation
Indices: 60619897--60619948 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
60619887 AATTAAAAAA
60619897 ATGTAAGTT
1 ATGTAAGTT
60619906 ATGTAAGTT
1 ATGTAAGTT
*
60619915 ATTTAAG-T
1 ATGTAAGTT
60619923 -TGTAAGTT
1 ATGTAAGTT
60619931 ATGTAAG-T
1 ATGTAAGTT
60619939 -TGTAAGTT
1 ATGTAAGTT
60619947 AT
1 AT
60619949 ATGNNNNNNN
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 11 0.30
8 4 0.11
9 22 0.59
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:60619928 original size:16 final size:16
Alignment explanation
Indices: 60619897--60619948 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
60619887 AATTAAAAAA
60619897 ATGTAAGTTATGTAAGTT
1 ATGTAAG-T-TGTAAGTT
*
60619915 ATTTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
60619931 ATGTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
60619947 AT
1 AT
60619949 ATGNNNNNNN
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 25 0.78
17 1 0.03
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:60620081 original size:22 final size:22
Alignment explanation
Indices: 60620053--60620165 Score: 62
Period size: 22 Copynumber: 5.3 Consensus size: 22
60620043 NNNNNNNNNT
60620053 TTATGTATCATATTAATGTAAG
1 TTATGTATCATATTAATGTAAG
* *
60620075 TTATGTAACTTATGTATAT-TAA-
1 TTATGTATCATAT-TA-ATGTAAG
* *
60620097 TTAAT-TA--A-GTT-ATGTAAT
1 TT-ATGTATCATATTAATGTAAG
* *
60620115 TTATGTATAATATTAATGTAAT
1 TTATGTATCATATTAATGTAAG
**
60620137 TTATGTATGTTAATTAAT-TAAG
1 TTATGTATCAT-ATTAATGTAAG
60620159 TTATGTA
1 TTATGTA
60620166 ACTTATGTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
16 2 0.03
17 5 0.07
18 5 0.07
19 1 0.01
20 1 0.01
21 2 0.03
22 41 0.57
23 13 0.18
24 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.50
Consensus pattern (22 bp):
TTATGTATCATATTAATGTAAG
Found at i:60620091 original size:31 final size:30
Alignment explanation
Indices: 60620053--60620292 Score: 218
Period size: 31 Copynumber: 8.1 Consensus size: 30
60620043 NNNNNNNNNT
60620053 TTATGTATCATATTAATGTAAGTTATGTAAC
1 TTATGTAT-ATATTAATGTAAGTTATGTAAC
*
60620084 TTATGTATATTAATTAAT-TAAGTTATGTAAT
1 TTATGTATA-T-ATTAATGTAAGTTATGTAAC
*
60620115 TTATGTATAATATTAATGTAATTTATG----
1 TTATGTAT-ATATTAATGTAAGTTATGTAAC
60620142 -TATGT-TA-ATTAAT-TAAGTTATGTAAC
1 TTATGTATATATTAATGTAAGTTATGTAAC
*
60620168 TTATGTATATTAATTAA-CTAAGTTATGTAAC
1 TTATGTATA-T-ATTAATGTAAGTTATGTAAC
*
60620199 TTATGTATATTAATTAAT-TAAGTTATGTAAT
1 TTATGTATA-T-ATTAATGTAAGTTATGTAAC
* *
60620230 TTATGTATCATATTAATGTAATTTATGTATC
1 TTATGTAT-ATATTAATGTAAGTTATGTAAC
* * * *
60620261 ATAT-TATGTATT-ATGTAAGTTATTTAAA
1 TTATGTATATATTAATGTAAGTTATGTAAC
60620289 TTAT
1 TTAT
60620293 TTAAGTTGTG
Statistics
Matches: 178, Mismatches: 14, Indels: 37
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.04
23 6 0.03
24 1 0.01
25 1 0.01
26 5 0.03
27 5 0.03
28 17 0.10
29 4 0.02
30 16 0.09
31 107 0.60
32 8 0.04
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (30 bp):
TTATGTATATATTAATGTAAGTTATGTAAC
Found at i:60620134 original size:53 final size:53
Alignment explanation
Indices: 60620077--60620259 Score: 231
Period size: 53 Copynumber: 3.3 Consensus size: 53
60620067 AATGTAAGTT
60620077 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* * * *
60620130 ATGTAATTTATGTATGTTAATTAATTAAGTTATGTAACTTATGTATATTAATTAACTAAGTT
1 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATG--TA-TAA-T-A-T---TA
*
60620192 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATCATATTA
1 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
*
60620245 ATGTAATTTATGTAT
1 ATGTAACTTATGTAT
60620260 CATATTATGT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
53 55 0.50
55 2 0.02
56 4 0.04
57 2 0.02
58 2 0.02
59 3 0.03
60 2 0.02
62 41 0.37
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (53 bp):
ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:60620248 original size:13 final size:12
Alignment explanation
Indices: 60620230--60620271 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
60620220 GTTATGTAAT
60620230 TTATGTATCATA
1 TTATGTATCATA
60620242 TTAATGTA--AT-
1 TT-ATGTATCATA
60620252 TTATGTATCATA
1 TTATGTATCATA
60620264 TTATGTAT
1 TTATGTAT
60620272 TATGTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.19
10 2 0.08
11 4 0.15
12 10 0.38
13 5 0.19
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (12 bp):
TTATGTATCATA
Found at i:60620248 original size:22 final size:21
Alignment explanation
Indices: 60620221--60620277 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 21
60620211 ATTAATTAAG
60620221 TTATGTAATTTATGTATCATA
1 TTATGTAATTTATGTATCATA
60620242 TTAATGTAATTTATGTATCATA
1 TT-ATGTAATTTATGTATCATA
60620264 TTATGT-A-TTATGTA
1 TTATGTAATTTATGTA
60620278 AGTTATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.20
20 1 0.03
21 6 0.17
22 21 0.60
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TTATGTAATTTATGTATCATA
Found at i:60620308 original size:27 final size:27
Alignment explanation
Indices: 60620271--60620365 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
60620261 ATATTATGTA
*
60620271 TTATGTAAGTTATTTAA-ATTATTTAAG
1 TTATGTAAGTTATGTAAGA-TATTTAAG
* *
60620298 TTGTGTAAGTTGTGTAAGATATTTAAG
1 TTATGTAAGTTATGTAAGATATTTAAG
* * *
60620325 TTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAGATATTTAAG
* *
60620350 TTATGTATGCTATGTA
1 TTATGTAAGTTATGTA
60620366 TAATGTAAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
25 19 0.34
26 1 0.02
27 35 0.62
28 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGATATTTAAG
Found at i:60620314 original size:36 final size:34
Alignment explanation
Indices: 60620267--60620353 Score: 111
Period size: 36 Copynumber: 2.5 Consensus size: 34
60620257 TATCATATTA
*
60620267 TGTATTATGTAAGTTATTTAAATTATTTAAGTTG
1 TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
* * * *
60620301 TGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTT
1 TGT-A-TTATGTAAGTTATTTAAATTATGTAAGTTG
60620337 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
60620354 GTATGCTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 14 0.32
35 2 0.05
36 28 0.64
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (34 bp):
TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
Found at i:60620315 original size:18 final size:18
Alignment explanation
Indices: 60620271--60620405 Score: 91
Period size: 18 Copynumber: 7.6 Consensus size: 18
60620261 ATATTATGTA
* *
60620271 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGTAAG
* *
60620289 TTATTTAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAG
* * *
60620307 TTGTGTAAGATATTTAAG
1 TTATGTAAGTTATGTAAG
*
60620325 TTATGTAAGTTTTGT-A-
1 TTATGTAAGTTATGTAAG
*
60620341 TTATGTAAGTTATGTATG
1 TTATGTAAGTTATGTAAG
* *
60620359 CTATGT-A-TAATGTAAG
1 TTATGTAAGTTATGTAAG
*
60620375 TCCATATGTTA-TTATGTAAG
1 T---TATGTAAGTTATGTAAG
*
60620395 TTATGAAAGTT
1 TTATGTAAGTT
60620406 TAAATATAAG
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
16 21 0.24
17 7 0.08
18 45 0.51
19 5 0.06
20 10 0.11
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:60620365 original size:25 final size:25
Alignment explanation
Indices: 60620321--60620375 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
60620311 GTAAGATATT
* * *
60620321 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGCTATGTATAATG
*
60620346 TAAGTTATGTATGCTATGTATAATG
1 TAAGTTATGTAAGCTATGTATAATG
60620371 TAAGT
1 TAAGT
60620376 CCATATGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTAAGCTATGTATAATG
Found at i:60620686 original size:29 final size:29
Alignment explanation
Indices: 60620653--60620723 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
60620643 AATATAATTT
60620653 TAATTATTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
*
60620682 TAATTAGTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
60620711 TAATTATTCATTA
1 TAATTATTCATTA
60620724 ATTTGAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (29 bp):
TAATTATTCATTATGTAAGTTAAGATCGA
Found at i:60624622 original size:41 final size:41
Alignment explanation
Indices: 60624537--60624730 Score: 205
Period size: 41 Copynumber: 4.7 Consensus size: 41
60624527 AACACAAACT
* * * * *
60624537 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCACTAATGATAC-GAGCA
* *
60624578 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * * *
60624619 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATAC-GAGCA
* *
60624660 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* *
60624701 TTAGCGGCGCTTAGACAAAAACGCCGCTAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAA
60624731 AGGTTTAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 120 0.95
42 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
Found at i:60624674 original size:82 final size:82
Alignment explanation
Indices: 60624537--60624732 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
60624527 AACACAAACT
*
60624537 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
60624601 CCACTAATGATACGAGCA
65 CCACTAATGATACGAGCA
60624619 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
60624684 CACTAATGATACGAGCA
66 CACTAATGATACGAGCA
60624701 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
60624733 GTTTAAAAAT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 111 0.99
83 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (82 bp):
TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
CACTAATGATACGAGCA
Found at i:60626001 original size:19 final size:18
Alignment explanation
Indices: 60625978--60626024 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
60625968 GCAGAAATCT
60625978 GAAGAAAAGAAAATG-GA
1 GAAGAAAAGAAAATGTGA
60625995 GAAAAGAAAAG-AAATGTGA
1 G--AAGAAAAGAAAATGTGA
60626014 GAAGAAAAGAA
1 GAAGAAAAGAA
60626025 GCGTACCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.35
18 6 0.23
19 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.06
Consensus pattern (18 bp):
GAAGAAAAGAAAATGTGA
Found at i:60627142 original size:11 final size:11
Alignment explanation
Indices: 60627126--60627164 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
60627116 TCAATTATTT
60627126 TCTCAATTTCC
1 TCTCAATTTCC
60627137 TCTCAATTTCC
1 TCTCAATTTCC
*
60627148 TTCTAAATTT-C
1 -TCTCAATTTCC
60627159 TCTCAA
1 TCTCAA
60627165 ATCCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.20
11 12 0.48
12 8 0.32
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:60627212 original size:11 final size:12
Alignment explanation
Indices: 60627181--60627217 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
60627171 ATTTAATTTC
*
60627181 AATTTGATCTT-
1 AATTTGCTCTTA
60627192 AATTTGCTCTTA
1 AATTTGCTCTTA
60627204 AATTT-CTCTTA
1 AATTTGCTCTTA
60627215 AAT
1 AAT
60627218 CCCTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (12 bp):
AATTTGCTCTTA
Found at i:60628373 original size:7 final size:7
Alignment explanation
Indices: 60628361--60628386 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60628351 TAGTCGATTG
60628361 GTATTTA
1 GTATTTA
60628368 GTATTTA
1 GTATTTA
60628375 GTATTTA
1 GTATTTA
60628382 GTATT
1 GTATT
60628387 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:60632482 original size:21 final size:21
Alignment explanation
Indices: 60632457--60632496 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60632447 ATGTAAGTTC
*
60632457 AAATATGT-TATAAATAATTTT
1 AAATAT-TATATAAAAAATTTT
60632478 AAATATTATATAAAAAATT
1 AAATATTATATAAAAAATT
60632497 AATAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATATTATATAAAAAATTTT
Found at i:60642984 original size:21 final size:20
Alignment explanation
Indices: 60642960--60643002 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
60642950 TAAAAAGTAA
*
60642960 AATTTAATTGATTGCAACATT
1 AATTAAATTGATTG-AACATT
* *
60642981 AATTAAATTTATTGACCATT
1 AATTAAATTGATTGAACATT
60643001 AA
1 AA
60643003 ATCATATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (20 bp):
AATTAAATTGATTGAACATT
Found at i:60643263 original size:21 final size:21
Alignment explanation
Indices: 60643238--60643277 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60643228 TTTTATTTAG
*
60643238 AATAA-TACAAAACATTTAAAA
1 AATAAGTA-AAAAAATTTAAAA
60643259 AATAAGTAAAAAAATTTAA
1 AATAAGTAAAAAAATTTAA
60643278 TAATTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
AATAAGTAAAAAAATTTAAAA
Found at i:60644309 original size:11 final size:11
Alignment explanation
Indices: 60644293--60644318 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60644283 CGTCACAACC
60644293 TTTTTTTTCTT
1 TTTTTTTTCTT
60644304 TTTTTTTTCTT
1 TTTTTTTTCTT
60644315 TTTT
1 TTTT
60644319 AAATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:60646395 original size:21 final size:22
Alignment explanation
Indices: 60646352--60646397 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
60646342 TTATAGAGAT
* *
60646352 AAACTTGAATTTTTATGAGGAA
1 AAACATGAATTTTTATCAGGAA
*
60646374 AAACATGAATTTTTA-CATGAA
1 AAACATGAATTTTTATCAGGAA
60646395 AAA
1 AAA
60646398 AGCATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (22 bp):
AAACATGAATTTTTATCAGGAA
Found at i:60647600 original size:18 final size:18
Alignment explanation
Indices: 60647570--60647607 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
60647560 ATTTAATCAA
*
60647570 ATATTAACATATATAAAC
1 ATATTAACATATAAAAAC
60647588 ATATTGAAC-TATAAAAAC
1 ATATT-AACATATAAAAAC
60647606 AT
1 AT
60647608 TTACATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (18 bp):
ATATTAACATATAAAAAC
Found at i:60648993 original size:156 final size:156
Alignment explanation
Indices: 60648648--60649115 Score: 848
Period size: 156 Copynumber: 3.0 Consensus size: 156
60648638 GGAAAACCCT
* *
60648648 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCGAAGGTTTTAGATGATTG
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
*
60648713 GACCATTGCCAACAGGATGGGTATGAATATGGAGCTGAA-ACTGAATTCCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
*
60648777 AAGATTCTACAAGTGCTAAAGAAATG
131 AAGATTCTACAAGTGCTAAAGAGATG
*
60648803 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTTAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
* *
60648868 GACTATTGCCAACAGGATCGGTATGAATATGGAGCTGAACACTGAATTGCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
60648933 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
*
60648959 ACTGCTCCTGTATTTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
*
60649024 GACTATTGCCAACAGGATGGGAATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
60649089 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
60649115 A
1 A
60649116 ACATTGAATT
Statistics
Matches: 300, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
155 99 0.33
156 201 0.67
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (156 bp):
ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
AAGATTCTACAAGTGCTAAAGAGATG
Found at i:60649591 original size:35 final size:35
Alignment explanation
Indices: 60649552--60649619 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
60649542 TTCAAAAATG
60649552 TCACTTATATATATATACTATTAATAAAATCTCAC
1 TCACTTATATATATATACTATTAATAAAATCTCAC
60649587 TCACTTATATATATATACTATTAATAAAATCTC
1 TCACTTATATATATATACTATTAATAAAATCTC
60649620 TGAGTGAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (35 bp):
TCACTTATATATATATACTATTAATAAAATCTCAC
Found at i:60651524 original size:54 final size:54
Alignment explanation
Indices: 60651430--60651539 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
60651420 TCCACTCCTC
* * *
60651430 CATCTCTTTAGGACCTGTAGAATCTTCACTAGGCTTTGGTAACAATTCAATGTT
1 CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
* ** * *
60651484 CATCTCTTTAGCACTTGTAGAATCTTCTGTAGGATATGGTAGCAATTCAGTGTT
1 CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
60651538 CA
1 CA
60651540 CCTCCATATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
Found at i:60652226 original size:41 final size:41
Alignment explanation
Indices: 60652169--60652250 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
60652159 ACGCGAAGCC
60652169 ATCTATTAGGAACCATCTCACCCCCAACTTACAGCCCTAGT
1 ATCTATTAGGAACCATCTCACCCCCAACTTACAGCCCTAGT
60652210 ATCTATTAGGAACCATCTCACCCCCAACTTACAGCCCTAGT
1 ATCTATTAGGAACCATCTCACCCCCAACTTACAGCCCTAGT
60652251 CGGAGTACTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (41 bp):
ATCTATTAGGAACCATCTCACCCCCAACTTACAGCCCTAGT
Found at i:60656431 original size:24 final size:25
Alignment explanation
Indices: 60656398--60656453 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
60656388 GCATTGATGC
*
60656398 ACCTAAAAAT-GATCATGA-GTGCTT
1 ACCTATAAATAGATCAT-ATGTGCTT
60656422 ACCTATAAATCAGATCATATGTGCTT
1 ACCTATAAAT-AGATCATATGTGCTT
*
60656448 AACTAT
1 ACCTAT
60656454 GTTACACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
26 17 0.63
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (25 bp):
ACCTATAAATAGATCATATGTGCTT
Found at i:60665808 original size:26 final size:26
Alignment explanation
Indices: 60665778--60665830 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
60665768 TAAATATGGA
60665778 TAAACTACAAAAATAGTCACTTTTGT
1 TAAACTACAAAAATAGTCACTTTTGT
* *
60665804 TAAACTATAAAAATAGTTACTTTTGT
1 TAAACTACAAAAATAGTCACTTTTGT
60665830 T
1 T
60665831 TGTCTCAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAACTACAAAAATAGTCACTTTTGT
Found at i:60674459 original size:13 final size:13
Alignment explanation
Indices: 60674441--60674465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60674431 CCAAATTTGA
60674441 GCTTAGTAATACC
1 GCTTAGTAATACC
60674454 GCTTAGTAATAC
1 GCTTAGTAATAC
60674466 TTGGCTTGAA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GCTTAGTAATACC
Found at i:60676066 original size:31 final size:30
Alignment explanation
Indices: 60676025--60676087 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
60676015 TATATAAGAA
*
60676025 TTGTTAAATTTCAGTTTTAATC-CTTATATT
1 TTGTTAAATTTCAGATTTAATCTC-TATATT
*
60676055 TTGTTCAAATTTGAGATTTAATCTCTATATT
1 TTGTT-AAATTTCAGATTTAATCTCTATATT
60676086 TT
1 TT
60676088 AATATTGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 23 0.79
32 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTCAGATTTAATCTCTATATT
Found at i:60676101 original size:179 final size:179
Alignment explanation
Indices: 60675773--60676103 Score: 409
Period size: 179 Copynumber: 1.8 Consensus size: 179
60675763 CATCCTTTCC
* * ** *
60675773 TTTCTTTTTACACTGAGAAAAAATGGCTAAATTTCAGTTTTAACCCCTCTGTTTTTTTATCATTA
1 TTTCTTTTGACACTGAGAAAAAATGGCTAAATTTCAGTATTAACCCCTCTCCTTTTTGATCATTA
* *
60675838 TATAAACATGGCTAAATTTCAGTTTTAATCCCTTTATTTCACTCAAATTTGATATTCAATTTCTA
66 TATAAACATGGCTAAATTTCAGTTTTAATCCCTTTATTTCACTCAAATTTGAGATTCAATCTCTA
* * * *
60675903 CGCTTTGATTTTTACATAATTTAGACTCCTGTCCGTTCTTTTTCTTAAT
131 CACTTTAATATTGACATAATTTAGACTCCTGTCCGTTCTTTTTCTTAAT
* *
60675952 TTTCTTTTGACA-TGAGAAAACAATGGCTAAATTTCAGTATTAATCCCTCTACCTTTTTGA-GAT
1 TTTCTTTTGACACTGAGAAAA-AATGGCTAAATTTCAGTATTAACCCCTCT-CCTTTTTGATCAT
* * *** *
60676015 TATATAAGA-ATTGTTAAATTTCAGTTTTAAT-CCTTATATTTTGTTCAAATTTGAGATTTAATC
64 TATATAA-ACATGGCTAAATTTCAGTTTTAATCCCTT-TATTTCACTCAAATTTGAGATTCAATC
* *
60676078 TCTATATTTTAATATTGACATAATTT
127 TCTACACTTTAATATTGACATAATTT
60676104 TCTTTTGACA
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
178 12 0.09
179 108 0.85
180 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (179 bp):
TTTCTTTTGACACTGAGAAAAAATGGCTAAATTTCAGTATTAACCCCTCTCCTTTTTGATCATTA
TATAAACATGGCTAAATTTCAGTTTTAATCCCTTTATTTCACTCAAATTTGAGATTCAATCTCTA
CACTTTAATATTGACATAATTTAGACTCCTGTCCGTTCTTTTTCTTAAT
Found at i:60676221 original size:149 final size:150
Alignment explanation
Indices: 60675948--60676250 Score: 371
Period size: 149 Copynumber: 2.0 Consensus size: 150
60675938 TTCTTTTTCT
* * *
60675948 TAATTTTCTTTTGACATGAGAAAACAATGGCTAAATTTCAGTATTAATCCCTCTACCTTTTTGAG
1 TAATTTTCTTTTGACATGAGAAAACAACGGCTAAATTTCAGTATTAATCCATCTACCTTTTTAAG
* * ** * * * * *
60676013 ATTATATAAGAATTGTTAAATTTCAGTTTTAATCCTTATATTTTGTTCAAATTTGAGATTTAATC
66 AATATATAAGAATGGTTAAATTTCAAATTTAATCCCTATAATGTGCTCAAATTTAAGATTTAATC
*
60676078 TCTATA-TTTTAATATTGACA
131 TCTATACTTTGAAT-TTGACA
* *
60676098 TAATTTTCTTTTGACATGAG-AAATAACGGCTAAATTTCAGT-TATAATTCATCTA-CTTTTTAA
1 TAATTTTCTTTTGACATGAGAAAACAACGGCTAAATTTCAGTAT-TAATCCATCTACCTTTTT-A
* ** *
60676160 AGAATATATAAGAATGGTTAAATTTTAAATTTGGTCCCTATAATGTGCTCAATTTTAAGATTTAA
64 AGAATATATAAGAATGGTTAAATTTCAAATTTAATCCCTATAATGTGCTCAAATTTAAGATTTAA
*
60676225 TCTCTATACTTTGAGTTTGACA
129 TCTCTATACTTTGAATTTGACA
60676247 TAAT
1 TAAT
60676251 CCAAATTAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
148 7 0.05
149 98 0.75
150 25 0.19
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (150 bp):
TAATTTTCTTTTGACATGAGAAAACAACGGCTAAATTTCAGTATTAATCCATCTACCTTTTTAAG
AATATATAAGAATGGTTAAATTTCAAATTTAATCCCTATAATGTGCTCAAATTTAAGATTTAATC
TCTATACTTTGAATTTGACA
Found at i:60680345 original size:151 final size:145
Alignment explanation
Indices: 60680066--60680502 Score: 473
Period size: 143 Copynumber: 3.0 Consensus size: 145
60680056 ATCAATCAAC
* *
60680066 CAACCAACAACTACAACAAATAAAAGAATCCCTTTATCTAAACATCAAATAAATCATTAAATTCC
1 CAACCAACAACTACAACAAAAAAAAGAAT-CCTTTATCTAAACATTAAATAAATCATTAAATTCC
** * * * *
60680131 ATAAAAAAAAAAAAACACTGATTGTTGAAGATTCAAACGGGAAAACCCTCAAAGTTGTTTCCAAA
65 ----AAGGAAAAAAACCCTAATTGTTGAAGATTCAAACGGGAAAACCCTCAAAATCGTTTCCAAA
*
60680196 CTATAAATAAATTAAAAAAAAAT
126 CTATAAATAAATT---AAAAAAG
* *
60680219 CAACCAACAACTACAACAAAAAAAAAGAATACCTTTATCTCAACATTAAATAAATCATTAATTTC
1 CAACCAACAACTACAAC-AAAAAAAAGAAT-CCTTTATCTAAACATTAAATAAATCATTAAATTC
* *
60680284 CAACGGAAAAAAACCCTAATTGTGGAAGATTCAAACGGGAAAACCCTCAAAATCGTTTCCAAACA
64 CAA-GGAAAAAAACCCTAATTGTTGAAGATTCAAACGGGAAAACCCTCAAAATCGTTTCCAAACT
*
60680349 ATAATTAAATTAAAAAAG
128 ATAAATAAATTAAAAAAG
* * ** * * * ** * * * *
60680367 CCA-CATCCTCTTCAACTACAACGACAAT-CTTTATCTGAACAATAAATAAATTATTAAATTCCA
1 CAACCAACAACTACAACAAAAAAAAGAATCCTTTATCTAAACATTAAATAAATCATTAAATTCCA
** * * *
60680430 AGGAAAAACCCCCTAATTGTTGAAGATTCAAACGAGAAAACCCTCAAAATCGTTTTCAAACTACA
66 AGGAAAAAAACCCTAATTGTTGAAGATTCAAACGGGAAAACCCTCAAAATCGTTTCCAAACTATA
60680495 AATAAATT
131 AATAAATT
60680503 CAAAGCAGCC
Statistics
Matches: 245, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
143 64 0.26
144 32 0.13
146 7 0.03
147 9 0.04
148 8 0.03
150 2 0.01
151 63 0.26
153 17 0.07
154 43 0.18
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (145 bp):
CAACCAACAACTACAACAAAAAAAAGAATCCTTTATCTAAACATTAAATAAATCATTAAATTCCA
AGGAAAAAAACCCTAATTGTTGAAGATTCAAACGGGAAAACCCTCAAAATCGTTTCCAAACTATA
AATAAATTAAAAAAG
Found at i:60680531 original size:143 final size:144
Alignment explanation
Indices: 60680251--60680536 Score: 373
Period size: 143 Copynumber: 2.0 Consensus size: 144
60680241 AAAAGAATAC
* *
60680251 CTTTATCTCAACATTAAATAAATCATTAATTTCCAACGGAAAAAAACCCTAATTGTGGAAGATTC
1 CTTTATCTCAACAATAAATAAATCATTAAATTCCAACGGAAAAAAACCCTAATTGTGGAAGATTC
* * * **
60680316 AAACGGGAAAACCCTCAAAATCGTTTCCAAACAATAATTAAATTAAAAAAGCCACATCCTCTTCA
66 AAACGAGAAAACCCTCAAAATCGTTTCCAAACAACAAATAAATTAAAAAAGCCACATCCTAATCA
60680381 ACTACAACGACAAT
131 ACTACAACGACAAT
* * ** *
60680395 CTTTATCTGAACAATAAATAAATTATTAAATTCCAA-GGAAAAACCCCCTAATTGTTGAAGATTC
1 CTTTATCTCAACAATAAATAAATCATTAAATTCCAACGGAAAAAAACCCTAATTGTGGAAGATTC
* * **
60680459 AAACGAGAAAACCCTCAAAATCGTTTTCAAACTACAAATAAATTCAAAGCAGCC-CAAT-C-AAT
66 AAACGAGAAAACCCTCAAAATCGTTTCCAAACAACAAATAAATT-AAAAAAGCCAC-ATCCTAAT
60680521 CAACTAACAACGACAA
129 CAACT-ACAACGACAA
60680537 CAAATAAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 6 0.05
143 76 0.62
144 41 0.33
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (144 bp):
CTTTATCTCAACAATAAATAAATCATTAAATTCCAACGGAAAAAAACCCTAATTGTGGAAGATTC
AAACGAGAAAACCCTCAAAATCGTTTCCAAACAACAAATAAATTAAAAAAGCCACATCCTAATCA
ACTACAACGACAAT
Found at i:60686455 original size:20 final size:22
Alignment explanation
Indices: 60686430--60686473 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60686420 GCCGAAACGT
60686430 GCGGCGATCGG-GC-GTTG-GGC
1 GCGGCG-TCGGTGCTGTTGCGGC
60686450 GCGGCGTCGGTGCTGTTGCGGC
1 GCGGCGTCGGTGCTGTTGCGGC
60686472 GC
1 GC
60686474 TGAGGCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 8 0.38
21 4 0.19
22 5 0.24
ACGTcount: A:0.02, C:0.27, G:0.52, T:0.18
Consensus pattern (22 bp):
GCGGCGTCGGTGCTGTTGCGGC
Found at i:60696602 original size:2 final size:2
Alignment explanation
Indices: 60696595--60696626 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
60696585 TTCAAAAAGC
60696595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60696627 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60711420 original size:232 final size:225
Alignment explanation
Indices: 60711072--60711523 Score: 536
Period size: 232 Copynumber: 2.0 Consensus size: 225
60711062 TTGCTTTTCT
* *
60711072 TTGTGGCTATTTCACCTAAAAAGCTAAAAAATAAATTTATCAGTTAAATTTGATTGAAATACATA
1 TTGTGACTATTTCACCTAAAAAGCTAAAAAATAAATTTATCAGCTAAATTTGATTGAAATACATA
* * * * *
60711137 TAAAAAATGGAAACAGCAAAATTCCAAGATGTTCATTTTCATATGTTCTCATTCTTTTAAAATTA
66 CAAAAAATAGAAACACCAAAATTCCAAGATATTCATTTCCATATGTTCTCATTCTTTTAAAATTA
* * * * * *
60711202 ACCCT-CAATGTCACAAAGAATAGCAAAACTACAAAAAAGAAGATCAAATTACACAATGTGTAAA
131 A-CATACAATGTCACAAAGAAAAACAAAACT---AAAAA-AAGACCAAATTAAAAAATGTGTAAA
*
60711266 TGTTGAGGGTTAATTTTTTTTAGAATCAAGACTAAA
191 TGTTGAGGATT-ATTTTTTTTAGAATCAAGACTAAA
* * * * *
60711302 TTGTGACTCTTTCGCCTAGAAAAGCTAACAAAGA-AAATTTATTAGCTAATTTTGATTGAAA-AT
1 TTGTGACTATTTCACCTA-AAAAGCTAA-AAA-ATAAATTTATCAGCTAAATTTGATTGAAATAC
* *
60711365 ATACAAAAAATAGAAACACCAAAAAATT-CAAGATATT-AGTTTCCATCTTTTCTCATTCTTTTA
63 ATACAAAAAATAGAAACACC--AAAATTCCAAGATATTCA-TTTCCATATGTTCTCATTCTTTTA
* * *
60711428 AAATTAACATACAGTGTCACAAAGAAAAATAAAACTAAAAAAATACCAAATTAAAAAATGTGTAA
125 AAATTAACATACAATGTCACAAAGAAAAACAAAACTAAAAAAAGACCAAATTAAAAAATGTGTAA
*
60711493 ATGTTGAGGATTATTTTTTTTAGAATTAAGA
190 ATGTTGAGGATTATTTTTTTTAGAATCAAGA
60711524 TTGAATTAAC
Statistics
Matches: 190, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
227 18 0.09
228 31 0.16
229 5 0.03
230 15 0.08
231 30 0.16
232 84 0.44
233 7 0.04
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (225 bp):
TTGTGACTATTTCACCTAAAAAGCTAAAAAATAAATTTATCAGCTAAATTTGATTGAAATACATA
CAAAAAATAGAAACACCAAAATTCCAAGATATTCATTTCCATATGTTCTCATTCTTTTAAAATTA
ACATACAATGTCACAAAGAAAAACAAAACTAAAAAAAGACCAAATTAAAAAATGTGTAAATGTTG
AGGATTATTTTTTTTAGAATCAAGACTAAA
Found at i:60715452 original size:20 final size:20
Alignment explanation
Indices: 60715427--60715469 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
60715417 TTAGTCTCTA
60715427 AACCCAAAAATCAACTAACT
1 AACCCAAAAATCAACTAACT
60715447 AACCCAAAAATCAACTAACT
1 AACCCAAAAATCAACTAACT
60715467 AAC
1 AAC
60715470 ATTTCCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.14
Consensus pattern (20 bp):
AACCCAAAAATCAACTAACT
Found at i:60716953 original size:21 final size:21
Alignment explanation
Indices: 60716927--60716980 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
60716917 AAGGAGGTAA
*
60716927 TTTTACATTGACTGGAAAACC
1 TTTTACATTGACGGGAAAACC
*
60716948 TTTTACATTGACGGGAAAGCC
1 TTTTACATTGACGGGAAAACC
60716969 TTTTACATTGAC
1 TTTTACATTGAC
60716981 CATCCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
TTTTACATTGACGGGAAAACC
Found at i:60723766 original size:51 final size:52
Alignment explanation
Indices: 60723706--60723821 Score: 189
Period size: 51 Copynumber: 2.2 Consensus size: 52
60723696 AATGAGTACT
*
60723706 AAATTATAATTATGTTGGAACTTGGCTTTTAATTATAATAAGAAT-GGGACG
1 AAATTATAATTATGTTGGAACTTGGCTTTTAATAATAATAAGAATGGGGACG
* **
60723757 AAATTATAATTATGTTGGAACTTGTCTTTTAATAATAATACTAATGGGGACG
1 AAATTATAATTATGTTGGAACTTGGCTTTTAATAATAATAAGAATGGGGACG
60723809 AAATTATAATTAT
1 AAATTATAATTAT
60723822 ATTTGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 41 0.68
52 19 0.32
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (52 bp):
AAATTATAATTATGTTGGAACTTGGCTTTTAATAATAATAAGAATGGGGACG
Found at i:60731334 original size:185 final size:182
Alignment explanation
Indices: 60731015--60731361 Score: 477
Period size: 185 Copynumber: 1.9 Consensus size: 182
60731005 TCTTGATCAG
* * * *
60731015 GCAAAAGTTAGTGAGGGTTTGTAAAGAAAAACCCTCACCGGCTTTTACTTGATAGATCAAAATGT
1 GCAAAAGATAGTGAGGGTTTGCAAAGAAAAACCCTCACCGACTTTTACTTGATAGATCAAAATAT
* *
60731080 TTACTTGGTTTAATTACTTAACTCTTAAAAAGCCATAGCTAGATTCTTAGAAATAGATCTAGAAG
66 TTACTCGGTTTAATCACTTAACTCTTAAAAAGCCATAGCTAGATTCTTAGAAATAGATCTAGAAG
60731145 TTTACTCGACTCAATCACCTAGAAAGGGAAAAATTCTCTTCAACCAGGTGAA
131 TTTACTCGACTCAATCACCTAGAAAGGGAAAAATTCTCTTCAACCAGGTGAA
* * *
60731197 GCAAAAGATAGTGACGGG-TTGCAAAGGAAAACCCTCACTGACTTTTGCTTGATAGAT-AAAGAT
1 GCAAAAGATAGTGA-GGGTTTGCAAAGAAAAACCCTCACCGACTTTTACTTGATAGATCAAA-AT
* *
60731260 ATTTACTCGGTTTAATCA-TTAAGAAACTCTTAAAAAAG-CATAGTTAGATTGTTAGAAATAGAT
64 ATTTACTCGGTTTAATCACTT----AACTCTT-AAAAAGCCATAGCTAGATTCTTAGAAATAGAT
* * *
60731323 CTAGAAGTTTACTTGACTTAATCACCTAGAAGGGGAAAA
124 CTAGAAGTTTACTCGACTCAATCACCTAGAAAGGGAAAA
60731362 CCCCCCCTTA
Statistics
Matches: 144, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
181 5 0.03
182 64 0.44
183 3 0.02
185 66 0.46
186 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (182 bp):
GCAAAAGATAGTGAGGGTTTGCAAAGAAAAACCCTCACCGACTTTTACTTGATAGATCAAAATAT
TTACTCGGTTTAATCACTTAACTCTTAAAAAGCCATAGCTAGATTCTTAGAAATAGATCTAGAAG
TTTACTCGACTCAATCACCTAGAAAGGGAAAAATTCTCTTCAACCAGGTGAA
Found at i:60740413 original size:37 final size:37
Alignment explanation
Indices: 60740363--60740437 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
60740353 CCAAATATAA
60740363 TATCATTGGACCCAATCATAACAAAATAGAGTGAGTT
1 TATCATTGGACCCAATCATAACAAAATAGAGTGAGTT
60740400 TATCATTGGACCCAATCATAACAAAATAGAGTGAGTT
1 TATCATTGGACCCAATCATAACAAAATAGAGTGAGTT
60740437 T
1 T
60740438 CTTAGCATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (37 bp):
TATCATTGGACCCAATCATAACAAAATAGAGTGAGTT
Found at i:60744118 original size:2 final size:2
Alignment explanation
Indices: 60744111--60744152 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
60744101 AGATAATTCA
60744111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60744153 CCTACTACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60748950 original size:3 final size:3
Alignment explanation
Indices: 60748942--60748975 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
60748932 GGTGAGAAGC
60748942 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60748976 ACAACAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60755957 original size:2 final size:2
Alignment explanation
Indices: 60755950--60755974 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60755940 ATAAATTTAG
60755950 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60755975 AGACTTACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60756033 original size:2 final size:2
Alignment explanation
Indices: 60756026--60756064 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
60756016 ACCGAAAATG
60756026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60756065 GGTAATAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60760904 original size:10 final size:10
Alignment explanation
Indices: 60760889--60760924 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
60760879 GGGTTAGAAT
60760889 AGAAAAAAAA
1 AGAAAAAAAA
60760899 AGAAAAAAAA
1 AGAAAAAAAA
*
60760909 A-AGAAAAAA
1 AGAAAAAAAA
60760918 AGAAAAA
1 AGAAAAA
60760925 GAAGAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:60760906 original size:9 final size:9
Alignment explanation
Indices: 60760892--60760930 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
60760882 TTAGAATAGA
60760892 AAAAAAAAG
1 AAAAAAAAG
*
60760901 AAAAAAAAA
1 AAAAAAAAG
60760910 AGAAAAAAAG
1 A-AAAAAAAG
*
60760920 AAAAAGAAG
1 AAAAAAAAG
60760929 AA
1 AA
60760931 GAAGAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:60760907 original size:11 final size:11
Alignment explanation
Indices: 60760891--60760918 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
60760881 GTTAGAATAG
60760891 AAAAAAAAAGA
1 AAAAAAAAAGA
60760902 AAAAAAAAAGA
1 AAAAAAAAAGA
60760913 AAAAAA
1 AAAAAA
60760919 GAAAAAGAAG
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:60760935 original size:9 final size:9
Alignment explanation
Indices: 60760895--60760936 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
60760885 GAATAGAAAA
60760895 AAAAAGAA-
1 AAAAAGAAG
*
60760903 AAAAAAAAG
1 AAAAAGAAG
60760912 AAAAA-AAG
1 AAAAAGAAG
60760920 AAAAAGAAG
1 AAAAAGAAG
*
60760929 AAGAAGAA
1 AAAAAGAA
60760937 TTCAATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:60763331 original size:4 final size:4
Alignment explanation
Indices: 60763322--60763357 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
60763312 TACAGACGCT
60763322 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
60763358 AACATGCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:60768744 original size:19 final size:19
Alignment explanation
Indices: 60768720--60768769 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
60768710 AGGTATGAGC
60768720 TTGAAAATTTTGGTAAATT
1 TTGAAAATTTTGGTAAATT
60768739 TTGAAAATTTTGGTAAATT
1 TTGAAAATTTTGGTAAATT
60768758 TTGAAAATTTTG
1 TTGAAAATTTTG
60768770 ATTCGAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGAAAATTTTGGTAAATT
Found at i:60768748 original size:9 final size:9
Alignment explanation
Indices: 60768720--60768770 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
60768710 AGGTATGAGC
60768720 TTGAAAATT
1 TTGAAAATT
*
60768729 TTGGTAAATT
1 TT-GAAAATT
60768739 TTGAAAATT
1 TTGAAAATT
*
60768748 TTGGTAAATT
1 TT-GAAAATT
60768758 TTGAAAATT
1 TTGAAAATT
60768767 TTGA
1 TTGA
60768771 TTCGAATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (9 bp):
TTGAAAATT
Found at i:60770430 original size:2 final size:2
Alignment explanation
Indices: 60770425--60770465 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
60770415 TTATATGTGT
60770425 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
60770466 TAAAATGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:60771652 original size:27 final size:28
Alignment explanation
Indices: 60771622--60771681 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
60771612 AAACAAAGAA
60771622 AAAAAATAAAGATATTATTTT-TATCTC
1 AAAAAATAAAGATATTATTTTCTATCTC
* *
60771649 AAAAAATAGAGATATTATTTTCTATCTT
1 AAAAAATAAAGATATTATTTTCTATCTC
60771677 AAAAA
1 AAAAA
60771682 CGTGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (28 bp):
AAAAAATAAAGATATTATTTTCTATCTC
Found at i:60771915 original size:18 final size:15
Alignment explanation
Indices: 60771880--60771911 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60771870 TCTCATTCTC
60771880 TTCTATAATTCATTT
1 TTCTATAATTCATTT
60771895 TTCTATAATTCATTT
1 TTCTATAATTCATTT
60771910 TT
1 TT
60771912 TTTCCTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCTATAATTCATTT
Found at i:60774174 original size:30 final size:31
Alignment explanation
Indices: 60774138--60774195 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
60774128 AATATATTTA
*
60774138 TTTTTAAAATTTTT-TAA-TTTTAAAATACT
1 TTTTTTAAATTTTTGTAATTTTTAAAATACT
60774167 TTTTTTAAATTTTTGTAATTTTTAAAATA
1 TTTTTTAAATTTTTGTAATTTTTAAAATA
60774196 AATTTTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 3 0.12
31 10 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTTTTAAATTTTTGTAATTTTTAAAATACT
Found at i:60774202 original size:31 final size:29
Alignment explanation
Indices: 60774137--60774202 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
60774127 AAATATATTT
*
60774137 ATTTTTAAAATTTTTTAATTTTAAAATAC
1 ATTTTTAAAATTTTTTAATTTTAAAATAA
* *
60774166 TTTTTTTAAATTTTTGTAATTTTTAAAATAA
1 ATTTTTAAAATTTTT-TAA-TTTTAAAATAA
60774197 ATTTTT
1 ATTTTT
60774203 GGTATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 13 0.42
30 3 0.10
31 15 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTAAAATTTTTTAATTTTAAAATAA
Found at i:60774712 original size:223 final size:222
Alignment explanation
Indices: 60774324--60774774 Score: 884
Period size: 223 Copynumber: 2.0 Consensus size: 222
60774314 ACCCGGGCAA
60774324 AATTTTTTTTATGAGTCCGGCCCGAACCCGGCCCGGCCCGGCCCATGAGCACCTCTAATCAGTAC
1 AATTTTTTTTATGAGTCCGGCCCGAACCCGGCCCGGCCCGGCCCATGAGCACCTCTAATCAGTAC
60774389 CCATTGATGAGTAGAAGAACATACCTTAAATTCAAGTTGATCTAACAATCACTGTTGGAGATCAG
66 CCATTGATGAGTAGAAGAACATACCTTAAATTCAAGTTGATCTAACAATCACTGTTGGAGATCAG
*
60774454 ATAAAAAAATTATTTGGATTTTAGTTCGCAGATTCATGATATTCAAAGTTATTTCATAAAAAAAA
131 ATAAAAAAATTATTTGGATTTTAGTTCACAGATTCATGATATTCAAAGTTATTTCAT-AAAAAAA
60774519 ATGAACTGTAGAAGAAAAAGGCAATGAG
195 ATGAACTGTAGAAGAAAAAGGCAATGAG
60774547 AATTTTTTTTATGAGTCCGGCCCGAACCCGGCCCGGCCCGGCCCATGAGCACCTCTAATCAGTAC
1 AATTTTTTTTATGAGTCCGGCCCGAACCCGGCCCGGCCCGGCCCATGAGCACCTCTAATCAGTAC
60774612 CCATTGATGAGTAGAAGAACATACCTTAAATTCAAGTTGATCTAACAATCACTGTTGGAGATCAG
66 CCATTGATGAGTAGAAGAACATACCTTAAATTCAAGTTGATCTAACAATCACTGTTGGAGATCAG
60774677 ATAAAAAAATTATTTGGATTTTAGTTCACAGATTCATGATATTCAAAGTTATTTCATAAAAAAAA
131 ATAAAAAAATTATTTGGATTTTAGTTCACAGATTCATGATATTCAAAGTTATTTCATAAAAAAAA
60774742 TGAACTGTAGAAGAAAAAGGCAATGAG
196 TGAACTGTAGAAGAAAAAGGCAATGAG
60774769 AATTTT
1 AATTTT
60774775 CAATTTGGCG
Statistics
Matches: 227, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
222 41 0.18
223 186 0.82
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (222 bp):
AATTTTTTTTATGAGTCCGGCCCGAACCCGGCCCGGCCCGGCCCATGAGCACCTCTAATCAGTAC
CCATTGATGAGTAGAAGAACATACCTTAAATTCAAGTTGATCTAACAATCACTGTTGGAGATCAG
ATAAAAAAATTATTTGGATTTTAGTTCACAGATTCATGATATTCAAAGTTATTTCATAAAAAAAA
TGAACTGTAGAAGAAAAAGGCAATGAG
Found at i:60776551 original size:15 final size:15
Alignment explanation
Indices: 60776528--60776558 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60776518 TGATAAACTG
*
60776528 AAAATTTAAATGTTA
1 AAAAATTAAATGTTA
60776543 AAAAATTAAATGTTA
1 AAAAATTAAATGTTA
60776558 A
1 A
60776559 TTTTTTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AAAAATTAAATGTTA
Found at i:60777594 original size:18 final size:19
Alignment explanation
Indices: 60777544--60777594 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
60777534 CACGCAGATG
*
60777544 GAACTCAACAACAA-ATCAA
1 GAAC-CAACAACAACAACAA
*
60777563 GAACCATCAA-AACAACAA
1 GAACCAACAACAACAACAA
60777581 GAA-CAACAACAACA
1 GAACCAACAACAACA
60777595 GATGCCACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.61, C:0.27, G:0.06, T:0.06
Consensus pattern (19 bp):
GAACCAACAACAACAACAA
Found at i:60779881 original size:388 final size:384
Alignment explanation
Indices: 60779087--60780018 Score: 1051
Period size: 388 Copynumber: 2.4 Consensus size: 384
60779077 AAGCTAGCTG
* * *
60779087 ATACACCCTATTAAATTCGCTGTCTTATAAGTTAACTTTTGAGGTTTTAGGGTTTTAAATTTCAT
1 ATACACCCTATTAAATTCTCCGTCTTATAAGTTAACTTTTGAGGTTTTAGGGTTTT-AATTTCTT
*
60779152 TTTAACTCGATATTAAAGCTAAGTTCCTTAAACCGTAAACCCTAAATAT-TCTCGTCTTCAGGTT
65 TTTAACTCGATATTAAAGCTAAGTTCCTTAAACCATAAACCCTAAAT-TCTCTCGTCTTCAGGTT
* * * * * * * *
60779216 CTCTTAAAGGTTGGGTTAGAATTTAAACTAGGTTCTACCTTAAACCCAAGGCCTTTTCCATCCAC
129 GTCTTTAAGGTCGGGTTAGAGTTTGAACCAAGATCTACC-TAAA-CCAAGGCCTTTTCCATCCAC
* * * * **
60779281 CAAGTAAACTTCTATCGAAGATCTTTATCTTCCGTAATGGTTGGTAGCGTATTGGTTTTAAAGTA
192 CAAGTAAACTTCTATCGAACATCCTTATCTTCCATAATGGTTGGTACCGTATCAGTTTTAAAGTA
* * *
60779346 AAAACGAAACGAGCACGATCATGTTATACGCCCACTAGCATGACACCAAACTACTTTAGTTTCTT
257 AAAACGAAACGAGAACCATCATGTTATACGCCCACTAGCACGACACCAAACTACTTTAGTTTCTT
* *
60779411 CTGCAACAAGTAAAAGGTTTGCAGTAATACAAATAGGGCAAGATTAACACCGAGTATAACTGAT
322 CTGCAACAAGAAAAAAGTTTGCAGTAATACAAATAGGGCAAGATTAACACCGAGTATAACT-AT
* * * *
60779475 ACACTACCCTAATAAATTCTCCGTCTTACAA-TTAACTTTTTGAGGTTTTACGGTTTTAATTTCT
1 ATAC-ACCCTATTAAATTCTCCGTCTTATAAGTTAAC-TTTTGAGGTTTTAGGGTTTTAATTTCT
* * *
60779539 TTTTAACTCGATATTAAA-CTAGGTT-CTGTAAACCATAAACCCTAGATTCTCTCGTCTTCAAGT
64 TTTTAACTCGATATTAAAGCTAAGTTCCT-TAAACCATAAACCCTAAATTCTCTCGTCTTCAGGT
* * * * *
60779602 TGTCTTTTAAGGTCGGGTTAGAGTTTGCACCAAGATGTAGC-AGA-GAAGGCCTTTAATTTCCAT
128 TGTC-TTTAAGGTCGGGTTAGAGTTTGAACCAAGATCTACCTAAACCAAGGCC--T--TTTCCAT
* * * *
60779665 CCTCCAAGTAAACTTTTATCGAACATCCTTGTCTTCTATAATGGTTGGTACCGTATCAGTTTTAA
188 CCACCAAGTAAACTTCTATCGAACATCCTTATCTTCCATAATGGTTGGTACCGTATCAGTTTTAA
* * **
60779730 AGTAAAAAC-AATAC-AGGAACCATCATGTTATATGCCCACTAGCACGATACTGAACTACTTTAT
253 AGTAAAAACGAA-ACGA-GAACCATCATGTTATACGCCCACTAGCACGACACCAAACTAC--T-T
* **
60779793 TAGTTTCTTTTGCAACAAGAAAAAAGTTTGCAG-AGATACAAATAGGGCAAGATTCGCACCGAGT
313 TAGTTTCTTCTGCAACAAGAAAAAAGTTTGCAGTA-ATACAAATAGGGCAAGATTAACACCGAGT
60779857 ATAACT-T
377 ATAACTAT
* ** * * * *
60779864 ATACACCCTATTAAATTCTCCATCTTATATAAGCAAACCTTTGATG-TTCAGGGTTTTACTTT-T
1 ATACACCCTATTAAATTCTCCGTC-T-TATAAGTTAACTTTTGAGGTTTTAGGGTTTTAATTTCT
* ** * *
60779927 CTTTTAACTCAATATTAAAGCTAAGTTCCTTAAATTATAAACCCTAAATTCTCTTGTCTTCGGGT
64 -TTTTAACTCGATATTAAAGCTAAGTTCCTTAAACCATAAACCCTAAATTCTCTCGTCTTCAGGT
*
60779992 TGTCTTTAAGGTCAGGTTAGAGTTTGA
128 TGTCTTTAAGGTCGGGTTAGAGTTTGA
60780019 CTTGATATTA
Statistics
Matches: 456, Mismatches: 67, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
384 6 0.01
386 6 0.01
387 42 0.09
388 185 0.41
389 97 0.21
390 51 0.11
391 69 0.15
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (384 bp):
ATACACCCTATTAAATTCTCCGTCTTATAAGTTAACTTTTGAGGTTTTAGGGTTTTAATTTCTTT
TTAACTCGATATTAAAGCTAAGTTCCTTAAACCATAAACCCTAAATTCTCTCGTCTTCAGGTTGT
CTTTAAGGTCGGGTTAGAGTTTGAACCAAGATCTACCTAAACCAAGGCCTTTTCCATCCACCAAG
TAAACTTCTATCGAACATCCTTATCTTCCATAATGGTTGGTACCGTATCAGTTTTAAAGTAAAAA
CGAAACGAGAACCATCATGTTATACGCCCACTAGCACGACACCAAACTACTTTAGTTTCTTCTGC
AACAAGAAAAAAGTTTGCAGTAATACAAATAGGGCAAGATTAACACCGAGTATAACTAT
Found at i:60783026 original size:29 final size:30
Alignment explanation
Indices: 60782968--60783026 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
60782958 GAATTGGGTT
* *
60782968 AAATCAAAATTTTATATATAAAATTGCACA
1 AAATCAAAAATTTATATATAAAATTACACA
*
60782998 AAATCAAAAATTT-TGTATAAAATTACACA
1 AAATCAAAAATTTATATATAAAATTACACA
60783027 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATCAAAAATTTATATATAAAATTACACA
Found at i:60786791 original size:31 final size:30
Alignment explanation
Indices: 60786753--60786851 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
60786743 TTTATATACT
60786753 ATTTGGTACTTGAGTTTAGCTTTAATGTTCA
1 ATTTGGTACTTGAGTTT-GCTTTAATGTTCA
* * *
60786784 ATTTGGTACCTGAGTTTTC-TT--TGTCCCA
1 ATTTGGTACTTGAGTTTGCTTTAATGT-TCA
* * *
60786812 ATTTGGTACTCGAGTTTGGCTATAATGTTCC
1 ATTTGGTACTTGAGTTT-GCTTTAATGTTCA
60786843 ATTTGGTAC
1 ATTTGGTAC
60786852 CTTTGTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.06
28 17 0.31
29 3 0.06
30 2 0.04
31 26 0.48
32 3 0.06
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.45
Consensus pattern (30 bp):
ATTTGGTACTTGAGTTTGCTTTAATGTTCA
Found at i:60787009 original size:31 final size:31
Alignment explanation
Indices: 60786971--60787035 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
60786961 TGGTCTTAGA
* *
60786971 TACCAAATTGAACATTAAATCCAAACTCAGG
1 TACCAAATTGAACATTAAAGCCAAACACAGG
* *
60787002 TACCAAATTGAATATTGAAGCCAAACACAGG
1 TACCAAATTGAACATTAAAGCCAAACACAGG
60787033 TAC
1 TAC
60787036 TAATGGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.22
Consensus pattern (31 bp):
TACCAAATTGAACATTAAAGCCAAACACAGG
Found at i:60788833 original size:2 final size:2
Alignment explanation
Indices: 60788828--60788854 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60788818 GAGAGAGAGA
60788828 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
60788855 AATCTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:60790485 original size:362 final size:357
Alignment explanation
Indices: 60789639--60790519 Score: 1250
Period size: 362 Copynumber: 2.5 Consensus size: 357
60789629 TTTCCTTCCC
*
60789639 CCTATGTTACAAATTCATAAGTATAGCTCCAATTAAACTCGAAACAGAGATCAATCTCATCATAG
1 CCTAGGTTACAAA-TCATAAGTATAGCTCCAATTAAACTC-AAACAGAGATCAATCTCATCATAG
* * * *** *
60789704 CTAT-GAATTTAAATTATCTTATTCTGTGATTTCCAAGCAAACAAACGGAGCATAAAGTTACAAA
64 CT-TCGAATTTAAAATACCTAATTCTACAATTTCCAACCAAACAAAC-GAGCATAAAGTTACAAA
* *
60789768 TTGC-AATCTACAACAATTTCATTAATCCTGAATCT--AAAACTTCTCCATCCTGAAGCTAAGTA
127 TTCCAAATCTACAATAATTTCATTAATCCTGAATCTAGAAAACTTCTCCATCCTGAAGCTAAGTA
* ** *
60789830 ATAAACAATCCAAAACATTATCTCTATGCATGCACTTTTACTTAAAATTCAGTATTAAACCTTAC
192 ATAAACAATCCAAAACATAATCTCTACACATGCACTTCTACTTAAAATTCAGTATTAAACCTTAC
* * * * *
60789895 TAGAAGATAATTCAACTACATTCTACATTTCATCATCTTCATTATTCAGTCCACATCCAACATTT
257 TAAAAGATAATTCAACTACATTCTACATTTAATCATCCTCATCATTCAATCCACATCCAACATTT
*
60789960 CTCTAAGCACATGCATTTTACAATGTTGATTTCATT
322 CTCTAAGCACATGCATTTTACAATGTTGATTCCATT
*
60789996 CCTAGGTT----A-CATAAGTATA-----ACTTAAACTCAAAACAGAGATCAATCTCATCATAGC
1 CCTAGGTTACAAATCATAAGTATAGCTCCAATTAAACTC-AAACAGAGATCAATCTCATCATAGC
* *
60790051 TTCAAATTCAAAATACCTAATTCTACAATTTCCAACCAAACAAACGTAGCATAAAGTTACAAATT
65 TTCGAATTTAAAATACCTAATTCTACAATTTCCAACCAAACAAACG-AGCATAAAGTTACAAATT
*
60790116 CCAAATCTACAATAATTTTATTAATCCTGAATCTAGAAAACTTCTCCATCCTGAAGCTAAGTAAT
129 CCAAATCTACAATAATTTCATTAATCCTGAATCTAGAAAACTTCTCCATCCTGAAGCTAAGTAAT
* *
60790181 AAACGATCCAAAACATAATTTCTACACATGCACTTCTACTTAAAATTCAGTATTAAACCTCTACT
194 AAACAATCCAAAACATAATCTCTACACATGCACTTCTACTTAAAATTCAGTATTAAACCT-TACT
*
60790246 AAAAGATAGTTCAACTACATTCTACATTTAATCATCCTCATCATTCAATCCACATCCAACATTTC
258 AAAAGATAATTCAACTACATTCTACATTTAATCATCCTCATCATTCAATCCACATCCAACATTTC
* *
60790311 TCTAAGCACATGCATTTTACAGTGTGTGGTTCCATT
323 TCTAAGCACATGCATTTTACAATGT-TGATTCCATT
*
60790347 CCTAGGTTACAAACTCATAAGTATAGCTCCAATTATACTCAAAGCAGAGATCAATCTCATCATAG
1 CCTAGGTTACAAA-TCATAAGTATAGCTCCAATTAAACTCAAA-CAGAGATCAATCTCATCATAG
* * *
60790412 CTTCGAATTTAAAATACCTAATCCTACAATTTCCAACCAAAAAAACAGAGCATAGAGTTACAAAT
64 CTTCGAATTTAAAATACCTAATTCTACAATTTCCAACCAAACAAAC-GAGCATAAAGTTACAAAT
* *
60790477 TTCAAATCTGCAATAATTTCATTAATCCTGAATCTAGAAAACT
128 TCCAAATCTACAATAATTTCATTAATCCTGAATCTAGAAAACT
60790520 AGTCTATCCT
Statistics
Matches: 464, Mismatches: 40, Indels: 35
0.86 0.07 0.06
Matches are distributed among these distances:
345 2 0.00
346 87 0.19
347 29 0.06
349 83 0.18
350 87 0.19
351 26 0.06
353 1 0.00
355 1 0.00
357 17 0.04
361 3 0.01
362 127 0.27
363 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (357 bp):
CCTAGGTTACAAATCATAAGTATAGCTCCAATTAAACTCAAACAGAGATCAATCTCATCATAGCT
TCGAATTTAAAATACCTAATTCTACAATTTCCAACCAAACAAACGAGCATAAAGTTACAAATTCC
AAATCTACAATAATTTCATTAATCCTGAATCTAGAAAACTTCTCCATCCTGAAGCTAAGTAATAA
ACAATCCAAAACATAATCTCTACACATGCACTTCTACTTAAAATTCAGTATTAAACCTTACTAAA
AGATAATTCAACTACATTCTACATTTAATCATCCTCATCATTCAATCCACATCCAACATTTCTCT
AAGCACATGCATTTTACAATGTTGATTCCATT
Found at i:60792599 original size:2 final size:2
Alignment explanation
Indices: 60792592--60792620 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
60792582 CTTTCATGTT
60792592 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
60792621 TTATTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:60793138 original size:190 final size:188
Alignment explanation
Indices: 60792806--60793384 Score: 715
Period size: 187 Copynumber: 3.1 Consensus size: 188
60792796 GGTTTGGAAT
* * *
60792806 TATAGCTATTTATGGTGTTGATGAGAGCTTGGGTTTGTGGTTTAAAGGA-GGCCTTTGC-TGAA-
1 TATAGCTA-TTATGGTGTTGATGAGAGC-TGGGTTTGTGG-TTGAAGGACCGCCTTTACTTGAAC
* * * * * *
60792868 CATGATGCTTTGCCAATGGGTTTAGAGTTATTTAGCTAGAGTGGATTTATGGTTTTGTGGTTATC
63 CAAGA-GCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATC
** *
60792933 ATCAAACACTTTTATGAAACCTCGCATTCTCTGTGTTTGATTAGTTCGAAGCCTTCATTGGAAC
127 ATCAAACACTTTTATGAAACCTCGCA-TCTCTGTGTTTGATTA-TTCGAAGCCTTTGTTAGAAC
* *
60792997 TATAGCTATTATGGTGTTGAGGAGAGCTAGGG-TTGTGGTTGAAGGACCCCCTTTACTTGAACCA
1 TATAGCTATTATGGTGTTGATGAGAGCT-GGGTTTGTGGTTGAAGGACCGCCTTTACTTGAACCA
*
60793061 AGAGCTTTGCTAATGGGTTTAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCATC
65 AGAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATCATC
* *** * * *
60793126 CATTGCTTTTATG-AACCTCGCATATCTGTGTTTGATTCATTCGAAGGCTTTGTCAGAAC
130 AAACACTTTTATGAAACCTCGCATCTCTGTGTTTGATT-ATTCGAAGCCTTTGTTAGAAC
* * *
60793185 TATAGTTATTGTGGTGTTGATGAGAGCTGGGTTTGTGG-TGTAAGG-CCGACTTTACTTGAACC-
1 TATAGCTATTATGGTGTTGATGAGAGCTGGGTTTGTGGTTG-AAGGACCGCCTTTACTTGAACCA
60793247 AGAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATCAT
65 AG-AGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATCAT
* * * * *
60793312 CAAACACTTTTATGAAACCTCACACCCTTTGTGTTTGATTAATTCAAAGCATTTGTTAGAAC
129 CAAACACTTTTATGAAACCTCGCA-TCTCTGTGTTTGATT-ATTCGAAGCCTTTGTTAGAAC
*
60793374 TACAGCTATTA
1 TATAGCTATTA
60793385 CGGTTTAAGG
Statistics
Matches: 334, Mismatches: 44, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
186 2 0.01
187 91 0.27
188 79 0.24
189 60 0.18
190 90 0.27
191 12 0.04
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (188 bp):
TATAGCTATTATGGTGTTGATGAGAGCTGGGTTTGTGGTTGAAGGACCGCCTTTACTTGAACCAA
GAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATCATCA
AACACTTTTATGAAACCTCGCATCTCTGTGTTTGATTATTCGAAGCCTTTGTTAGAAC
Found at i:60793519 original size:165 final size:164
Alignment explanation
Indices: 60793234--60793547 Score: 416
Period size: 165 Copynumber: 1.9 Consensus size: 164
60793224 GTAAGGCCGA
* * * * *
60793234 CTTTACTTGAACCAGAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTT
1 CTTTACTTGAACCAAAAGCTTTGCTAATGGGTTTAGAATTATTTAGCTAGAGAGGACTTAGAGTT
* * * *
60793299 TTGTGATTATCATCAAACACTTTTATGAAACCTCACACCCTTTGTGTTTGATTAATTCAAAGCAT
66 TTGTGATTACCATCAAACACTTCTATGAAACCTCACACCC-TTGTGTTCGATTAATTCAAAGCAC
* *
60793364 TTGTTAGAACTACAGCTATTACGGTTTAAGGATGC
130 TTATCAGAACTACAGCTATTACGGTTTAAGGATGC
*
60793399 CTTTACTTGAACCAAAAGCTTTGCTAATGGGTTTAGAATTATTTGGCTAGAGAGGACTTAGAGTT
1 CTTTACTTGAACCAAAAGCTTTGCTAATGGGTTTAGAATTATTTAGCTAGAGAGGACTTAGAGTT
** * * *
60793464 TTGTGATTACCATTGGAACGCTTCTATG-AACCTTGCACTCCC-TGTGTTCGATTAATTCGAAGC
66 TTGTGATTACCA-TCAAACACTTCTATGAAACC-T-CACACCCTTGTGTTCGATTAATTCAAAGC
*
60793527 ACTTATCAGAACTATAGCTAT
128 ACTTATCAGAACTACAGCTAT
60793548 CTATGGTGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
165 110 0.86
166 12 0.09
167 6 0.05
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (164 bp):
CTTTACTTGAACCAAAAGCTTTGCTAATGGGTTTAGAATTATTTAGCTAGAGAGGACTTAGAGTT
TTGTGATTACCATCAAACACTTCTATGAAACCTCACACCCTTGTGTTCGATTAATTCAAAGCACT
TATCAGAACTACAGCTATTACGGTTTAAGGATGC
Found at i:60802896 original size:20 final size:21
Alignment explanation
Indices: 60802843--60802889 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
60802833 TTATCTAAAT
60802843 TTTAAAAATTTAAGAAAATTC
1 TTTAAAAATTTAAGAAAATTC
60802864 TTTAAAAATTTAAGAAAATTC
1 TTTAAAAATTTAAGAAAATTC
60802885 TTTAA
1 TTTAA
60802890 TATTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTAAAAATTTAAGAAAATTC
Found at i:60803458 original size:216 final size:216
Alignment explanation
Indices: 60803084--60803557 Score: 709
Period size: 216 Copynumber: 2.2 Consensus size: 216
60803074 CCAATTTCTG
* * * *
60803084 GTTCAACTAGTTTAATTAGTTGGTCCGATCGATTTCCAACAATTATATATACATCGGTTAATAAT
1 GTTCAACTAGTTAAATCAGTTGGTCCAATTGATTTCCAACAATTATATATACATCGGTTAATAAT
* * **
60803149 TCTATAAAAATAACTAATAATGTTTTGGAGCTTTGAGATCCTAAATTCGAATTCCACCCAAAATT
66 TCTATAAAAATAACTAATAAGGCTTTGGAAATTTGAGATCCTAAATTCGAATTCCACCCAAAATT
*
60803214 TCTGAACCCTTTTAAATGTGTAAATTAAAGTAGGGAGGTTAGTCTCTAGTTTCAACATAATTAAA
131 TCTGAACCCTTTTAAATGTGCAAATTAAAGTAGGGAGGTTAGTCTCTAGTTTCAACATAATTAAA
* * *
60803279 GGGGCTAACCTCGTCATTATA
196 GGGACTAACCTCATAATTATA
*
60803300 GTTCAACTAGTTAAATCAGTTGGTCCAATTGATTTCCAACAATTATATATACATCGGTTGATAAT
1 GTTCAACTAGTTAAATCAGTTGGTCCAATTGATTTCCAACAATTATATATACATCGGTTAATAAT
* * *
60803365 TCTATAAAAATAACTGATAAGGCTTTGGAAATTTGAGATCCTAAATTCGAGTTCCACCC-AAAGT
66 TCTATAAAAATAACTAATAAGGCTTTGGAAATTTGAGATCCTAAATTCGAATTCCACCCAAAATT
* * *
60803429 TCTCGAA-TCTTTCTAAGTGTGCAAATTAAAGTAGGGCGGTTAGTCTCTAGTTTCAACATAATTA
131 TCT-GAACCCTTT-TAAATGTGCAAATTAAAGTAGGGAGGTTAGTCTCTAGTTTCAACATAATTA
* *
60803493 AAGTGACTAACCTCATAATTATG
194 AAGGGACTAACCTCATAATTATA
* *
60803516 GTTCAACTAGTTCAATCAGTCGGTCCAATTGATTTCCAACAA
1 GTTCAACTAGTTAAATCAGTTGGTCCAATTGATTTCCAACAA
60803558 CAATAAAGCT
Statistics
Matches: 233, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
215 11 0.05
216 222 0.95
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (216 bp):
GTTCAACTAGTTAAATCAGTTGGTCCAATTGATTTCCAACAATTATATATACATCGGTTAATAAT
TCTATAAAAATAACTAATAAGGCTTTGGAAATTTGAGATCCTAAATTCGAATTCCACCCAAAATT
TCTGAACCCTTTTAAATGTGCAAATTAAAGTAGGGAGGTTAGTCTCTAGTTTCAACATAATTAAA
GGGACTAACCTCATAATTATA
Found at i:60803907 original size:3 final size:3
Alignment explanation
Indices: 60803899--60803928 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
60803889 TTGCAGCTTT
*
60803899 ATC ATC ATC ATC ATC ATC ATC ATC ACC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
60803929 GAATTCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:60808755 original size:16 final size:16
Alignment explanation
Indices: 60808736--60808770 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60808726 AAAGTTAATA
60808736 ACCTAAA-CTTGAAATG
1 ACCTAAATC-TGAAATG
60808752 ACCTAAATCTGAAATG
1 ACCTAAATCTGAAATG
60808768 ACC
1 ACC
60808771 CAAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (16 bp):
ACCTAAATCTGAAATG
Found at i:60817960 original size:21 final size:21
Alignment explanation
Indices: 60817924--60817965 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60817914 CTCTAAAACA
*
60817924 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGCTTACATTTT
* *
60817945 AGGGAAAATGTCTTACCTTTT
1 AGGGAAAATGGCTTACATTTT
60817966 CAATTTCCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (21 bp):
AGGGAAAATGGCTTACATTTT
Found at i:60818360 original size:14 final size:15
Alignment explanation
Indices: 60818338--60818414 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
60818328 CAATCAAACA
60818338 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
60818352 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
60818367 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
*
60818387 CC-CAAAATCATTTT
1 CCAGAAAATCATTTT
*
60818401 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
60818415 ACTGGCAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 20 0.41
15 16 0.33
16 1 0.02
18 1 0.02
19 4 0.08
20 7 0.14
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:60819955 original size:22 final size:22
Alignment explanation
Indices: 60819925--60819967 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60819915 CCTTTATGGA
*
60819925 TTTAGTATGCAAACCCCATATT
1 TTTAATATGCAAACCCCATATT
* *
60819947 TTTAATATGCAATCCCTATAT
1 TTTAATATGCAAACCCCATAT
60819968 GTACGAACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (22 bp):
TTTAATATGCAAACCCCATATT
Done.