Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 79 of 295
Found at i:24580442 original size:53 final size:53
Alignment explanation
Indices: 24580312--24580511 Score: 191
Period size: 49 Copynumber: 3.8 Consensus size: 53
24580302 ATTAGGGTTT
* *
24580312 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT-C-ATAAGG-A
* * * * * *
24580368 AAGG-TCCCATATAAGATCATGTTAAGTCATGGAATTGGTGAGTTCATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTCATAAGGA
*
24580420 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTT--TAA--A
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTCATAAGGA
* *
24580469 AAGGATACCACGTAAGACCATGACAAGTA-ATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGG-AATTGGTAAG
24580512 GTACCCGTGT
Statistics
Matches: 123, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.32
50 1 0.01
51 3 0.02
52 5 0.04
53 36 0.29
54 3 0.02
55 32 0.26
56 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTCATAAGGA
Found at i:24585649 original size:35 final size:35
Alignment explanation
Indices: 24585610--24585677 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
24585600 TTCGCATGCT
* *
24585610 ATTATTCTGACTATGATTCGCATGTTAAGCATGTC
1 ATTATTCTAACTATGATTCGCATGTTAAACATGTC
*
24585645 ATTATTCTAATTATGATTCGCATGTTAAACATG
1 ATTATTCTAACTATGATTCGCATGTTAAACATG
24585678 CAACTATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (35 bp):
ATTATTCTAACTATGATTCGCATGTTAAACATGTC
Found at i:24586317 original size:19 final size:19
Alignment explanation
Indices: 24586274--24586315 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
24586264 TCAGAAAAAC
24586274 TATTTT-GGATTTTGGTTT
1 TATTTTGGGATTTTGGTTT
*
24586292 TATTTTGGGATTTT-TTTT
1 TATTTTGGGATTTTGGTTT
24586310 TATTTT
1 TATTTT
24586316 TGTAGACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.71
Consensus pattern (19 bp):
TATTTTGGGATTTTGGTTT
Found at i:24591502 original size:40 final size:40
Alignment explanation
Indices: 24591457--24591548 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
24591447 CGGTTATTTG
*
24591457 TGGCACTTAGTGCGTGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
* * *
24591497 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
1 TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
* *
24591537 TGACACTAAGTG
1 TGGCACTTAGTG
24591549 TATGATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
Found at i:24591572 original size:40 final size:40
Alignment explanation
Indices: 24591478--24591573 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
24591468 GCGTGATACG
* * * *
24591478 ACATAGCTTCGGCTATATATGGCACTTAGTGTGCGATTCG
1 ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
* * *
24591518 ACATAGCTTTGGCTATATATGACACTAAGTGTATGATTTA
1 ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
* *
24591558 AGATATCTTCGGCTAT
1 ACATAGCTTCGGCTAT
24591574 GTACAACACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (40 bp):
ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
Found at i:24596561 original size:25 final size:25
Alignment explanation
Indices: 24596506--24596596 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
24596496 TTCTGACCCT
* *
24596506 CAGCTTGTGAGAGCCTACCAA-TTA
1 CAGCTCGTGAGAGCATACCAATTTA
24596530 CAGCTCGTGAGAGCATACCAATTTA
1 CAGCTCGTGAGAGCATACCAATTTA
*
24596555 CAGCTCGTGTGAGCATACCAATTTA
1 CAGCTCGTGAGAGCATACCAATTTA
*
24596580 CAGCTCGTGTGAGCATA
1 CAGCTCGTGAGAGCATA
24596597 TATGTACAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 19 0.30
25 44 0.70
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
CAGCTCGTGAGAGCATACCAATTTA
Found at i:24597198 original size:25 final size:25
Alignment explanation
Indices: 24597157--24597215 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
24597147 TTGGTTAACA
* * *
24597157 TTGGCCATATATTTTGG-TTGTTGTT
1 TTGGCCATTTATCTTGGCTTG-TGAT
24597182 TTGGCCATTTATCTTGGCTTGTGAT
1 TTGGCCATTTATCTTGGCTTGTGAT
24597207 TTGG-CATTT
1 TTGGCCATTT
24597216 TGTTTCTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 22 0.73
26 3 0.10
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (25 bp):
TTGGCCATTTATCTTGGCTTGTGAT
Found at i:24605727 original size:22 final size:22
Alignment explanation
Indices: 24605702--24605754 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
24605692 ACGGCCCTTG
24605702 TAATTAAAATTTCATTATTTTA
1 TAATTAAAATTTCATTATTTTA
*
24605724 TAATTAAAATTTCATTATTTTG
1 TAATTAAAATTTCATTATTTTA
24605746 TAATTAAAA
1 TAATTAAAA
24605755 ATAAAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTAAAATTTCATTATTTTA
Found at i:24605763 original size:23 final size:22
Alignment explanation
Indices: 24605715--24605765 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24605705 TTAAAATTTC
***
24605715 ATTATTTTATAATTAAAATTTC
1 ATTATTTTATAATTAAAATAAA
*
24605737 ATTATTTTGTAATTAAAAATAAA
1 ATTATTTTATAATT-AAAATAAA
24605760 ATTATT
1 ATTATT
24605766 AGAATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATTTTATAATTAAAATAAA
Found at i:24606443 original size:10 final size:9
Alignment explanation
Indices: 24606413--24606552 Score: 97
Period size: 10 Copynumber: 14.8 Consensus size: 9
24606403 TTATTTTTTC
24606413 ATAAAAATT
1 ATAAAAATT
*
24606422 ATAAAATTTT
1 ATAAAA-ATT
24606432 ATATAAAATT
1 ATA-AAAATT
24606442 ATAAAAA-T
1 ATAAAAATT
*
24606450 ATGAAAACTT
1 AT-AAAAATT
*
24606460 ATAAATATT
1 ATAAAAATT
24606469 ATAAAAATT
1 ATAAAAATT
*
24606478 ATTATAAATT
1 A-TAAAAATT
*
24606488 ATTAAAAACAT
1 A-TAAAAA-TT
*
24606499 ATTAAAATT
1 ATAAAAATT
*
24606508 CAAAAAAACTT
1 -ATAAAAA-TT
24606519 ATAAATAA-T
1 ATAAA-AATT
24606528 A-AAAAATT
1 ATAAAAATT
*
24606536 AAAATAAATT
1 ATAA-AAATT
24606546 ATAAAAA
1 ATAAAAA
24606553 AATTACTTGA
Statistics
Matches: 104, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
7 2 0.02
8 8 0.08
9 36 0.35
10 49 0.47
11 9 0.09
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:24606447 original size:28 final size:28
Alignment explanation
Indices: 24606413--24606536 Score: 87
Period size: 28 Copynumber: 4.4 Consensus size: 28
24606403 TTATTTTTTC
*
24606413 ATAAAAATTAT-AAAATTTTATATAAAATT
1 ATAAAAATTATGAAAA-CTTATA-AAAATT
*
24606442 ATAAAAA-TATGAAAACTTATAAATATT
1 ATAAAAATTATGAAAACTTATAAAAATT
* *
24606469 ATAAAAATTATTATAAA-TTATTAAAAACAT
1 ATAAAAATTATGA-AAACTTA-TAAAAA-TT
* **
24606499 ATTAAAATTCAAAAAAACTTATAAATAA-T
1 ATAAAAATT-ATGAAAACTTATAAA-AATT
24606528 A-AAAAATTA
1 ATAAAAATTA
24606537 AAATAAATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
27 13 0.17
28 21 0.27
29 21 0.27
30 16 0.21
31 7 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (28 bp):
ATAAAAATTATGAAAACTTATAAAAATT
Found at i:24606449 original size:21 final size:20
Alignment explanation
Indices: 24606408--24606447 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24606398 AATTATTATT
24606408 TTTTCATAAAAATTATAAAA
1 TTTTCATAAAAATTATAAAA
24606428 TTTT-ATATAAAATTATAAAA
1 TTTTCATA-AAAATTATAAAA
24606448 ATATGAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTCATAAAAATTATAAAA
Found at i:24606501 original size:21 final size:22
Alignment explanation
Indices: 24606458--24606507 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
24606448 ATATGAAAAC
24606458 TTATAAA-TATTATAAAAATTA
1 TTATAAATTATTATAAAAATTA
24606479 TTATAAATTATTA-AAAACA-TA
1 TTATAAATTATTATAAAA-ATTA
24606500 TTA-AAATT
1 TTATAAATT
24606508 CAAAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATAAATTATTATAAAAATTA
Found at i:24606540 original size:16 final size:18
Alignment explanation
Indices: 24606436--24606542 Score: 55
Period size: 18 Copynumber: 5.8 Consensus size: 18
24606426 AATTTTATAT
*
24606436 AAAA-TTATAAA-AATATG
1 AAAACTTATAAATAATA-A
24606453 AAAACTTATAAATATTATAA
1 AAAACTTATAAATA--ATAA
* *
24606473 AAATTA-TTATAAATTATTA
1 AAA--ACTTATAAATAATAA
* *
24606492 AAAACATATTAAA-ATTCAAA
1 AAAACTTA-TAAATAAT--AA
24606512 AAAACTTATAAATAATAA
1 AAAACTTATAAATAATAA
24606530 AAAA-TTA-AAATAA
1 AAAACTTATAAATAA
24606543 ATTATAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 23
0.69 0.09 0.23
Matches are distributed among these distances:
16 6 0.09
17 8 0.11
18 16 0.23
19 15 0.21
20 13 0.19
21 11 0.16
22 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAACTTATAAATAATAA
Found at i:24606977 original size:19 final size:20
Alignment explanation
Indices: 24606941--24606981 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
24606931 TGACCGATTC
24606941 AATTAAATAAATTATTAAAA
1 AATTAAATAAATTATTAAAA
24606961 AATTAAA-AAA-TATTTAAAA
1 AATTAAATAAATTA-TTAAAA
24606980 AA
1 AA
24606982 ATCTAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 11 0.55
20 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAATAAATTATTAAAA
Found at i:24615962 original size:46 final size:48
Alignment explanation
Indices: 24615848--24615974 Score: 161
Period size: 46 Copynumber: 2.7 Consensus size: 48
24615838 ATATCTAAGT
* * *
24615848 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATACCTCGAGGT
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGCATACATCGAGGC
* *
24615897 CTATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TGCATACATCGAGGC
*
24615943 CGATGCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
24615975 ACACATATCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 33 0.47
47 1 0.01
48 31 0.44
49 5 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGCATACATCGAGGC
Found at i:24624785 original size:13 final size:13
Alignment explanation
Indices: 24624767--24624794 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24624757 AATCAATAGA
24624767 GATAACTCCGTTT
1 GATAACTCCGTTT
24624780 GATAACTCCGTTT
1 GATAACTCCGTTT
24624793 GA
1 GA
24624795 GATCAGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (13 bp):
GATAACTCCGTTT
Found at i:24625283 original size:61 final size:61
Alignment explanation
Indices: 24625184--24625306 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
24625174 TAATTTCGAG
*
24625184 TATATCTTAGATATCTCAGTATCCTCACAATTAATTTCCAGTGGTTTTC-CCATGGATTGCT
1 TATATCTGAGATATCTCAGTATCCTCACAATTAATTTCCAGTGGTTTTCTCC-TGGATTGCT
*
24625245 TATATCTGAGATATCTCAGTATCCTCACAATTACTTTCCAGTGGTTTTCTCCTGGATTGCT
1 TATATCTGAGATATCTCAGTATCCTCACAATTAATTTCCAGTGGTTTTCTCCTGGATTGCT
24625306 T
1 T
24625307 GTGAATCTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (61 bp):
TATATCTGAGATATCTCAGTATCCTCACAATTAATTTCCAGTGGTTTTCTCCTGGATTGCT
Found at i:24628231 original size:50 final size:50
Alignment explanation
Indices: 24628168--24628399 Score: 297
Period size: 50 Copynumber: 4.6 Consensus size: 50
24628158 AAGATGGTTG
24628168 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
* * * * * * *
24628218 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGT
* * * *
24628269 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
* * *
24628319 TAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
*
24628369 T-GGTCGA-ATGTGTAGTACTAAGTGCAGGCTA
1 TAGGTC-ACGTGTGTAGTACTAAGTGCAGGCTA
24628400 TTATGCATAC
Statistics
Matches: 155, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 27 0.17
50 88 0.57
51 40 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:24628299 original size:101 final size:101
Alignment explanation
Indices: 24628172--24628353 Score: 319
Period size: 101 Copynumber: 1.8 Consensus size: 101
24628162 TGGTTGTAGG
*
24628172 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
24628237 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
* * **
24628273 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
24628338 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
24628354 CGTGTACCGG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
Found at i:24632634 original size:25 final size:25
Alignment explanation
Indices: 24632606--24632663 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
24632596 AATTTGATAT
24632606 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
* *
24632631 TTCAACAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
24632656 TTC-GCAAA
1 TTCAGCAAA
24632664 CTCAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:24633441 original size:63 final size:61
Alignment explanation
Indices: 24633369--24633509 Score: 178
Period size: 63 Copynumber: 2.3 Consensus size: 61
24633359 ATACTATTTT
* *
24633369 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATGATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG--
24633432 A
61 A
* *
24633433 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATGA
1 TTAAATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAAAGAATGA
*
24633494 TTAAATTATTTATTAT
1 TTAAATTATATATTAT
24633510 TAAATTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
61 16 0.23
62 18 0.26
63 29 0.41
64 7 0.10
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (61 bp):
TTAAATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAAAGAATGA
Found at i:24633481 original size:16 final size:16
Alignment explanation
Indices: 24633460--24633530 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
24633450 ATCTTTATTA
24633460 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
24633476 AATTATATTAAAGT-AT
1 AATTATATTTAA-TAAT
* * *
24633492 GATTAAATTATTTATTATT
1 AATT--A-TATTTAATAAT
24633511 AAATTATATTTAATAAT
1 -AATTATATTTAATAAT
24633528 AAT
1 AAT
24633531 CCTATTATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
16 19 0.46
17 10 0.24
18 3 0.07
19 6 0.15
20 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:24633481 original size:24 final size:24
Alignment explanation
Indices: 24633414--24633530 Score: 87
Period size: 24 Copynumber: 4.8 Consensus size: 24
24633404 TTTTAATAAT
* *
24633414 AATTATA-TTAAGAAT-GTTATTA
1 AATTATATTTAATAATAATTATTA
* **
24633436 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAATAATTATTA
24633460 AATTATATTTAATAATAATTATATTA
1 AATTATATTTAATAATAA-T-TATTA
* * * *
24633486 AAGTATGATTAAATTATTTATTATTA
1 AATTAT-ATTTAA-TAATAATTATTA
24633512 AATTATATTTAATAATAAT
1 AATTATATTTAATAATAAT
24633531 CCTATTATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 25 0.34
25 6 0.08
26 20 0.27
27 6 0.08
28 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATTTAATAATAATTATTA
Found at i:24633497 original size:26 final size:27
Alignment explanation
Indices: 24633454--24633544 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 27
24633444 ATTATTATCT
24633454 TTATTAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* * *
24633481 -TATTAAAGTATGA-TTAA-ATTATTTA
1 TTATTAAATTAT-ATTTAATAATAATTA
24633506 TTATTAAATTATATTTAATAATAATCCTA
1 TTATTAAATTATATTTAATAATAAT--TA
24633535 TTA-TAAATTA
1 TTATTAAATTA
24633545 ATAACAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
25 7 0.13
26 28 0.54
27 5 0.10
28 7 0.13
29 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:24633725 original size:46 final size:44
Alignment explanation
Indices: 24633633--24633726 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
24633623 ATTACAATAT
24633633 CATTCCATTCAACAAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACAAAACACAAGAATACTATTACAGTTCTATTC
* * *
24633677 CATTCCATTCAACCAAACAGC-TGACTTACTGATTACAGTTCTATTC
1 CATTCCATTCAACAAAACA-CAAGA-ATACT-ATTACAGTTCTATTC
24633723 CATT
1 CATT
24633727 ATAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 20 0.45
45 5 0.11
46 19 0.43
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACAAAACACAAGAATACTATTACAGTTCTATTC
Found at i:24633735 original size:16 final size:16
Alignment explanation
Indices: 24633708--24633762 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
24633698 TGACTTACTG
*
24633708 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
24633724 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
24633740 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
24633756 ATTACAG
1 ATTACAG
24633763 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24640331 original size:43 final size:43
Alignment explanation
Indices: 24640306--24640421 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
24640296 TAATACATAT
*
24640306 CGATGCCACTGTCCCAGACAAGGTCTTACACAAAATCAATTAA
1 CGATGCCAATGTCCCAGACAAGGTCTTACACAAAATCAATTAA
* *
24640349 CGATGCCAATGTCCCAGACATGGTCTTACACATAACCTCAA-TATA
1 CGATGCCAATGTCCCAGACAAGGTCTTACACA-AA-ATCAATTA-A
*
24640394 --ATGCCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACAAGGTCTTACA
24640422 TGTATTCACA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
43 58 0.87
44 4 0.06
45 5 0.07
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAAGGTCTTACACAAAATCAATTAA
Found at i:24647114 original size:39 final size:39
Alignment explanation
Indices: 24647063--24647364 Score: 487
Period size: 39 Copynumber: 7.7 Consensus size: 39
24647053 TTCCAACACA
* * * *
24647063 AATGCCTTCGGGACTTGGCTCGGATATAACACCAGTACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
24647102 AATACCTTCGGGACTTAGCCCGAATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
24647141 AATACCTTCGGGACTTAGCCCGGATATACCACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
24647180 AATGCCTTCGGGACTTAGCCCGGATATACCACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
24647219 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
24647258 AATGCCTTCGGGACTTAGCCCAGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
24647297 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGAACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
24647336 AATACCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
24647365 ATCTCACACA
Statistics
Matches: 247, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 247 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:24655356 original size:40 final size:44
Alignment explanation
Indices: 24655260--24655359 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 44
24655250 AGAATGATTC
* *
24655260 CGCACACTTAGTGCCATCTTAATTAACCGAAGCTATCTCAGTAT
1 CGCACACTTAGTGCCATCATAATTAACCGAAGCTATCTCAGAAT
* **
24655304 CGCACACTTAGTGCC-TCAT-A-TAGCCGAAGCTAT-TTTGAAT
1 CGCACACTTAGTGCCATCATAATTAACCGAAGCTATCTCAGAAT
24655344 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
24655360 AATACAATTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 19 0.38
41 12 0.24
42 1 0.02
43 3 0.06
44 15 0.30
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
CGCACACTTAGTGCCATCATAATTAACCGAAGCTATCTCAGAAT
Found at i:24657788 original size:43 final size:43
Alignment explanation
Indices: 24657694--24657789 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
24657684 TACATGTATG
* *
24657694 ACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTATAAG
1 ACCATGTCTGGGACATTGGCATTGTATTCAGATTACGTATAAA
* *
24657737 ACCATGTCTGGGACATTGGCATCAT-TATTCA-ATTTCGTGTAAA
1 ACCATGTCTGGGACATTGGCAT--TGTATTCAGATTACGTATAAA
*
24657780 ACCCTGTCTG
1 ACCATGTCTG
24657790 AGATAGTGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 40 0.87
44 5 0.11
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATTGTATTCAGATTACGTATAAA
Found at i:24660787 original size:40 final size:39
Alignment explanation
Indices: 24660732--24660962 Score: 311
Period size: 40 Copynumber: 5.8 Consensus size: 39
24660722 CGGATGATAA
* * *
24660732 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
24660772 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
24660812 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
24660852 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
24660892 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
24660932 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
24660963 AGCTATATCT
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 8 0.05
40 168 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:24660945 original size:120 final size:119
Alignment explanation
Indices: 24660732--24660962 Score: 358
Period size: 120 Copynumber: 1.9 Consensus size: 119
24660722 CGGATGATAA
* *
24660732 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* *
24660797 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACAT
*
24660852 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* *
24660915 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTGAGCGAGT
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
24660963 AGCTATATCT
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
119 10 0.10
120 91 0.89
121 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:24664485 original size:39 final size:39
Alignment explanation
Indices: 24664431--24664780 Score: 592
Period size: 39 Copynumber: 9.0 Consensus size: 39
24664421 CAAGACACTA
*
24664431 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
24664470 GAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
24664509 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
24664548 GAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
24664587 GAAATGTATCTGGGCTAAAGTGCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
24664626 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
24664665 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
24664704 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
24664743 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTTGTGCT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT
24664781 AGTAATATAA
Statistics
Matches: 292, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 292 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:24667007 original size:26 final size:26
Alignment explanation
Indices: 24666976--24667027 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24666966 AGTCATTATG
24666976 TACTTCAAACTCTTATGATTAGTAAA
1 TACTTCAAACTCTTATGATTAGTAAA
24667002 TACTTCAAACTCTTATGATTAGTAAA
1 TACTTCAAACTCTTATGATTAGTAAA
24667028 GATATGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (26 bp):
TACTTCAAACTCTTATGATTAGTAAA
Found at i:24672065 original size:26 final size:27
Alignment explanation
Indices: 24672027--24672086 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
24672017 GGCAACTAAT
* **
24672027 GCCTGC-AAGATATACATCACCACAAA
1 GCCTGCTAAGATATACACCAAAACAAA
24672053 GCCTGCTAA-ATATACACCAAAACAAA
1 GCCTGCTAAGATATACACCAAAACAAA
24672079 GCCTGCTA
1 GCCTGCTA
24672087 CGCCTTAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.17
Consensus pattern (27 bp):
GCCTGCTAAGATATACACCAAAACAAA
Found at i:24679243 original size:46 final size:46
Alignment explanation
Indices: 24679176--24679268 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
24679166 GCAAAAGTCT
24679176 GACTATCTACAAAGAAATAAAATCAAATAAAGTTAGCTTTCATAAA
1 GACTATCTACAAAGAAATAAAATCAAATAAAGTTAGCTTTCATAAA
24679222 GACTATCTACAAAGAAATAAAATCAAATAAAGTTAGCTTTCATAAA
1 GACTATCTACAAAGAAATAAAATCAAATAAAGTTAGCTTTCATAAA
24679268 G
1 G
24679269 CTTAGTAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (46 bp):
GACTATCTACAAAGAAATAAAATCAAATAAAGTTAGCTTTCATAAA
Found at i:24686537 original size:61 final size:63
Alignment explanation
Indices: 24686435--24686551 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 63
24686425 AACTCCACCA
* *
24686435 AATTATTTTTTCACATAAATCTCTTACAATTTCTATAATTCTCTCAA-AATTCCTTTCCCTTT
1 AATTATTTTTTCACATAAATCTCTCACAATTTCTATAATTCTCTCAATAATCCCTTTCCCTTT
* * *
24686497 AATTA-TTTTTCACATAATTCTCTCATAATTT-TCA-ACATTCTTTCAATAATCCCTT
1 AATTATTTTTTCACATAAATCTCTCACAATTTCT-ATA-ATTCTCTCAATAATCCCTT
24686552 CAAAAATCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 2 0.04
61 33 0.70
62 12 0.26
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (63 bp):
AATTATTTTTTCACATAAATCTCTCACAATTTCTATAATTCTCTCAATAATCCCTTTCCCTTT
Found at i:24686589 original size:11 final size:11
Alignment explanation
Indices: 24686583--24686614 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
24686573 TGAAATTTTT
24686583 TCAAAATTCTA
1 TCAAAATTCTA
24686594 TCAAAATTCTA
1 TCAAAATTCTA
24686605 TCAAAATTCT
1 TCAAAATTCT
24686615 TTGTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:24686814 original size:48 final size:47
Alignment explanation
Indices: 24686750--24686860 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 47
24686740 AGTGATAATT
*
24686750 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATTTTATTAATTTATGC-AATTATAA
* *
24686798 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
24686846 TTACAATTTCAATAC
1 TTA-AATTTCAATAC
24686861 CGCTTATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
47 7 0.12
48 45 0.79
49 5 0.09
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:24688509 original size:18 final size:18
Alignment explanation
Indices: 24688486--24688528 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24688476 TGCTAGGTGC
* *
24688486 GTATCCTAGCTCTTATAT
1 GTATCCTAACCCTTATAT
24688504 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
24688522 GTTTCCT
1 GTATCCT
24688529 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:24692187 original size:126 final size:126
Alignment explanation
Indices: 24691962--24692343 Score: 622
Period size: 126 Copynumber: 3.0 Consensus size: 126
24691952 TTATAGACTC
* *
24691962 ATTTTTCTACGAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTCTAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTACTG
*
24692027 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
24692088 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTACTG
* *
24692153 ACAGTGCATCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
24692214 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCCCATGGGAGCTTTTTCTAGAAATTTTATTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTACTG
* * *
24692279 ACAGTGCATCCTGCTTGAAGCGTTTTTCGACACTATTTG-TCTAGAAATGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTT-GACACTATTTGTTC-AGAAACGTCTACTCAGAATT
24692341 ATT
1 ATT
24692344 CTTGCAGAAA
Statistics
Matches: 238, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
126 207 0.87
127 31 0.13
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTACTG
ACAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:24698001 original size:21 final size:21
Alignment explanation
Indices: 24697956--24697995 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24697946 GGCTAGCGAC
24697956 GATGGTCAACAATAGCTCAGA
1 GATGGTCAACAATAGCTCAGA
*
24697977 GATGGTCAACAGTAGCTCA
1 GATGGTCAACAATAGCTCA
24697996 ATGATGACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (21 bp):
GATGGTCAACAATAGCTCAGA
Found at i:24698217 original size:21 final size:21
Alignment explanation
Indices: 24698172--24698211 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24698162 GGCTAGCGAC
24698172 GATGGTCAACAATAGCTCAGA
1 GATGGTCAACAATAGCTCAGA
*
24698193 GATGGTCAACAGTAGCTCA
1 GATGGTCAACAATAGCTCA
24698212 ATGATGACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (21 bp):
GATGGTCAACAATAGCTCAGA
Found at i:24698277 original size:216 final size:216
Alignment explanation
Indices: 24697903--24698336 Score: 807
Period size: 216 Copynumber: 2.0 Consensus size: 216
24697893 GATCCGGCGA
*
24697903 TTGTCGATGATGGCTCGATGATAGCCGAAAATGGTCAGACGATGGCTAGCGACGATGGTCAACAA
1 TTGTCGATGATGGCTCGACGATAGCCGAAAATGGTCAGACGATGGCTAGCGACGATGGTCAACAA
24697968 TAGCTCAGAGATGGTCAACAGTAGCTCAATGATGACGGCACGATGATGACAATAGAAAAACGACG
66 TAGCTCAGAGATGGTCAACAGTAGCTCAATGATGACGGCACGATGATGACAATAGAAAAACGACG
* *
24698033 GCGACGTGAGATGATATCACAAAGTAAGTTCATGGTGGCATAATAGAAGATACAAAGTATGATTT
131 ACGACGTGAGATGATATCACAAAGTAAGTTCATGGTGGCAAAATAGAAGATACAAAGTATGATTT
24698098 GGGGTGAATTCATAAATTTTT
196 GGGGTGAATTCATAAATTTTT
*
24698119 TTGTCGATGATGGCTCGACGGTAGCCGAAAATGGTCAGACGATGGCTAGCGACGATGGTCAACAA
1 TTGTCGATGATGGCTCGACGATAGCCGAAAATGGTCAGACGATGGCTAGCGACGATGGTCAACAA
*
24698184 TAGCTCAGAGATGGTCAACAGTAGCTCAATGATGACGGCGCGATGATGACAATAGAAAAACGACG
66 TAGCTCAGAGATGGTCAACAGTAGCTCAATGATGACGGCACGATGATGACAATAGAAAAACGACG
24698249 ACGACGTGA-ACTGATATCACAAAGTAAGTTCATGGTGGCAAAATAGAAGATACAAAGTATGATT
131 ACGACGTGAGA-TGATATCACAAAGTAAGTTCATGGTGGCAAAATAGAAGATACAAAGTATGATT
24698313 TGGGGTGAATTCATAAATTTTT
195 TGGGGTGAATTCATAAATTTTT
24698335 TT
1 TT
24698337 CTAGGATGAA
Statistics
Matches: 212, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
215 1 0.00
216 211 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (216 bp):
TTGTCGATGATGGCTCGACGATAGCCGAAAATGGTCAGACGATGGCTAGCGACGATGGTCAACAA
TAGCTCAGAGATGGTCAACAGTAGCTCAATGATGACGGCACGATGATGACAATAGAAAAACGACG
ACGACGTGAGATGATATCACAAAGTAAGTTCATGGTGGCAAAATAGAAGATACAAAGTATGATTT
GGGGTGAATTCATAAATTTTT
Found at i:24700069 original size:48 final size:48
Alignment explanation
Indices: 24699997--24700091 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
24699987 AAATGAATCA
* *
24699997 ATATATATATGTTATTATAGAATTTATCGAGTAAAAAGACGATGGAAT
1 ATATATATATATTATTATACAATTTATCGAGTAAAAAGACGATGGAAT
* *
24700045 ATATATTTATATTATTATACAATTTATCGAGTAAAAAGGCGATGGAA
1 ATATATATATATTATTATACAATTTATCGAGTAAAAAGACGATGGAA
24700092 ATTCAATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (48 bp):
ATATATATATATTATTATACAATTTATCGAGTAAAAAGACGATGGAAT
Found at i:24701673 original size:16 final size:16
Alignment explanation
Indices: 24701652--24701706 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
24701642 ACAGATTATC
24701652 GGAAGCTCGATCGGGT
1 GGAAGCTCGATCGGGT
*
24701668 GGAAGCTCGATCGGAT
1 GGAAGCTCGATCGGGT
24701684 GGAAGCTCGATCGGGT
1 GGAAGCTCGATCGGGT
*
24701700 AGAAGCT
1 GGAAGCT
24701707 TGTCAGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.40, T:0.18
Consensus pattern (16 bp):
GGAAGCTCGATCGGGT
Found at i:24705584 original size:6 final size:6
Alignment explanation
Indices: 24705554--24705690 Score: 95
Period size: 6 Copynumber: 22.3 Consensus size: 6
24705544 AAGAAACATT
* * *
24705554 ATCAGA A-CTAGA ATCA-A AACGAGA ATTAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
24705603 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
24705652 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
24705691 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
5 9 0.09
6 79 0.77
7 10 0.10
8 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:24705610 original size:43 final size:43
Alignment explanation
Indices: 24705563--24705681 Score: 134
Period size: 43 Copynumber: 2.7 Consensus size: 43
24705553 TATCAGAACT
*
24705563 AGAATCA-AAACGAGAATTAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAAAC-AGAATCAGAATCAGAATCAAGTGACAGAATC
* * * *
24705606 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAAACAGAATCAGAATCAGAATCAAGTGACAGAATC
* *
24705649 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAA
1 AGAATCAGAAACAGAATCA-G-AATCAGAATCAA
24705682 AATCAGAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
43 52 0.80
44 11 0.17
45 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (43 bp):
AGAATCAGAAACAGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:24705646 original size:31 final size:31
Alignment explanation
Indices: 24705581--24705690 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
24705571 AACGAGAATT
*
24705581 AGAATCAGAATCA-AGTGACAGAATCA-G-AATC
1 AGAATCAGAATCAGAAT--CAGAATCAGGTAA-C
* *
24705612 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
24705643 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
24705674 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
24705691 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
30 7 0.10
31 57 0.85
32 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:24705857 original size:27 final size:26
Alignment explanation
Indices: 24705809--24705868 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
24705799 GCGAGGCTAC
*
24705809 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
24705836 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
24705862 CAGATAT
1 CAGATAT
24705869 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:24705913 original size:71 final size:71
Alignment explanation
Indices: 24705836--24705981 Score: 247
Period size: 71 Copynumber: 2.1 Consensus size: 71
24705826 TCACCAGATA
* * *
24705836 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
24705901 GGCTGC
66 GGCTGC
* *
24705907 CAGATATTGTGACAAAGTCACCAGAACAGATATATATATGTGGCGAAGCCACTAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
24705972 GGCTGC
66 GGCTGC
24705978 CAGA
1 CAGA
24705982 ACGCTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (71 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
GGCTGC
Found at i:24706229 original size:27 final size:28
Alignment explanation
Indices: 24706199--24706256 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
24706189 ACACCCTAGA
*
24706199 GGTAAAAT-GGTAATTTTACCCCACAAG
1 GGTAAAATCGGTAATTCTACCCCACAAG
** *
24706226 GGT-ATCTCGGTAATTCTACCCTACAAG
1 GGTAAAATCGGTAATTCTACCCCACAAG
24706253 GGTA
1 GGTA
24706257 TTTCGGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (28 bp):
GGTAAAATCGGTAATTCTACCCCACAAG
Found at i:24706257 original size:27 final size:27
Alignment explanation
Indices: 24706207--24706277 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
24706197 GAGGTAAAAT
* *
24706207 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
24706234 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
24706261 GGTAATGCTAGCCTACA
1 GGTAATTCTACCCTACA
24706278 GATATGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:24707064 original size:10 final size:10
Alignment explanation
Indices: 24707049--24707073 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24707039 GTATAATATT
24707049 TAATTATTAA
1 TAATTATTAA
24707059 TAATTATTAA
1 TAATTATTAA
24707069 TAATT
1 TAATT
24707074 TAATCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TAATTATTAA
Found at i:24707094 original size:25 final size:25
Alignment explanation
Indices: 24707041--24707095 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
24707031 TTCACATAGT
* *
24707041 ATAAT-ATTTAATTATTAATAATTA
1 ATAATAATTTAATCATTAATAATAA
*
24707065 TTAATAATTTAATCATTAAT-ATAAA
1 ATAATAATTTAATCATTAATAAT-AA
24707090 ATAATA
1 ATAATA
24707096 TCTCTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAATAATTTAATCATTAATAATAA
Found at i:24732985 original size:35 final size:35
Alignment explanation
Indices: 24732945--24733013 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
24732935 CAAACTTAAG
24732945 TAAATACATGCACTCCATTCAAATTTCAATTTACT
1 TAAATACATGCACTCCATTCAAATTTCAATTTACT
24732980 TAAATACATGCACTCCATTCAAATTTCAATTTAC
1 TAAATACATGCACTCCATTCAAATTTCAATTTAC
24733014 AAACCATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (35 bp):
TAAATACATGCACTCCATTCAAATTTCAATTTACT
Found at i:24733187 original size:49 final size:49
Alignment explanation
Indices: 24733134--24733233 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
24733124 ATTTCCAATT
*
24733134 TCATATATTTTTATTTATATACCATTCTTGTAACAAACATATACATACG
1 TCATATATTTTTATTCATATACCATTCTTGTAACAAACATATACATACG
24733183 TCATATATTTTTATTCATATACCATTCTTGTAACAAACATATACATACG
1 TCATATATTTTTATTCATATACCATTCTTGTAACAAACATATACATACG
24733232 TC
1 TC
24733234 CCATTTCATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (49 bp):
TCATATATTTTTATTCATATACCATTCTTGTAACAAACATATACATACG
Found at i:24733618 original size:69 final size:69
Alignment explanation
Indices: 24733507--24733644 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
24733497 CCGGTGATGA
24733507 TGGCTTTCACAATCTACTCATTTTGTCACCCCAATTTGCCTGGCAACAATGACTCTATATATACA
1 TGGCTTTCACAATCTACTCATTTTGTCACCCCAATTTGCCTGGCAACAATGACTCTATATATACA
24733572 AACT
66 AACT
*
24733576 TGGCTTTCACAATCTACTCATTTTGTCACCCCAGTTTGCCTGGCAACAATGACTCTATATATACA
1 TGGCTTTCACAATCTACTCATTTTGTCACCCCAATTTGCCTGGCAACAATGACTCTATATATACA
24733641 AACT
66 AACT
24733645 ATCACCCCAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (69 bp):
TGGCTTTCACAATCTACTCATTTTGTCACCCCAATTTGCCTGGCAACAATGACTCTATATATACA
AACT
Found at i:24739744 original size:28 final size:29
Alignment explanation
Indices: 24739713--24739767 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
24739703 ATCCGAAATT
**
24739713 CTGATAT-CATGGGCCAAAGCCAAATCAA
1 CTGATATGCATGACCCAAAGCCAAATCAA
*
24739741 CTGATATGCATGACCCGAAGCCAAATC
1 CTGATATGCATGACCCAAAGCCAAATC
24739768 GGTATATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (29 bp):
CTGATATGCATGACCCAAAGCCAAATCAA
Found at i:24742342 original size:48 final size:48
Alignment explanation
Indices: 24742271--24742451 Score: 197
Period size: 48 Copynumber: 3.8 Consensus size: 48
24742261 CATTAAGGGA
* *
24742271 TACTTTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGGGAGT
1 TACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGT
* ** *
24742319 TACTTTGATTTGGCTTCGAGCCATGATAACAGCACTTCGAGTGCGAGCT
1 TACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG-T
* * * *
24742368 TCAC--TGATTTGGCTACGGGCCATTATATTAGCACTTCGGGTCCGAGA
1 T-ACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGT
* * *
24742415 TA-TATTAAGTTGGCTTCGGGCCATGATATTGGCACTT
1 TACT-TTGATTTGGCTTCGGGCCATGATATTAGCACTT
24742452 AATGTGTGAG
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 103 0.94
49 2 0.02
50 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (48 bp):
TACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGT
Found at i:24748102 original size:30 final size:30
Alignment explanation
Indices: 24748066--24748126 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
24748056 CATTTAATAC
*
24748066 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
24748096 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
24748126 A
1 A
24748127 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:24754864 original size:40 final size:40
Alignment explanation
Indices: 24754790--24755010 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
24754780 AACCCAAGTA
* * *
24754790 CCTTCGGGATTTAG-CCGAATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
24754829 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24754869 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
24754909 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24754949 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24754988 CCTTCGGAACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24755011 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.23
40 123 0.76
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24757513 original size:13 final size:13
Alignment explanation
Indices: 24757470--24757511 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
24757460 ACAGGTTTGG
24757470 CACGGCCTAGT-A
1 CACGGCCTAGTCA
*
24757482 CACGGCCT-GGCA
1 CACGGCCTAGTCA
*
24757494 CACGGGCTAGTCA
1 CACGGCCTAGTCA
24757507 CACGG
1 CACGG
24757512 GCGTGTGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 1 0.04
12 16 0.64
13 8 0.32
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.12
Consensus pattern (13 bp):
CACGGCCTAGTCA
Found at i:24758124 original size:49 final size:49
Alignment explanation
Indices: 24758052--24758145 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
24758042 TGCTGTGTAA
*
24758052 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACTT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACTT
*
24758101 TGCTAAATTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
24758146 GCCTTTTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACTT
Found at i:24758789 original size:72 final size:72
Alignment explanation
Indices: 24758710--24758853 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
24758700 CATTTTATAT
*
24758710 GTTCAAATACATCAACAACGCATCAAACATTCAAGACTTTCATTCATATCACATTTACCATATTT
1 GTTCAAATACATCAACAACACATCAAACATTCAAGACTTTCATTCATATCACATTTACCATATTT
24758775 GAACTAA
66 GAACTAA
24758782 GTTCAAATACATCAACAACACATCAAACATTCAAGACTTTCATTCATATCACATTTACCATATTT
1 GTTCAAATACATCAACAACACATCAAACATTCAAGACTTTCATTCATATCACATTTACCATATTT
24758847 GAACTAA
66 GAACTAA
24758854 CTTTCAACTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (72 bp):
GTTCAAATACATCAACAACACATCAAACATTCAAGACTTTCATTCATATCACATTTACCATATTT
GAACTAA
Found at i:24759740 original size:20 final size:20
Alignment explanation
Indices: 24759715--24759756 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24759705 TGGTGAATAA
24759715 CTTAACTTACTCATTATCAT
1 CTTAACTTACTCATTATCAT
24759735 CTTAACTTACTCATTATCAT
1 CTTAACTTACTCATTATCAT
24759755 CT
1 CT
24759757 ACTCGAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTAACTTACTCATTATCAT
Found at i:24760087 original size:47 final size:46
Alignment explanation
Indices: 24759928--24760197 Score: 176
Period size: 47 Copynumber: 5.8 Consensus size: 46
24759918 AGAATAAATT
* * * * * *
24759928 GCCGATGCCATGTCCGAGACATGGTCTTATACTGGCTCTCATATATGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTGAG
* * * * *
24759977 TGCTGATGCCTGTCCCAGACATGTCTTACACTTGCACAACTCT-T-A-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGAG
* * *
24760022 GCCAATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-GAG
* *
24760069 GCCGATGCATGTCCCAGACATGTCTTACTCTGGC-A-CTCATAAT-ATG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTC-T-GTGA-G
* * * ** *
24760115 GCTGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTGAG
*
24760161 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
24760198 CACAAATCAC
Statistics
Matches: 172, Mismatches: 34, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
43 5 0.03
44 30 0.17
45 4 0.02
46 39 0.23
47 47 0.27
48 26 0.15
49 15 0.09
50 6 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGAG
Found at i:24766422 original size:102 final size:102
Alignment explanation
Indices: 24766246--24766445 Score: 328
Period size: 102 Copynumber: 2.0 Consensus size: 102
24766236 ATCGACATAG
* *
24766246 AATATTTTTTCCCTTAAGATGGGTACTCACAAATATCACCCTTGGGGGATAATAAAACTAATAAA
1 AATATTTTTTCCCTTAAGATGGGTACTCACAAATATCACCCTTGGCGGATAATAAAACTAACAAA
*
24766311 TCTCTTAAGTTGAAATATACATTGATCTTAATTCTAT
66 TCTCTTAAGTTGAAATATACATTGACCTTAATTCTAT
* * *
24766348 AATATTTTTTCCCTTAGGATGGGTACTCACAAATATCACTCTTGGCGGATAATAAAACTAACGAA
1 AATATTTTTTCCCTTAAGATGGGTACTCACAAATATCACCCTTGGCGGATAATAAAACTAACAAA
* *
24766413 TCTTTTAAGTTGAAATCTACATTGACCTTAATT
66 TCTCTTAAGTTGAAATATACATTGACCTTAATT
24766446 TTGGCAGATT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (102 bp):
AATATTTTTTCCCTTAAGATGGGTACTCACAAATATCACCCTTGGCGGATAATAAAACTAACAAA
TCTCTTAAGTTGAAATATACATTGACCTTAATTCTAT
Found at i:24771437 original size:43 final size:43
Alignment explanation
Indices: 24771388--24771543 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 43
24771378 GTGTTCTCGT
*
24771388 GTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTTCGA
1 GTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTTCGA
* * * *
24771431 ATAAGACCATGTCTGGGACATTGGCATCG-TAATTGTGA-TTCGT
1 GTAAGACCACGTCTAGGACATTGGCATCGAT-A-TGTGATTTCGA
* * *
24771474 GTAAGACC-CTGTCTAGGACAGTGGCATCGACATGTGATTAC-A
1 GTAAGACCAC-GTCTAGGACATTGGCATCGATATGTGATTTCGA
*
24771516 TGTAATACCACGTCTAGGACATTGGCAT
1 -GTAAGACCACGTCTAGGACATTGGCAT
24771544 GTACGATATG
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
42 6 0.07
43 80 0.87
44 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
GTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTTCGA
Found at i:24771509 original size:86 final size:86
Alignment explanation
Indices: 24771384--24771543 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 86
24771374 TGATGTGTTC
* * * *
24771384 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTTCGA-ATAAGACCATGTCTGGG
1 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGACATGTGATTAC-ATATAAGACCACGTCTAGG
24771448 ACATTGGCATCGTAATTGTGAT
65 ACATTGGCATCGTAATTGTGAT
* *
24771470 TCGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGACATGTGATTACATGTAATACCACGTCTAG
1 TCGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGACATGTGATTACATATAAGACCACGTCTAG
24771533 GACATTGGCAT
64 GACATTGGCAT
24771544 GTACGATATG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.03
86 62 0.95
87 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTAGGACGTTGGCATCGACATGTGATTACATATAAGACCACGTCTAGGA
CATTGGCATCGTAATTGTGAT
Found at i:24780698 original size:3 final size:3
Alignment explanation
Indices: 24780676--24780745 Score: 55
Period size: 3 Copynumber: 25.3 Consensus size: 3
24780666 ATGCTTCAAA
* *
24780676 AAT AAT AGT AA- AAT AA- AAT AAT AAT TAT -AT AAT -AT ACA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
24780717 AAT AAT AAT AA- AAT AGT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24780746 TCAAAATGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
2 13 0.24
3 40 0.74
4 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24780707 original size:16 final size:16
Alignment explanation
Indices: 24780674--24780743 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
24780664 AAATGCTTCA
*
24780674 AAAATAATAGTAAAAT
1 AAAATAATAATAAAAT
24780690 AAAATAATAATTATATAAT
1 AAAATAATAA-TA-A-AAT
*
24780709 ATACA-AATAATAATAAT
1 A-AAATAATAATAA-AAT
* *
24780726 AAAATAGTAATAATAT
1 AAAATAATAATAAAAT
24780742 AA
1 AA
24780744 TATCAAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 15 0.34
17 15 0.34
18 3 0.07
19 9 0.20
20 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATAATAATAAAAT
Found at i:24780730 original size:36 final size:34
Alignment explanation
Indices: 24780679--24780750 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 34
24780669 CTTCAAAAAT
* *
24780679 AATAGTAAAATAAAATAATAATTATATAATATACA
1 AATAATAAAATAAAATAATAATAATATAATAT-CA
*
24780714 AATAATAATAATAAAATAGTAATAATATAATATCA
1 AATAATAA-AATAAAATAATAATAATATAATATCA
24780749 AA
1 AA
24780751 ATGACAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 11 0.33
36 22 0.67
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (34 bp):
AATAATAAAATAAAATAATAATAATATAATATCA
Found at i:24780738 original size:14 final size:13
Alignment explanation
Indices: 24780673--24780746 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 13
24780663 CAAATGCTTC
*
24780673 AAAA-ATAATAGT
1 AAAATATAATAAT
*
24780685 AAAATAAAATAAT
1 AAAATATAATAAT
*
24780698 AATTATATAAT-AT
1 AA-AATATAATAAT
24780711 ACAAATAATAATAAT
1 A-AAAT-ATAATAAT
24780726 AAAATAGTAATAAT
1 AAAATA-TAATAAT
*
24780740 ATAATAT
1 AAAATAT
24780747 CAAAATGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 4 0.08
13 15 0.30
14 28 0.56
15 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:24780783 original size:21 final size:22
Alignment explanation
Indices: 24780754--24780794 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24780744 TATCAAAATG
* *
24780754 ACAGTAAAATAAT-AAAACATA
1 ACAGCAAAACAATGAAAACATA
24780775 ACAGCAAAACAATGAAAACA
1 ACAGCAAAACAATGAAAACA
24780795 ACAACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.66, C:0.15, G:0.07, T:0.12
Consensus pattern (22 bp):
ACAGCAAAACAATGAAAACATA
Found at i:24788833 original size:40 final size:40
Alignment explanation
Indices: 24788773--24788881 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 40
24788763 TATTCAGATG
* *
24788773 ATAACCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
* *
24788813 ATAACCGGGCTAAGTCCCGAATGCACTTGTGCGAGTCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
24788853 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
24788882 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
Found at i:24788913 original size:39 final size:39
Alignment explanation
Indices: 24788773--24788914 Score: 178
Period size: 40 Copynumber: 3.6 Consensus size: 39
24788763 TATTCAGATG
*
24788773 ATAACCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* *
24788813 ATAACCGGGCTAAGTCCCGAATGCACTTGTGCGAGTCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACT
* *
24788853 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CT
* * *
24788893 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
24788915 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 16 0.18
40 74 0.82
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACT
Found at i:24793101 original size:23 final size:23
Alignment explanation
Indices: 24793075--24793150 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
24793065 ATAAGTGCCA
24793075 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24793098 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24793121 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24793144 CACTGAT
1 CACTGAT
24793151 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24800439 original size:23 final size:23
Alignment explanation
Indices: 24800413--24800488 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
24800403 ATAAGTGCCA
24800413 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24800436 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24800459 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24800482 CACTGAT
1 CACTGAT
24800489 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24802024 original size:26 final size:26
Alignment explanation
Indices: 24801995--24802076 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
24801985 TGATAAAAAT
* *
24801995 TGATAATGGGTAAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24802021 TGATAATGGGTTTGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24802047 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24802073 TGAT
1 TGAT
24802077 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24803724 original size:27 final size:26
Alignment explanation
Indices: 24803684--24803824 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 26
24803674 AGGAAGCGTC
*
24803684 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
24803711 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
24803738 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
24803765 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
24803792 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
24803819 CTGGTG
1 CTGGTG
24803825 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.11
27 88 0.86
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:24803766 original size:54 final size:53
Alignment explanation
Indices: 24803684--24803824 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
24803674 AGGAAGCGTC
24803684 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
*
24803738 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
24803792 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
24803825 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:24803835 original size:27 final size:27
Alignment explanation
Indices: 24803684--24803842 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
24803674 AGGAAGCGTC
*
24803684 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
24803711 CTGGTGGCTCTGCCACATATATCTAT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
24803738 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
24803765 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
24803792 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
24803819 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
24803843 GCAGTCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:24807623 original size:40 final size:40
Alignment explanation
Indices: 24807549--24807769 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
24807539 AACCCAAGTA
* *
24807549 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
24807588 CCTTCGGGTA-TTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGG-ACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
24807628 CTTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
24807668 CCTTCCGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24807708 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24807747 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24807770 CATCCGAATA
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.25
40 118 0.74
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24809948 original size:23 final size:23
Alignment explanation
Indices: 24809922--24809968 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24809912 AAAACCCCTA
*
24809922 TAGGTTCGAAATGAAAAATAAAT
1 TAGGTTCGAAATAAAAAATAAAT
24809945 TAGGTTCGAAATAAAAAATAAAT
1 TAGGTTCGAAATAAAAAATAAAT
24809968 T
1 T
24809969 CCAATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (23 bp):
TAGGTTCGAAATAAAAAATAAAT
Found at i:24811768 original size:45 final size:45
Alignment explanation
Indices: 24811710--24811834 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 45
24811700 ATGCAGGTGA
* *
24811710 AAAAAT-ATAGATATTTGAATTAATTATTTGAAATATTTTACATAT
1 AAAAATAAT-GATATTTGAAATAATTATTTGAAATATTTCACATAT
* *
24811755 AAAAATAATGATATTTGAAATAATTTTTTTGAAATATTTCACATGT
1 AAAAATAATGATATTTGAAATAA-TTATTTGAAATATTTCACATAT
24811801 AAAAATAATTGTGATATTTGAAATAATTATTTGA
1 AAAAATAA---TGATATTTGAAATAATTATTTGA
24811835 TTTTATAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
45 19 0.27
46 29 0.41
48 7 0.10
49 15 0.21
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (45 bp):
AAAAATAATGATATTTGAAATAATTATTTGAAATATTTCACATAT
Found at i:24812092 original size:22 final size:22
Alignment explanation
Indices: 24812064--24812107 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24812054 TGATATATAA
24812064 TTGAAACTAAGCTTTAATCGAG
1 TTGAAACTAAGCTTTAATCGAG
*
24812086 TTGAAACTGAGCTTTAATCGAG
1 TTGAAACTAAGCTTTAATCGAG
24812108 CTTATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (22 bp):
TTGAAACTAAGCTTTAATCGAG
Found at i:24812274 original size:20 final size:19
Alignment explanation
Indices: 24812249--24812303 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
24812239 TTTAATTCAC
*
24812249 TGGTATCGATACCGGTTATA
1 TGGTATCGATACCGATT-TA
* *
24812269 TGGTATAGATACCTATTTA
1 TGGTATCGATACCGATTTA
24812288 T-GTATCGATACC-ATTT
1 TGGTATCGATACCGATTT
24812304 TAAGATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 4 0.13
18 10 0.32
19 3 0.10
20 14 0.45
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (19 bp):
TGGTATCGATACCGATTTA
Found at i:24812305 original size:18 final size:18
Alignment explanation
Indices: 24812249--24812305 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
24812239 TTTAATTCAC
*
24812249 TGGTATCGATACCGGTTATA
1 TGGTATCGATACC--TTTTA
*
24812269 TGGTATAGATACCTATTTA
1 TGGTATCGATACCT-TTTA
24812288 T-GTATCGATACCATTTTA
1 TGGTATCGATACC-TTTTA
24812306 AGATTCAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 15 0.47
19 5 0.16
20 12 0.38
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (18 bp):
TGGTATCGATACCTTTTA
Found at i:24812830 original size:19 final size:19
Alignment explanation
Indices: 24812806--24812846 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
24812796 TGATTTATTC
24812806 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
24812825 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
24812844 TAA
1 TAA
24812847 CTTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:24816596 original size:41 final size:41
Alignment explanation
Indices: 24816542--24816620 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
24816532 CTAATTGGGA
24816542 AAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGGG
1 AAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGGG
*
24816583 AAATAATTTCCTTATTCTAATAAACTACTAAAAGATAA
1 AAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
24816621 AATAAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (41 bp):
AAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGGG
Found at i:24821545 original size:7 final size:7
Alignment explanation
Indices: 24821533--24821566 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
24821523 GCAATTGTCT
24821533 CCACTCG
1 CCACTCG
24821540 CCACTCG
1 CCACTCG
24821547 CCACTCG
1 CCACTCG
24821554 CCACTCG
1 CCACTCG
24821561 CCACTC
1 CCACTC
24821567 TTCACTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.59, G:0.12, T:0.15
Consensus pattern (7 bp):
CCACTCG
Found at i:24831684 original size:21 final size:21
Alignment explanation
Indices: 24831658--24831710 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
24831648 CAGTGGAGAT
*
24831658 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTACCAAAAC
24831679 AGGAAAAACAGGTACCAAAAC
1 AGGAAAAACAGGTACCAAAAC
24831700 AGGAAAAACAG
1 AGGAAAAACAG
24831711 TGGCTGTAGG
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:0.57, C:0.17, G:0.21, T:0.06
Consensus pattern (21 bp):
AGGAAAAACAGGTACCAAAAC
Found at i:24834851 original size:12 final size:13
Alignment explanation
Indices: 24834825--24834851 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24834815 TAATTAAAAG
24834825 TTTGACTATTTTT
1 TTTGACTATTTTT
24834838 TTTGACTATTTTT
1 TTTGACTATTTTT
24834851 T
1 T
24834852 ACTAGTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTGACTATTTTT
Found at i:24836133 original size:12 final size:12
Alignment explanation
Indices: 24836116--24836140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24836106 CCAAGTCTCT
24836116 TTTATTTATTTG
1 TTTATTTATTTG
24836128 TTTATTTATTTG
1 TTTATTTATTTG
24836140 T
1 T
24836141 CACTTCAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:24840369 original size:33 final size:33
Alignment explanation
Indices: 24840331--24840396 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
24840321 GACTGAGTGG
24840331 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGT
1 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGT
*
24840364 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGT
24840397 CAAGAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.09, G:0.41, T:0.30
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGT
Found at i:24845754 original size:247 final size:247
Alignment explanation
Indices: 24845222--24846211 Score: 1847
Period size: 247 Copynumber: 4.0 Consensus size: 247
24845212 AGAATCTGTG
24845222 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
1 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
24845287 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
66 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
24845352 TGTCATATTT-AAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
131 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
24845416 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
196 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
*
24845468 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTTTAGTTCAATTGGATCATCTAGAT
1 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
24845533 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
66 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
*
24845598 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCGAAATTT
131 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
*
24845663 GTTTTTGTTAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
196 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
* *
24845715 CTGTTTTGTAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
1 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
24845780 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
66 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
* *
24845845 TGTCATATTTAAAAAAAGAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCTAAATTT
131 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
24845910 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
196 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
* *
24845962 GTGTTTTGCAATGTAAGGCTAAGGTTAAATCGATTGAAGTTATAGTTCAATTGGATCATCTAGAT
1 GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
* *
24846027 GGTTTAATCACTTCAAAAAAATAATTTAATAACTATTGAATGTAAAAATGTTAAAAGCTAAATAA
66 GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
24846092 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
131 TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
* **
24846157 GTTTTTGTTAAAAAAAATAAAAACAAGTATCTCAGTTGTGTAATTTTAATAC
196 GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
24846209 GTG
1 GTG
24846212 AATATAATAC
Statistics
Matches: 723, Mismatches: 20, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
246 139 0.19
247 584 0.81
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (247 bp):
GTGTTTTGCAATGTAAGGCTAAGGTTGAATCGATTGGAGTTATAGTTCAATTGGATCATCTAGAT
GGTTTAACCACTTCAAAAAAATAATTTAATAACTATTGAAAGTAAAAATGTTAAAAGCTAAATAA
TGTCATATTTAAAAAAAAAGATAAATATAAGCTAAAATGTAAAAAATAAAATAAAATCCAAATTT
GTTTTTGATAAAAAAAATAAAAACAAGCGTCTCAGTTGTGTAATTTTAATAC
Found at i:24846221 original size:13 final size:13
Alignment explanation
Indices: 24846203--24846228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24846193 TGTGTAATTT
24846203 TAATACGTGAATA
1 TAATACGTGAATA
24846216 TAATACGTGAATA
1 TAATACGTGAATA
24846229 CTATGCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
TAATACGTGAATA
Found at i:24847934 original size:21 final size:20
Alignment explanation
Indices: 24847905--24847943 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
24847895 ACGCCTACGA
24847905 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
24847925 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
24847944 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:24848136 original size:15 final size:15
Alignment explanation
Indices: 24848116--24848154 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
24848106 TATCATTTCA
24848116 ATATATAATTTAAAT
1 ATATATAATTTAAAT
24848131 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
24848147 ATAT-TAAT
1 ATATATAAT
24848155 AATATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:24848170 original size:21 final size:20
Alignment explanation
Indices: 24848144--24848206 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 20
24848134 TATAAATTTA
24848144 AATATATTAATAATATTTAAT
1 AATATATTAATAATA-TTAAT
*
24848165 AATATATAAATAATATTAAT
1 AATATATTAATAATATTAAT
24848185 -A-ATA-TAATAATA-TAAT
1 AATATATTAATAATATTAAT
24848201 AATATA
1 AATATA
24848207 GAAAGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.11
17 8 0.21
18 6 0.16
19 1 0.03
20 5 0.13
21 14 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATATTAATAATATTAAT
Found at i:24848183 original size:30 final size:27
Alignment explanation
Indices: 24848128--24848206 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 27
24848118 ATATAATTTA
*
24848128 AATATATATAA-ATTTAAATATATTAAT
1 AATATA-ATAATATATAAATATATTAAT
24848155 AATATTTAATAATATATAAATAATATTAAT
1 AATA--TAATAATATATAAAT-ATATTAAT
24848185 AATATAATAATATA-ATAATATA
1 AATATAATAATATATA-AATATA
24848207 GAAAGAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
27 8 0.17
28 17 0.37
29 9 0.20
30 12 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATAATAATATATAAATATATTAAT
Found at i:24848192 original size:8 final size:8
Alignment explanation
Indices: 24848151--24848206 Score: 66
Period size: 8 Copynumber: 7.2 Consensus size: 8
24848141 TTAAATATAT
24848151 TAATAATA
1 TAATAATA
24848159 TTTAATAATA
1 --TAATAATA
24848169 T-ATAA-A
1 TAATAATA
24848175 TAAT-AT-
1 TAATAATA
24848181 TAATAATA
1 TAATAATA
24848189 TAATAATA
1 TAATAATA
24848197 TAATAATA
1 TAATAATA
24848205 TA
1 TA
24848207 GAAAGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.17
7 8 0.19
8 19 0.45
10 8 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATAATA
Found at i:24848224 original size:12 final size:12
Alignment explanation
Indices: 24848201--24848231 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
24848191 ATAATATAAT
24848201 AATATAGAAAGAA
1 AATAT-GAAAGAA
24848214 AATATGAAAGAA
1 AATATGAAAGAA
24848226 AATATG
1 AATATG
24848232 CGTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (12 bp):
AATATGAAAGAA
Found at i:24848270 original size:16 final size:16
Alignment explanation
Indices: 24848249--24848279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24848239 TAACTAATTA
24848249 TATACTTAATATATTT
1 TATACTTAATATATTT
*
24848265 TATACTTATTATATT
1 TATACTTAATATATT
24848280 ATCCTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TATACTTAATATATTT
Found at i:24849977 original size:21 final size:21
Alignment explanation
Indices: 24849947--24850035 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
24849937 CTCACAAAGA
* *
24849947 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
24849967 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
24849988 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
24850009 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
24850033 AAA
1 AAA
24850036 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:24850028 original size:24 final size:21
Alignment explanation
Indices: 24849947--24850015 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
24849937 CTCACAAAGA
* * *
24849947 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
24849967 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
24849988 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
24850009 AAAAAGA
1 AAAAAGA
24850016 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:24859139 original size:33 final size:33
Alignment explanation
Indices: 24859042--24859140 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
24859032 TTTCTTCTTG
*
24859042 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
* *
24859075 ACATTCCAGCTCTTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
* * *
24859108 ACATTCCAACTCCTGTCCAACAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
24859141 CCACTCAGTC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.33, C:0.40, G:0.08, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:24863465 original size:16 final size:16
Alignment explanation
Indices: 24863444--24863498 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
24863434 GTTTGGTTCA
*
24863444 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
24863460 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
24863476 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
24863492 CTGTAAT
1 CTGTAAT
24863499 CAGTAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:24863573 original size:44 final size:46
Alignment explanation
Indices: 24863480--24863573 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
24863470 ATAGAGCTGT
24863480 AATGGAATAGAGCTGTAATCAGTAATTAAACTGTTTGGTTGAATGA
1 AATGGAATAGAGCTGTAATCAGTAATTAAACTGTTTGGTTGAATGA
****
24863526 AATGGAATAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATGA
1 AATGGAATAGAGCTGTAATCAGTAATTAAACTGTTTGGTTGAATGA
24863570 AATG
1 AATG
24863574 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 2 0.05
46 19 0.43
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTAAACTGTTTGGTTGAATGA
Found at i:24863784 original size:12 final size:11
Alignment explanation
Indices: 24863702--24863820 Score: 50
Period size: 12 Copynumber: 10.4 Consensus size: 11
24863692 TAAAAATAAA
*
24863702 AATAAATAATTT
1 AATAAATTA-TT
24863714 AATCAAATT-TT
1 AAT-AAATTATT
*
24863725 AACATAATTATT
1 AATA-AATTATT
*
24863737 ATTAAATATAATTT
1 AATAAAT-T-A-TT
* *
24863751 AATAAAATAAT
1 AATAAATTATT
*
24863762 -ATATATT-TT
1 AATAAATTATT
24863771 AATAACATTATT
1 AATAA-ATTATT
24863783 AATATAATTATT
1 AATA-AATTATT
*
24863795 AATAATATTTAAT
1 AATAA-A-TTATT
24863808 AAT-AATT-TT
1 AATAAATTATT
24863817 AATA
1 AATA
24863821 TAAAATTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
9 5 0.06
10 11 0.14
11 17 0.21
12 27 0.33
13 14 0.17
14 7 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAAATTATT
Found at i:24864047 original size:58 final size:57
Alignment explanation
Indices: 24863955--24864096 Score: 185
Period size: 58 Copynumber: 2.5 Consensus size: 57
24863945 TATTATTATT
* * * *
24863955 AAATTTTAATAAGATTATTATTAAAAATATTTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAATATGATTATTATTAAATATAATTTAAT-AAAATAATAAATAATTTAATA
* * * *
24864013 ATATTTTAACATGATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAATATGATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATA
*
24864070 AAATTCTTAATATAATTATTATTAAAT
1 AAATT-TTAATATGATTATTATTAAAT
24864097 GAATTAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 23 0.32
58 48 0.68
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (57 bp):
AAATTTTAATATGATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATA
Found at i:24864114 original size:58 final size:57
Alignment explanation
Indices: 24863985--24864121 Score: 152
Period size: 58 Copynumber: 2.4 Consensus size: 57
24863975 TTAAAAATAT
* * * * *
24863985 TTTAATAAAAATAATAAATAATTTAATCATATTTTAACATGATTATTACTAAATATAA
1 TTTAA-AAAAATAATATATAATTTAATAAAATTTTAACATAATTATTACTAAATAGAA
* * *
24864043 TTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTAAAT-GAA
1 TTTAAAAAAATAATATATAATTTAATAAAATT-TTAACATAATTATTACTAAATAGAA
24864100 -TTAAAAAATCATAATATATAAT
1 TTTAAAAAA--ATAATATATAAT
24864122 AGTATAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
56 7 0.10
57 25 0.37
58 35 0.52
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
TTTAAAAAAATAATATATAATTTAATAAAATTTTAACATAATTATTACTAAATAGAA
Found at i:24871253 original size:29 final size:29
Alignment explanation
Indices: 24871211--24871267 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
24871201 GCGTACATAA
*
24871211 ATTATAAATAAAAAAAT-CAAAACATATAT
1 ATTAAAAATAAAAAAATACAAAA-ATATAT
24871240 ATTAAAAATAAAAAAATACAAAAATATA
1 ATTAAAAATAAAAAAATACAAAAATATA
24871268 AATATATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (29 bp):
ATTAAAAATAAAAAAATACAAAAATATAT
Found at i:24873188 original size:19 final size:20
Alignment explanation
Indices: 24873164--24873201 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24873154 ATACCTGACC
24873164 ATCAATATG-ATTCTTGCAA
1 ATCAATATGCATTCTTGCAA
*
24873183 ATCAATATGCATTTTTGCA
1 ATCAATATGCATTCTTGCA
24873202 CCACCAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCAATATGCATTCTTGCAA
Found at i:24875227 original size:17 final size:17
Alignment explanation
Indices: 24875170--24875255 Score: 66
Period size: 17 Copynumber: 5.1 Consensus size: 17
24875160 AGCTAGCTCA
*
24875170 CATATAAACACAACT-A
1 CATATAAACACAACTCG
* * * *
24875186 TATATAAACATAGCTTG
1 CATATAAACACAACTCG
*
24875203 CATGTAAACACAACTCG
1 CATATAAACACAACTCG
* * * * *
24875220 GATATAAAAATAGCTAG
1 CATATAAACACAACTCG
24875237 CATATAAACACAACTCG
1 CATATAAACACAACTCG
24875254 CA
1 CA
24875256 CATTGTCATA
Statistics
Matches: 49, Mismatches: 20, Indels: 1
0.70 0.29 0.01
Matches are distributed among these distances:
16 12 0.24
17 37 0.76
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (17 bp):
CATATAAACACAACTCG
Found at i:24875233 original size:34 final size:34
Alignment explanation
Indices: 24875170--24875253 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 34
24875160 AGCTAGCTCA
** * *
24875170 CATATAAACACAACT-ATATATAAACATAGCTTG
1 CATATAAACACAACTCGGATATAAAAATAGCTAG
*
24875203 CATGTAAACACAACTCGGATATAAAAATAGCTAG
1 CATATAAACACAACTCGGATATAAAAATAGCTAG
24875237 CATATAAACACAACTCG
1 CATATAAACACAACTCG
24875254 CACATTGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 14 0.32
34 30 0.68
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (34 bp):
CATATAAACACAACTCGGATATAAAAATAGCTAG
Found at i:24876943 original size:25 final size:25
Alignment explanation
Indices: 24876907--24877035 Score: 170
Period size: 25 Copynumber: 5.2 Consensus size: 25
24876897 TTAGGGTTAT
24876907 CGATTTATAGCTCGTAAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATAC
*
24876932 CAATTTATAGCTCAG-AAGAGCATAC
1 CGATTTATAGCTC-GTAAGAGCATAC
24876957 CGATTTATAGCTCGTAAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATAC
* * * *
24876982 TGATTTATAGATCATAAGAGCATAA
1 CGATTTATAGCTCGTAAGAGCATAC
* * *
24877007 TGATTTATAACTCGTGAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATAC
24877032 CGAT
1 CGAT
24877036 CTTCAACTCA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.01
25 88 0.98
26 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
CGATTTATAGCTCGTAAGAGCATAC
Found at i:24876988 original size:50 final size:49
Alignment explanation
Indices: 24876907--24877061 Score: 188
Period size: 50 Copynumber: 3.1 Consensus size: 49
24876897 TTAGGGTTAT
*
24876907 CGATTTATAGCTCGTAAGAGCATACCAATTTATAGCTCAGAAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATACCGATTTATAGCTCA-AAGAGCATAC
* * *
24876957 CGATTTATAGCTCGTAAGAGCATACTGATTTATAGATCATAAGAGCATAA
1 CGATTTATAGCTCGTAAGAGCATACCGATTTATAGCTCA-AAGAGCATAC
* * *
24877007 TGATTTATAACTCGTGAGAGCATACCGATCTTCA-A-CTCAAATGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATACCGAT-TT-ATAGCTCAAA-GAGCATAC
24877057 CGATT
1 CGATT
24877062 CACAACTTGT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 2 0.02
50 84 0.93
51 3 0.03
52 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (49 bp):
CGATTTATAGCTCGTAAGAGCATACCGATTTATAGCTCAAAGAGCATAC
Done.