Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 69 of 335
Found at i:23654931 original size:46 final size:46
Alignment explanation
Indices: 23654883--23655056 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
23654873 GTTGAGCATT
* *
23654883 CGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
23654929 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * *
23654976 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
23655022 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23655057 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:23655046 original size:93 final size:93
Alignment explanation
Indices: 23654878--23655048 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
23654868 GGATGGTTGA
* * **
23654878 GCATTCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23654943 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
23654971 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23655036 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23655049 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23658467 original size:31 final size:30
Alignment explanation
Indices: 23658390--23658492 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 30
23658380 ATATTTTTAT
23658390 TTTGGTACTTGAACTTGACACTTTTTAGTCCAA
1 TTTGGTACTTGAACTTGACAC-TTTT--TCCAA
** *
23658423 TTTAATACTTGAACTTAACACTTTTTCCTAA
1 TTTGGTACTTGAACTTGACACTTTTTCC-AA
* ***
23658454 TTTGGTACCTGAACTTGACA-TTTTTTTTA
1 TTTGGTACTTGAACTTGACACTTTTTCCAA
23658483 TTTGGTACTT
1 TTTGGTACTT
23658493 CATCTTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.17
30 8 0.14
31 18 0.31
32 4 0.07
33 18 0.31
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.48
Consensus pattern (30 bp):
TTTGGTACTTGAACTTGACACTTTTTCCAA
Found at i:23666224 original size:26 final size:27
Alignment explanation
Indices: 23666189--23666254 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
23666179 GCCTGAATAT
*
23666189 TATATTTTAAAAAAATATAT-TAATTA
1 TATATATTAAAAAAATATATATAATTA
* * *
23666215 TATATATTAAATAATTATATATATTTA
1 TATATATTAAAAAAATATATATAATTA
23666242 TATTTATATTAAA
1 TA--TATATTAAA
23666255 TTACTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.52
27 7 0.21
29 9 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATATATTAAAAAAATATATATAATTA
Found at i:23666440 original size:38 final size:38
Alignment explanation
Indices: 23666351--23666439 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
23666341 AAAATTTATA
* *
23666351 TTTAATACAATAAAATATTTATTATATTTATTTGTGTT
1 TTTAATATAATAAAATATTTATTATATTTATTAGTGTT
23666389 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTAT--TAGTG-TT
23666430 TTTAATATAA
1 TTTAATATAA
23666440 ATATTTTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 30 0.65
40 4 0.09
41 12 0.26
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (38 bp):
TTTAATATAATAAAATATTTATTATATTTATTAGTGTT
Found at i:23669480 original size:12 final size:11
Alignment explanation
Indices: 23669461--23669499 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
23669451 CCATTGAATT
23669461 TTAATTTTTTA
1 TTAATTTTTTA
23669472 TTGAATTTTATTA
1 TT-AATTTT-TTA
*
23669485 TTAATTTTTAA
1 TTAATTTTTTA
23669496 TTAA
1 TTAA
23669500 ACTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 8 0.32
12 12 0.48
13 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:23676950 original size:19 final size:20
Alignment explanation
Indices: 23676926--23676966 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
23676916 TTCGAGTTTG
* *
23676926 TTTAAAATTTATATA-TATT
1 TTTAAAAATTACATATTATT
23676945 TTTAAAAATTACATATTATT
1 TTTAAAAATTACATATTATT
23676965 TT
1 TT
23676967 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAAATTACATATTATT
Found at i:23686193 original size:22 final size:21
Alignment explanation
Indices: 23686168--23686215 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
23686158 ACATGTTTTT
23686168 TTTAATATATATTTTTTAATAA
1 TTTAA-ATATATTTTTTAATAA
*
23686190 TTT-ACTATATTTTTTAATAA
1 TTTAAATATATTTTTTAATAA
23686210 TTTAAA
1 TTTAAA
23686216 CTACCATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 18 0.78
21 2 0.09
22 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATTTTTTAATAA
Found at i:23686200 original size:20 final size:20
Alignment explanation
Indices: 23686175--23686213 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23686165 TTTTTTAATA
23686175 TATATTTTTTAATAATTTAC
1 TATATTTTTTAATAATTTAC
23686195 TATATTTTTTAATAATTTA
1 TATATTTTTTAATAATTTA
23686214 AACTACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTTTTAATAATTTAC
Found at i:23690839 original size:23 final size:23
Alignment explanation
Indices: 23690807--23690850 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23690797 CCTTTGGGCA
*
23690807 TACCGTTTTCCCA-TTGCCCATCG
1 TACCGGTTT-CCATTTGCCCATCG
23690830 TACCGGTTTCCATTTGCCCAT
1 TACCGGTTTCCATTTGCCCAT
23690851 ATCAGGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.14, C:0.36, G:0.14, T:0.36
Consensus pattern (23 bp):
TACCGGTTTCCATTTGCCCATCG
Found at i:23693372 original size:20 final size:21
Alignment explanation
Indices: 23693347--23693386 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23693337 TAATTTATTT
23693347 ATAATT-T-TTAATGATAATGC
1 ATAATTATATTAATGA-AATGC
23693367 ATAATTATATTAATGAAATG
1 ATAATTATATTAATGAAATG
23693387 TTTAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (21 bp):
ATAATTATATTAATGAAATGC
Found at i:23693396 original size:21 final size:22
Alignment explanation
Indices: 23693354--23693397 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23693344 TTTATAATTT
*
23693354 TTAATGATAATGCATAATTATA
1 TTAATGATAATGCATAAATATA
**
23693376 TTAATGA-AATGTTTAAATATA
1 TTAATGATAATGCATAAATATA
23693397 T
1 T
23693398 CAAGCTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
TTAATGATAATGCATAAATATA
Found at i:23698060 original size:42 final size:42
Alignment explanation
Indices: 23697989--23698094 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
23697979 GTCGAATACT
* * *
23697989 TAATACTCGCACACTAAGTGCCAAGACATAACCTAAGTTTTTA
1 TAAT-CTCGCACACTAAGTGCCAAAACATAACCAAAGTTATTA
* *
23698032 TAATCTCACACACTAAATGCCAAAACATAACCAAAGTTATTA
1 TAATCTCGCACACTAAGTGCCAAAACATAACCAAAGTTATTA
23698074 TAATCTCGCACACTAAGTGCC
1 TAATCTCGCACACTAAGTGCC
23698095 TTTCACAGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 52 0.93
43 4 0.07
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (42 bp):
TAATCTCGCACACTAAGTGCCAAAACATAACCAAAGTTATTA
Found at i:23698148 original size:41 final size:42
Alignment explanation
Indices: 23698076--23698174 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 42
23698066 AGTTATTATA
* * * *
23698076 ATCTCGCACACTAAGTG-CCTTTCACAGCCGAAGCTA-TCTTG
1 ATCTCGCACACTAAGTGTCATATCACAACCGAAACTATTC-TG
* *
23698117 ATCTCGCACACTAAGTGTCATAT-ATAACCGAAATTATTCTG
1 ATCTCGCACACTAAGTGTCATATCACAACCGAAACTATTCTG
*
23698158 AT-ACGCACACTAAGTGT
1 ATCTCGCACACTAAGTGT
23698175 TGTATACAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 14 0.29
41 30 0.61
42 5 0.10
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGTCATATCACAACCGAAACTATTCTG
Found at i:23702183 original size:55 final size:56
Alignment explanation
Indices: 23702079--23702188 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 56
23702069 ACCATGGCAT
* *
23702079 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATTC
*
23702135 CGATATATGTGTGCGAGTAA-ACCACGTTCAATACGTTGGTATCAATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATT
23702189 ACATGTAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 31 0.61
56 20 0.39
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATTC
Found at i:23704274 original size:53 final size:53
Alignment explanation
Indices: 23704210--23704344 Score: 173
Period size: 53 Copynumber: 2.5 Consensus size: 53
23704200 CACATATCAT
* * *
23704210 ACCGAAGCCATATCCCAGAC-ATAGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAACCCAG-CTATAGTCTTATACGGAATCACATTATCACATTAC
* * * * *
23704263 ACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAACCCAGCTATAGTCTTATACGGAATCACATTATCACATTAC
*
23704316 ACCGATGCCATAACCCAGCTATGGTCTTA
1 ACCGATGCCATAACCCAGCTATAGTCTTA
23704345 AACAGGCGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 71 0.99
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
ACCGATGCCATAACCCAGCTATAGTCTTATACGGAATCACATTATCACATTAC
Found at i:23712067 original size:2 final size:2
Alignment explanation
Indices: 23712060--23712096 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23712050 TACACGTATC
23712060 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
23712097 ATAAAATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23713936 original size:2 final size:2
Alignment explanation
Indices: 23713929--23713956 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23713919 TATTTCAAAC
23713929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23713957 CCAAAACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23717307 original size:8 final size:8
Alignment explanation
Indices: 23717291--23717330 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
23717281 TATTGCTTTA
*
23717291 AAAAAAAT
1 AAAATAAT
23717299 AAAATAAT
1 AAAATAAT
23717307 AAAATAAAT
1 AAAAT-AAT
23717316 AAAATAAT
1 AAAATAAT
23717324 AAAATAA
1 AAAATAA
23717331 ATGAAGAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:23717315 original size:17 final size:17
Alignment explanation
Indices: 23717289--23717332 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23717279 GTTATTGCTT
*
23717289 TAAAAAAAATAAAATAA
1 TAAAATAAATAAAATAA
23717306 TAAAATAAATAAAATAA
1 TAAAATAAATAAAATAA
23717323 TAAAATAAAT
1 TAAAATAAAT
23717333 GAAGAGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAATAAATAAAATAA
Found at i:23731384 original size:16 final size:16
Alignment explanation
Indices: 23731359--23731443 Score: 75
Period size: 16 Copynumber: 5.3 Consensus size: 16
23731349 ATTTGTCAGG
*
23731359 TTTTTATATTTTTTTTG
1 TTTTT-TATTTTTTTTC
*
23731376 TTTTTTATTTTTTTAC
1 TTTTTTATTTTTTTTC
*
23731392 TTTTTTACTTTTTTTC
1 TTTTTTATTTTTTTTC
* *
23731408 --TTTTATTTTGTCTC
1 TTTTTTATTTTTTTTC
* *
23731422 TTTCTTAGATTTTTTTC
1 TTTTTTA-TTTTTTTTC
23731439 TTTTT
1 TTTTT
23731444 ATGTTTTATA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
14 11 0.21
16 27 0.51
17 15 0.28
ACGTcount: A:0.09, C:0.08, G:0.04, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTTTTTC
Found at i:23731387 original size:8 final size:8
Alignment explanation
Indices: 23731359--23731411 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
23731349 ATTTGTCAGG
*
23731359 TTTTTATA
1 TTTTTTTA
23731367 TTTTTTT-
1 TTTTTTTA
23731374 TGTTTTTTA
1 T-TTTTTTA
23731383 TTTTTTTA
1 TTTTTTTA
*
23731391 CTTTTTTA
1 TTTTTTTA
*
23731399 CTTTTTTTC
1 -TTTTTTTA
23731408 TTTT
1 TTTT
23731412 ATTTTGTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 1 0.03
8 30 0.79
9 7 0.18
ACGTcount: A:0.09, C:0.06, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:23731499 original size:18 final size:17
Alignment explanation
Indices: 23731448--23731495 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
23731438 CTTTTTATGT
*
23731448 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
23731466 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
23731484 TTTATATTATTA
1 TTTATATTATTA
23731496 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:23731508 original size:23 final size:22
Alignment explanation
Indices: 23731482--23731574 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 22
23731472 TTGCTTATTT
*
23731482 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
23731505 AATTTATAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
** *
23731527 TGTTTTATAATATTTTTTTAAAA
1 -AATTTATAATATTATTTTAAAA
*
23731550 AATTT-TAATTATTATTTTTAAA
1 AATTTATAA-TATTATTTTAAAA
23731572 AAT
1 AAT
23731575 ATTTTTTAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
21 5 0.09
22 25 0.43
23 26 0.45
24 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:23731763 original size:90 final size:90
Alignment explanation
Indices: 23731605--23731768 Score: 199
Period size: 89 Copynumber: 1.8 Consensus size: 90
23731595 TATTTGTGAA
** * * *
23731605 ATTAATTTTTTATAAATTTTAAAAATGTATTTTTTAAATTAGTTTTGAAATTATTAGTTTTATAA
1 ATTAATTTTACATAAATTTTAAAAATGTATTTTTTAAATTAGTTTTGAAATCATTAGGTATATAA
23731670 TATTTGAAATGTATGTTTAATATTTT
66 TATTT-AAATGTATGTTTAATATTTT
* ***
23731696 ATTAATTTTACATACAATTTTAAATAT-TA-TTTTTAAATTA-TTTTTTTATCATTAGGTATATA
1 ATTAATTTTACATA-AATTTTAAAAATGTATTTTTTAAATTAGTTTTGAAATCATTAGGTATATA
23731758 TATATTTAAAT
65 -ATATTTAAAT
23731769 TTTAAAGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
89 20 0.32
90 17 0.27
91 14 0.23
92 11 0.18
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.55
Consensus pattern (90 bp):
ATTAATTTTACATAAATTTTAAAAATGTATTTTTTAAATTAGTTTTGAAATCATTAGGTATATAA
TATTTAAATGTATGTTTAATATTTT
Found at i:23732094 original size:27 final size:26
Alignment explanation
Indices: 23732064--23732129 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
23732054 TTTTAAATAC
* *
23732064 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
23732091 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
23732117 AATATTTTAAATA
1 AAT-TTTTAAATA
23732130 TTTTTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:23732113 original size:26 final size:27
Alignment explanation
Indices: 23732064--23732126 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
23732054 TTTTAAATAC
* * *
23732064 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
23732091 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
23732117 AATATTTTAA
1 AATTTTTTAA
23732127 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:23732182 original size:18 final size:16
Alignment explanation
Indices: 23732161--23732212 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
23732151 TTCTTTTTCC
23732161 TTTTTTTTTATTTTAT
1 TTTTTTTTTATTTTAT
*
23732177 GTTTTTTCTTATTTTAT
1 -TTTTTTTTTATTTTAT
23732194 TTTGTTTATTTATTTTAT
1 TTT-TTT-TTTATTTTAT
23732212 T
1 T
23732213 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 3 0.10
17 18 0.58
18 10 0.32
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTATTTTAT
Found at i:23732261 original size:21 final size:21
Alignment explanation
Indices: 23732219--23732264 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
23732209 TATTATTAAT
*
23732219 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
23732241 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
23732262 TTT
1 TTT
23732265 TTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:23732289 original size:21 final size:21
Alignment explanation
Indices: 23732249--23732293 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
23732239 TATTTAAAAT
23732249 ATTTTATAATATATTTTTTACA
1 ATTTTATAATATATTTTTTA-A
23732271 ATTTTA-AATAT-TATTTTTAA
1 ATTTTATAATATAT-TTTTTAA
23732291 ATT
1 ATT
23732294 CTTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATAATATATTTTTTAA
Found at i:23732754 original size:18 final size:18
Alignment explanation
Indices: 23732704--23732755 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
23732694 TCATCGATTA
*
23732704 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
23732722 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
23732740 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
23732756 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:23732771 original size:8 final size:8
Alignment explanation
Indices: 23732760--23732830 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 8
23732750 TATAAAACTT
23732760 AAAAAAGA
1 AAAAAAGA
23732768 AAAAAAGA
1 AAAAAAGA
23732776 GAAAAAAG-
1 -AAAAAAGA
*
23732784 AGAAAA-A
1 AAAAAAGA
* *
23732791 ATATAAGA
1 AAAAAAGA
*
23732799 AAAAAAGT
1 AAAAAAGA
23732807 AAAAAAGTA
1 AAAAAAG-A
23732816 AAAAAAGTA
1 AAAAAAG-A
23732825 AAAAAA
1 AAAAAA
23732831 ATATAAGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
7 9 0.17
8 21 0.40
9 22 0.42
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (8 bp):
AAAAAAGA
Found at i:23732800 original size:31 final size:30
Alignment explanation
Indices: 23732764--23732821 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
23732754 AAACTTAAAA
23732764 AAGAAAAAAAGAGAAAAAAG-AGAAAAAATAT
1 AAGAAAAAAAG-GAAAAAAGTA-AAAAAATAT
*
23732795 AAGAAAAAAAGTAAAAAAGTAAAAAAA
1 AAGAAAAAAAGGAAAAAAGTAAAAAAA
23732822 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (30 bp):
AAGAAAAAAAGGAAAAAAGTAAAAAAATAT
Found at i:23732821 original size:40 final size:39
Alignment explanation
Indices: 23732760--23732839 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 39
23732750 TATAAAACTT
*
23732760 AAAAAAGAAAAAAAGAGAAAAAAG-AGAAAAAATATAAGA
1 AAAAAAGAAAAAAAGA-AAAAAAGTAAAAAAAATATAAGA
*
23732799 AAAAAAGTAAAAAAGTAAAAAAAGTAAAAAAAATATAAGA
1 AAAAAAGAAAAAAAG-AAAAAAAGTAAAAAAAATATAAGA
23732839 A
1 A
23732840 CCTGACAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (39 bp):
AAAAAAGAAAAAAAGAAAAAAAGTAAAAAAAATATAAGA
Found at i:23732827 original size:7 final size:8
Alignment explanation
Indices: 23732799--23732829 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
23732789 AAATATAAGA
23732799 AAAAAAGT
1 AAAAAAGT
23732807 AAAAAAGT
1 AAAAAAGT
23732815 AAAAAAAGT
1 -AAAAAAGT
23732824 AAAAAA
1 AAAAAA
23732830 AATATAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:23755006 original size:15 final size:17
Alignment explanation
Indices: 23754960--23755010 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
23754950 TATTTATAGG
23754960 ATTTATATATGATATATA
1 ATTTATATATG-TATATA
23754978 ATTTA-ATAATGTATA-A
1 ATTTATAT-ATGTATATA
23754994 ATTTATATA-GTAT-TA
1 ATTTATATATGTATATA
23755009 AT
1 AT
23755011 AAAATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 8 0.27
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATATATGTATATA
Found at i:23755018 original size:26 final size:25
Alignment explanation
Indices: 23754972--23755020 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23754962 TTATATATGA
**
23754972 TATATAATTTAATAATGTATAAATT
1 TATATAATTTAATAAAATATAAATT
*
23754997 TATATAGTATTAATAAAATATAAA
1 TATATAAT-TTAATAAAATATAAA
23755021 GTATCGCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TATATAATTTAATAAAATATAAATT
Found at i:23759040 original size:11 final size:11
Alignment explanation
Indices: 23759011--23759060 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
23759001 CGACCGGATT
* *
23759011 TCCCTTCCCCC
1 TCCCTTCTCTC
23759022 TCCCTTCTCTC
1 TCCCTTCTCTC
23759033 TCCCTTCTCTC
1 TCCCTTCTCTC
23759044 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
23759055 TTCCTT
1 TCCCTT
23759061 TTTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:23759610 original size:22 final size:23
Alignment explanation
Indices: 23759578--23759629 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
23759568 ATTTCTAATA
23759578 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
23759601 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
23759623 TATATAT
1 TGTATAT
23759630 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:23759645 original size:2 final size:2
Alignment explanation
Indices: 23759575--23759629 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
23759565 ATCATTTCTA
* * *
23759575 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T 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
*
23759615 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
23759630 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:23768542 original size:31 final size:31
Alignment explanation
Indices: 23768473--23768543 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
23768463 TTGCTTTATG
* * * * *
23768473 TAGTACTATTTGCTTTATGTAATAATGTCTA
1 TAGTACTGTTTGCTTGAGGAAATAATGACTA
23768504 TAGTACTGTTTGCTTGAGGAAATAATGACTA
1 TAGTACTGTTTGCTTGAGGAAATAATGACTA
23768535 TAGTACTGT
1 TAGTACTGT
23768544 CTACTTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (31 bp):
TAGTACTGTTTGCTTGAGGAAATAATGACTA
Found at i:23771174 original size:40 final size:40
Alignment explanation
Indices: 23771124--23771207 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
23771114 AATTATGGAA
* * * *
23771124 TACTGAATATTGTTTTG-AGTACTGGATTGAATTGTGAAGT
1 TACTGAATATTGTTATGTA-TACTGCATTGAACTGTGAAAT
23771164 TACTGAATATTGTTATGTATACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGTATACTGCATTGAACTGTGAAAT
23771204 TACT
1 TACT
23771208 AAAGTAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (40 bp):
TACTGAATATTGTTATGTATACTGCATTGAACTGTGAAAT
Found at i:23771482 original size:45 final size:45
Alignment explanation
Indices: 23771410--23771508 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
23771400 ATGTGCCGAC
* *
23771410 TACTGTTACTGTTACCAATTTGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACCGTTACCAATTAGACACTTTGTGTGTCGAATACTGT
* *
23771455 TACTGTTACCGTTACCGATTCAG-CACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCAATT-AGACACTTTGTGTGTCGAATACTGT
*
23771500 TACTATTAC
1 TACTGTTAC
23771509 TGCTATTGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACCAATTAGACACTTTGTGTGTCGAATACTGT
Found at i:23772776 original size:61 final size:59
Alignment explanation
Indices: 23772666--23772820 Score: 229
Period size: 61 Copynumber: 2.6 Consensus size: 59
23772656 ATAAAATTGA
** * *
23772666 ATAGTTGGGTGACCAAAAAAGAAATTTACTAATACTTGGGTAACCATTTTGTAACTTTTT
1 ATAGTTGGGTGACCAAAAAA-AAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
* *
23772726 ATAGTTGGGTGACCAAAAAATTAAATTTACTAATAGATGAGTGACTATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAA--AAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
23772787 ATAGTTGGGTGACCAAAAAAAAATTTACTAATAG
1 ATAGTTGGGTGACCAAAAAAAAATTTACTAATAG
23772821 TTGAATGTCT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
59 14 0.16
60 20 0.23
61 53 0.61
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (59 bp):
ATAGTTGGGTGACCAAAAAAAAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
Found at i:23774105 original size:21 final size:20
Alignment explanation
Indices: 23774077--23774122 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
23774067 TGTGGTGAAA
* *
23774077 ATTAATAAATTTTAATATAT
1 ATTAATAAATATAAATATAT
23774097 ATTATATAAATATAAATATAT
1 ATTA-ATAAATATAAATATAT
23774118 ATTAA
1 ATTAA
23774123 AATAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATAAATATAAATATAT
Found at i:23774135 original size:21 final size:20
Alignment explanation
Indices: 23774089--23774136 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
23774079 TAATAAATTT
*
23774089 TAATATATATTATATAAATA
1 TAATATATATTAAATAAATA
23774109 TAAATATATATTAAA-ATAATAA
1 T-AATATATATTAAATA-AAT-A
23774131 TAATAT
1 TAATAT
23774137 TAGATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATATATTAAATAAATA
Found at i:23778872 original size:20 final size:21
Alignment explanation
Indices: 23778842--23778889 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
23778832 CGTTAGTCAT
23778842 ATTAA-TTTTTAATAATAAA-A
1 ATTAATTTTTTAATAA-AAATA
23778862 A-TAATTTTTTAATAAAAATA
1 ATTAATTTTTTAATAAAAATA
23778882 ATTAATTT
1 ATTAATTT
23778890 ATTATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAATTTTTTAATAAAAATA
Found at i:23778876 original size:17 final size:18
Alignment explanation
Indices: 23778844--23778884 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
23778834 TTAGTCATAT
23778844 TAATTTTTAATAATAAAAA
1 TAATTTTT-ATAATAAAAA
23778863 TAATTTTT-TAATAAAAA
1 TAATTTTTATAATAAAAA
23778880 TAATT
1 TAATT
23778885 AATTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTTTTATAATAAAAA
Found at i:23780516 original size:19 final size:20
Alignment explanation
Indices: 23780488--23780526 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
23780478 TCCCATTATT
23780488 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
23780507 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
23780527 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:23780544 original size:25 final size:23
Alignment explanation
Indices: 23780507--23780552 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
23780497 TTTGTTTTAA
*
23780507 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
23780530 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
23780553 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:23781083 original size:34 final size:37
Alignment explanation
Indices: 23781012--23781087 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 37
23781002 TTTTCTACTC
23781012 TTTTAAATTTTACACTGAATTTTAACTTTTCTATTTTTTTT
1 TTTTAAATTTTACACTGAATTTTAA----TCTATTTTTTTT
23781053 TTTTAAA-TTTACACTGAATTTTAA-CT-TTTTTTTT
1 TTTTAAATTTTACACTGAATTTTAATCTATTTTTTTT
23781087 T
1 T
23781088 GCTTAATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
34 9 0.26
35 2 0.06
40 17 0.49
41 7 0.20
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (37 bp):
TTTTAAATTTTACACTGAATTTTAATCTATTTTTTTT
Found at i:23789866 original size:50 final size:50
Alignment explanation
Indices: 23789791--23790116 Score: 530
Period size: 50 Copynumber: 6.5 Consensus size: 50
23789781 CCATGGCAAC
* *
23789791 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23789841 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23789891 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
23789940 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23789990 TAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GACAAATGA
1 -AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
23790040 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
23790091 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
23790117 CTGATCAATG
Statistics
Matches: 258, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
49 87 0.34
50 109 0.42
51 62 0.24
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:23789993 original size:7 final size:7
Alignment explanation
Indices: 23789981--23790005 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23789971 TTTGATCAAG
23789981 GATAAGT
1 GATAAGT
23789988 GATAAGT
1 GATAAGT
23789995 GATAAGT
1 GATAAGT
23790002 GATA
1 GATA
23790006 GCTTCGGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATAAGT
Found at i:23790035 original size:149 final size:151
Alignment explanation
Indices: 23789791--23790116 Score: 550
Period size: 149 Copynumber: 2.2 Consensus size: 151
23789781 CCATGGCAAC
*
23789791 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGTGATA
*
23789856 GCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCGGCTACACTT
66 GCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCAGCTACACTT
23789921 ATCTGATCAA-GACAAAT-GA
131 ATCTGATCAAGGACAAATGGA
* *
23789940 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGATAAGTGATAAGTGAT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-AAGTGATAAGTGAT
23790005 AGCTTCGGCTACACTTATCTGATCAA-GACAAATGAAAGTGATAAGTGATAGCTTCAGCTACACT
65 AGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCAGCTACACT
*
23790069 TATCTGATCAAGGACAAATGGC
130 TATCTGATCAAGGACAAATGGA
* * *
23790091 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
23790117 CTGATCAATG
Statistics
Matches: 166, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
149 95 0.57
150 47 0.28
151 24 0.14
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (151 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGTGATA
GCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAGGACAAATGGA
Found at i:23790134 original size:31 final size:31
Alignment explanation
Indices: 23790096--23790154 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
23790086 ATGGCAAGTA
23790096 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
23790127 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
23790155 TTGGTTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:23790337 original size:33 final size:31
Alignment explanation
Indices: 23790295--23790359 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 31
23790285 TATAAAATGT
23790295 AAGACCATAGCTGA-GCTATGGCATTCTAGTGAA
1 AAGACCATAGCT-ATGCTATGGCA-TC-AGTGAA
23790328 AAGACCATAGCTATGCTATGGCATCAGTGAA
1 AAGACCATAGCTATGCTATGGCATCAGTGAA
23790359 A
1 A
23790360 TTCAGTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 7 0.23
32 3 0.10
33 21 0.68
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (31 bp):
AAGACCATAGCTATGCTATGGCATCAGTGAA
Found at i:23795098 original size:50 final size:50
Alignment explanation
Indices: 23795023--23795298 Score: 455
Period size: 50 Copynumber: 5.5 Consensus size: 50
23795013 CCATGGCAAC
* *
23795023 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23795073 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
23795123 AAGTGATAAGTGATAGCTTCGGCTACACTTAT-TGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23795172 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
23795222 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
23795273 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
23795299 CTGATCAATG
Statistics
Matches: 212, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
49 47 0.22
50 142 0.67
51 23 0.11
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:23795190 original size:99 final size:100
Alignment explanation
Indices: 23795023--23795298 Score: 464
Period size: 99 Copynumber: 2.8 Consensus size: 100
23795013 CCATGGCAAC
*
23795023 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGTGATA
23795088 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
66 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
23795123 AAGTGATAAGTGATAGCTTCGGCTACACTTAT-TGATCAAGGATAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGTGATA
23795187 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
66 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * * *
23795222 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGCAAGTAAAAAGTGGT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGT-GAAAGTGATAAGTGAT
23795287 AGCTTCGGCTAC
65 AGCTTCGGCTAC
23795299 CTGATCAATG
Statistics
Matches: 165, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 96 0.58
100 45 0.27
101 24 0.15
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (100 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGTGATA
GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:23795247 original size:149 final size:150
Alignment explanation
Indices: 23795023--23795298 Score: 482
Period size: 149 Copynumber: 1.8 Consensus size: 150
23795013 CCATGGCAAC
* *
23795023 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
* * *
23795088 GCTTCGGCTACACTTATCTGATCAAGGACAAAT-GAAAGTGATAAGTGATAGCTTCGGCTACACT
66 GCTTCAGCTACACTTATCTGATCAAGGACAAATGGAAAGTAAAAAGTGATAGCTTCGGCTACACT
23795152 TATTGATCAAGGATAAGTGA
131 TATTGATCAAGGATAAGTGA
23795172 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
* *
23795237 GCTTCAGCTACACTTATCTGATCAAGGACAAATGGCAAGTAAAAAGTGGTAGCTTCGGCTAC
66 GCTTCAGCTACACTTATCTGATCAAGGACAAATGGAAAGTAAAAAGTGATAGCTTCGGCTAC
23795299 CTGATCAATG
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
149 95 0.80
150 24 0.20
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (150 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
GCTTCAGCTACACTTATCTGATCAAGGACAAATGGAAAGTAAAAAGTGATAGCTTCGGCTACACT
TATTGATCAAGGATAAGTGA
Found at i:23795316 original size:31 final size:31
Alignment explanation
Indices: 23795278--23795336 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
23795268 ATGGCAAGTA
23795278 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
23795309 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
23795337 TCGGTTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:23795519 original size:33 final size:31
Alignment explanation
Indices: 23795477--23795541 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 31
23795467 TATAAAATGT
23795477 AAGACCATAGCTGA-GCTATGGCATTCTAGTGAA
1 AAGACCATAGCT-ATGCTATGGCA-TC-AGTGAA
23795510 AAGACCATAGCTATGCTATGGCATCAGTGAA
1 AAGACCATAGCTATGCTATGGCATCAGTGAA
23795541 A
1 A
23795542 TTCAGTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 7 0.23
32 3 0.10
33 21 0.68
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (31 bp):
AAGACCATAGCTATGCTATGGCATCAGTGAA
Found at i:23800036 original size:47 final size:46
Alignment explanation
Indices: 23799972--23800081 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
23799962 GACATTGAGT
*
23799972 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCC-GATTTGTTC
* * *
23800019 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGATTTGTTC
23800065 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
23800082 CTTATCCTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 24 0.44
47 27 0.49
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (46 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGATTTGTTC
Found at i:23807230 original size:47 final size:47
Alignment explanation
Indices: 23807166--23807276 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
23807156 GACATTGAGT
*
23807166 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
23807213 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
23807260 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
23807277 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:23809716 original size:21 final size:21
Alignment explanation
Indices: 23809690--23809730 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23809680 AAGAAATATA
*
23809690 TAAATTAATTAATACTTTTTT
1 TAAATTAATTAATAATTTTTT
**
23809711 TAAATTTTTTAATAATTTTT
1 TAAATTAATTAATAATTTTT
23809731 AATAAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TAAATTAATTAATAATTTTTT
Found at i:23817346 original size:2 final size:2
Alignment explanation
Indices: 23817304--23817334 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23817294 CTATGATTGA
23817304 AT AT -T 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
23817335 GAAGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:23818377 original size:20 final size:20
Alignment explanation
Indices: 23818349--23818410 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
23818339 GAAGTTTTTG
* *
23818349 TTTACTCTTGTAGTATGCTT
1 TTTAGTCTTGTAGTACGCTT
23818369 TTTAGTCTTGTAGTACGCTT
1 TTTAGTCTTGTAGTACGCTT
23818389 TTTAGTCTTGTAGTACGCTT
1 TTTAGTCTTGTAGTACGCTT
23818409 TT
1 TT
23818411 GCGAGTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTAGTCTTGTAGTACGCTT
Found at i:23848457 original size:13 final size:13
Alignment explanation
Indices: 23848429--23848462 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23848419 ATTATTTAAA
23848429 TTTTAAA-TTCAT
1 TTTTAAATTTCAT
*
23848441 TTTTAAATTTTAT
1 TTTTAAATTTCAT
23848454 TTTTAAATT
1 TTTTAAATT
23848463 ATTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTAAATTTCAT
Found at i:23849370 original size:19 final size:19
Alignment explanation
Indices: 23849320--23849372 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
23849310 ATGAAATCTT
* *
23849320 TATTTAATTTAATTTTTAC
1 TATTTAATTTAATTTTAAA
*
23849339 TACTTAATGTTAATTTTAAA
1 TATTTAAT-TTAATTTTAAA
*
23849359 TATTTTATTTAATT
1 TATTTAATTTAATT
23849373 AAAAATGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTAATTTAATTTTAAA
Found at i:23854970 original size:22 final size:22
Alignment explanation
Indices: 23854931--23854989 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
23854921 GTTTTAAGAA
*
23854931 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
23854952 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
23854974 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
23854990 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:23855006 original size:26 final size:24
Alignment explanation
Indices: 23854960--23855019 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
23854950 ATTTGTTTTA
*
23854960 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
23854984 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
23855010 TTTTTTATTT
1 ATATTTATTT
23855020 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:23871636 original size:16 final size:16
Alignment explanation
Indices: 23871615--23871677 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
23871605 ACTTTTCTAA
23871615 AAATAAATTACTAATT
1 AAATAAATTACTAATT
*
23871631 AAATAAATTAATAATTT
1 AAATAAATTACTAA-TT
*
23871648 AAACT--ATT-TTAATT
1 AAA-TAAATTACTAATT
23871662 AAATAAATTACTAATT
1 AAATAAATTACTAATT
23871678 TTTTTATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.03
14 5 0.13
15 6 0.15
16 21 0.54
17 5 0.13
18 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAAATTACTAATT
Found at i:23871903 original size:36 final size:37
Alignment explanation
Indices: 23871863--23871932 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
23871853 TCAAGGATCA
*
23871863 AATTTTAAT-AAATAAAAATAAA-TAAATTGACTTCTT
1 AATTTTAATAAAATAAAAA-AAATTAAATTCACTTCTT
*
23871899 AATTTTTATAAAATAAAAAAAATTAAATTCACTT
1 AATTTTAATAAAATAAAAAAAATTAAATTCACTT
23871933 AAAGCGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 11 0.37
37 19 0.63
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (37 bp):
AATTTTAATAAAATAAAAAAAATTAAATTCACTTCTT
Found at i:23881106 original size:27 final size:27
Alignment explanation
Indices: 23881063--23881118 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
23881053 GGTTCAATAA
23881063 ATAATTTTTTTATATAATAGAATTTTC
1 ATAATTTTTTTATATAATAGAATTTTC
*
23881090 ATAATTTTTTTGA-ATAATATAATTTTC
1 ATAATTTTTTT-ATATAATAGAATTTTC
23881117 AT
1 AT
23881119 TCATTTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
ATAATTTTTTTATATAATAGAATTTTC
Found at i:23884794 original size:30 final size:30
Alignment explanation
Indices: 23884760--23884821 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
23884750 CAACTTAACA
*
23884760 AACAAATGT-TTCTTAAATAATAATAAAATT
1 AACAAATGTCTT-TAAAATAATAATAAAATT
23884790 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGTCTTTAAAATAATAATAAAATT
23884820 AA
1 AA
23884822 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (30 bp):
AACAAATGTCTTTAAAATAATAATAAAATT
Found at i:23884879 original size:22 final size:22
Alignment explanation
Indices: 23884854--23884896 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23884844 TATCCAAATA
23884854 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
23884876 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
23884897 AATCAGGAGA
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:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:23885401 original size:12 final size:12
Alignment explanation
Indices: 23885381--23885439 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
23885371 AAGATTGTAA
23885381 TATTAAATATAT
1 TATTAAATATAT
*
23885393 TATTGAATA-ATT
1 TATTAAATATA-T
*
23885405 TATTATAT-TAAT
1 TATTAAATAT-AT
*
23885417 AATTAAATATAT
1 TATTAAATATAT
23885429 TATTAAATATA
1 TATTAAATATA
23885440 AATAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 1 0.03
12 34 0.92
13 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TATTAAATATAT
Found at i:23885408 original size:24 final size:24
Alignment explanation
Indices: 23885381--23885452 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
23885371 AAGATTGTAA
* *
23885381 TATTAAATATATTATTGAATA-ATT
1 TATTAAATATATAATTAAATATA-T
*
23885405 TATTATAT-TAATAATTAAATATAT
1 TATTAAATAT-ATAATTAAATATAT
23885429 TATTAAATATAAATAATTAAATAT
1 TATTAAATAT--ATAATTAAATAT
23885453 GTATGTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 24 0.60
25 2 0.05
26 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
TATTAAATATATAATTAAATATAT
Found at i:23885419 original size:16 final size:16
Alignment explanation
Indices: 23885393--23885448 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
23885383 TTAAATATAT
* *
23885393 TATTGAATAATTTATTA
1 TATT-AATAATTAAATA
23885410 TATTAATAATTAAATA
1 TATTAATAATTAAATA
*
23885426 TATTATTAAATATAAATA
1 TATTAAT-AAT-TAAATA
23885444 -ATTAA
1 TATTAA
23885449 ATATGTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 16 0.48
17 11 0.33
18 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTAATAATTAAATA
Found at i:23885449 original size:14 final size:13
Alignment explanation
Indices: 23885413--23885452 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
23885403 TTTATTATAT
23885413 TAATAATTAAATA
1 TAATAATTAAATA
*
23885426 T-ATTATTAAATA
1 TAATAATTAAATA
23885438 TAAATAATTAAATA
1 T-AATAATTAAATA
23885452 T
1 T
23885453 GTATGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 1 0.04
14 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATTAAATA
Found at i:23888978 original size:4 final size:4
Alignment explanation
Indices: 23888969--23888997 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23888959 GCAAAAAGGC
23888969 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
23888998 TCAGATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:23889663 original size:2 final size:2
Alignment explanation
Indices: 23889656--23889683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23889646 AGCTCAAACA
23889656 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
23889684 GCCAGTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23892053 original size:26 final size:27
Alignment explanation
Indices: 23892004--23892058 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
23891994 AAAACACTTT
*
23892004 AAATAAAAATAATTTTAAACAATTTAA
1 AAATAAAAATAATTTTAAACAATTCAA
*
23892031 AAATATAAAT-ATTTTCAAA-AATTCAA
1 AAATAAAAATAATTTT-AAACAATTCAA
23892057 AA
1 AA
23892059 CATGTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATAAAAATAATTTTAAACAATTCAA
Found at i:23893045 original size:25 final size:25
Alignment explanation
Indices: 23892967--23893071 Score: 78
Period size: 26 Copynumber: 4.3 Consensus size: 25
23892957 GAATCGTTTA
* *
23892967 TATTTTTAATAATTTTA-GAATTTT
1 TATTTTTCATAATTTTACAAATTTT
* *
23892991 ATAATTTTTAAAAATTTTA-AAGA-TTT
1 -T-ATTTTTCATAATTTTACAA-ATTTT
23893017 T-TTTTT--TAATTTTACAAAGTTTT
1 TATTTTTCATAATTTTACAAA-TTTT
**
23893040 TATTTTTCATAATTTTTGAAATTTT
1 TATTTTTCATAATTTTACAAATTTT
23893065 TATTTTT
1 TATTTTT
23893072 ATTTAAATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
21 8 0.12
22 2 0.03
23 9 0.13
24 5 0.07
25 13 0.19
26 29 0.43
27 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTTTTCATAATTTTACAAATTTT
Found at i:23896950 original size:16 final size:16
Alignment explanation
Indices: 23896929--23896959 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23896919 TTTTGAAAAG
23896929 TGCTGTGAAAAAGTAC
1 TGCTGTGAAAAAGTAC
23896945 TGCTGTGAAAAAGTA
1 TGCTGTGAAAAAGTA
23896960 TTTTTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (16 bp):
TGCTGTGAAAAAGTAC
Found at i:23897266 original size:21 final size:19
Alignment explanation
Indices: 23897210--23897277 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
23897200 TAATTATTTA
23897210 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
23897229 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
23897248 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
23897269 TTATAATTA
1 TTA-AATTA
23897278 GATATTGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.39
20 7 0.17
21 15 0.37
22 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:23921843 original size:17 final size:17
Alignment explanation
Indices: 23921801--23921844 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23921791 TGCAAATGTG
*
23921801 TGGTGTGCATGGTTGGT
1 TGGTGTGCTTGGTTGGT
23921818 TGGTGTGCTTGGTTGGT
1 TGGTGTGCTTGGTTGGT
23921835 TGGTGTGCTT
1 TGGTGTGCTT
23921845 CGTGTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.02, C:0.07, G:0.45, T:0.45
Consensus pattern (17 bp):
TGGTGTGCTTGGTTGGT
Found at i:23922940 original size:7 final size:7
Alignment explanation
Indices: 23922928--23922952 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23922918 CAGCTTGAAC
23922928 CCACCGA
1 CCACCGA
23922935 CCACCGA
1 CCACCGA
23922942 CCACCGA
1 CCACCGA
23922949 CCAC
1 CCAC
23922953 TGAAGGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.60, G:0.12, T:0.00
Consensus pattern (7 bp):
CCACCGA
Found at i:23932151 original size:25 final size:25
Alignment explanation
Indices: 23932123--23932176 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
23932113 AGATAATTTG
23932123 CACATTCAAAATTGCAAATATATCA
1 CACATTCAAAATTGCAAATATATCA
23932148 CACATTCAAAATTGCAAATATATCA
1 CACATTCAAAATTGCAAATATATCA
23932173 CACA
1 CACA
23932177 AATAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (25 bp):
CACATTCAAAATTGCAAATATATCA
Found at i:23932238 original size:2 final size:2
Alignment explanation
Indices: 23932231--23932261 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23932221 TTCGGTTTTA
23932231 AT AT AT 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 AT AT AT A
23932262 AGTCGATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23934688 original size:18 final size:19
Alignment explanation
Indices: 23934665--23934704 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23934655 AGTCTATGTA
23934665 TAAAA-TTATACATTAAAT
1 TAAAATTTATACATTAAAT
* *
23934683 TAAAATTTATCCCTTAAAT
1 TAAAATTTATACATTAAAT
23934702 TAA
1 TAA
23934705 TGATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATTTATACATTAAAT
Found at i:23937477 original size:61 final size:61
Alignment explanation
Indices: 23937412--23937541 Score: 251
Period size: 61 Copynumber: 2.1 Consensus size: 61
23937402 ATATTTGATG
*
23937412 GATGTATCAATGAATAATATTTAAAATTTTAAAATTAAATTCAATAAACTTTACTTCTAAT
1 GATGTAGCAATGAATAATATTTAAAATTTTAAAATTAAATTCAATAAACTTTACTTCTAAT
23937473 GATGTAGCAATGAATAATATTTAAAATTTTAAAATTAAATTCAATAAACTTTACTTCTAAT
1 GATGTAGCAATGAATAATATTTAAAATTTTAAAATTAAATTCAATAAACTTTACTTCTAAT
23937534 GATGTAGC
1 GATGTAGC
23937542 GTCCTATGGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (61 bp):
GATGTAGCAATGAATAATATTTAAAATTTTAAAATTAAATTCAATAAACTTTACTTCTAAT
Found at i:23942015 original size:22 final size:22
Alignment explanation
Indices: 23941959--23942016 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
23941949 ATATCTAAAT
* *
23941959 AATAATAATAAAATAGTAGCAA
1 AATAATAAAAAAATAGTAACAA
* *
23941981 CATAATAATAAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
*
23942003 AATAGAAAAAAAAA
1 AATA-ATAAAAAAA
23942017 CAACAAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (22 bp):
AATAATAAAAAAATAGTAACAA
Found at i:23942327 original size:23 final size:22
Alignment explanation
Indices: 23942278--23942329 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
23942268 TAATAGAATT
*
23942278 AATATTTACTGTTTAAAATATA
1 AATATTTACTGTTTAAAAGATA
* *
23942300 TATATTTACTGTTTTAAAGAGTA
1 AATATTTACTGTTTAAAAGA-TA
23942323 AATATTT
1 AATATTT
23942330 TGTGAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (22 bp):
AATATTTACTGTTTAAAAGATA
Found at i:23942567 original size:36 final size:36
Alignment explanation
Indices: 23942520--23942597 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
23942510 TCCTATAATA
23942520 CAAGGACCTCCCAGGTATTTTAACGTATCTCTTTCC
1 CAAGGACCTCCCAGGTATTTTAACGTATCTCTTTCC
23942556 CAAGGACCTCCCAGGTATTTTAACGTATCTCTTTCC
1 CAAGGACCTCCCAGGTATTTTAACGTATCTCTTTCC
23942592 CAAGGA
1 CAAGGA
23942598 AAATTAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (36 bp):
CAAGGACCTCCCAGGTATTTTAACGTATCTCTTTCC
Found at i:23945444 original size:3 final size:3
Alignment explanation
Indices: 23945382--23945424 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
23945372 TTGGGCTTCA
* * *
23945382 CTT CTT CTT CTT CTT CTT CTT CCT CTT CGT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
23945425 ATCATCACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.58
Consensus pattern (3 bp):
CTT
Found at i:23949913 original size:29 final size:29
Alignment explanation
Indices: 23949874--23949947 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 29
23949864 GTGGAAAATG
23949874 TTTTTTAGAAAAAGAGTTCCTTTATAACA
1 TTTTTTAGAAAAAGAGTTCCTTTATAACA
*
23949903 TTTTTTGGAAAAAGAGTTCCTTTATAACA
1 TTTTTTAGAAAAAGAGTTCCTTTATAACA
23949932 TGATTTTTAGATAAAA
1 T--TTTTTAGA-AAAA
23949948 CTTATGTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 29 0.73
31 7 0.17
32 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (29 bp):
TTTTTTAGAAAAAGAGTTCCTTTATAACA
Found at i:23964493 original size:21 final size:21
Alignment explanation
Indices: 23964459--23964502 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23964449 AATTATTAAA
*
23964459 ATATTCTTATTTGTATTAATT
1 ATATTCTTACTTGTATTAATT
*
23964480 ATATTTTTACTTGTATTAATT
1 ATATTCTTACTTGTATTAATT
23964501 AT
1 AT
23964503 TTAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATTCTTACTTGTATTAATT
Found at i:23964627 original size:34 final size:33
Alignment explanation
Indices: 23964547--23964632 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 33
23964537 TTCTATTTAA
* * *
23964547 ATATTAAACTATTTAAATA--TTATTTATTATT
1 ATATTAAAATATTTAAATATTTTATGTATAATT
23964578 ATATTTAAAAT-TTTAAAATATTTTATGTATAATT
1 ATA-TTAAAATATTT-AAATATTTTATGTATAATT
*
23964612 ATATTAAATTATTTAAATATT
1 ATATTAAAATATTTAAATATT
23964633 ATTTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 6 0.13
32 11 0.24
33 13 0.28
34 16 0.35
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
ATATTAAAATATTTAAATATTTTATGTATAATT
Found at i:23965990 original size:24 final size:24
Alignment explanation
Indices: 23965961--23966017 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
23965951 TCGTACATAT
* *
23965961 TATTATTTTATTTTAAAATTTTTA
1 TATTATTTTAATTTAAAATTATTA
*
23965985 TATTATTTTAATTTAATATTATTA
1 TATTATTTTAATTTAAAATTATTA
23966009 T-TTATTTTA
1 TATTATTTTA
23966018 GATATTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTTTAATTTAAAATTATTA
Found at i:23970274 original size:57 final size:57
Alignment explanation
Indices: 23970186--23970313 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 57
23970176 TTAACATGAG
23970186 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
1 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
* * *
23970243 CCTAAAGTTACCAAAATGGAAACAGGTCCTACCTAAATTGATTCTAAAGGACCCAAA
1 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
23970300 CCTAAAGTCACCAA
1 CCTAAAGTCACCAA
23970314 GGAACCCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (57 bp):
CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
Found at i:23973786 original size:26 final size:26
Alignment explanation
Indices: 23973733--23973807 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
23973723 CTATATTTTC
*
23973733 AAATTAAACGATGA-TTAAATTAATA
1 AAATTAAACCATGATTTAAATTAATA
*
23973758 AAATTAAACCATGATTTGAATTAATA
1 AAATTAAACCATGATTTAAATTAATA
*
23973784 AAACTAAACCATGATTTAAATTAA
1 AAATTAAACCATGATTTAAATTAA
23973808 CACTTTGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 13 0.29
26 32 0.71
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTAAACCATGATTTAAATTAATA
Found at i:23975042 original size:46 final size:44
Alignment explanation
Indices: 23974990--23975075 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
23974980 AGAACAGAAA
*
23974990 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
23975036 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
23975076 AGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:23975089 original size:44 final size:45
Alignment explanation
Indices: 23974992--23975116 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
23974982 AACAGAAATG
* * * *
23974992 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
*
23975038 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
23975082 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
23975117 CAGGATAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:24006765 original size:46 final size:44
Alignment explanation
Indices: 24006661--24006768 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
24006651 TGTCTTTGAC
** * * *
24006661 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
24006705 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
24006751 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
24006769 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:24009216 original size:22 final size:22
Alignment explanation
Indices: 24009188--24009231 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24009178 ACATTAAGAG
24009188 TAAAAAAACATATTAATACATT
1 TAAAAAAACATATTAATACATT
24009210 TAAAAAAACATATTAATACATT
1 TAAAAAAACATATTAATACATT
24009232 ATATACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAAAACATATTAATACATT
Found at i:24013336 original size:19 final size:19
Alignment explanation
Indices: 24013312--24013348 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24013302 GTTAATATGA
24013312 ATTAATAAA-ATTACTTTTT
1 ATTAATAAATATTA-TTTTT
24013331 ATTAATAAATATTATTTT
1 ATTAATAAATATTATTTT
24013349 AGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATAAATATTATTTTT
Found at i:24015495 original size:9 final size:9
Alignment explanation
Indices: 24015481--24015510 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
24015471 TAAAATTAAA
24015481 AAATGTTAT
1 AAATGTTAT
24015490 AAATGTTAT
1 AAATGTTAT
24015499 AAATGTTAT
1 AAATGTTAT
24015508 AAA
1 AAA
24015511 AATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (9 bp):
AAATGTTAT
Found at i:24015545 original size:37 final size:37
Alignment explanation
Indices: 24015472--24015552 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
24015462 ATTTAATATT
* *
24015472 AAAATTAAAAAATGTTATAAATGTTATAAATGTTATA
1 AAAATTAAAAAATCTAATAAATGTTATAAATGTTATA
*
24015509 AAAATATAAAAAATCTAATAAA--TTATAAAATTTTAT-
1 AAAAT-TAAAAAATCTAATAAATGTTAT-AAATGTTATA
24015545 AAAATTAA
1 AAAATTAA
24015553 TAAACATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 3 0.08
36 9 0.23
37 13 0.33
38 14 0.36
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (37 bp):
AAAATTAAAAAATCTAATAAATGTTATAAATGTTATA
Found at i:24015549 original size:18 final size:18
Alignment explanation
Indices: 24015471--24015556 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
24015461 TATTTAATAT
*
24015471 TAAAATTAAAAAATGTTA
1 TAAAATTATAAAATGTTA
*
24015489 TAAATGTTAT-AAATGTTA
1 TAAA-ATTATAAAATGTTA
* **
24015507 TAAAAATATAAAAAATCTA
1 TAAAATTATAAAATGT-TA
*
24015526 -ATAAATTATAAAATTTTA
1 TA-AAATTATAAAATGTTA
24015544 TAAAATTAATAAA
1 TAAAATT-ATAAA
24015557 CATACTTACA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.06
18 28 0.53
19 22 0.42
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAATTATAAAATGTTA
Found at i:24015637 original size:11 final size:11
Alignment explanation
Indices: 24015610--24015658 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
24015600 TTAAAAAACA
*
24015610 ATAAAAATTGT
1 ATAAAAATTAT
*
24015621 AAAAAAATTAT
1 ATAAAAATTAT
*
24015632 ATAAAAACTAT
1 ATAAAAATTAT
24015643 -T-AAAATTAT
1 ATAAAAATTAT
24015652 A-AAAAAT
1 ATAAAAAT
24015659 CAAAAAAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.23
10 6 0.19
11 18 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
ATAAAAATTAT
Found at i:24015963 original size:17 final size:17
Alignment explanation
Indices: 24015926--24015962 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24015916 TCAATTAAAT
*
24015926 AAAATATTAAAAACCTA
1 AAAATATTAAAAACATA
24015943 AAAATATTAAAAA-ATA
1 AAAATATTAAAAACATA
24015959 AAAA
1 AAAA
24015963 AATTGGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATATTAAAAACATA
Found at i:24016102 original size:14 final size:15
Alignment explanation
Indices: 24016077--24016105 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24016067 TCGGTTCAAG
24016077 TTTTTATGAATTTTT
1 TTTTTATGAATTTTT
24016092 TTTTTAT-AATTTTT
1 TTTTTATGAATTTTT
24016106 ATAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTATGAATTTTT
Found at i:24016206 original size:22 final size:21
Alignment explanation
Indices: 24016167--24016207 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24016157 TTTTTAATGA
* *
24016167 TTTTATAGAATTTTAATATGT
1 TTTTATAAAATTTAAATATGT
24016188 TTTTATAAAAATTTAAATAT
1 TTTTAT-AAAATTTAAATAT
24016208 TTTAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTATAAAATTTAAATATGT
Found at i:24016291 original size:12 final size:12
Alignment explanation
Indices: 24016274--24016299 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24016264 AATATCTATA
24016274 TTTTTATAATTT
1 TTTTTATAATTT
24016286 TTTTTATAATTT
1 TTTTTATAATTT
24016298 TT
1 TT
24016300 ATAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:24023548 original size:29 final size:29
Alignment explanation
Indices: 24023498--24023564 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
24023488 TGGCCCAAGA
* *
24023498 GTAAATACTCAAAATTTGAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAGGACTAATAGT
*
24023527 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTG-AGGACTAATAGT
*
24023557 GCAAATAT
1 GTAAATAT
24023565 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 8 0.25
29 14 0.44
30 10 0.31
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (29 bp):
GTAAATATCAAAAGTTGAGGACTAATAGT
Found at i:24024269 original size:10 final size:10
Alignment explanation
Indices: 24024254--24024281 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24024244 TATGTTAGTG
24024254 AAGAGAAAAT
1 AAGAGAAAAT
24024264 AAGAGAAAAT
1 AAGAGAAAAT
24024274 AAGAGAAA
1 AAGAGAAA
24024282 GTGATGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (10 bp):
AAGAGAAAAT
Found at i:24025737 original size:46 final size:46
Alignment explanation
Indices: 24025687--24026056 Score: 492
Period size: 46 Copynumber: 8.0 Consensus size: 46
24025677 GTGTGCTCTC
**
24025687 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** *
24025733 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
24025779 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
24025825 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATAGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
24025871 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGAAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
24025917 TGACGGGAAATTAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
24025963 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * * *
24026009 TGACA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
24026055 TG
1 TG
24026057 TCAAAGATAA
Statistics
Matches: 288, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 2 0.01
46 286 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:24025844 original size:92 final size:92
Alignment explanation
Indices: 24025687--24026051 Score: 552
Period size: 92 Copynumber: 4.0 Consensus size: 92
24025677 GTGTGCTCTC
** * * **
24025687 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGTGTAAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATGACAGGAAATGAATAAG
24025751 ACCATGGTTGAAAGATACCATGGCAACG
65 ACCATGGTTGAAAGATACCATGGCAACG
*
24025779 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGA
*
24025844 CCATGGTTGAAAGATACCATAGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* * * *
24025871 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGAAACATGACGGGAAATTAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGA
24025936 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* *
24025963 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGA
* * * *
24026028 CTATAGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
24026052 TCATGTCAAA
Statistics
Matches: 250, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 1 0.00
92 249 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:24026358 original size:16 final size:17
Alignment explanation
Indices: 24026337--24026369 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24026327 ATGATGGAGC
24026337 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
24026353 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
24026370 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:24027922 original size:32 final size:32
Alignment explanation
Indices: 24027883--24027946 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
24027873 GACAACATAT
24027883 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
1 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
*
24027915 CTTAGATAATCCTCTGGAGAACAAGCCATCTG
1 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
24027947 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (32 bp):
CTTAGATAATCCTCCGGAGAACAAGCCATCTG
Done.