Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 72 of 131
Found at i:24227228 original size:15 final size:15
Alignment explanation
Indices: 24227208--24227266 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 15
24227198 TTGACCGAAA
24227208 AATTATAATTACAAT
1 AATTATAATTACAAT
24227223 AATTATAATAATATCCATTAT
1 AATTATAAT--TA--CA--AT
24227244 AAATTATAATTACAAT
1 -AATTATAATTACAAT
24227260 AATTATA
1 AATTATA
24227267 GCAAGGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
15 16 0.43
16 2 0.05
17 2 0.05
18 2 0.05
19 2 0.05
20 2 0.05
21 2 0.05
22 9 0.24
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTATAATTACAAT
Found at i:24228574 original size:58 final size:58
Alignment explanation
Indices: 24228484--24228604 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 58
24228474 TTACATTGTG
*
24228484 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGGATTTTCATCTAAT
1 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
24228542 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
1 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
24228600 TAATA
1 TAATA
24228605 CATGAACCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (58 bp):
TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
Found at i:24229240 original size:15 final size:14
Alignment explanation
Indices: 24229211--24229245 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
24229201 TATAAAAAAT
*
24229211 TTAAAAATAATAAA
1 TTAAAAATAACAAA
24229225 TTAAAAATAACCAAA
1 TTAAAAATAA-CAAA
24229240 TTAAAA
1 TTAAAA
24229246 TAGTCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
TTAAAAATAACAAA
Found at i:24231794 original size:29 final size:29
Alignment explanation
Indices: 24231761--24231833 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
24231751 AAATTACATT
*
24231761 ATTATATTAATTATGTTAT-AAAAATAATA
1 ATTATATTAATTAT-ATATGAAAAATAATA
**
24231790 ATTATATTAATTATATATGTTAAATAATA
1 ATTATATTAATTATATATGAAAAATAATA
*
24231819 ATTATA-TATTTATAT
1 ATTATATTAATTATAT
24231834 TAAATCACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTATATTAATTATATATGAAAAATAATA
Found at i:24232695 original size:15 final size:16
Alignment explanation
Indices: 24232664--24232696 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24232654 TTTAGTGATT
24232664 ATATTTTCTAAAAAAA
1 ATATTTTCTAAAAAAA
24232680 ATATTTT-TAAATAAAA
1 ATATTTTCTAAA-AAAA
24232696 A
1 A
24232697 GTTTATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATTTTCTAAAAAAA
Found at i:24234433 original size:15 final size:15
Alignment explanation
Indices: 24234415--24234461 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
24234405 ATAAATTTTT
24234415 TTATTTACCAAAATA
1 TTATTTACCAAAATA
* **
24234430 TTA-TAAAAAAAAT-
1 TTATTTACCAAAATA
24234443 TTATTTACCAAAATA
1 TTATTTACCAAAATA
24234458 TTAT
1 TTAT
24234462 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
13 3 0.12
14 14 0.58
15 7 0.29
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
TTATTTACCAAAATA
Found at i:24234473 original size:28 final size:27
Alignment explanation
Indices: 24234394--24234486 Score: 132
Period size: 28 Copynumber: 3.4 Consensus size: 27
24234384 ATAAAAAATA
24234394 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
****
24234421 ACCAAAATATTATAAAAAAAATTTATTT
1 ACCAAAATATTAT-AAATTTTTTTATTT
24234449 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAA-TTTTTTTATTT
24234477 ACCAAAATAT
1 ACCAAAATAT
24234487 ACCCAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 16 0.29
28 40 0.71
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (27 bp):
ACCAAAATATTATAAATTTTTTTATTT
Found at i:24235567 original size:26 final size:28
Alignment explanation
Indices: 24235538--24235602 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
24235528 TTTTTTTGGC
24235538 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
24235564 ATATTTTGGTAAATAAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAAGTTATA
24235593 ATATTTTGGT
1 ATATTTTGGT
24235603 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 14 0.39
28 7 0.19
29 15 0.42
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:24237139 original size:54 final size:54
Alignment explanation
Indices: 24237052--24237175 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
24237042 AAGCTTTAAG
* ** * *
24237052 TCAGTGAGTTACACGGCCTAGCACACGGCCTGGCACATGGGCGTGTGTGACAAC
1 TCAGTGAGTTACACGACCTAGCACACAACCTGGCACACGGGCGTGTGGGACAAC
* * * *
24237106 TCAGAGAGTTACACGACCTAGCACACAACCTGGCACACGGGCTTGTGGGGCTAC
1 TCAGTGAGTTACACGACCTAGCACACAACCTGGCACACGGGCGTGTGGGACAAC
24237160 TCAGTGAGTTACACGA
1 TCAGTGAGTTACACGA
24237176 GTGAGGACAC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.19
Consensus pattern (54 bp):
TCAGTGAGTTACACGACCTAGCACACAACCTGGCACACGGGCGTGTGGGACAAC
Found at i:24240089 original size:4 final size:4
Alignment explanation
Indices: 24240080--24240115 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
24240070 TGAGAGGAGA
24240080 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA- AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
24240116 TCAAGAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24240837 original size:16 final size:16
Alignment explanation
Indices: 24240816--24240854 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24240806 CCTACTCCCT
24240816 CCCAATTGAAACCCAG
1 CCCAATTGAAACCCAG
* **
24240832 CCCAATTTAAATGCAG
1 CCCAATTGAAACCCAG
24240848 CCCAATT
1 CCCAATT
24240855 TTTTCTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (16 bp):
CCCAATTGAAACCCAG
Found at i:24263746 original size:22 final size:21
Alignment explanation
Indices: 24263710--24263750 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24263700 AAAGAGGGAG
*
24263710 AAAACAACAAGAAAATAGCATT
1 AAAACAACAA-AAAAAAGCATT
*
24263732 AAAACAATAAAAAAAAGCA
1 AAAACAACAAAAAAAAGCA
24263751 GTTTTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAACAACAAAAAAAAGCATT
Found at i:24268681 original size:13 final size:14
Alignment explanation
Indices: 24268653--24268681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24268643 ATTTAATTAC
24268653 TTTAAAATTAATTT
1 TTTAAAATTAATTT
24268667 TTTAAAATT-ATTT
1 TTTAAAATTAATTT
24268680 TT
1 TT
24268682 ATTTTTTCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAAAATTAATTT
Found at i:24273199 original size:19 final size:20
Alignment explanation
Indices: 24273172--24273210 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24273162 AAGCTTAAAA
*
24273172 ATTATATAT-ATATATATAT
1 ATTAAATATCATATATATAT
24273191 ATTAAATATGCATATATATA
1 ATTAAATAT-CATATATATA
24273211 AAATATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
ATTAAATATCATATATATAT
Found at i:24273205 original size:17 final size:17
Alignment explanation
Indices: 24273185--24273218 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24273175 ATATATATAT
*
24273185 ATATATATTAAATATGC
1 ATATATATAAAATATGC
24273202 ATATATATAAAATATGC
1 ATATATATAAAATATGC
24273219 GAATGTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
ATATATATAAAATATGC
Found at i:24280923 original size:28 final size:28
Alignment explanation
Indices: 24280883--24280971 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
24280873 GGCCAAGCAA
*
24280883 AATGTCTCTACAGGGACCACTGTTACTG
1 AATGTCTCTACAGAGACCACTGTTACTG
* *
24280911 AATGCCTCTACAGAGACCACCGTTA-TCG
1 AATGTCTCTACAGAGACCACTGTTACT-G
* * *
24280939 AATGTCTATTCAAAGACCACTGTTACTG
1 AATGTCTCTACAGAGACCACTGTTACTG
*
24280967 TATGT
1 AATGT
24280972 GTCATATCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
27 1 0.02
28 48 0.96
29 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (28 bp):
AATGTCTCTACAGAGACCACTGTTACTG
Found at i:24282949 original size:4 final size:4
Alignment explanation
Indices: 24282940--24282980 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
24282930 TATCATCGTT
24282940 TTTC TTTC TTTC TTTC TTTC TTTC TTT- TGTTC TTTCC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C TTTC
24282981 CTTCCTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 28 0.82
5 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:24282989 original size:21 final size:20
Alignment explanation
Indices: 24282949--24282991 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24282939 TTTTCTTTCT
* *
24282949 TTCTTTCTTTCTTTCTTTTG
1 TTCTTTCTTTCCTTCCTTTG
24282969 TTCTTTCCTTTCCTTCCTTTG
1 TTCTTT-CTTTCCTTCCTTTG
24282990 TT
1 TT
24282992 AATCTGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.70
Consensus pattern (20 bp):
TTCTTTCTTTCCTTCCTTTG
Found at i:24285744 original size:21 final size:21
Alignment explanation
Indices: 24285718--24285777 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
24285708 TTGGGTGGAT
24285718 CAACTCTTACGAGCTTCTGTG
1 CAACTCTTACGAGCTTCTGTG
* *
24285739 CAACTCTTACGAGCTTCTATT
1 CAACTCTTACGAGCTTCTGTG
*
24285760 CAGCT-TT-CGAGCTTCTGT
1 CAACTCTTACGAGCTTCTGT
24285778 TCGTGTATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 23 0.66
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (21 bp):
CAACTCTTACGAGCTTCTGTG
Found at i:24286739 original size:67 final size:67
Alignment explanation
Indices: 24286626--24286752 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
24286616 CGTGTGTAGC
* * * *
24286626 ACACGGCCTGGCACATGGCCGTGTGGCTTGGTTGTGTGACCTAAGTCAGTGAGTTACACAGGCAC
1 ACACGGCCTGGCACATGACCGTGTGGCTTGGCTGTATGACCCAAGTCAGTGAGTTACACAGGCAC
24286691 GG
66 GG
* *
24286693 ACACGGGCTGGGACATGACCGTGTGGCTTGGCTGTATGACCCAAGTCAGTGAGTTACACA
1 ACACGGCCTGGCACATGACCGTGTGGCTTGGCTGTATGACCCAAGTCAGTGAGTTACACA
24286753 TACACGGGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (67 bp):
ACACGGCCTGGCACATGACCGTGTGGCTTGGCTGTATGACCCAAGTCAGTGAGTTACACAGGCAC
GG
Found at i:24287289 original size:17 final size:18
Alignment explanation
Indices: 24287267--24287300 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24287257 GTCATGTTTT
*
24287267 GGTTTA-ACTATTTAAAG
1 GGTTTAGACTAATTAAAG
24287284 GGTTTAGACTAATTAAA
1 GGTTTAGACTAATTAAA
24287301 TTTTCAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (18 bp):
GGTTTAGACTAATTAAAG
Found at i:24307551 original size:26 final size:25
Alignment explanation
Indices: 24307513--24307562 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
24307503 AATATTTAAA
*
24307513 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
24307539 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
24307563 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:24307575 original size:22 final size:22
Alignment explanation
Indices: 24307524--24307580 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
24307514 AGAGATATAG
*
24307524 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
24307546 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
24307568 ATATATATATATA
1 ATATATATATATA
24307581 TATATATGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:24308430 original size:22 final size:23
Alignment explanation
Indices: 24308403--24308445 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24308393 TGGTATCTAC
24308403 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
24308425 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
24308446 TGATTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:24308479 original size:23 final size:23
Alignment explanation
Indices: 24308429--24308479 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
24308419 ATTACAAAAT
* *
24308429 CATATCTTCTAAGATTATGATTG
1 CATATCTTCGAAGATTATGATTC
* *
24308452 TATATCTTCGAAGATTATGTTTC
1 CATATCTTCGAAGATTATGATTC
24308475 CATAT
1 CATAT
24308480 GTGACGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (23 bp):
CATATCTTCGAAGATTATGATTC
Found at i:24315290 original size:49 final size:49
Alignment explanation
Indices: 24315237--24315338 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
24315227 ATCAGGCGTG
24315237 ATTCCAAAAAAAAAAAAATTTAGACTCAAACCCAACTTTCCCTATCTAA
1 ATTCCAAAAAAAAAAAAATTTAGACTCAAACCCAACTTTCCCTATCTAA
* *
24315286 ATTCCAAAAAAAATAAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
1 ATTCCAAAAAAAAAAAAATTTAGACTCAAACCCAACTTTCCCTATCTAA
24315335 ATTC
1 ATTC
24315339 TCCATTTTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (49 bp):
ATTCCAAAAAAAAAAAAATTTAGACTCAAACCCAACTTTCCCTATCTAA
Found at i:24315402 original size:22 final size:24
Alignment explanation
Indices: 24315377--24315431 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
24315367 AATATTTTTT
24315377 TATTTAAACT-AAATTA-TATAAA
1 TATTTAAACTAAAATTATTATAAA
*
24315399 TATTTAAA-TAAAATTATTTATATA
1 TATTTAAACTAAAATTA-TTATAAA
24315423 TATTTAAAC
1 TATTTAAAC
24315432 AATAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
24 13 0.46
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTTAAACTAAAATTATTATAAA
Found at i:24322490 original size:20 final size:21
Alignment explanation
Indices: 24322467--24322510 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
24322457 CTAAAAAATT
24322467 TAAAAATTTATAAAAATA-AA
1 TAAAAATTTATAAAAATATAA
* * *
24322487 TAAATATTTTTTAAAATATAA
1 TAAAAATTTATAAAAATATAA
24322508 TAA
1 TAA
24322511 CTTATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAATTTATAAAAATATAA
Found at i:24322539 original size:29 final size:29
Alignment explanation
Indices: 24322500--24322564 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
24322490 ATATTTTTTA
* *
24322500 AAATATAATAACTTAT-TTAA-ATTTATATT
1 AAATAAAATAA-TTATATTAATA-TTAAATT
24322529 AAATAAAATAATTATATTAATATTAAATT
1 AAATAAAATAATTATATTAATATTAAATT
24322558 AAA-AAAA
1 AAATAAAA
24322565 CAACCCTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 23 0.72
30 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATAAAATAATTATATTAATATTAAATT
Found at i:24323523 original size:29 final size:29
Alignment explanation
Indices: 24323481--24323579 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
24323471 CAATCACGAT
* *
24323481 TAGTTTGGTGACCAGTTTAAAAAAAATCA
1 TAGTTAGGTGACCAATTTAAAAAAAATCA
***
24323510 TAGTTAGGTGACCAAAAAAAAAACAAATCTA
1 TAGTTAGGTGACCAATTTAAAAA-AAATC-A
* *
24323541 TAGTT-GGATGACTAATTT-AAAAAATTCA
1 TAGTTAGG-TGACCAATTTAAAAAAAATCA
24323569 TAGTTAGGTGA
1 TAGTTAGGTGA
24323580 TAAAAAAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
28 9 0.16
29 24 0.43
30 11 0.20
31 12 0.21
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.29
Consensus pattern (29 bp):
TAGTTAGGTGACCAATTTAAAAAAAATCA
Found at i:24331151 original size:34 final size:34
Alignment explanation
Indices: 24331099--24331166 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
24331089 GCATTTTTGA
* *
24331099 CACTATATTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATATTGAAAAGGGCTAAGGCCCAAGACTGT
*
24331132 CACTGATATTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATATTGAAAAGGGCTAAGGCCCAAGACTGT
24331167 TCAACTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (34 bp):
CACTATATTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:24331923 original size:26 final size:26
Alignment explanation
Indices: 24331876--24331937 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
24331866 CTGTAAGTGT
* * *
24331876 TCTGAAATTGATACATGCTATGATAA
1 TCTGAAACTAATAAATGCTATGATAA
* *
24331902 TCTGAAACTAATAAATGTTATGATAT
1 TCTGAAACTAATAAATGCTATGATAA
24331928 TCTGAAACTA
1 TCTGAAACTA
24331938 TTGTAGGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (26 bp):
TCTGAAACTAATAAATGCTATGATAA
Found at i:24335277 original size:77 final size:77
Alignment explanation
Indices: 24335150--24335298 Score: 280
Period size: 77 Copynumber: 1.9 Consensus size: 77
24335140 GTTGTTGTGG
* *
24335150 GAGGTTAGGGAGAGAATTAAGGAGATGAGTTGCCAGATTTTTATGCATTATCTTTTTGTTTAGTT
1 GAGGTTAGGGAGAGAATTAAGGAGATAAGTTGCCAAATTTTTATGCATTATCTTTTTGTTTAGTT
24335215 TTTTTTTTCCAA
66 TTTTTTTTCCAA
24335227 GAGGTTAGGGAGAGAATTAAGGAGATAAGTTGCCAAATTTTTATGCATTATCTTTTTGTTTAGTT
1 GAGGTTAGGGAGAGAATTAAGGAGATAAGTTGCCAAATTTTTATGCATTATCTTTTTGTTTAGTT
24335292 TTTTTTT
66 TTTTTTT
24335299 CAAATTTCAG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.45
Consensus pattern (77 bp):
GAGGTTAGGGAGAGAATTAAGGAGATAAGTTGCCAAATTTTTATGCATTATCTTTTTGTTTAGTT
TTTTTTTTCCAA
Found at i:24337032 original size:23 final size:24
Alignment explanation
Indices: 24337006--24337050 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
24336996 ATATCCCCAA
*
24337006 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
24337029 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
24337051 GTAGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:24339674 original size:45 final size:46
Alignment explanation
Indices: 24339587--24339674 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 46
24339577 CATTTAATTT
* * * *
24339587 GAAAACCATAATTCATTTCCAAGTCATTTTGATTTTTCATTTTGGA
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTAATTTTGGA
*
24339633 GAAAACCA-CATTCAATTCCAAAT-ATTTTCATTTCTTAATTTT
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTT-TTAATTTT
24339675 TATTTTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 9 0.25
45 19 0.53
46 8 0.22
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (46 bp):
GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTAATTTTGGA
Found at i:24339680 original size:58 final size:58
Alignment explanation
Indices: 24339612--24339725 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
24339602 TTTCCAAGTC
24339612 ATTTTGATTTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTT-TCATTTCTTA
1 ATTTTGA-TTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTA
* * * * *
24339670 ATTTTTATTTTCATTTTGGAGAAAATCATATTCATTTCCAAATGTTTCTCATTTCT
1 ATTTTGATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCT
24339726 CCATTTTCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 36 0.72
58 14 0.28
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (58 bp):
ATTTTGATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTA
Found at i:24341710 original size:35 final size:35
Alignment explanation
Indices: 24341671--24341752 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
24341661 TTAGTAGACC
* * *
24341671 ATTTTCATGGTGACGCTCCATAGAGCCAGTAGATT
1 ATTTTCATGATGACACTACATAGAGCCAGTAGATT
* * * *
24341706 ATTTTCATGATGCCATTATATAGAGCTAGTAGATT
1 ATTTTCATGATGACACTACATAGAGCCAGTAGATT
*
24341741 ATTTTCACGATG
1 ATTTTCATGATG
24341753 TTGCCCCGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (35 bp):
ATTTTCATGATGACACTACATAGAGCCAGTAGATT
Found at i:24345827 original size:35 final size:35
Alignment explanation
Indices: 24345788--24345860 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
24345778 ATTGTAACTA
24345788 TTGGGCATATTTGTTGGGGTTACAATTGCTTCTTG
1 TTGGGCATATTTGTTGGGGTTACAATTGCTTCTTG
*
24345823 TTGGGCATATTTGTTGGGGTTACAATTGCTTGTTG
1 TTGGGCATATTTGTTGGGGTTACAATTGCTTCTTG
24345858 TTG
1 TTG
24345861 TAGTGATAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.14, C:0.10, G:0.30, T:0.47
Consensus pattern (35 bp):
TTGGGCATATTTGTTGGGGTTACAATTGCTTCTTG
Found at i:24350349 original size:46 final size:46
Alignment explanation
Indices: 24350278--24350373 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
24350268 GTGATTTGGC
24350278 ATTGTAGGCAATGTCTGAACGTGGCCAAGATACCGTTCCAATACAT
1 ATTGTAGGCAATGTCTGAACGTGGCCAAGATACCGTTCCAATACAT
* * *
24350324 ATTGTGGGCACTGTCTG-ACGCTGGCCAAGATATCGTTCCAATACAT
1 ATTGTAGGCAATGTCTGAACG-TGGCCAAGATACCGTTCCAATACAT
24350370 ATTG
1 ATTG
24350374 AGAAATGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 3 0.07
46 43 0.93
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (46 bp):
ATTGTAGGCAATGTCTGAACGTGGCCAAGATACCGTTCCAATACAT
Found at i:24350753 original size:22 final size:23
Alignment explanation
Indices: 24350719--24350761 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24350709 ATGATTTGAC
* *
24350719 AAAAAATATAAATTCAATAAATA
1 AAAAAACATAAATTAAATAAATA
24350742 AAAAAACA-AAATTAAATAAA
1 AAAAAACATAAATTAAATAAA
24350762 AGACTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (23 bp):
AAAAAACATAAATTAAATAAATA
Found at i:24358188 original size:48 final size:48
Alignment explanation
Indices: 24358117--24358211 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
24358107 TTCTTTGCTC
* *
24358117 AAAAACGCCTAAGTCAGCCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATAATAAAGGATTCAACAGT
*
24358165 AAAAACGCCTAAGTCAGCTTAACTCGCAATAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATAATAAAGGATTCAACAG
24358212 AATTCCTNNN
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATAATAAAGGATTCAACAGT
Found at i:24363817 original size:35 final size:36
Alignment explanation
Indices: 24363777--24363848 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
24363767 TCTAGGATCA
24363777 CATATC-TCAAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
24363812 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
24363848 C
1 C
24363849 TTCGGAGACG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:24369162 original size:22 final size:22
Alignment explanation
Indices: 24369115--24369164 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
24369105 CTCCGATTAT
*
24369115 TAGCACATTAGTGCTCTTCGTT
1 TAGCACATTAGTGCTCTTCGTA
*
24369137 TAGCACATTCGTGCTC-TCTGTA
1 TAGCACATTAGTGCTCTTC-GTA
24369159 TAGCAC
1 TAGCAC
24369165 TTGTAACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTTCGTA
Found at i:24369579 original size:4 final size:4
Alignment explanation
Indices: 24369570--24369596 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24369560 ATCCACCAAA
24369570 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
24369597 CCTAATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24370535 original size:25 final size:25
Alignment explanation
Indices: 24370409--24370532 Score: 160
Period size: 25 Copynumber: 5.0 Consensus size: 25
24370399 CACACCACAG
* * *
24370409 CTCGTATGAGCTTTCCGATT-TACAA
1 CTCGCATGAGCTTCCCG-TTATTCAA
*
24370434 CTCGCATGAGCTTCCCGATATTCAA
1 CTCGCATGAGCTTCCCGTTATTCAA
*
24370459 CTCGCATGAGTTTCCCGTTATTCAA
1 CTCGCATGAGCTTCCCGTTATTCAA
* *
24370484 CTCGCATGAACTTCCCGTTATTCAG
1 CTCGCATGAGCTTCCCGTTATTCAA
*
24370509 CTCGCATGAGCTTCTCGTTATTCA
1 CTCGCATGAGCTTCCCGTTATTCA
24370533 GCTTGGAAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
24 1 0.01
25 86 0.99
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCGTTATTCAA
Found at i:24370544 original size:25 final size:25
Alignment explanation
Indices: 24370434--24370546 Score: 118
Period size: 25 Copynumber: 4.5 Consensus size: 25
24370424 CGATTTACAA
* * *
24370434 CTCGCATGAGCTTCCCGATATTCAA
1 CTCGCAAGAGCTTCCCGTTATTCAG
* * *
24370459 CTCGCATGAGTTTCCCGTTATTCAA
1 CTCGCAAGAGCTTCCCGTTATTCAG
* *
24370484 CTCGCATGAACTTCCCGTTATTCAG
1 CTCGCAAGAGCTTCCCGTTATTCAG
* *
24370509 CTCGCATGAGCTTCTCGTTATTCAG
1 CTCGCAAGAGCTTCCCGTTATTCAG
* *
24370534 CTTGGAAGAGCTT
1 CTCGCAAGAGCTT
24370547 ACTGTTTACA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 78 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
CTCGCAAGAGCTTCCCGTTATTCAG
Found at i:24372505 original size:20 final size:20
Alignment explanation
Indices: 24372467--24372505 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24372457 AAACTCTATC
* *
24372467 TATTTTGGTTTTATGTGAAG
1 TATTTTGGTTCTATATGAAG
24372487 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTATATGAA
24372506 ATGAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.54
Consensus pattern (20 bp):
TATTTTGGTTCTATATGAAG
Found at i:24375000 original size:30 final size:31
Alignment explanation
Indices: 24374957--24375017 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
24374947 GGGTTGGGAG
*
24374957 GGGAAGAGAGTAAAAGTTTTGGGGGAAAAGT
1 GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
24374988 GGGAAG-GAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
24375018 AAAAAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:24375164 original size:9 final size:9
Alignment explanation
Indices: 24375147--24375177 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24375137 TCGAGTTGAT
24375147 TCGAATAAC
1 TCGAATAAC
*
24375156 TCGATTAAC
1 TCGAATAAC
24375165 TCGAATAAC
1 TCGAATAAC
24375174 TCGA
1 TCGA
24375178 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24379613 original size:15 final size:15
Alignment explanation
Indices: 24379576--24379626 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
24379566 AAATTACAAT
24379576 AATATTTAATAA-CA
1 AATATTTAATAATCA
24379590 AGA-ATTTAATAATCA
1 A-ATATTTAATAATCA
24379605 AATATTTAA-ACATCTA
1 AATATTTAATA-ATC-A
24379621 AATATT
1 AATATT
24379627 ATGCATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATTTAATAATCA
Found at i:24381129 original size:5 final size:5
Alignment explanation
Indices: 24381119--24381154 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
24381109 TGAGCATTCG
24381119 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
24381155 AAATTTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:24386620 original size:81 final size:81
Alignment explanation
Indices: 24386509--24386661 Score: 306
Period size: 81 Copynumber: 1.9 Consensus size: 81
24386499 TATTTAGGTT
24386509 TTTTAAAATTTTTAAAATTTTAAATTAGCAAAGGTAAAATTACATTTTGACCTTTTAAAAATGAT
1 TTTTAAAATTTTTAAAATTTTAAATTAGCAAAGGTAAAATTACATTTTGACCTTTTAAAAATGAT
24386574 AAAAATTAATCTTTTA
66 AAAAATTAATCTTTTA
24386590 TTTTAAAATTTTTAAAATTTTAAATTAGCAAAGGTAAAATTACATTTTGACCTTTTAAAAATGAT
1 TTTTAAAATTTTTAAAATTTTAAATTAGCAAAGGTAAAATTACATTTTGACCTTTTAAAAATGAT
24386655 AAAAATT
66 AAAAATT
24386662 TGATTTAATC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (81 bp):
TTTTAAAATTTTTAAAATTTTAAATTAGCAAAGGTAAAATTACATTTTGACCTTTTAAAAATGAT
AAAAATTAATCTTTTA
Found at i:24401899 original size:36 final size:36
Alignment explanation
Indices: 24401859--24401928 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
24401849 TTTTTATTAA
*
24401859 GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
1 GAAACATCTATTTCAATATTTTTAATGTATTTTAGG
* * * *
24401895 GAAACATCTGTTTTAATGTTTTTACTGTATTTTA
1 GAAACATCTATTTCAATATTTTTAATGTATTTTA
24401929 TATATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.51
Consensus pattern (36 bp):
GAAACATCTATTTCAATATTTTTAATGTATTTTAGG
Found at i:24405777 original size:44 final size:43
Alignment explanation
Indices: 24405660--24405998 Score: 157
Period size: 44 Copynumber: 7.8 Consensus size: 43
24405650 TTGGTTTTAA
* *
24405660 TCTGCTTCACTGCAACTTCAGGGAGATAAGA-TTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTT-CTA-CTT-AG
*
24405705 TCAGGCT-CACTGCAACTTCA-GGAGGATAAGACTTTCTTACTTAG
1 TC-TGCTCCACTGCAACTTCAGGGA-GATAAGACTTTC-TACTTAG
*** * *
24405749 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTACTTAG
* * * * * *
24405790 TCTGCT-CTCTGCAACTTCAGAGAGATAAGA--TCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTA---CTTAG
** * ** * *
24405833 TCCACTCCACTGCAACTTTAGAAAGATAGGA-TTATC-AGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TCTA-C-TTAG
* * * *
24405877 CCTGCTTCACTGCAACTTCAGAGAGATAAGA-TTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTT-CTA-CTT-AG
* *
24405922 TCT-ATCTCACTGCAACTTCA-GGAGGATAAGACTTAAT-TTCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTT--TCTACTTAG
*
24405966 TTTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
24405999 AGATGCGATC
Statistics
Matches: 226, Mismatches: 43, Indels: 51
0.71 0.13 0.16
Matches are distributed among these distances:
40 22 0.10
41 6 0.03
42 2 0.01
43 10 0.04
44 111 0.49
45 64 0.28
46 10 0.04
48 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTACTTAG
Found at i:24405933 original size:217 final size:217
Alignment explanation
Indices: 24405529--24406083 Score: 799
Period size: 217 Copynumber: 2.5 Consensus size: 217
24405519 CTTCAATCTA
* * * **
24405529 CTCCTCTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCGGCTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * ** *
24405594 GATCCAAGATTTGTGGTTCTAATCCGCTCCATTGCAACTTCA-AGGAGACAGGATTATTGGTTTT
66 GATCCAAG----GT--TT-TAATCCACTCCATTGCAACTTCAGA-GAGATAGGATTATCAGCTTT
* *
24405658 AATCTGCTTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCAGGCTCACTGCAACTT
123 AACCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCAGGCTCACTGCAACTT
**
24405723 CAGGAGGATAAGACTTTCTTACTTAGTCTG
188 CAGGAGGATAAGACTTAATTACTTAGTCTG
24405753 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
24405818 GATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGAAAGATAGGATTATCAGCTTTAACCTGCT
66 GATCCAAGGTTTTAATCCACTCCATTGCAACTTCAGAGAGATAGGATTATCAGCTTTAACCTGCT
*
24405883 TCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTA-TCTCACTGCAACTTCAGGAGG
131 TCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTC-AGGCTCACTGCAACTTCAGGAGG
* *
24405947 ATAAGACTTAATTTCTTAGTTTG
195 ATAAGACTTAATTACTTAGTCTG
*
24405970 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGACAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
24406035 GATCCAAGGTTTTAATCCACCCCATTGTAACTTCAGGGAGATAGGATTA
66 GATCCAAGGTTTTAATCCACTCCATTGCAACTTCAGAGAGATAGGATTA
24406084 CTAGCTACTG
Statistics
Matches: 302, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
217 228 0.75
218 4 0.01
220 2 0.01
224 68 0.23
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCACTCCATTGCAACTTCAGAGAGATAGGATTATCAGCTTTAACCTGCT
TCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCAGGCTCACTGCAACTTCAGGAGGA
TAAGACTTAATTACTTAGTCTG
Found at i:24407181 original size:98 final size:99
Alignment explanation
Indices: 24407012--24407209 Score: 353
Period size: 98 Copynumber: 2.0 Consensus size: 99
24407002 CAAACCAAGA
*
24407012 ACCATCCTGAATTTAACATGTGTTTAAGGAATTTACAGCACTTTGTCGATGCCCCTAAAACGTCG
1 ACCATCCTGAATTTAACATGTGTTTAAGGAATTTACAGCACTTTGTCGATGCCCCCAAAACGTCG
* *
24407077 TCTATCCTTTTCTTGTTGACTT-AGTGTAGCAGG
66 TCTATCCTTTCCTTGTTGACTTAAGTATAGCAGG
*
24407110 ACCATCCTGAATTTAACATGTGTTTAGGGAATTTACAGCACTTTGTCGATGCCCCCAAAACGTCG
1 ACCATCCTGAATTTAACATGTGTTTAAGGAATTTACAGCACTTTGTCGATGCCCCCAAAACGTCG
24407175 TCTATCCTTTCCTTGTTGACTTAAGTATAGCAGG
66 TCTATCCTTTCCTTGTTGACTTAAGTATAGCAGG
24407209 A
1 A
24407210 TCACCATATA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 84 0.88
99 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (99 bp):
ACCATCCTGAATTTAACATGTGTTTAAGGAATTTACAGCACTTTGTCGATGCCCCCAAAACGTCG
TCTATCCTTTCCTTGTTGACTTAAGTATAGCAGG
Found at i:24414136 original size:24 final size:24
Alignment explanation
Indices: 24414109--24414154 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24414099 TCATTTTTTT
* *
24414109 CTGCTCATTCATTTTCTTTTGAAG
1 CTGCTCATGCATTTCCTTTTGAAG
*
24414133 CTGCTCCTGCATTTCCTTTTGA
1 CTGCTCATGCATTTCCTTTTGA
24414155 GACTGTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (24 bp):
CTGCTCATGCATTTCCTTTTGAAG
Found at i:24417529 original size:13 final size:12
Alignment explanation
Indices: 24417511--24417549 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
24417501 AATGGCATAA
24417511 AAATAATATAAAC
1 AAATAA-ATAAAC
24417524 AAATAAATAAAC
1 AAATAAATAAAC
24417536 GAAATAAA-AAAC
1 -AAATAAATAAAC
24417548 AA
1 AA
24417550 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:24418459 original size:10 final size:11
Alignment explanation
Indices: 24418431--24418459 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24418421 TTCGAATTGG
24418431 ATTAAAAATAA
1 ATTAAAAATAA
24418442 ATTAAAAATAA
1 ATTAAAAATAA
24418453 ATTAAAA
1 ATTAAAA
24418460 GGGCGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATTAAAAATAA
Found at i:24418495 original size:156 final size:156
Alignment explanation
Indices: 24418211--24418525 Score: 546
Period size: 156 Copynumber: 2.0 Consensus size: 156
24418201 TGAACACACT
*
24418211 AATAATTCAGAGGGGTTGGAAGGGAAATTTCCCTTCTCCTTTAAAACGGCGCCGTTCGAATTGGA
1 AATAATTCAGAGGGGTTGAAAGGGAAATTTCCCTTCTCCTTTAAAACGGCGCCGTTCGAATTGGA
*
24418276 CCAAATAGTAATTAAAAATAAATTAAAAGGGCGAATTTAAAATAAAAAAACTTATTGTAAAGACA
66 CCAAATAATAATTAAAAATAAATTAAAAGGGCGAATTTAAAATAAAAAAACTTATTGTAAAGACA
24418341 CTAAAAGGCAGAGGGGCTAAAAGCAC
131 CTAAAAGGCAGAGGGGCTAAAAGCAC
24418367 AATAATTCAGAGGGGCTT-AAAGGGAAATTTCCCTTCTCCTTTAAAACGGCGCCGTTCGAATTGG
1 AATAATTCAGAGGGG-TTGAAAGGGAAATTTCCCTTCTCCTTTAAAACGGCGCCGTTCGAATTGG
**
24418431 ATTAAA-AATAAATTAAAAATAAATTAAAAGGGCGAATTTAAAAT-AAAAAACTTTATTGTAAAG
65 ACCAAATAAT-AATTAAAAATAAATTAAAAGGGCGAATTTAAAATAAAAAAAC-TTATTGTAAAG
24418494 ACACTAAAAGGCAGAGGGGCTAAAAGCAC
128 ACACTAAAAGGCAGAGGGGCTAAAAGCAC
24418523 AAT
1 AAT
24418526 TTACCCCTCT
Statistics
Matches: 152, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
155 9 0.06
156 141 0.93
157 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (156 bp):
AATAATTCAGAGGGGTTGAAAGGGAAATTTCCCTTCTCCTTTAAAACGGCGCCGTTCGAATTGGA
CCAAATAATAATTAAAAATAAATTAAAAGGGCGAATTTAAAATAAAAAAACTTATTGTAAAGACA
CTAAAAGGCAGAGGGGCTAAAAGCAC
Found at i:24436879 original size:24 final size:25
Alignment explanation
Indices: 24436762--24436892 Score: 83
Period size: 25 Copynumber: 5.3 Consensus size: 25
24436752 AATTCATTTT
24436762 CGGGAATGCTCATACA-AGCACATA-AA
1 CGGGAA-GCTCATA-AGAGC-CATATAA
* * **
24436788 CGAGAAGCTCTTCTGAGCCATATAA
1 CGGGAAGCTCATAAGAGCCATATAA
* ** *
24436813 CGGGAGGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCATAAGAGCCATATAA
*
24436838 CGGGAAGCT-TTAGAGAGCCAT-TAA
1 CGGGAAGCTCATA-AGAGCCATATAA
* * *
24436862 CAGGAAGCTCATACGAGCCA-ATAT
1 CGGGAAGCTCATAAGAGCCATATAA
24436886 CGGGAAG
1 CGGGAAG
24436893 GTTCAAGCAA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
24 30 0.37
25 47 0.57
26 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCATATAA
Found at i:24437390 original size:67 final size:68
Alignment explanation
Indices: 24437313--24437448 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 68
24437303 TTCAAACATA
*
24437313 TAAATATACATAATTTAGTTACACGAACTTACCTCGACAATT-TACGTTGATTTGTTGTATACTA
1 TAAATATACATAATTTAGTGACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
24437377 ATC
66 ATC
* *
24437380 TAAATATACATAATTTAGTGAGAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
1 TAAATATACATAATTTAGTGACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
24437445 ATC
66 ATC
24437448 T
1 T
24437449 GACACTTTCT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 39 0.60
68 26 0.40
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (68 bp):
TAAATATACATAATTTAGTGACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
ATC
Found at i:24445841 original size:13 final size:13
Alignment explanation
Indices: 24445825--24445850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24445815 AATGTGGTTT
24445825 GCTCATGTTTTAA
1 GCTCATGTTTTAA
24445838 GCTCATGTTTTAA
1 GCTCATGTTTTAA
24445851 ATATTAAAAT
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:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GCTCATGTTTTAA
Found at i:24445998 original size:16 final size:16
Alignment explanation
Indices: 24445954--24446001 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
24445944 CATGTTTACG
24445954 TATGCTTTAATAT-TA
1 TATGCTTTAATATATA
*
24445969 -A-GCTTGT-ATGTATA
1 TATGCTT-TAATATATA
24445983 TATGCTTTAATATATA
1 TATGCTTTAATATATA
24445999 TAT
1 TAT
24446002 ATAGTCACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
15 2 0.08
16 13 0.50
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (16 bp):
TATGCTTTAATATATA
Found at i:24452891 original size:30 final size:30
Alignment explanation
Indices: 24452852--24452912 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24452842 AGGAGGAGTA
24452852 AGTACATATTCCTGGTTCTATATGTCAATG
1 AGTACATATTCCTGGTTCTATATGTCAATG
* *
24452882 AGTATATATTCCTTGTTCTATATGTCAATG
1 AGTACATATTCCTGGTTCTATATGTCAATG
24452912 A
1 A
24452913 CATTTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (30 bp):
AGTACATATTCCTGGTTCTATATGTCAATG
Found at i:24463008 original size:53 final size:53
Alignment explanation
Indices: 24462928--24463032 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
24462918 ATATTTGACT
*
24462928 TGTTACAAACATGTTCTATGATATGTTAAGATTAATTATTTCATTGTTGAACA
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTGTTGAACA
24462981 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTGTTGAAC
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTGTTGAAC
24463033 TCACTAACTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (53 bp):
TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTGTTGAACA
Found at i:24466081 original size:11 final size:11
Alignment explanation
Indices: 24466065--24466092 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24466055 CATCAAATCA
24466065 AAATTTAATAT
1 AAATTTAATAT
24466076 AAATTTAATAT
1 AAATTTAATAT
24466087 AAATTT
1 AAATTT
24466093 CATCAAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AAATTTAATAT
Found at i:24469168 original size:17 final size:16
Alignment explanation
Indices: 24469145--24469190 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
24469135 TATTAAATAT
24469145 TATTAAAATAATAGAA
1 TATTAAAATAATAGAA
**
24469161 TGATTAAAATAAATTTAA
1 T-ATTAAAAT-AATAGAA
24469179 TATTAAAATAAT
1 TATTAAAATAAT
24469191 TAATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 16 0.62
18 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
TATTAAAATAATAGAA
Found at i:24469197 original size:20 final size:20
Alignment explanation
Indices: 24469172--24469210 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24469162 GATTAAAATA
24469172 AATTTAATATTAAAATAATT
1 AATTTAATATTAAAATAATT
*
24469192 AATTTAATATTAAATTAAT
1 AATTTAATATTAAAATAAT
24469211 AAAATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTAATATTAAAATAATT
Found at i:24469248 original size:37 final size:36
Alignment explanation
Indices: 24469179--24469270 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
24469169 ATAAATTTAA
*
24469179 TATTAAAATAATTAATTTAATATTAAATTAATA-AAATAC
1 TATTAAAATAA-T-ATTAAAT-TTAAATTAATATAAA-AC
* * *
24469218 TATTAAGATAAGTATTAAATTTAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTTAAATTAATATAAAAC
24469255 TATTAAAATAATATTA
1 TATTAAAATAATATTA
24469271 TTTTTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 8 0.17
39 11 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:24478789 original size:29 final size:27
Alignment explanation
Indices: 24478740--24478798 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
24478730 AATCTATCCT
*
24478740 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
24478769 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
24478796 TTT
1 TTT
24478799 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:24482874 original size:36 final size:36
Alignment explanation
Indices: 24482807--24482880 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
24482797 GGAGGAGTGC
* *
24482807 ATCAGTCAGAATAGATCCAAAAGTCTATTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAATCTATTGAACTGA
*
24482843 ATCAGTCAAAATAGATCCAAAAAAT-TGTTGAACTGA
1 ATCAGTCAAAATAGATCC-AAAAATCTATTGAACTGA
24482879 AT
1 AT
24482881 AGAGTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 29 0.85
37 5 0.15
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAATCTATTGAACTGA
Found at i:24486300 original size:21 final size:19
Alignment explanation
Indices: 24486274--24486316 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24486264 GTGTTTACTA
*
24486274 TCTGTTTAGCTCTCATGAGCT
1 TCTGTTCAGC-CT-ATGAGCT
*
24486295 TCTGTTCAGCCTTTGAGCT
1 TCTGTTCAGCCTATGAGCT
24486314 TCT
1 TCT
24486317 AAGTATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (19 bp):
TCTGTTCAGCCTATGAGCT
Found at i:24487731 original size:17 final size:17
Alignment explanation
Indices: 24487709--24487748 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
24487699 AATAATAACA
**
24487709 AAATTTAAATTAATGCT
1 AAATTTAAATTAACACT
24487726 AAATTTAAATTAACACT
1 AAATTTAAATTAACACT
24487743 AAATTT
1 AAATTT
24487749 GAACCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATTTAAATTAACACT
Found at i:24496992 original size:44 final size:41
Alignment explanation
Indices: 24496914--24497075 Score: 114
Period size: 44 Copynumber: 3.8 Consensus size: 41
24496904 TTATGGTAGA
* * *
24496914 TTTAATCCGAC-CTACTGCCACTTCAGAGG-TATAGGATTCATC
1 TTTAATCCG-CTCCACTGCAACTTCAG-GGAGATAGGATT-ATC
* *
24496956 ATTTTAATCCGCTCCACTGCAACTTGAGGGAGATAGGATTAGC
1 --TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATC
* * * * *
24496999 TTCAATCTGCTCCACTACAACTTCAGTGAGATAAGATTGGGATC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT---ATC
* *
24497043 TTTAA-CCTGCTCCACTGCAAATTTAGGGAGATA
1 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATA
24497076 AGGTTTGATA
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
41 32 0.34
43 6 0.06
44 56 0.60
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (41 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATC
Found at i:24497201 original size:45 final size:44
Alignment explanation
Indices: 24496966--24497344 Score: 234
Period size: 44 Copynumber: 8.5 Consensus size: 44
24496956 ATTTTAATCC
* * * *
24496966 GCTCCACTGCAACTTGAGGGAGATAGGA-T--TAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
* * ** * **
24497007 GCTCCACTACAACTTCAGTGAGATAAGATTGGGATCTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
* * * * *
24497051 GCTCCACTGCAAATTTAGGGAGATAAGGTT--TGAT-ATGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCT-ATCTTCAGTCT
* * * *
24497092 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGC----TAT--CTTCAGTCT
* * *
24497143 GTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAGTCT
** * ** *
24497188 GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
* * * *
24497232 GCTCCGCTGCAACTTCAGGGAGATAGGGTTTGCGATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATA-AGATTGCTATCTTCAGTCT
* * **
24497277 GCTCCACTGCAACTTTAGGGATATAAGACTTG-TATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* * * *
24497321 GTTACACTGTAACTTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGAT
24497345 GCTCCACTGC
Statistics
Matches: 256, Mismatches: 64, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
41 50 0.20
42 4 0.02
43 2 0.01
44 95 0.37
45 68 0.27
47 5 0.02
48 1 0.00
50 3 0.01
51 28 0.11
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
Found at i:24497316 original size:89 final size:89
Alignment explanation
Indices: 24496968--24497344 Score: 275
Period size: 89 Copynumber: 4.2 Consensus size: 89
24496958 TTTAATCCGC
* * * * * *
24496968 TCCACTGCAACTTGAGGGAGATAGGATT----AGCTTCAATCTGCTCCACTACAACTTCAGTGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTCGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
24497029 ATAAGATTGGGATCTTTAACCTGC
66 ATAAGACTGGTAGCTTCAATCTGT
* * * * * * * *
24497053 TCCACTGCAAATTTAGGGAGATAAGGTT--TGAT-ATGA-TCTGCTCTACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTCGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
24497114 ATAAGATCTGCAATTTATAGCTTCAATTTGT
66 ATAAGA-CTG------GTAGCTTCAATCTGT
* * *
24497145 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTCGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
24497210 ATAAGGCTGGTGGCTTCAATCTGC
66 ATAAGACTGGTAGCTTCAATCTGT
* * * * * *
24497234 TCCGCTGCAACTTCAGGGAGATAGGGTTTGCGATCTTCAGTCTGCTCCACTGCAACTTTAGGGAT
1 TCCACTGCAACTTCAGGGAGATAAGATTCGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
24497299 ATAAGACTTGTATCTTCAACCTGT
66 ATAAGACTGGTAGCTTCAATCTGT
* * *
24497323 TACACTGTAACTTCAGAGAGAT
1 TCCACTGCAACTTCAGGGAGAT
24497345 GCTCCACTGC
Statistics
Matches: 226, Mismatches: 53, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
85 52 0.23
86 4 0.02
87 1 0.00
89 103 0.46
92 31 0.14
94 2 0.01
95 5 0.02
96 28 0.12
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGGTAGCTTCAATCTGT
Found at i:24497405 original size:44 final size:43
Alignment explanation
Indices: 24497344--24497593 Score: 250
Period size: 44 Copynumber: 5.7 Consensus size: 43
24497334 TTCAGAGAGA
* *
24497344 TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAAC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * ** * *
24497387 ATGTTCCACTACAGCTTCAGGGAGATAAGGTTTTCTATCTTCAGTC
1 -TGCTCCACTGCAACTTCAGGGAGATAA-GACTTGTATCTTCA-AC
* *
24497433 TACTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA-C
* *
24497477 TGCTCCACTGCAACTTCAGGGAGATAA-AGTTTGTTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTTG-TATCTTCA-AC
* * **
24497522 TGCTCCACTGTAACTTTAGGGAGATAAGACTTGTGGCTTCAAC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* *
24497565 TTGCCCCACTGCAACTTCAGAGAGATAAG
1 -TGCTCCACTGCAACTTCAGGGAGATAAG
24497594 GTTCACCATG
Statistics
Matches: 166, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 93 0.56
45 69 0.42
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:24497405 original size:68 final size:68
Alignment explanation
Indices: 24497276--24497412 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 68
24497266 ATCTTCAGTC
* * **
24497276 TGCTCCACTGCAACTTTAGGGATATAAGACTTGTATCTTCAACCTGTTACACTGTAACTTCAGAG
1 TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGTTACACTACAACTTCAGAG
24497341 AGA
66 AGA
* * * *
24497344 TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAACATGTTCCACTACAGCTTCAGGG
1 TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGTTACACTACAACTTCAGAG
24497409 AGA
66 AGA
24497412 T
1 T
24497413 AAGGTTTTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (68 bp):
TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGTTACACTACAACTTCAGAG
AGA
Found at i:24497441 original size:157 final size:157
Alignment explanation
Indices: 24497187--24497501 Score: 443
Period size: 157 Copynumber: 2.0 Consensus size: 157
24497177 ATCTTCAGTC
* * * *
24497187 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATCTGCTCCACTACAACTTCAGGG
* * *
24497252 AGATAGGGTTTGCGATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTGTATCTTCA
66 AGATAAGGTTTGCGATCTTCAGTCTACTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCA
* *
24497317 ACCTGTTACACTGTAACTTCAGAGAGA
131 ACCTGCTACACTGCAACTTCAGAGAGA
* * * * * *
24497344 TGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAA-CATGTTCCACTACAGCTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATC-TGCTCCACTACAACTTCAGG
* *
24497408 GAGATAAGGTTTTCTATCTTCAGTCTACTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTC
65 GAGATAAGGTTTGCGATCTTCAGTCTACTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTC
* *
24497473 AACCTGCTCCACTGCAACTTCAGGGAGA
130 AACCTGCTACACTGCAACTTCAGAGAGA
24497501 T
1 T
24497502 AAAGTTTGTT
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
156 1 0.01
157 137 0.99
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (157 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATCTGCTCCACTACAACTTCAGGG
AGATAAGGTTTGCGATCTTCAGTCTACTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCA
ACCTGCTACACTGCAACTTCAGAGAGA
Found at i:24497445 original size:89 final size:89
Alignment explanation
Indices: 24497346--24497596 Score: 351
Period size: 89 Copynumber: 2.8 Consensus size: 89
24497336 CAGAGAGATG
* * * *
24497346 CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAACATGTTCCACTACAGCTTCAGGGAG
1 CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGCTCCACTGCAACTTCAGGGAG
24497411 ATAAGGTTT-TCTATCTTCAGTCTA
66 ATAAGGTTTGT-TATCTTCAGTCTA
*
24497435 CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGCTCCACTGCAACTTCAGGGAG
* *
24497500 ATAAAGTTTGTTATCTTCAGTCTG
66 ATAAGGTTTGTTATCTTCAGTCTA
* * * ** * * *
24497524 CTCCACTGTAACTTTAGGGAGATAAGACTTGTGGCTTCAACTTGCCCCACTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGCTCCACTGCAACTTCAGGGAG
24497589 ATAAGGTT
66 ATAAGGTT
24497597 CACCATGATG
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
89 144 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTCAACATGCTCCACTGCAACTTCAGGGAG
ATAAGGTTTGTTATCTTCAGTCTA
Found at i:24497583 original size:246 final size:246
Alignment explanation
Indices: 24497142--24497590 Score: 664
Period size: 246 Copynumber: 1.8 Consensus size: 246
24497132 AGCTTCAATT
*
24497142 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGG
* * * * **
24497207 GAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAGGGTTTGCGATCTTC
66 GAGATAAGACTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCGATCTTC
* * ** *
24497272 AGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTGTATCTTCAACCTGTTACACTGTAACTTC
131 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACCTGCCACACTGCAACTTC
24497337 AGAGAGATGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAACA
196 AGAGAGATGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAACA
* * * **
24497388 TGTTCCACTACAGCTTCAGGGAGATAAGGTTTTCTATCTTCAGTCTACTCCACTGCAACTTCAGG
1 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGG
* * * **
24497453 GATATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTTATCTTC
66 GAGATAAGACTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCGATCTTC
* * * *
24497518 AGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTGGCTTCAACTTGCCCCACTGCAACTTC
131 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACCTGCCACACTGCAACTTC
24497583 AGAGAGAT
196 AGAGAGAT
24497591 AAGGTTCACC
Statistics
Matches: 177, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
246 177 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (246 bp):
TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGG
GAGATAAGACTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCGATCTTC
AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACCTGCCACACTGCAACTTC
AGAGAGATGCTCCACTGCAACTTCAGGGATATAAGACTTGTATCTTTAACA
Found at i:24506489 original size:40 final size:40
Alignment explanation
Indices: 24506434--24506513 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
24506424 ATTCGATAAA
24506434 CCTTCCCTCTCCCGCTCTTCAACACGAGCTCAAGGATCTG
1 CCTTCCCTCTCCCGCTCTTCAACACGAGCTCAAGGATCTG
*
24506474 CCTTCCCTCTCCCGCTCTTTAACACGAGCTCAAGGATCTG
1 CCTTCCCTCTCCCGCTCTTCAACACGAGCTCAAGGATCTG
24506514 AATGTTTCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.17, C:0.41, G:0.15, T:0.26
Consensus pattern (40 bp):
CCTTCCCTCTCCCGCTCTTCAACACGAGCTCAAGGATCTG
Found at i:24520132 original size:89 final size:89
Alignment explanation
Indices: 24519981--24520621 Score: 1057
Period size: 89 Copynumber: 7.2 Consensus size: 89
24519971 TCGGTGAAAC
24519981 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
24520046 ACTGACAACGAAGCAGATCAAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* * * *
24520070 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGAAGCAGACGGAATAAAGCAGATCTTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
*
24520135 ACTGACAATGAAGCAGATCAAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* *
24520159 CACCAGCCTTGCCTCCCTGAGTTTACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
24520224 ACTGACAACGAAGCAGATCAAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* *
24520248 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACGGAATATAGCAGATCTTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
* *
24520313 ACTGACAATGAAGCAGATCGAAGA
66 ACTGACAACGAAGCAGATCAAAGA
*
24520337 CACCAGCCTTGCCTCCCTGGGTTTACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
24520402 ACTGACAACGAAGCAGATCAAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* * * *
24520426 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACGGAATATAACAGATATTGCCTTCTTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
24520491 ACTGACAACGAAGCAGATCAAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* * * * *
24520515 CACCAGCCTTGCCTCCCTGAGTTTACAGCGGAGCAGACTGAAGATAGCGGACCTTGCCTTCCTGT
1 CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
* *
24520580 ATTGACAACGAAGCAGATCGAAGA
66 ACTGACAACGAAGCAGATCAAAGA
* *
24520604 TACCAGCCTTGTCTCCCT
1 CACCAGCCTTGCCTCCCT
24520622 AGGCAACAGC
Statistics
Matches: 511, Mismatches: 41, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 511 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (89 bp):
CACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGT
ACTGACAACGAAGCAGATCAAAGA
Found at i:24522354 original size:3 final size:3
Alignment explanation
Indices: 24522346--24522379 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24522336 TTTATATTGT
*
24522346 TTA TTA TTA TAA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24522380 GTATTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:24522376 original size:14 final size:14
Alignment explanation
Indices: 24522346--24522384 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
24522336 TTTATATTGT
24522346 TTATTATTATA--A
1 TTATTATTATATTA
24522358 TTATTATTATATTA
1 TTATTATTATATTA
*
24522372 TTATTATTGTATT
1 TTATTATTATATT
24522385 TATATGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:24522418 original size:16 final size:16
Alignment explanation
Indices: 24522399--24522429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24522389 TGTGTGCGCC
*
24522399 TATATATATATATTAA
1 TATACATATATATTAA
24522415 TATACATATATATTA
1 TATACATATATATTA
24522430 TAAATGTTTT
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATACATATATATTAA
Found at i:24525345 original size:12 final size:12
Alignment explanation
Indices: 24525325--24525355 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24525315 TCGCTTCTTC
*
24525325 ACCATCATCGGA
1 ACCAGCATCGGA
24525337 ACCAGCATCGGA
1 ACCAGCATCGGA
24525349 ACCAGCA
1 ACCAGCA
24525356 CCAACACCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.19, T:0.10
Consensus pattern (12 bp):
ACCAGCATCGGA
Found at i:24526543 original size:14 final size:14
Alignment explanation
Indices: 24526503--24526545 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
24526493 AAACCAATTC
*
24526503 AATAA-TTTAAAAC
1 AATAATTTTAAAAA
24526516 AATAATTATTAAAAA
1 AATAATT-TTAAAAA
*
24526531 AATACTTTTAAAAA
1 AATAATTTTAAAAA
24526545 A
1 A
24526546 CTTTAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATTTTAAAAA
Found at i:24529865 original size:10 final size:10
Alignment explanation
Indices: 24529850--24529885 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
24529840 GAGATAAAGA
24529850 AGAAAGAGAG
1 AGAAAGAGAG
24529860 AGAAAGAGAG
1 AGAAAGAGAG
*
24529870 AGAGAGAGAG
1 AGAAAGAGAG
24529880 ATGAAA
1 A-GAAA
24529886 TCAATATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (10 bp):
AGAAAGAGAG
Found at i:24537099 original size:50 final size:50
Alignment explanation
Indices: 24537024--24537201 Score: 230
Period size: 50 Copynumber: 3.6 Consensus size: 50
24537014 NNNNNNNNNN
*
24537024 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGAT
*
24537074 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGAT
** ** * * * * *
24537124 GGGAGGTCCCCCGTAAGACCATATTTGGGACATGGCATGGGCACCTATAT
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGAT
* **
24537174 GAGAACTCCCATGTAAGACCATATCTGG
1 AAGAGGTCCCATGTAAGACCATATCTGG
24537202 TATATGACAT
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGAT
Found at i:24545045 original size:21 final size:21
Alignment explanation
Indices: 24545003--24545081 Score: 112
Period size: 19 Copynumber: 3.9 Consensus size: 21
24544993 TACAAAATCA
*
24545003 CATATTCTAAGATT--ACATAT
1 CATA-TCTAAGATTGCATATAT
24545023 CATATCTAAGATTGCATATAT
1 CATATCTAAGATTGCATATAT
24545044 CATATCTAAGATTGC--ATAT
1 CATATCTAAGATTGCATATAT
24545063 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24545082 CCTCGAAGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
19 28 0.52
20 4 0.07
21 22 0.41
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
CATATCTAAGATTGCATATAT
Found at i:24545056 original size:40 final size:41
Alignment explanation
Indices: 24545003--24545081 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
24544993 TACAAAATCA
24545003 CATATTCTAAGATTACATATCATATCTAAGATTGCATATAT
1 CATATTCTAAGATTACATATCATATCTAAGATTGCATATAT
*
24545044 CATA-TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 CATATTCTAAGATTACATATCATATCTAAGATTGCATAT
24545082 CCTCGAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 33 0.89
41 4 0.11
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (41 bp):
CATATTCTAAGATTACATATCATATCTAAGATTGCATATAT
Found at i:24545092 original size:17 final size:18
Alignment explanation
Indices: 24545011--24545092 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
24545001 CACATATTCT
* *
24545011 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
24545030 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCA-ATCG
*
24545051 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
24545070 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
24545087 AAGATT
1 AAGATT
24545093 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 31 0.53
21 19 0.33
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:24545905 original size:44 final size:43
Alignment explanation
Indices: 24545853--24546185 Score: 289
Period size: 44 Copynumber: 7.6 Consensus size: 43
24545843 CAGGAAGGCC
*
24545853 AGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CACCAATATATGAAGACA
* * * **
24545897 AGATCTGCTTTCTTTGATCTACTTCGCAACCAGTATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-C-ACCAATATATGAAGACA
* * *
24545942 AGATATG-TATCTTCGATCCACTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCC-ACCAATATATGAAGACA
* * * *
24545985 GGA-CTTGCTATTTTCGACCTACTTCACACCAATACATGAAGACA
1 AGATC-TGCTATCTTCGATCTACTTC-CACCAATATATGAAGACA
* * *
24546029 AGATCTGCTTTCTTCGATCTACTT-CGCCACTAGTATGGAAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCACCAATA-TAT-G-AAGACA
** *
24546074 AGATCTGC-ATCTTCGATCCCCTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCC-ACCAATATATGAAGACA
* * * * * *
24546117 GGACCTACTATCTTTGATCTACTT-TATGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCA--CCAATATATGAAGACA
*
24546161 AGATCTGCTTTCTTCGATCTACTTC
1 AGATCTGCTATCTTCGATCTACTTC
24546186 GCCACNNNNN
Statistics
Matches: 227, Mismatches: 48, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
42 7 0.03
43 33 0.15
44 144 0.63
45 38 0.17
46 5 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
AGATCTGCTATCTTCGATCTACTTCCACCAATATATGAAGACA
Found at i:24546086 original size:132 final size:132
Alignment explanation
Indices: 24545857--24546190 Score: 526
Period size: 132 Copynumber: 2.5 Consensus size: 132
24545847 AAGGCCAGAT
* *
24545857 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTC
1 CTGCTATTTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
24545922 GCAACCAGTATGGGAAGACAAGATATGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
66 GCCACCAGTATGGAAAGACAAGATATGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
24545987 AC
131 AC
* *
24545989 TTGCTATTTTCGACCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATTTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
24546054 GCCACTAGTATGGAAAGACAAGATCTGCATCTTCGATCCCCTTCCTACCAATATAGGAAGACAGG
66 GCCACCAGTATGGAAAGACAAGATATGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
24546119 AC
131 AC
* * **
24546121 CTACTATCTTT-GATCTACTTTATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 CTGCTAT-TTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
24546185 CGCCAC
65 CGCCAC
24546191 NNNNNNNNNN
Statistics
Matches: 185, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 182 0.98
133 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (132 bp):
CTGCTATTTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
GCCACCAGTATGGAAAGACAAGATATGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
AC
Found at i:24547406 original size:23 final size:23
Alignment explanation
Indices: 24547379--24547422 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24547369 CTCCATTTTT
*
24547379 CTTTTCTTTTTCT-TTTTTTATCA
1 CTTTTATTTTT-TATTTTTTATCA
24547402 CTTTTATTTTTTATTTTTTAT
1 CTTTTATTTTTTATTTTTTAT
24547423 TTTGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (23 bp):
CTTTTATTTTTTATTTTTTATCA
Found at i:24551603 original size:21 final size:18
Alignment explanation
Indices: 24551573--24551613 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 18
24551563 CATAAGTTTT
24551573 AAACAATTAATATAATATTA
1 AAACAATTAA-ATAA-ATTA
24551593 AAACTAATTAAATAAATTA
1 AAAC-AATTAAATAAATTA
24551612 AA
1 AA
24551614 CATCTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAACAATTAAATAAATTA
Found at i:24551990 original size:23 final size:25
Alignment explanation
Indices: 24551945--24552006 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
24551935 AAATTGAAAT
*
24551945 AAAAATAAATAAAAAGGTAAATTA-A
1 AAAAATAAA-AAAAAGCTAAATTACA
*
24551970 AAAAATAAAAAAAA-CTTAATTACA
1 AAAAATAAAAAAAAGCTAAATTACA
*
24551994 AAAACATTAAAAA
1 AAAA-ATAAAAAA
24552007 GCGAAGGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 6 0.19
24 10 0.31
25 16 0.50
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (25 bp):
AAAAATAAAAAAAAGCTAAATTACA
Found at i:24552336 original size:19 final size:19
Alignment explanation
Indices: 24552299--24552377 Score: 113
Period size: 19 Copynumber: 4.0 Consensus size: 19
24552289 TACAAAATCA
*
24552299 CATATTCTAAGATTACATAT
1 CATA-TCTAAGATTGCATAT
*
24552319 CATATCTAATATTGCATATAT
1 CATATCTAAGATTGC--ATAT
24552340 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24552359 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24552378 TCTCGAAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
19 32 0.59
20 4 0.07
21 18 0.33
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (19 bp):
CATATCTAAGATTGCATAT
Found at i:24552348 original size:40 final size:41
Alignment explanation
Indices: 24552299--24552377 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 41
24552289 TACAAAATCA
*
24552299 CATATTCTAAGATTACATATCATATCTAATATTGCATATAT
1 CATATTCTAAGATTACATATCATATCTAAGATTGCATATAT
*
24552340 CATA-TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 CATATTCTAAGATTACATATCATATCTAAGATTGCATAT
24552378 TCTCGAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 32 0.89
41 4 0.11
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (41 bp):
CATATTCTAAGATTACATATCATATCTAAGATTGCATATAT
Found at i:24552388 original size:17 final size:18
Alignment explanation
Indices: 24552307--24552388 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
24552297 CACATATTCT
* *
24552307 AAGATTACATATCATATCT
1 AAGATTGCATAT-ATATCG
* *
24552326 AATATTGCATATATCATATCT
1 AAGATTGC--ATAT-ATATCG
*
24552347 AAGATTGCATATCATATCT
1 AAGATTGCATAT-ATATCG
*
24552366 AAGATTGCATAT-TCTCG
1 AAGATTGCATATATATCG
24552383 AAGATT
1 AAGATT
24552389 ATGTTTCCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
17 9 0.16
19 29 0.52
21 18 0.32
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
AAGATTGCATATATATCG
Found at i:24553232 original size:13 final size:13
Alignment explanation
Indices: 24553214--24553240 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24553204 CCAATTTTTC
24553214 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
24553227 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
24553240 C
1 C
24553241 CTTCTCTATT
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:24556974 original size:20 final size:20
Alignment explanation
Indices: 24556949--24557002 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
24556939 AAATTAAGTT
*
24556949 AAAATGATTTTAACCTAGCC
1 AAAATGATTTTAACCAAGCC
* **
24556969 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGCC
*
24556989 AAAATAATTTTAAC
1 AAAATGATTTTAAC
24557003 ACATCAAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGCC
Found at i:24557020 original size:40 final size:40
Alignment explanation
Indices: 24556944--24557027 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
24556934 TTTTAAAATT
* *
24556944 AAGTTAAAATGATTTTAACCTAGCCAAAATGATTTCAACC
1 AAGTTAAAATAATTTTAACCTAGCCAAAATGATTTCAAAC
* *
24556984 AAGTTAAAATAATTTTAACAC-A-TCAAAGTGATTTTCAAAC
1 AAGTTAAAATAATTTTAAC-CTAGCCAAAATGA-TTTCAAAC
24557024 AAGT
1 AAGT
24557028 CAGAATTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 7 0.18
40 30 0.79
41 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (40 bp):
AAGTTAAAATAATTTTAACCTAGCCAAAATGATTTCAAAC
Found at i:24557211 original size:21 final size:20
Alignment explanation
Indices: 24557173--24557211 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24557163 TTTTTGAAGT
*
24557173 ATCGATATTTTCTGAAAATA
1 ATCGATACTTTCTGAAAATA
*
24557193 ATCGATACCTTTCTTAAAA
1 ATCGATA-CTTTCTGAAAA
24557212 ACGATACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCGATACTTTCTGAAAATA
Found at i:24560630 original size:86 final size:86
Alignment explanation
Indices: 24560459--24560714 Score: 372
Period size: 86 Copynumber: 3.0 Consensus size: 86
24560449 TTTTTTGAAA
* * ** * * * *
24560459 AAAAAGTTTGAG-GACCTTTTTGATACATTTTGGCAGTTCAAATACACAATTAAGAG-AAAAAAT
1 AAAAAGTTTGAGAG-CTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAAT
*
24560522 AGGGGCTTAATTGCTTTCTTTG
65 AGGGGCTTAATTGCTTTTTTTG
*
24560544 AAAAAGTTTGTGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
1 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
24560609 GGGGCTTAATTGCTTTTTTTG
66 GGGGCTTAATTGCTTTTTTTG
*
24560630 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTAAAAAAAATA
1 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
* *
24560695 GGGGCTTAAATGTTTTTTTT
66 GGGGCTTAATTGCTTTTTTT
24560715 AAGGGTTTGA
Statistics
Matches: 155, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 45 0.29
86 110 0.71
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (86 bp):
AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
GGGGCTTAATTGCTTTTTTTG
Found at i:24561890 original size:20 final size:20
Alignment explanation
Indices: 24561865--24561918 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
24561855 AAATTAAGTT
*
24561865 AAAATGATTTTAACCTAGCC
1 AAAATGATTTTAACCAAGCC
* **
24561885 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGCC
*
24561905 AAAATAATTTTAAC
1 AAAATGATTTTAAC
24561919 ACATCAAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGCC
Found at i:24561936 original size:40 final size:40
Alignment explanation
Indices: 24561860--24561943 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
24561850 TTTTAAAATT
* *
24561860 AAGTTAAAATGATTTTAACCTAGCCAAAATGATTTCAACC
1 AAGTTAAAATAATTTTAACCTAGCCAAAATGATTTCAAAC
* *
24561900 AAGTTAAAATAATTTTAACAC-A-TCAAAGTGATTTTCAAAC
1 AAGTTAAAATAATTTTAAC-CTAGCCAAAATGA-TTTCAAAC
24561940 AAGT
1 AAGT
24561944 CAGAATTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 7 0.18
40 30 0.79
41 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (40 bp):
AAGTTAAAATAATTTTAACCTAGCCAAAATGATTTCAAAC
Found at i:24562127 original size:21 final size:20
Alignment explanation
Indices: 24562089--24562127 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24562079 TTTTTGAAGT
*
24562089 ATCGATATTTTCTGAAAATA
1 ATCGATACTTTCTGAAAATA
*
24562109 ATCGATACCTTTCTTAAAA
1 ATCGATA-CTTTCTGAAAA
24562128 ACGATACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCGATACTTTCTGAAAATA
Found at i:24569246 original size:18 final size:18
Alignment explanation
Indices: 24569211--24569249 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24569201 CTTGAGAAAC
* **
24569211 TTTATATCCTTCTGGGAT
1 TTTAAATCCTTCAAGGAT
24569229 TTTAAATCCTTCAAGGAT
1 TTTAAATCCTTCAAGGAT
24569247 TTT
1 TTT
24569250 CATATAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTAAATCCTTCAAGGAT
Found at i:24579034 original size:11 final size:11
Alignment explanation
Indices: 24579017--24579046 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24579007 ATAATGCTTA
24579017 AGATAATCTAC
1 AGATAATCTAC
*
24579028 GGATAATCTAC
1 AGATAATCTAC
24579039 AGATAATC
1 AGATAATC
24579047 ATGCAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (11 bp):
AGATAATCTAC
Found at i:24579884 original size:383 final size:384
Alignment explanation
Indices: 24579177--24579945 Score: 1531
Period size: 383 Copynumber: 2.0 Consensus size: 384
24579167 CAACAAGAAA
24579177 TAACATCCTCACTAAAGATTCACTCAAAGCAGTCAAAGTGTTTAATGTTCAAATAATGTGCACTC
1 TAACATCCTCACTAAAGATTCACTCAAAGCAGTCAAAGTGTTTAATGTTCAAATAATGTGCACTC
24579242 AACAGTCAAACGAGAAATGTTAATACCATAGGCTTGCATGAAAATCAGATCTCCACCACTATAAA
66 AACAGTCAAACGAGAAATGTTAATACCATAGGCTTGCATGAAAATCAGATCTCCACCACTATAAA
24579307 TAAGATGTAACACCCCAACCCCGGCTCAGATGTTATGGCCGAATCTCAAAAATTACATTAACGAT
131 TAAGATGTAACACCCCAACCCCGGCTCAGATGTTATGGCCGAATCTCAAAAATTACATTAACGAT
24579372 GTGCGGAATTATTTGTTTACTTGAAAAAAAGGGTTTTGAGTTTGAAACATAAAATTATGACGTTT
196 GTGCGGAATTATTTGTTTACTTGAAAAAAAGGGTTTTGAGTTTGAAACATAAAATTATGACGTTT
24579437 AACTAATTTTATTTCTTTAAAACATATTTAGTAAAATTGATTTATTTATTTAAAAAGAAAAGCAT
261 AACTAATTTTATTTCTTTAAAACATATTTAGTAAAATTGATTTATTTATTTAAAAAGAAAAGCAT
24579502 CATTTAATTGTACTGCTATTTGAACATAGTTTTAAATACTAAGGTTC-TATATTATAAT
326 CATTTAATTGTACTGCTATTTGAACATAGTTTTAAATACTAAGGTTCTTATATTATAAT
24579560 TAACATCCTCACTAAAGATTCACTCAAAGCAGTCAAAGTGTTTAATGTTCAAATAATGTGCACTC
1 TAACATCCTCACTAAAGATTCACTCAAAGCAGTCAAAGTGTTTAATGTTCAAATAATGTGCACTC
24579625 AACAGTCAAACGAGAAATGTTAATACCATAGGCTTGCATGAAAATCAGATCTCCACCACTATAAA
66 AACAGTCAAACGAGAAATGTTAATACCATAGGCTTGCATGAAAATCAGATCTCCACCACTATAAA
24579690 TAAGATGTAACACCCCAACCCCGGCTCAGATGTTATGGCCGAATCTCAAAAATTACATTAACGAT
131 TAAGATGTAACACCCCAACCCCGGCTCAGATGTTATGGCCGAATCTCAAAAATTACATTAACGAT
24579755 GTGCGGAATTATTTGTTTACTTGAAAAAAAGGGTTTTGAGTTTGAAACATAAAATTATGACGTTT
196 GTGCGGAATTATTTGTTTACTTGAAAAAAAGGGTTTTGAGTTTGAAACATAAAATTATGACGTTT
24579820 AACTAATTTTATTTCTTTAAAACATATTTAGTAAAATTGATTTATTTATTTAAAAAGAAAAGCAT
261 AACTAATTTTATTTCTTTAAAACATATTTAGTAAAATTGATTTATTTATTTAAAAAGAAAAGCAT
24579885 CATTTAATTGTACTGCTATTTGAACATAGTTTTAAATACTAAGGTTCTTATATTATAAT
326 CATTTAATTGTACTGCTATTTGAACATAGTTTTAAATACTAAGGTTCTTATATTATAAT
24579944 TA
1 TA
24579946 TAAAAATGGT
Statistics
Matches: 385, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
383 372 0.97
384 13 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (384 bp):
TAACATCCTCACTAAAGATTCACTCAAAGCAGTCAAAGTGTTTAATGTTCAAATAATGTGCACTC
AACAGTCAAACGAGAAATGTTAATACCATAGGCTTGCATGAAAATCAGATCTCCACCACTATAAA
TAAGATGTAACACCCCAACCCCGGCTCAGATGTTATGGCCGAATCTCAAAAATTACATTAACGAT
GTGCGGAATTATTTGTTTACTTGAAAAAAAGGGTTTTGAGTTTGAAACATAAAATTATGACGTTT
AACTAATTTTATTTCTTTAAAACATATTTAGTAAAATTGATTTATTTATTTAAAAAGAAAAGCAT
CATTTAATTGTACTGCTATTTGAACATAGTTTTAAATACTAAGGTTCTTATATTATAAT
Found at i:24583129 original size:71 final size:71
Alignment explanation
Indices: 24583008--24583156 Score: 244
Period size: 71 Copynumber: 2.1 Consensus size: 71
24582998 GGATACTACA
* * *
24583008 ACATATAAGCTTTCTATAGGTTAAGGGGTGTCTGTATCATCTCAGCATATCAAATCAATAATGTG
1 ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
24583073 GTCTCG
66 GTCTCG
* * *
24583079 ACATGTAAGCTTTTTACAGGTTAAGGGGTGTCTCTATCATCTTAGCATATCAAATCTATAATGTG
1 ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
24583144 GTCTCG
66 GTCTCG
24583150 ACATGTA
1 ACATGTA
24583157 TAACTGAAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (71 bp):
ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
GTCTCG
Found at i:24584837 original size:116 final size:116
Alignment explanation
Indices: 24584633--24584865 Score: 412
Period size: 116 Copynumber: 2.0 Consensus size: 116
24584623 TATGTCCGAC
*
24584633 CAATAGAAAGAGGTCGAGTGATAGATGTGTCATAGGAGGAAGAAGAACTTGGCCATGGCTAAAAA
1 CAATAGAAAGAGGTCGAGTGATAGATGTGTCATAGGAGGAAGAAGAACTCGGCCATGGCTAAAAA
24584698 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
66 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
* * *
24584749 CAATAGAAAGAGGTCGAGTGATAGATGTGTCGTAGGAGGAGGAAGAACTCGGTCATGGCTAAAAA
1 CAATAGAAAGAGGTCGAGTGATAGATGTGTCATAGGAGGAAGAAGAACTCGGCCATGGCTAAAAA
* *
24584814 ATCATTAGAATATAGGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
66 ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
24584865 C
1 C
24584866 CGAGTGATAG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 111 1.00
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (116 bp):
CAATAGAAAGAGGTCGAGTGATAGATGTGTCATAGGAGGAAGAAGAACTCGGCCATGGCTAAAAA
ATCATCAGAATATAAGCTGAGAGTGACACCAAAGCCTGCAATAGTAAAATG
Found at i:24585407 original size:23 final size:24
Alignment explanation
Indices: 24585377--24585436 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
24585367 ACAATAGTAG
* *
24585377 TAATAATAACAATAAAA-ATAACA
1 TAATAATAAAAATAAAATAAAACA
* *
24585400 TAATAATAATACTAAAATAAAACA
1 TAATAATAAAAATAAAATAAAACA
24585424 -AATAATAAAAATA
1 TAATAATAAAAATA
24585437 CTAAAAAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (24 bp):
TAATAATAAAAATAAAATAAAACA
Found at i:24585441 original size:9 final size:9
Alignment explanation
Indices: 24585333--24585443 Score: 55
Period size: 9 Copynumber: 12.2 Consensus size: 9
24585323 CTACAGTGAT
24585333 AATAATAAA
1 AATAATAAA
* *
24585342 TATAATACA
1 AATAATAAA
*
24585351 AAGAATAAA
1 AATAATAAA
* * *
24585360 GACAATAAC
1 AATAATAAA
* **
24585369 AATAGTAGT
1 AATAATAAA
*
24585378 AATAATAAC
1 AATAATAAA
*
24585387 AATAAAAATA
1 AATAATAA-A
*
24585397 ACATAATAAT
1 A-ATAATAAA
*
24585407 AATACT-AA
1 AATAATAAA
24585415 AATAA-AACA
1 AATAATAA-A
24585424 AATAATAAA
1 AATAATAAA
*
24585433 AATACTAAA
1 AATAATAAA
24585442 AA
1 AA
24585444 GGAAAGGGAG
Statistics
Matches: 73, Mismatches: 24, Indels: 10
0.68 0.22 0.09
Matches are distributed among these distances:
8 6 0.08
9 57 0.78
10 4 0.05
11 6 0.08
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.22
Consensus pattern (9 bp):
AATAATAAA
Found at i:24585856 original size:22 final size:22
Alignment explanation
Indices: 24585831--24585873 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24585821 TATCCAAACA
24585831 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
24585853 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
24585874 AATAGGGAGA
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:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:24587051 original size:6 final size:6
Alignment explanation
Indices: 24587040--24587081 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
24587030 TTTTTAAATT
24587040 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
24587082 TGTACTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:24588712 original size:40 final size:40
Alignment explanation
Indices: 24588647--24588741 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
24588637 ACTATGTTTA
* * **
24588647 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATAAATG
* *
24588687 GCACTTAGTGTGCTATTGGAAATAGCTTCAGCTATAAATG
1 GCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATAAATG
24588727 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
24588742 GACTGAGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATAAATG
Done.