Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 15 of 16
Found at i:2385757 original size:20 final size:20
Alignment explanation
Indices: 2385714--2385776 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
2385704 AATAATAATA
*
2385714 ATAATAATAAGATTAATTATT
1 ATAATAATAAGATTAA-AATT
**
2385735 ATAATGGTAAGATTAAAATT
1 ATAATAATAAGATTAAAATT
* *
2385755 ATATTAATAAAATTAAAATT
1 ATAATAATAAGATTAAAATT
2385775 AT
1 AT
2385777 TGATGGGATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (20 bp):
ATAATAATAAGATTAAAATT
Found at i:2385928 original size:36 final size:37
Alignment explanation
Indices: 2385888--2385978 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
2385878 AGTTAGAAAT
* *
2385888 TATTAAAATTTTATTTAT-TTTAA-AA-AATAAATTATA
1 TATTAAAATTATATTTATGTTAAATAAGAAT-AATTA-A
2385924 TATTAAAATTATATTTATGTTAAATAAGAATAATTAA
1 TATTAAAATTATATTTATGTTAAATAAGAATAATTAA
*
2385961 AATTAAAATTATATTTAT
1 TATTAAAATTATATTTAT
2385979 ATTATTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
36 17 0.35
37 22 0.45
38 7 0.14
39 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (37 bp):
TATTAAAATTATATTTATGTTAAATAAGAATAATTAA
Found at i:2385946 original size:17 final size:17
Alignment explanation
Indices: 2385888--2385982 Score: 64
Period size: 18 Copynumber: 5.3 Consensus size: 17
2385878 AGTTAGAAAT
*
2385888 TATTAAAATTTTATTTA
1 TATTAAAATTATATTTA
* * *
2385905 TTTTAAAAAATAAATTATA
1 TATT-AAAATTATATT-TA
2385924 TATTAAAATTATATTTA
1 TATTAAAATTATATTTA
* ** *
2385941 TGTTAAATAAGAATAATTAA
1 TATT-AA-AATTAT-ATTTA
*
2385961 AATTAAAATTATATTTA
1 TATTAAAATTATATTTA
2385978 TATTA
1 TATTA
2385983 TTTATTTAAT
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
17 16 0.29
18 23 0.41
19 11 0.20
20 6 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTAAAATTATATTTA
Found at i:2385996 original size:12 final size:13
Alignment explanation
Indices: 2385972--2386001 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2385962 ATTAAAATTA
2385972 TATTTATATTATT
1 TATTTATATTATT
2385985 TATTTA-ATTATT
1 TATTTATATTATT
2385997 TATTT
1 TATTT
2386002 TTAATTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTATATTATT
Found at i:2386012 original size:15 final size:14
Alignment explanation
Indices: 2385969--2386014 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
2385959 AAAATTAAAA
*
2385969 TTATATTTATATTAT
1 TTATTTTTA-ATTAT
2385984 TTA--TTTAATTAT
1 TTATTTTTAATTAT
2385996 TTATTTTTAATTGAT
1 TTATTTTTAATT-AT
2386011 TTAT
1 TTAT
2386015 ATAAATTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 7 0.25
15 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATTTTTAATTAT
Found at i:2386097 original size:23 final size:22
Alignment explanation
Indices: 2386071--2386114 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2386061 ATAAAGTTTA
*
2386071 TTTATTTTATTAATTAAAAATAT
1 TTTATTTT-TTAAGTAAAAATAT
*
2386094 TTTATTTTTTGAGTAAAAATA
1 TTTATTTTTTAAGTAAAAATA
2386115 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTATTTTTTAAGTAAAAATAT
Found at i:2386382 original size:15 final size:16
Alignment explanation
Indices: 2386356--2386385 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2386346 ATAAATTTTT
2386356 TAATTAAATAAAATTA
1 TAATTAAATAAAATTA
2386372 TAATT-AATAAAATT
1 TAATTAAATAAAATT
2386386 TATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATTAAATAAAATTA
Found at i:2386388 original size:16 final size:17
Alignment explanation
Indices: 2386346--2386450 Score: 58
Period size: 17 Copynumber: 6.1 Consensus size: 17
2386336 GTTAATATTT
* *
2386346 ATAAATTTTTTAATTAA
1 ATAAAATTTATAATTAA
2386363 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
**
2386378 ATAAAATTTATTTAAAAATA
1 ATAAAATTTA--TAATTA-A
* *
2386398 ATAAAATATATTAA-TAC
1 ATAAAATTTA-TAATTAA
*
2386415 ATAAATTTTAT-ATTAA
1 ATAAAATTTATAATTAA
2386431 ATTAAAATATTATAA-TAA
1 A-TAAAAT-TTATAATTAA
2386449 AT
1 AT
2386451 TATATAAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
15 8 0.12
16 14 0.21
17 19 0.28
18 12 0.18
19 5 0.07
20 10 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:2386425 original size:37 final size:36
Alignment explanation
Indices: 2386362--2386431 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
2386352 TTTTTAATTA
2386362 AATAAAATTATAATTAATAAAATTTAT-TTAAAAAT
1 AATAAAATTATAATTAATAAAATTTATATTAAAAAT
*
2386397 AATAAAATATATTAA-TACATAAATTTTATATTAAA
1 AATAAAAT-TA-TAATTA-ATAAAATTTATATTAAA
2386432 TTAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 8 0.27
36 4 0.13
37 13 0.43
38 5 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (36 bp):
AATAAAATTATAATTAATAAAATTTATATTAAAAAT
Found at i:2386443 original size:18 final size:18
Alignment explanation
Indices: 2386417--2386452 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2386407 ATTAATACAT
* *
2386417 AAATTTTATATTAAATTA
1 AAATATTATAATAAATTA
2386435 AAATATTATAATAAATTA
1 AAATATTATAATAAATTA
2386453 TATAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTATAATAAATTA
Found at i:2386935 original size:10 final size:10
Alignment explanation
Indices: 2386898--2386936 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
2386888 GAATACATAA
2386898 TTTTTTTTCT
1 TTTTTTTTCT
*
2386908 TTTTATTTCT
1 TTTTTTTTCT
*
2386918 TTCCTTTTTCT
1 TT-TTTTTTCT
2386929 TTTTTTTT
1 TTTTTTTT
2386937 ATAAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:2387408 original size:26 final size:26
Alignment explanation
Indices: 2387355--2387418 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
2387345 TAATATAAAA
*
2387355 ATAAATATCATATGAATATAAGAATAT
1 ATAAATAT-ATATGAATAAAAGAATAT
* * *
2387382 ATAAATATATATGTATAAAATATTAT
1 ATAAATATATATGAATAAAAGAATAT
*
2387408 ATAAATTTATA
1 ATAAATATATA
2387419 ATACTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (26 bp):
ATAAATATATATGAATAAAAGAATAT
Found at i:2387963 original size:10 final size:10
Alignment explanation
Indices: 2387948--2387993 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
2387938 ATAAATTCTT
2387948 TTTCTTTTTC
1 TTTCTTTTTC
2387958 TTTCTTTTT-
1 TTTCTTTTTC
*
2387967 TTTCTTTTTT
1 TTTCTTTTTC
**
2387977 TTTCTCCTTC
1 TTTCTTTTTC
2387987 TTTCTTT
1 TTTCTTT
2387994 CTTTCTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:2387970 original size:9 final size:9
Alignment explanation
Indices: 2387946--2387978 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
2387936 ACATAAATTC
2387946 TTTTTCTTT
1 TTTTTCTTT
2387955 TTCTTTCTTT
1 TT-TTTCTTT
2387965 TTTTTCTTT
1 TTTTTCTTT
2387974 TTTTT
1 TTTTT
2387979 TCTCCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:2388006 original size:29 final size:29
Alignment explanation
Indices: 2387946--2388006 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
2387936 ACATAAATTC
** * *
2387946 TTTTTCTTTTTCTTTCTTTTTTTTCTTTT
1 TTTTTCTCCTTCTTTCTTTTCTTTCTTCT
2387975 TTTTTCTCCTTCTTTC-TTTCTTTCTATCT
1 TTTTTCTCCTTCTTTCTTTTCTTTCT-TCT
2388004 TTT
1 TTT
2388007 CCGTCCTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTCTCCTTCTTTCTTTTCTTTCTTCT
Found at i:2388013 original size:29 final size:29
Alignment explanation
Indices: 2387955--2388013 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
2387945 CTTTTTCTTT
* * * *
2387955 TTCTTTCTTTTTTTTCTTTTTTTTTCTCC
1 TTCTTTCTTTTCTTTCTATCTTTTCCTCC
2387984 TTCTTTC-TTTCTTTCTATCTTTTCCGTCC
1 TTCTTTCTTTTCTTTCTATCTTTTCC-TCC
2388013 T
1 T
2388014 GAACGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (29 bp):
TTCTTTCTTTTCTTTCTATCTTTTCCTCC
Found at i:2388323 original size:22 final size:23
Alignment explanation
Indices: 2388298--2388345 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2388288 TACATAAAAT
2388298 AAAATA-AAT-TATTAATATATAA
1 AAAATATAATATATTAA-ATATAA
*
2388320 AAAATATAATATTTTAAATATAA
1 AAAATATAATATATTAAATATAA
2388343 AAA
1 AAA
2388346 TATTACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATAATATATTAAATATAA
Found at i:2388348 original size:22 final size:24
Alignment explanation
Indices: 2388291--2388345 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2388281 AAAAATATAC
*
2388291 ATAAAATAAAATAAATTATTAATAT
1 ATAAAA-AATATAAATTATTAATAT
2388316 ATAAAAAATATAATATT-TTAA-AT
1 ATAAAAAATATAA-ATTATTAATAT
2388339 ATAAAAA
1 ATAAAAA
2388346 TATTACATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 10 0.36
25 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAAAAATATAAATTATTAATAT
Found at i:2388398 original size:4 final size:4
Alignment explanation
Indices: 2388375--2388428 Score: 65
Period size: 4 Copynumber: 13.8 Consensus size: 4
2388365 TATAAATTTT
* * *
2388375 TTTC TTTT TTTC -TCC TTTC TTTC TTTC TTTC TTTT TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
2388422 TTGC TTT
1 TTTC TTT
2388429 TTCAACAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 2 0.05
4 39 0.95
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:2388415 original size:20 final size:20
Alignment explanation
Indices: 2388390--2388430 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2388380 TTTTTTCTCC
*
2388390 TTTCTTTCTTTCTTTCTTTT
1 TTTCTTTCTTTCTTGCTTTT
2388410 TTTCTTTCTTTCTTGCTTTT
1 TTTCTTTCTTTCTTGCTTTT
2388430 T
1 T
2388431 CAACAAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTCTTTCTTTCTTGCTTTT
Found at i:2399827 original size:34 final size:34
Alignment explanation
Indices: 2399784--2399864 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
2399774 TATAAACAGT
*
2399784 AAATGTATCGATACAATATATCGATACATGCTTA
1 AAATGTATCGATACAATATATCGATACATGCCTA
* *
2399818 AAATATATCGATACAATGTATCGATACATGCCTA
1 AAATGTATCGATACAATATATCGATACATGCCTA
2399852 AAATGTATCGATA
1 AAATGTATCGATA
2399865 AAAAACTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (34 bp):
AAATGTATCGATACAATATATCGATACATGCCTA
Found at i:2399841 original size:13 final size:13
Alignment explanation
Indices: 2399785--2399845 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
2399775 ATAAACAGTA
2399785 AATGTATCGATAC
1 AATGTATCGATAC
*
2399798 AATATATCGATAC
1 AATGTATCGATAC
2399811 -ATGCT-T--A-A-
1 AATG-TATCGATAC
*
2399819 AATATATCGATAC
1 AATGTATCGATAC
2399832 AATGTATCGATAC
1 AATGTATCGATAC
2399845 A
1 A
2399846 TGCCTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
8 1 0.03
9 4 0.11
10 1 0.03
11 1 0.03
12 4 0.11
13 26 0.70
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2399880 original size:34 final size:34
Alignment explanation
Indices: 2399784--2399874 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
2399774 TATAAACAGT
* * *
2399784 AAATGTATCGATACAATATATCGATACATGCTTA
1 AAATGTATCGATAAAAAATATCGATACATGCCTA
* * **
2399818 AAATATATCGATACAATGTATCGATACATGCCTA
1 AAATGTATCGATAAAAAATATCGATACATGCCTA
2399852 AAATGTATCGATAAAAAACTATC
1 AAATGTATCGATAAAAAA-TATC
2399875 CTACATACTG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 45 0.92
35 4 0.08
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (34 bp):
AAATGTATCGATAAAAAATATCGATACATGCCTA
Found at i:2399959 original size:20 final size:20
Alignment explanation
Indices: 2399914--2399988 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
2399904 CATAAGTAAA
2399914 TGTATCGATACATTTACT-ATT
1 TGTATCGATACATTT-CTCA-T
*
2399935 TGTATTGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
* *
2399955 TGTATTGATACATTTTTCAT
1 TGTATCGATACATTTCTCAT
2399975 TGTATCGATACATT
1 TGTATCGATACATT
2399989 CTGGGTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:2402809 original size:158 final size:156
Alignment explanation
Indices: 2402369--2402890 Score: 492
Period size: 158 Copynumber: 3.3 Consensus size: 156
2402359 TCGTTGATGT
* * ** *
2402369 TTTTATTTCTAAAACACCGATTTTCCACCATCGGATATACTCCAATTCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
* * * * *
2402434 TA-GTCTAACCCTAGTCTTATTTCTAAAACATCGATATCTCC-TTTCGCGGATACTCCAATCATG
66 TACTTC-AACCCTAGTTTTATTTCTAAAACATCGAT-TTTCCATATCGGGGATACTCCAA-CATG
* *
2402497 TTATTTTTAAAGGGATACTCCAATCTTGA
128 TTATTTTTAAAGGGATACTCCAACCATGA
* * ** * **
2402526 TTTTATTTCTAAAACACCGATTTGTTCA-CAATCGGGGATACTCTTATCTTGTTATTTTCGAAGG
1 TTTTATTTCTAAAACACCGATTT-TCCATC-ATCGGAGATACTCCAACCCCGTTATTTTCGAAGG
* * * * * * * *
2402590 GATACTCCAACCTTGGTTTTATTTCCAAAACACCAATTTTTCATTACCGGGGATACTCCAACATT
64 GATACTTCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCA-TATCGGGGATACTCCAACA-T
2402655 GTTATTTTTAAAGGGATACTCCAACCATGA
127 GTTATTTTTAAAGGGATACTCCAACCATGA
* * * * * * ** *
2402685 TTTCATTTCTAAAACACCGATTTTTCATCATCGAAGATACTCTAACCCCATTATTTCCGCTGAGA
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
* ***
2402750 TACTTCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCATCATCGGGGACACTCCAACCCCAT
66 TACTTCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCAT-ATCGGGGATACTCCAA-CATGT
** * * ***
2402815 TATTTTCGAGGGGATACTCTAACCCCCA
129 TATTTTTAAAGGGATACTCCAACCATGA
* * *
2402843 TTTTATTTCTAAAACATCGATTTTCCATAATTGGAGATACTCCAACCC
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCC
2402891 TGATTTTATT
Statistics
Matches: 294, Mismatches: 62, Indels: 17
0.79 0.17 0.05
Matches are distributed among these distances:
157 28 0.10
158 198 0.67
159 68 0.23
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (156 bp):
TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
TACTTCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCATATCGGGGATACTCCAACATGTTA
TTTTTAAAGGGATACTCCAACCATGA
Found at i:2402889 original size:79 final size:79
Alignment explanation
Indices: 2402369--2402890 Score: 372
Period size: 79 Copynumber: 6.6 Consensus size: 79
2402359 TCGTTGATGT
* * ** *
2402369 TTTTATTTCTAAAACACCGATTTTCCACCATCGGATATACTCCAATTCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
* * *
2402434 TAGTCTAA-CCCTA
66 TACTCCAACCCCGA
* * * * * ** **
2402447 GTCTTATTTCTAAAACATCGATATCTCC-T-TTCGCG-GATACTCCAATCATGTTATTTTTAAAG
1 -TTTTATTTCTAAAACACCGAT-TTTCCATCATCG-GAGATACTCCAACCCCGTTATTTTCGAAG
* **
2402509 GGATACTCCAATCTTGA
63 GGATACTCCAACCCCGA
* * ** * **
2402526 TTTTATTTCTAAAACACCGATTTGTTCA-CAATCGGGGATACTCTTATCTTGTTATTTTCGAAGG
1 TTTTATTTCTAAAACACCGATTT-TCCATC-ATCGGAGATACTCCAACCCCGTTATTTTCGAAGG
** *
2402590 GATACTCCAACCTTGG
64 GATACTCCAACCCCGA
* * * * * * *** **
2402606 TTTTATTTCCAAAACACCAATTTTTCATTACCGGGGATACTCCAACATTGTTATTTTTAAAGGGA
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
**
2402671 TACTCCAACCATGA
66 TACTCCAACCCCGA
* * * * * * ** *
2402685 TTTCATTTCTAAAACACCGATTTTTCATCATCGAAGATACTCTAACCCCATTATTTCCGCTGAGA
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
* *
2402750 TACTTCAA-CCCTA
66 TACTCCAACCCCGA
* * * * *
2402763 GTTTTATTTCTAAAACATCGATTTTCCATCATCGGGGACACTCCAACCCCATTATTTTCGAGGGG
1 -TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGG
* *
2402828 ATACTCTAACCCCCA
65 ATACTCCAACCCCGA
* * *
2402843 TTTTATTTCTAAAACATCGATTTTCCATAATTGGAGATACTCCAACCC
1 TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCC
2402891 TGATTTTATT
Statistics
Matches: 351, Mismatches: 81, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
77 1 0.00
78 55 0.16
79 226 0.64
80 69 0.20
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTTTCCATCATCGGAGATACTCCAACCCCGTTATTTTCGAAGGGA
TACTCCAACCCCGA
Found at i:2408698 original size:13 final size:13
Alignment explanation
Indices: 2408680--2408704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2408670 TAAAGATCAG
2408680 TGTATCGATACAA
1 TGTATCGATACAA
2408693 TGTATCGATACA
1 TGTATCGATACA
2408705 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2408794 original size:32 final size:32
Alignment explanation
Indices: 2408749--2408819 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2408739 AGCTTCGTAG
* *
2408749 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATCGTATCGACACAAAACTTATGTAT
*
2408781 CGATACATCGTATCGACACAACACTTATGTAT
1 CGATACATCGTATCGACACAAAACTTATGTAT
2408813 CGATACA
1 CGATACA
2408820 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (32 bp):
CGATACATCGTATCGACACAAAACTTATGTAT
Found at i:2409655 original size:58 final size:58
Alignment explanation
Indices: 2409575--2409717 Score: 250
Period size: 58 Copynumber: 2.5 Consensus size: 58
2409565 AAAAAATGAT
* *
2409575 AATGTGCTGATTCATGGTCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGGCGCC
* *
2409633 AATGTGCTGATTCAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGGTGTC
1 AATGTGCTGATTCAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGGCGCC
2409691 AATGTGCTGATTCAAGGCCAGCGACAT
1 AATGTGCTGATTCAAGGCCAGCGACAT
2409718 TGGACTTAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 81 1.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (58 bp):
AATGTGCTGATTCAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGGCGCC
Found at i:2409751 original size:49 final size:49
Alignment explanation
Indices: 2409674--2410001 Score: 395
Period size: 49 Copynumber: 7.1 Consensus size: 49
2409664 CTTAGGAATG
* *
2409674 TTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
2409723 TTAATGATGAAGGTGCCAATATGCTGATTCAGGGCCAACGATATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
2409772 -T--T-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* *
2409815 -T--T-A--AAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * * *
2409858 TTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
2409907 -T--T-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
2409950 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
2409999 TTA
1 TTA
2410002 GAAGGAAATG
Statistics
Matches: 244, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
43 113 0.46
44 2 0.01
45 2 0.01
46 1 0.00
47 2 0.01
48 2 0.01
49 122 0.50
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
TTAATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:2409793 original size:43 final size:44
Alignment explanation
Indices: 2409682--2410006 Score: 377
Period size: 43 Copynumber: 7.1 Consensus size: 44
2409672 TGTTAAAGAT
* *
2409682 GAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAATGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T--T-A
* * *
2409730 TGAAGGTGCCAATATGCTGATTCAGGGCCAACGATATTGGACTTA
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
2409775 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
* * *
2409818 -AAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----A
* * *
2409865 TGAAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTGGACTTA
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
*
2409910 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----A
*
2409957 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
2410002 GAAGG
1 GAAGG
2410007 AAATGCTACC
Statistics
Matches: 245, Mismatches: 19, Indels: 29
0.84 0.06 0.10
Matches are distributed among these distances:
43 117 0.48
44 5 0.02
45 3 0.01
46 1 0.00
47 2 0.01
48 1 0.00
49 116 0.47
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (44 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
Found at i:2409799 original size:21 final size:21
Alignment explanation
Indices: 2409732--2409799 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
2409722 CTTAATGATG
2409732 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
2409753 -AGG-GCCAACGATATTGGACTTA
1 AAGGTGCCAA-TATGCT-GA-TTC
2409775 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
2409796 AAGG
1 AAGG
2409800 CCAGCGACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 8 0.24
22 4 0.12
23 6 0.18
24 5 0.15
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:2409871 original size:92 final size:93
Alignment explanation
Indices: 2409674--2410006 Score: 457
Period size: 92 Copynumber: 3.6 Consensus size: 93
2409664 CTTAGGAATG
* *
2409674 TTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAATGATGAAGGTGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T--T-A-GAAGGTGC
* * * *
2409739 CAATATGCTGATTCAGGGCCAACGATATTGGAC
61 CAATGTGCTGATTCAAGGCCAGCGACATTGGAC
2409772 TT----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGGTGCCAATG
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGGTGCCAATG
* *
2409830 TGCTGATTCAAGGCTAGTGACATTGGAC
66 TGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2409858 TTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTGGACTTA-AAGGTGCCAATG
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGGTGCCAATG
2409922 TGCTGATTCAAGGCCAGCGACATTGGAC
66 TGCTGATTCAAGGCCAGCGACATTGGAC
*
2409950 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGG
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGG
2410007 AAATGCTACC
Statistics
Matches: 211, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
86 36 0.17
88 1 0.00
89 1 0.00
90 1 0.00
91 1 0.00
92 164 0.78
93 4 0.02
94 1 0.00
98 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (93 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGGTGCCAATG
TGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:2409926 original size:135 final size:137
Alignment explanation
Indices: 2409682--2410001 Score: 509
Period size: 135 Copynumber: 2.3 Consensus size: 137
2409672 TGTTAAAGAT
* *
2409682 GAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAATGATGAAGGTGCCAATATGC
1 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2409747 TGATTCAGGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
66 TGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
2409812 GACTT-A
131 GACTTAA
* * *
2409818 -AAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGAAGGTGCTAATATGC
1 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
2409882 TGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
66 TGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
2409947 GACTTAAAGA
131 GACTT--A-A
2409957 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
1 -GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
2410002 GAAGGAAATG
Statistics
Matches: 167, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
135 125 0.75
139 1 0.01
141 41 0.25
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (137 bp):
GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
GACTTAA
Found at i:2410056 original size:33 final size:33
Alignment explanation
Indices: 2410014--2410130 Score: 157
Period size: 33 Copynumber: 3.6 Consensus size: 33
2410004 AGGAAATGCT
2410014 ACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCC
1 ACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCC
* **
2410047 ACCAACTTGTGTGGGC-TTT-AGAGGGGATTGCC
1 ACCAACTTGTGTGGGCTTTTGAAAAAGG-TTGCC
* *
2410079 ACCAACTTGTGTGGACTTTAGAAAAAGGTTGCC
1 ACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCC
*
2410112 ACCGACTTGTGTGGGCTTT
1 ACCAACTTGTGTGGGCTTT
2410131 GAGAAGGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 4 0.06
32 23 0.32
33 40 0.56
34 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (33 bp):
ACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCC
Found at i:2410211 original size:35 final size:35
Alignment explanation
Indices: 2410172--2410548 Score: 235
Period size: 35 Copynumber: 11.6 Consensus size: 35
2410162 CTTAAAAGGG
*
2410172 TGCCACGGAGTTGTAGACTTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
* * *
2410207 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-G
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
** *
2410241 TGCCACAAAGTCGTGGAC-TT---A-G-AAAAGAGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGA-A
* *
2410271 TGCCACTGTA-TTGTGGAC-TTACAAGG-----G--
1 TGCCAC-GGAGTTGTGGACTTTAAAAGGAAAAAGAA
*
2410298 TACCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
2410333 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
* * * *
2410368 TGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAG-G
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
*
2410402 TGCCACGAAGTTGTGGAC-TT---A-G-AAAAGAGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGA-A
* * *
2410432 TGCCACTGAATTGTGGAC-TTACAAGG-----G--
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
* * *
2410459 TGCCCCGGAGTTGGGGACTTTAAATAAGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTTAAA-AGGAAAAAGAA
* * * *
2410495 TGCCACGAAGTTATGGGCTTTAAAAAGAAAAATG--
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAA-GAA
* *
2410529 TGCCATGGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
2410549 AGAAAAGAGA
Statistics
Matches: 269, Mismatches: 41, Indels: 65
0.72 0.11 0.17
Matches are distributed among these distances:
26 2 0.01
27 27 0.10
28 21 0.08
29 4 0.01
30 36 0.13
31 1 0.00
33 7 0.03
34 49 0.18
35 102 0.38
36 20 0.07
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (35 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
Found at i:2410285 original size:126 final size:127
Alignment explanation
Indices: 2410142--2410383 Score: 380
Period size: 126 Copynumber: 1.9 Consensus size: 127
2410132 AGAAGGAGAA
*
2410142 AGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTTAAAAGGAAAAAGAA
1 AGATGCCATGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTAGACTTTAAAAGGAAAAAGAA
* *
2410207 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACAAAGTCGTGGACTTAGAAAAG
66 TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAATGCCACAAAGTCGTGGACTTAGAAAAG
* * *
2410268 AGATGCCACTGTA-TTGTGGACTTACAAGGGTACCACGGAGTTGTGGACTTTAAAAGGAAAAAGA
1 AGATGCCA-TGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTAGACTTTAAAAGGAAAAAGA
* * *
2410332 ATGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGG
65 ATGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAATGCCACAAAGTCGTGG
2410384 GCTTTAAAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
126 88 0.84
127 17 0.16
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (127 bp):
AGATGCCATGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTAGACTTTAAAAGGAAAAAGAA
TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAATGCCACAAAGTCGTGGACTTAGAAAAG
Found at i:2410354 original size:161 final size:162
Alignment explanation
Indices: 2410172--2410526 Score: 586
Period size: 161 Copynumber: 2.2 Consensus size: 162
2410162 CTTAAAAGGG
* *
2410172 TGCCACGGAGTTGTAGACTTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
*
2410237 AAGGTGCCACAAAGTCGTGGACTTAGAAAAGAGATGCCACTGTATTGTGGACTTACAAGGGTACC
66 AAGGTGCCACAAAGTCGTGGACTTAGAAAAGAGATGCCACTGAATTGTGGACTTACAAGGGTACC
* *
2410302 ACGGAGTTGTGGACTTTAAA-AGGAAAAAGAA
131 ACGGAGTTGGGGACTTTAAATAAGAAAAAGAA
2410333 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
* * *
2410398 AAGGTGCCACGAAGTTGTGGACTTAGAAAAGAGATGCCACTGAATTGTGGACTTACAAGGGTGCC
66 AAGGTGCCACAAAGTCGTGGACTTAGAAAAGAGATGCCACTGAATTGTGGACTTACAAGGGTACC
*
2410463 CCGGAGTTGGGGACTTTAAATAAGAAAAAGAA
131 ACGGAGTTGGGGACTTTAAATAAGAAAAAGAA
* * * *
2410495 TGCCACGAAGTTATGGGCTTTAAAAAGAAAAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAA
2410527 TGTGCCATGG
Statistics
Matches: 180, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
161 142 0.79
162 38 0.21
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (162 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
AAGGTGCCACAAAGTCGTGGACTTAGAAAAGAGATGCCACTGAATTGTGGACTTACAAGGGTACC
ACGGAGTTGGGGACTTTAAATAAGAAAAAGAA
Found at i:2410491 original size:127 final size:126
Alignment explanation
Indices: 2410333--2410581 Score: 372
Period size: 127 Copynumber: 2.0 Consensus size: 126
2410323 GGAAAAAGAA
* * *
2410333 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGGAGTTGGGGACTTTAAAAAGAAAAAGAATGCCACGAAGTTATGGGCTTTAAAAAGAAA
* * * *
2410398 AAGGTGCCACGAAGTTGTGGACTTAGAAAAGAGATGCCACTGAATTGTGGACTTACAAGGG
66 AAGGTGCCACGAAGTCGTGGACTTAGAAAAGAGACGCCACTAAATTATGGACTTACAAGGG
*
2410459 TGCCCCGGAGTTGGGGACTTTAAATAAGAAAAAGAATGCCACGAAGTTATGGGCTTTAAAAAGAA
1 TGCCACGGAGTTGGGGACTTTAAA-AAGAAAAAGAATGCCACGAAGTTATGGGCTTTAAAAAGAA
* * * **
2410524 AAATGTGCCATGGAGTCGTGGACTTAGAAAAGAGACGCCTTTAAATTATGGACTTACA
65 AAAGGTGCCACGAAGTCGTGGACTTAGAAAAGAGACGCCACTAAATTATGGACTTACA
2410582 GGAAAAAAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
126 22 0.20
127 87 0.80
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (126 bp):
TGCCACGGAGTTGGGGACTTTAAAAAGAAAAAGAATGCCACGAAGTTATGGGCTTTAAAAAGAAA
AAGGTGCCACGAAGTCGTGGACTTAGAAAAGAGACGCCACTAAATTATGGACTTACAAGGG
Found at i:2410597 original size:161 final size:158
Alignment explanation
Indices: 2410172--2410612 Score: 399
Period size: 161 Copynumber: 2.7 Consensus size: 158
2410162 CTTAAAAGGG
* * * * * * *
2410172 TGCCACGGAGTTGTAGACTTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGAAGTTATGGACTTTAAAAAGAAAAAG-ATGCCACGAAGTCGTGGACTTTAAAAAG---
** ** *
2410237 AAGGTGCCAC-AAAGTCGTGGACTTAGAAAAGA-GATGCCACTGTATTGTGGACTTACAAGGGTA
62 AAGACGCCACGAAA-TTATGGACTTAGAAAAAAGGATGCCACTGTATTGTGGACTTACAAGGGTA
* *
2410300 CCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
126 CCACGGAGTTGGGGACTTTAAAAAGAAAAAGAA
* * * * *
2410333 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGAAGTTATGGACTTTAAAAAGAAAAAG-ATGCCACGAAGTCGTGGACTTTAAAAAG---
** * * * * *
2410398 AAGGTGCCACGAAGTTGTGGACTTAGAAAAGA-GATGCCACTGAATTGTGGACTTACAAGGGTGC
62 AAGACGCCACGAAATTATGGACTTAGAAAAAAGGATGCCACTGTATTGTGGACTTACAAGGGTAC
*
2410462 CCCGGAGTTGGGGACTTTAAATAAGAAAAAGAA
127 CACGGAGTTGGGGACTTTAAA-AAGAAAAAGAA
* * *
2410495 TGCCACGAAGTTATGGGCTTTAAAAAGAAAAATG-TGCCATGGAGTCGTGGAC-TTAGAAAAG-A
1 TGCCACGAAGTTATGGACTTTAAAAAGAAAAA-GATGCCACGAAGTCGTGGACTTTA-AAAAGAA
*** *
2410557 GACGCCTTTAAATTATGGACTTACAGGAAAAAAGGATGCCACTGTGTTGTGGACTT
64 GACGCCACGAAATTATGGACTT--A-GAAAAAAGGATGCCACTGTATTGTGGACTT
2410613 TGAAGGAAAG
Statistics
Matches: 245, Mismatches: 27, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
157 16 0.07
159 1 0.00
160 9 0.04
161 178 0.73
162 40 0.16
163 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (158 bp):
TGCCACGAAGTTATGGACTTTAAAAAGAAAAAGATGCCACGAAGTCGTGGACTTTAAAAAGAAGA
CGCCACGAAATTATGGACTTAGAAAAAAGGATGCCACTGTATTGTGGACTTACAAGGGTACCACG
GAGTTGGGGACTTTAAAAAGAAAAAGAA
Found at i:2410651 original size:64 final size:62
Alignment explanation
Indices: 2410583--2410707 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 62
2410573 GGACTTACAG
* * *
2410583 GAAAAAAGGA-TGCCACTGTGTTGTGGACTTTGAAGGAAAGAGATGCCACGGAGTTGTGGACTTA
1 GAAAAAA-GATTGCCACTGAGTTGTGGACTTTGAA-GAAA-AAATGCCACGGAGTCGTGGACTTA
* * *
2410647 GAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAATGCCACTGAGTCGTGGACTT
1 GAAAAAAGATTGCCACTGAGTTGTGGACTTTGAAGAAAAAATGCCACGGAGTCGTGGACTT
2410708 TGGAGAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
62 20 0.37
63 6 0.11
64 28 0.52
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (62 bp):
GAAAAAAGATTGCCACTGAGTTGTGGACTTTGAAGAAAAAATGCCACGGAGTCGTGGACTTA
Found at i:2410668 original size:31 final size:32
Alignment explanation
Indices: 2410586--2410722 Score: 167
Period size: 31 Copynumber: 4.3 Consensus size: 32
2410576 CTTACAGGAA
*
2410586 AAAAG-GATGCCACTGTGTTGTGGACTTTGAAG
1 AAAAGAGATGCCACTGAGTTGTGGACTTTG-AG
* *
2410618 GAAAGAGATGCCACGGAGTTGTGGAC-TT-AG
1 AAAAGAGATGCCACTGAGTTGTGGACTTTGAG
2410648 AAAAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGAGA-TGCCACTGAGTTGTGGACTTT-GAG
*
2410682 AAAA-A-ATGCCACTGAGTCGTGGACTTTGGAG
1 AAAAGAGATGCCACTGAGTTGTGGACTTT-GAG
2410713 AAAAGAGATG
1 AAAAGAGATG
2410723 TGAAGAATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.10
31 45 0.49
32 10 0.11
33 22 0.24
34 6 0.07
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.23
Consensus pattern (32 bp):
AAAAGAGATGCCACTGAGTTGTGGACTTTGAG
Found at i:2415825 original size:20 final size:21
Alignment explanation
Indices: 2415791--2415830 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2415781 AAAAATGAAT
2415791 AAAAAGGGAACGACAAAGATC
1 AAAAAGGGAACGACAAAGATC
* *
2415812 AAAAAGTGAA-GACATAGAT
1 AAAAAGGGAACGACAAAGAT
2415831 ACCCATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.10, G:0.23, T:0.10
Consensus pattern (21 bp):
AAAAAGGGAACGACAAAGATC
Found at i:2417332 original size:62 final size:62
Alignment explanation
Indices: 2417023--2417337 Score: 402
Period size: 62 Copynumber: 5.1 Consensus size: 62
2417013 CCCTTTTAGG
* *
2417023 CCTTTTAGTCCTCAAAGAGCAGGATC-CCTTTTTCTTTTCAAAGCTCACACGAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAGGA-CGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * *
2417085 CCCTTTAGTCCTCAAACAGTAGGACACCTTTTTCTTTTCAAAGCGCACATGAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
2417147 CCCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-AAAGCCCACATGAGTTCGCGGCA
1 -CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* **
2417209 CCTTTTAGTCCTCAAAGAGTAGGACG-CTTTTTCTTTTCAAAGCCCACAAAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
2417270 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
2417332 CATTTT
1 CCTTTT
2417338 TAGTTGTGGA
Statistics
Matches: 220, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
60 11 0.05
61 68 0.31
62 109 0.50
63 32 0.15
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (62 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:2417650 original size:97 final size:97
Alignment explanation
Indices: 2417484--2417673 Score: 362
Period size: 97 Copynumber: 2.0 Consensus size: 97
2417474 TAGTTGACTT
*
2417484 TACAAATTAGGAAATAAATCAGTAACAGAATATTTCCTAGCTGTACAATAGCCATACAGTATTTC
1 TACAAATTAGGAAATAAATCAGTAACAAAATATTTCCTAGCTGTACAATAGCCATACAGTATTTC
2417549 TTAATAAAGAAATCTATATTTTCCAACAACTC
66 TTAATAAAGAAATCTATATTTTCCAACAACTC
*
2417581 TACAAATTAGGAAATAAATCAGTAACAAAATATTTCCTAGCTGTACAATAGCCATATAGTATTTC
1 TACAAATTAGGAAATAAATCAGTAACAAAATATTTCCTAGCTGTACAATAGCCATACAGTATTTC
2417646 TTAATAAAGAAATCTATATTTTCCAACA
66 TTAATAAAGAAATCTATATTTTCCAACA
2417674 CTCCCCCTCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (97 bp):
TACAAATTAGGAAATAAATCAGTAACAAAATATTTCCTAGCTGTACAATAGCCATACAGTATTTC
TTAATAAAGAAATCTATATTTTCCAACAACTC
Found at i:2421339 original size:97 final size:97
Alignment explanation
Indices: 2421169--2421362 Score: 343
Period size: 97 Copynumber: 2.0 Consensus size: 97
2421159 TCAGTAGTTG
* *
2421169 ACTCTACAAATTAAGAAATAAATCAGTAACAGAATATTTCCTAGCTGTACAATAGCCATACTGTA
1 ACTCTACAAATTAAGAAATAAATCAGTAACAGAATATTTCCTAGCTGTAAAATAGCCATACAGTA
*
2421234 TTTTTTAATAAAGAAATCTATATTTTCCAACA
66 TTTCTTAATAAAGAAATCTATATTTTCCAACA
*
2421266 ACTCTACAAATTAGGAAATAAATCAGTAACAGAATATTTCCTAGCTGTAAAATAGCCATACAGTA
1 ACTCTACAAATTAAGAAATAAATCAGTAACAGAATATTTCCTAGCTGTAAAATAGCCATACAGTA
*
2421331 TTTCTTAATAAAGAAATCTATATTTTCTAACA
66 TTTCTTAATAAAGAAATCTATATTTTCCAACA
2421363 TTAATCCTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (97 bp):
ACTCTACAAATTAAGAAATAAATCAGTAACAGAATATTTCCTAGCTGTAAAATAGCCATACAGTA
TTTCTTAATAAAGAAATCTATATTTTCCAACA
Found at i:2421464 original size:62 final size:61
Alignment explanation
Indices: 2421367--2421813 Score: 349
Period size: 62 Copynumber: 7.4 Consensus size: 61
2421357 CTAACATTAA
* * ** * * * *
2421367 TCCTCAAAGGGCAAGACGTTTTTCGTTTTCAAAGCCCACACAAGCTGGTGGCACTTTTTTAG
1 TCCTCAAAGAGCAGGACACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTTAG
** * *
2421429 TCCTCAAAGAATATGACACTTTTCCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* ** * * *
2421490 TCCTCAAAGAGCAAGACA-TTTTTTTCTTTTAAAGCCCACACGAGTTGGTGACACATTTTAG
1 TCCTCAAAGAGCAGGACACTTTTCCT-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * * *
2421551 TCTTCAAAGAGTAGGATGC-CTTTTTC-TTTCAAAGCCCCCACAAGTTGGTGGCACCTTTTTAG
1 TCCTCAAAGAGCAGGA--CACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTTAG
** * * * *
2421613 TCCTCAAA-A--AGGA-A-GATGCCTTTTTTAAAGACCACACGAA-TTAGTGGCACCTTCTAG
1 TCCTCAAAGAGCAGGACACTTTTCC-TTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTTAG
* * * * *
2421670 CCCTCAAAGAGTAGGATC-CCTTTCC-TTTTAAAGCCCATACGAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGA-CACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * * * * *
2421730 TCCTTAAATAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGAC-ACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* *
2421792 TCTTCAAAGAACAGGACACTTT
1 TCCTCAAAGAGCAGGACACTTT
2421814 CCTCATTTTT
Statistics
Matches: 303, Mismatches: 63, Indels: 39
0.75 0.16 0.10
Matches are distributed among these distances:
56 2 0.01
57 12 0.04
58 23 0.08
59 8 0.03
60 48 0.16
61 99 0.33
62 105 0.35
63 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (61 bp):
TCCTCAAAGAGCAGGACACTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
Found at i:2421520 original size:61 final size:60
Alignment explanation
Indices: 2421367--2421813 Score: 368
Period size: 61 Copynumber: 7.4 Consensus size: 60
2421357 CTAACATTAA
* * * *
2421367 TCCTCAAAGGGCAAGAC-GTTTTTCGTTTTCAAAGCCCACACAAGCTGGTGGCACTTTTTTAG
1 TCCTCAAAGAGCAAGACACTTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCAC-CTTTTAG
** * * *
2421429 TCCTCAAAGAATATGACACTTTTCCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAAGACACTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * *
2421490 TCCTCAAAGAGCAAGACATTTTTTTCTTTTAAAGCCCACACGAGTTGGTGACACATTTTAG
1 TCCTCAAAGAGCAAGACA-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * * *
2421551 TCTTCAAAGAGTAGGATGC-CTTTTTCTTTCAAAGCCCCCACAAGTTGGTGGCACCTTTTTAG
1 TCCTCAAAGAGCAAGA--CACTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTTAG
* * ** * * * *
2421613 TCCTCAAAAAGGAAGATGC--CTT-TTTTAAAGACCACACGAA-TTAGTGGCACCTTCTAG
1 TCCTCAAAGAGCAAGACACTTTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTTAG
* * * * * * *
2421670 CCCTCAAAGAGTAGGATC-CCTTTCCTTTTAAAGCCCATACGAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAAGA-CACTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * * *
2421730 TCCTTAAATAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAAGAC-ACTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * *
2421792 TCTTCAAAGAACAGGACACTTT
1 TCCTCAAAGAGCAAGACACTTT
2421814 CCTCATTTTT
Statistics
Matches: 304, Mismatches: 66, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
57 18 0.06
58 22 0.07
59 7 0.02
60 39 0.13
61 105 0.35
62 103 0.34
63 10 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (60 bp):
TCCTCAAAGAGCAAGACACTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
Found at i:2421784 original size:122 final size:122
Alignment explanation
Indices: 2421367--2421801 Score: 456
Period size: 122 Copynumber: 3.6 Consensus size: 122
2421357 CTAACATTAA
** * * * *
2421367 TCCTCAAAGGGCAAGACG--TTTTTCGTTTTCAAAGCCCACACAAGCTGGTGGCACTTTTTTAGT
1 TCCTCAAAAAGCAAGACGCCTTTTTC-TTTTTAAAGCCCACACGAGTTGGTGGCAC-ATTTTAGT
* * *
2421430 CCTCAAAGAATATGA-CACTTTTCCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAG
64 CCTCAAAGAGTAGGATC-CTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* *** * *
2421490 TCCTCAAAGAGCAAGACATTTTTTTC-TTTTAAAGCCCACACGAGTTGGTGACACATTTTAGTCT
1 TCCTCAAAAAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACATTTTAGTCC
* * *
2421554 TCAAAGAGTAGGATGCCTTTTTCTTTCAAAGCCCCCACAAGTTGGTGGCACCTTTTTAG
66 TCAAAGAGTAGGAT-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTTAG
* * * * * * * *
2421613 TCCTCAAAAAGGAAGATGCC----T-TTTTTAAAGACCACACGAATTAGTGGCACCTTCTAGCCC
1 TCCTCAAAAAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACATTTTAGTCC
* * *
2421673 TCAAAGAGTAGGATCCCTTTCCTTTTAAAGCCCATACGAGTTGGTGGCACCTTTTAG
66 TCAAAGAGTAGGATCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * *
2421730 TCCTTAAATAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCT
1 TCCTCAAAAAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACATTTTAGTCC
2421795 TCAAAGA
66 TCAAAGA
2421802 ACAGGACACT
Statistics
Matches: 256, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
117 22 0.09
118 31 0.12
119 45 0.18
121 1 0.00
122 84 0.33
123 66 0.26
124 1 0.00
125 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (122 bp):
TCCTCAAAAAGCAAGACGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACATTTTAGTCC
TCAAAGAGTAGGATCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
Found at i:2422267 original size:21 final size:21
Alignment explanation
Indices: 2422241--2422280 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2422231 AGCTACTGCC
2422241 AAGGAAATGTATCGATACAAT
1 AAGGAAATGTATCGATACAAT
2422262 AAGGAAATGTATCGATACA
1 AAGGAAATGTATCGATACA
2422281 TTGTATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (21 bp):
AAGGAAATGTATCGATACAAT
Found at i:2422287 original size:13 final size:13
Alignment explanation
Indices: 2422269--2422294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2422259 AATAAGGAAA
2422269 TGTATCGATACAT
1 TGTATCGATACAT
2422282 TGTATCGATACAT
1 TGTATCGATACAT
2422295 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2424706 original size:51 final size:50
Alignment explanation
Indices: 2424651--2424786 Score: 193
Period size: 51 Copynumber: 2.7 Consensus size: 50
2424641 TTAAGTTTCT
2424651 TAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACA
1 TAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACA
*
2424701 CTAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA
1 -TAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA
* * *
2424752 TCGATTTTCCTTTAATCGGGGATACTCCAACCCCG
1 T-AATTTTTC-ATAATCGGGGATACTCCAACCCCG
2424787 TTAATCATCG
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
50 1 0.01
51 50 0.65
52 26 0.34
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (50 bp):
TAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA
Found at i:2424891 original size:80 final size:79
Alignment explanation
Indices: 2424717--2425082 Score: 372
Period size: 79 Copynumber: 4.6 Consensus size: 79
2424707 TTTCACAATC
* * * * *
2424717 GGGGATACTCCAACCCCGGTTTTATT-TTCAAAACATCGATTT-TCCTTTAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGGCTTTATTCCT-AAAATATCAATTTCT-C-ATAATCGGGGATACTCC
**
2424780 AACCCCGTTAATCATC--
63 AACCCCGTT-ATTTTCGA
**
2424796 GGGGATACTCCAACCCCTGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCC-GGCTTTATTCCTAAAATATCAATTTCTCATAATCGGGGATACTCCAA
2424861 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* * * *
2424876 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATTGGGGATAGTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATCAATTTCTCATAATCGGGGATACTCCAAC
*
2424941 CCCGTTA-TCTCTGA
66 CCCGTTATTTTC-GA
* * *
2424955 GGGGATACTCCAACCCCGGTTTTATTTCC--AAATCATCAATTTTTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGGCTTTA-TTCCTAAAAT-ATCAA-TTTCTCATAATCGGGGATACTCC
*
2425018 AACCCCGTTATTTTCAA
63 AACCCCGTTATTTTCGA
* * *
2425035 GGGGATACTCTAACCCC-GTTTCTATCTCC-AAAATATTAAATTTCTCAT
1 GGGGATACTCCAACCCCGGCTT-TAT-TCCTAAAATA-TCAATTTCTCAT
2425083 CGGGAAATAT
Statistics
Matches: 248, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
78 11 0.04
79 127 0.51
80 98 0.40
81 12 0.05
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:2425007 original size:159 final size:157
Alignment explanation
Indices: 2424717--2425082 Score: 431
Period size: 159 Copynumber: 2.3 Consensus size: 157
2424707 TTTCACAATC
* ** *
2424717 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACATCGATTT-TCCTTTAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAATATTAATTTCT-C-ATAATCGGGGATACTCC
** *
2424780 AACCCCGTTAATCATCGGGGATACTCCAACCCCTGGCTTTATTCCTAAAATATTGATTTCTCATA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCTGGCTTTATTCC-AAAATATCAATTTCTCACA
*
2424845 ATCGGGGATACTCCAACCCCGTTATTTTCGA
127 ATCGGGGATACTCCAACCCCGTTATTTTCAA
* * *
2424876 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATTGGGGATAGTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
* *
2424941 CCCGTT-ATC-TCTGAGGGGATACTCCAACCCC-GGTTTTATTTCC-AAATCATCAATTTTTTCA
66 CCCGTTAATCATC---GGGGATACTCCAACCCCTGGCTTTA-TTCCAAAAT-ATCAA-TTTCTCA
2425002 CAATCGGGGATACTCCAACCCCGTTATTTTCAA
125 CAATCGGGGATACTCCAACCCCGTTATTTTCAA
* * *
2425035 GGGGATACTCTAACCCC-GTTTCTATCTCCAAAATATTAAATTTCTCAT
1 GGGGATACTCCAACCCCGGTTT-TATTTCTAAAATATT-AATTTCTCAT
2425083 CGGGAAATAT
Statistics
Matches: 180, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
156 2 0.01
157 7 0.04
158 35 0.19
159 124 0.69
160 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (157 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCTGGCTTTATTCCAAAATATCAATTTCTCACAATCG
GGGATACTCCAACCCCGTTATTTTCAA
Found at i:2426800 original size:13 final size:13
Alignment explanation
Indices: 2426782--2426808 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2426772 ACAAATAGTA
2426782 AATGTATCGATAC
1 AATGTATCGATAC
2426795 AATGTATCGATAC
1 AATGTATCGATAC
2426808 A
1 A
2426809 TGCCTAAAAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2428247 original size:79 final size:79
Alignment explanation
Indices: 2428113--2428550 Score: 418
Period size: 79 Copynumber: 5.5 Consensus size: 79
2428103 TCATTGATGT
* ** * * * ***
2428113 TTTTATTTCTAGAACACTGATTTTTCACCATCGGGTATACTCCAACCCTGCTATTTCTGAAAAGA
1 TTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
2428178 TACTTCAACTCCAG
66 TACTTCAACTCCGG
* * * * * *
2428192 TTTTATTTTTAAAACACCAATTTTTCATCATTGGGGATATTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
* *
2428257 TACTCCAACTTCGG
66 TACTTCAACTCCGG
* * * *
2428271 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACTCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
2428336 TAC-TCTAAC-CCTGG
66 TACTTC-AACTCC-GG
* * *
2428350 TTTTATTT-TCAAAACACCAATTTTTCACCATCGAGGATACTCCAACGCCGTTATTTTTGAGGGG
1 TTTTATTTCT-AAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
*
2428414 ATAC-TCTAAC-CCTAG
65 ATACTTC-AACTCC-GG
* * * * * * * * *
2428429 TTTAATTTCTAAAACATCGATTTTCCCACAATCAGGGATACTCCAATCCCGTTATTTTTGAAGGG
1 TTTTATTTCTAAAACACCAATTTT-TCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
* * *
2428494 ATACTCCAACCCCGA
65 ATACTTCAACTCCGG
* * *
2428509 TTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTC
1 TTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTC
2428551 TAATCTCGGT
Statistics
Matches: 295, Mismatches: 57, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
78 3 0.01
79 227 0.77
80 62 0.21
81 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
TACTTCAACTCCGG
Found at i:2428404 original size:158 final size:157
Alignment explanation
Indices: 2428113--2428550 Score: 526
Period size: 158 Copynumber: 2.8 Consensus size: 157
2428103 TCATTGATGT
* * * * **
2428113 TTTTATTTCTAGAACA-CTGATTTTTCACCATCGGGTATACTCCAAC-CCTGCTATTTCTGAAAA
1 TTTTATTTCTAAAACATC-GATTTTTCACAATCGGGGATACTCCAACTCC-GTTATTTCTGAAGG
* * * * * *
2428176 GATACT-TCAACTCCAGTTTTATTTTTAAAACACCAATTTTTCATCATTGGGGATATTCCAACCC
64 GATACTCT-AAC-CCGGTTTTATTTTCAAAACACCAATTTTTCACCATCGAGGATACTCCAACCC
* *
2428240 CATTATTTTTGAGGGGATACTCCAA-CTTCGG
127 CATTATTTTTGAGGGGATACTCCAACCCT-AG
*
2428271 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACTCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACTCCGTTATTTCTGAAGGGA
* *
2428336 TACTCTAACCCTGGTTTTATTTTCAAAACACCAATTTTTCACCATCGAGGATACTCCAACGCCGT
66 TACTCTAACCC-GGTTTTATTTTCAAAACACCAATTTTTCACCATCGAGGATACTCCAACCCCAT
*
2428401 TATTTTTGAGGGGATACTCTAACCCTAG
130 TATTTTTGAGGGGATACTCCAACCCTAG
* * * *
2428429 TTTAATTTCTAAAACATCGATTTTCCCACAATCAGGGATACTCCAA-TCCCGTTATTTTTGAAGG
1 TTTTATTTCTAAAACATCGATTTT-TCACAATCGGGGATACTCCAACT-CCGTTATTTCTGAAGG
* * * *
2428493 GATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTC
64 GATACTCTAA-CCCGGTTTTATTTTCAAAACACCAATTTTTCACCATCGAGGATACTC
2428551 TAATCTCGGT
Statistics
Matches: 245, Mismatches: 27, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
157 2 0.01
158 151 0.62
159 89 0.36
160 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (157 bp):
TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACTCCGTTATTTCTGAAGGGA
TACTCTAACCCGGTTTTATTTTCAAAACACCAATTTTTCACCATCGAGGATACTCCAACCCCATT
ATTTTTGAGGGGATACTCCAACCCTAG
Found at i:2428673 original size:128 final size:131
Alignment explanation
Indices: 2428429--2428681 Score: 320
Period size: 128 Copynumber: 1.9 Consensus size: 131
2428419 CTAACCCTAG
* *
2428429 TTTAATTTCTAAAACATCGATTTTCCCACAATCAGGGATACTCCAATCCCGTTATTTTTGAAGGG
1 TTTAATTTCTAAAACATCGATTTT-CCACAATCAGGGATACTCCAACCCCGTTATTTCTGAAGGG
*
2428494 ATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTCTAATCTCG
65 ATACTCCAACCCAGATTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTCTAATCTCG
2428559 GT
130 GT
* * * *
2428561 TTTATTTTC-AAAACATCGATTTT-CACCAT-TGTGGATACTCGAACCCCGTTATTTCT-AAGTG
1 TTTAATTTCTAAAACATCGATTTTCCACAATCAG-GGATACTCCAACCCCGTTATTTCTGAAG-G
* ** * *
2428622 GATACT-CAACTCTAG-TTTTATTTTTAAAATATCGATTTTTCACCATCGAGGATACTCTAA
64 GATACTCCAAC-CCAGATTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTCTAA
2428682 CCCCATTATT
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
128 49 0.46
129 35 0.33
131 14 0.13
132 8 0.08
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (131 bp):
TTTAATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCTGAAGGGA
TACTCCAACCCAGATTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTCTAATCTCGG
T
Found at i:2428748 original size:79 final size:77
Alignment explanation
Indices: 2428580--2428920 Score: 344
Period size: 79 Copynumber: 4.3 Consensus size: 77
2428570 AAAACATCGA
* * * * * * *
2428580 TTTTCACCATTGTGGATACTCGAACCCCGTTA-TTTCTAAGTGGATACT-CAACTCTAGTTTTAT
1 TTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAG-GGATACTCCAACCCGA-TTTTAT
* *
2428643 TTTTAAAATATCGAT
64 TTCTGAAATAT-GAT
* * * *
2428658 TTTTCACCATCGAGGATACTCTAACCCCATTATTTTCGAGGGGATACTTCAACCTCGATTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACC-CGATTTTATT
2428723 TCTGAAATACTGAT
65 TCTGAAATA-TGAT
* * *
2428737 TTTCCACCATCGGGGATACTCCAACCCTATTATTTTCGAAGGGATACTCCAATCCCGGTTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAA-CCCGATTTTATT
*
2428802 TCTGAAACAATGAT
65 TCTGAAA-TATGAT
* * * * * *
2428816 TTTTCATCATCGGGGATACTCCAATCTCGTTATTTTCGAAGAGATACTCCAGTCCCGATTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCA-ACCCGATTTTATT
* * *
2428881 TTTGAAACATCAAT
65 TCTGAAATAT-GAT
*
2428895 TTTTCACAATCGGGGATACTCCAACC
1 TTTTCACCATCGGGGATACTCCAACC
2428921 TTGATTTTAT
Statistics
Matches: 222, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
78 37 0.17
79 179 0.81
80 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (77 bp):
TTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCGATTTTATTT
CTGAAATATGAT
Found at i:2428927 original size:51 final size:51
Alignment explanation
Indices: 2428872--2428972 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
2428862 CTCCAGTCCC
** * *
2428872 GATTTTATTTTTGAAACATC-AATTTTTCACAATCGGGGATACTCCAACCTT
1 GATTTTATTTTCAAAACACCGAA-TTTTCACAATCGAGGATACTCCAACCTT
* *
2428923 GATTTTATTTTCAAAACACCGAATTTTCACCATCGAGGATACTTCAACCT
1 GATTTTATTTTCAAAACACCGAATTTTCACAATCGAGGATACTCCAACCT
2428973 CATTATTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (51 bp):
GATTTTATTTTCAAAACACCGAATTTTCACAATCGAGGATACTCCAACCTT
Found at i:2429776 original size:22 final size:22
Alignment explanation
Indices: 2429748--2429790 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2429738 GTTCATCACA
2429748 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
2429770 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
2429791 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:2434585 original size:28 final size:26
Alignment explanation
Indices: 2434549--2434630 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 26
2434539 AGAATAATAA
2434549 TTTAGAAATAAATATATTTTTAATAAAT
1 TTTA-AAATAAATATATTTTT-ATAAAT
*
2434577 TTTACAAATAAATAAATATTTT-TAAAT
1 TTTA-AAATAAATATAT-TTTTATAAAT
* *
2434604 CTTAAAATTAACTATATTTTTCATAAA
1 TTTAAAA-TAAATATATTTTT-ATAAA
2434631 AATTTAGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
26 7 0.16
27 15 0.33
28 19 0.42
29 4 0.09
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (26 bp):
TTTAAAATAAATATATTTTTATAAAT
Found at i:2440575 original size:2 final size:2
Alignment explanation
Indices: 2440568--2440596 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2440558 TTTGGTTCAA
2440568 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2440597 AGCTCTGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2443211 original size:51 final size:51
Alignment explanation
Indices: 2443089--2443212 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
2443079 AATTATCTCT
* *
2443089 AATTAAATTAAATTAATTTAGAGATAAATAAAAGAGTTTTGTCTATAATTA
1 AATTAAATTAAATTAATTAAGAGATAAATAAAAGAGTTTTATCTATAATTA
* ** *
2443140 AATTAATTTAAATTGTTTAAGAGATAAATAAAATAGTTTTATCTATAATTA
1 AATTAAATTAAATTAATTAAGAGATAAATAAAAGAGTTTTATCTATAATTA
2443191 AATTAAATTAAATTAATTAAGA
1 AATTAAATTAAATTAATTAAGA
2443213 TATGATTCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (51 bp):
AATTAAATTAAATTAATTAAGAGATAAATAAAAGAGTTTTATCTATAATTA
Found at i:2452552 original size:129 final size:131
Alignment explanation
Indices: 2452300--2452554 Score: 315
Period size: 129 Copynumber: 2.0 Consensus size: 131
2452290 AGTATCCCCA
* * ***
2452300 ATGGTGGAAAAATCAATATTTTGAAAATAAAATCGAGGTTGGAGTATCCTCTTGGGAATAACGGG
1 ATGGTGGAAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTTACAAATAACGGG
* * *
2452365 ATTGGAGTATCCTCGAGATAAAAAATTTAATGTTTTAAAAGTGAAAACGGGGTTGGAGTATTCTT
66 ATTGGAGTATCCTCGAGATAAAAAATTCAATGTTTTAAAAGTGAAAACAGGGTCGGAGTATTCTT
2452430 G
131 G
2452431 ATGGTGG-AAAATCAATATTTT-AGAAAT-AAACCGAGGTTGGAGTATCCCCTTACAAATAACGG
1 ATGGTGGAAAAATCAATATTTTGA-AAATAAAACCGAGGTTGGAGTATCCCCTTACAAATAACGG
* * ** *
2452493 GGTTGGAGTATCCTCGATGGTGGAAAA-TCGATGTTTTAGAAA-T-AAAACTAGGGTCGGAGTAT
65 GATTGGAGTATCCTCGA-GATAAAAAATTCAATGTTTTA-AAAGTGAAAAC-AGGGTCGGAGTAT
2452555 CCATTCAGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
128 5 0.05
129 68 0.64
130 27 0.25
131 7 0.07
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (131 bp):
ATGGTGGAAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTTACAAATAACGGG
ATTGGAGTATCCTCGAGATAAAAAATTCAATGTTTTAAAAGTGAAAACAGGGTCGGAGTATTCTT
G
Found at i:2452583 original size:79 final size:79
Alignment explanation
Indices: 2452414--2452846 Score: 412
Period size: 79 Copynumber: 5.6 Consensus size: 79
2452404 AGTGAAAACG
* * * * *
2452414 GGGTTGGAGTATTCTTGATGGTGGAAAATCAATATTTTAGAAATAAACCGA-GGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAACTAGGGTTGGAGTAT-C
* *
2452478 CCTT-ACAAATAACG
65 CCTTCAGAAATAACA
* *
2452492 GGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTTTTAGAAATAAAACTAGGGTCGGAGTATCC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
* *
2452557 ATTCAGAAATAATA
66 CTTCAGAAATAACA
* * * * *
2452571 GGGTTAGAGTATCCCCGATGGTGGATAATCGATG---T-----TAAAACTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
*
2452628 CCTCAGAAATAACA
66 CTTCAGAAATAACA
* * * * * *
2452642 GGGTTGGAGTATCCTCGATGGTAGAAAATTAATGTTTCAAAAATAAAA-TCGGGGTTAGAGTATC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAACT-AGGGTTGGAGTATC
*
2452706 CTCTT-AGAAATAGC-
65 C-CTTCAGAAATAACA
* * * * * *
2452720 GATGTTGGGGTATCC-CTGATGGTGAAAAATCATTGTTTTAGAAATAAAATTAGGGTTAGAGTAT
1 G-GGTTGGAGTATCCTC-GATGGTGGAAAATCAATGTTTTAGAAATAAAACTAGGGTTGGAGTAT
*
2452784 CCTCTTGA-AAATAACA
64 CC-CTTCAGAAATAACA
*
2452800 GGGTTGGAGTAT-CTCGATAGTGGAAAATCAATGTTTTAGAAATAAAA
1 GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAA
2452847 TTGGGGGTCG
Statistics
Matches: 293, Mismatches: 44, Indels: 36
0.79 0.12 0.10
Matches are distributed among these distances:
71 59 0.20
76 1 0.00
78 82 0.28
79 146 0.50
80 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
CTTCAGAAATAACA
Found at i:2452677 original size:71 final size:71
Alignment explanation
Indices: 2452535--2452677 Score: 187
Period size: 71 Copynumber: 2.0 Consensus size: 71
2452525 GTTTTAGAAA
* * * *
2452535 TAAAACTAGGGTCGGAGTATCCATTCAGAAATAATAGGGTTAGAGTATCCCCGATGGTGGATAAT
1 TAAAACTAGGGTCGGAGTATCCACTCAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAAT
*
2452600 CGATGT
66 CAATGT
* * * * *
2452606 TAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCTCGATGGTAGAAAAT
1 TAAAACTAGGGTCGGAGTATCCACTCAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAAT
*
2452671 TAATGT
66 CAATGT
2452677 T
1 T
2452678 TCAAAAATAA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (71 bp):
TAAAACTAGGGTCGGAGTATCCACTCAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAAT
CAATGT
Found at i:2456469 original size:20 final size:20
Alignment explanation
Indices: 2456444--2456518 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
2456434 AATTTACTGC
2456444 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
* *
2456464 ATGTATCGATATATTGTATA
1 ATGTATCGATACATTGAATA
* * *
2456484 ATGTATCAATACA--AAACTT
1 ATGTATCGATACATTGAA-TA
2456503 ATGTATCGATACATTG
1 ATGTATCGATACATTG
2456519 TATCGATACA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 1 0.02
19 13 0.30
20 29 0.67
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:2456522 original size:13 final size:13
Alignment explanation
Indices: 2456504--2456528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2456494 ACAAAACTTA
2456504 TGTATCGATACAT
1 TGTATCGATACAT
2456517 TGTATCGATACA
1 TGTATCGATACA
2456529 ATTTGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2457820 original size:34 final size:34
Alignment explanation
Indices: 2457781--2457866 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
2457771 CATCCTACCT
*
2457781 TTTGAGGATAAAGGAAAACAAGTGCGTCCTGCTC
1 TTTGAGGATAAAGGAAAACAAGTACGTCCTGCTC
* * **
2457815 TTTGAGGACAAAAGAAAAGGAGTACGTCCTGCTC
1 TTTGAGGATAAAGGAAAACAAGTACGTCCTGCTC
2457849 TTTGAGGATAAAGGAAAA
1 TTTGAGGATAAAGGAAAA
2457867 AGCAAAAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (34 bp):
TTTGAGGATAAAGGAAAACAAGTACGTCCTGCTC
Found at i:2457996 original size:42 final size:42
Alignment explanation
Indices: 2457934--2458164 Score: 121
Period size: 42 Copynumber: 5.5 Consensus size: 42
2457924 TTTATCGAAG
* *
2457934 ACAAA-GGAAAAAAGAGAATAAAATGCAT-TCTGCTTTTTGAAA
1 ACAAAGGGAAAAAGGA-AATAAAATGCATCT-TGCTCTTTGAAA
* **
2457976 ACAAAGGGAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGG
1 ACAAAGGGAAAAAGGAAATAAAATGCATCTTGCTCTTTGAAA
* * * * * **
2458018 ACAAAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGG
1 AC-AAAGGGAAA-AAGGAAATAAAATGCATCTTGCTCTTTGAAA
* * * * *
2458062 ATAAATGAGAAAAA-GAAATAAAGTGCATCCTACTCTTT-AAA
1 ACAAA-GGGAAAAAGGAAATAAAATGCATCTTGCTCTTTGAAA
** * * * * * * **
2458103 GATGAAGGAAAAAAGGTAATAAAGTACGTCCTGCTCTTTGAGG
1 -ACAAAGGGAAAAAGGAAATAAAATGCATCTTGCTCTTTGAAA
2458146 ACAAA-GGAGAAAAGGAAAT
1 ACAAAGGGA-AAAAGGAAAT
2458165 GCATCCTACT
Statistics
Matches: 150, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
41 9 0.06
42 84 0.56
43 24 0.16
44 33 0.22
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (42 bp):
ACAAAGGGAAAAAGGAAATAAAATGCATCTTGCTCTTTGAAA
Found at i:2458156 original size:84 final size:86
Alignment explanation
Indices: 2457976--2458164 Score: 240
Period size: 84 Copynumber: 2.2 Consensus size: 86
2457966 CTTTTTGAAA
* * * * *
2457976 ACAAAGG-GAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATG
1 ACAAAGGAGAAAAA-GAAATAAAGTGCATCCTACTCTTTAAAGACAAAAGGAAAAGAAGGAAATA
*
2458040 AAGTGCGTCCTGCTCTTTGAGG
65 AAGTACGTCCTGCTCTTTGAGG
* * ** *
2458062 ATAAATGAGAAAAAGAAATAAAGTGCATCCTACTCTTTAAAGA-TGAAGGAAAA-AAGGTAATAA
1 ACAAAGGAGAAAAAGAAATAAAGTGCATCCTACTCTTTAAAGACAAAAGGAAAAGAAGGAAATAA
2458125 AGTACGTCCTGCTCTTTGAGG
66 AGTACGTCCTGCTCTTTGAGG
*
2458146 ACAAAGGAGAAAAGGAAAT
1 ACAAAGGAGAAAAAGAAAT
2458165 GCATCCTACT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 44 0.50
85 8 0.09
86 30 0.34
87 6 0.07
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (86 bp):
ACAAAGGAGAAAAAGAAATAAAGTGCATCCTACTCTTTAAAGACAAAAGGAAAAGAAGGAAATAA
AGTACGTCCTGCTCTTTGAGG
Found at i:2458329 original size:62 final size:62
Alignment explanation
Indices: 2458229--2458879 Score: 635
Period size: 62 Copynumber: 10.7 Consensus size: 62
2458219 AAAGGCATCT
* * ** * *
2458229 AGGACTAAAGGGTGCCACCAACTCATGTAAGCTCTAAAAAGGAAAAGGCGTCCTGCACTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * * * * * * *
2458291 AGGACTAAAGGGTGCTACCAATTCGTATGGACTTTAAAAA--AAAA--CATCCTACTCTTTA
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
** * * * * * **
2458349 AGGACTAAAAAATGCTACTAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCCACTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * ** * * * **
2458411 AGGACCAAAAGGTGCCACTAACTTATATGGGTTTTAAAAAGAAAAAGGCGTTATGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * * * * *
2458473 AGGACTAAAAGGTGCCACAAACTCGTATGGGCTTT-GAAAGGAAAAATGCATCTTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGG-AAAAGGCGTCCTGCTCTTTG
* *
2458535 AGGA-T---TGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGACGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * * * *
2458592 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTT-GAAAGGAAAATGTGTCCTACTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * ** * * *
2458653 AAGACTAAAATGCACCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCTTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * * *
2458715 AAGG-CTAAAAGGTGCCACCAACTCATGT-GGCTTTAAAAAGAAAAAGGCATCCTACTCTTTG
1 -AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* * * *
2458776 AGGACTAAAGGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
* *
2458838 AAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGG
2458880 TTACTTTACT
Statistics
Matches: 486, Mismatches: 90, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
57 20 0.04
58 71 0.15
60 11 0.02
61 128 0.26
62 254 0.52
63 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (62 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTCTTTG
Found at i:2458728 original size:123 final size:120
Alignment explanation
Indices: 2458229--2458872 Score: 527
Period size: 123 Copynumber: 5.3 Consensus size: 120
2458219 AAAGGCATCT
* * * ** ** * * *
2458229 AGGACTAAAGGGTGCCACCAACTCATGTAAGCTCTAAAAAGGAAAAGGCGTCCTGCACTTTGAGG
1 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCT-TTGAAAGGAAAATG-GTCCTACTCTTTGAGG
* * * * * *
2458294 ACTAAAGGGTGCTACCAA-TTCGTATGGACTTT-AAAA-AAAAA--CATCCTACTCTTTA
64 ACTAAA--GTGCCACCAACTT-GTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
** * * * * * * * *
2458349 AGGACTAAAAAATGCTACTAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCCACTCTTTGAGG
1 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAGGAAAATGG--TCCTACTCTTTGAGG
* * * * * **
2458414 ACCAAAAGGTGCCACTAACTTATATGGGTTTTAAAAAGAAAAAGGCGTTATGCTCTTTG
64 A-CTAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * *
2458473 AGGACTAAAAGGTGCCA-CAAACTCGTATGGGCTTTGAAAGGAAAAATGCATCTTGCTCTTTGAG
1 AGGACTAAAAGGTGCCACCAAA-TCGTGTGGGCTTTGAAAGG-AAAATG-GTCCTACTCTTTGAG
** * * *
2458537 GA-T-TGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGACGTCCTGCTCTTTG
63 GACTAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
*
2458592 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAGGAAAATGTGTCCTACTCTTTGAAGA
1 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAGGAAAATG-GTCCTACTCTTTGAGGA
* * * *
2458657 CTAAAATGCACCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCTTGCTCTTTG
65 CTAAAGTG--CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * *
2458715 AAGG-CTAAAAGGTGCCACCAACTCATGT-GGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAG
1 -AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAGGAAAATGG--TCCTACTCTTTGAG
*
2458778 GACTAAAGGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
63 GACTAAA--GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * *
2458838 AAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTT
2458873 AAAAAGGTTA
Statistics
Matches: 421, Mismatches: 79, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
118 20 0.05
119 69 0.16
120 79 0.19
121 11 0.03
122 42 0.10
123 133 0.32
124 60 0.14
125 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (120 bp):
AGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAGGAAAATGGTCCTACTCTTTGAGGAC
TAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
Found at i:2463775 original size:31 final size:31
Alignment explanation
Indices: 2463728--2463824 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
2463718 TTCTTTCCAT
* * *
2463728 TTGCTTGTGTCCCCCATGATTGCATGCTACG
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
*
2463759 TTGCATGTGTTTCCCATGATTGCATGCTACA
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
2463790 TTGCATGTGTCTCCCATGATTGCATGCTACA
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
2463821 TTGC
1 TTGC
2463825 CTTACATGCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (31 bp):
TTGCATGTGTCTCCCATGATTGCATGCTACA
Found at i:2464481 original size:42 final size:42
Alignment explanation
Indices: 2464428--2465058 Score: 686
Period size: 42 Copynumber: 15.1 Consensus size: 42
2464418 TAGATGAGGT
* * * *
2464428 AGTCTTCAGGGTTAAAGCCGATAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * *
2464470 AGTCTCGAGGGTCAAAGCCGATAGGCAAACTAAGGGAAGGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA-GAAA
* * *
2464513 A-TTTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2464554 AGTCTCTA--GTCAAAGCCAACATGCAGACTGAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2464594 AGTCTTCAAGGTCAAAGCTGACAGGC--ACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2464634 ATTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* *
2464676 AGTCTCCAGGGTCAAAGCCGACAGACAGACTAAGGGTAGGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAA
* * * *
2464719 A-TCTTCAAGGTCAAAGCTGACAGGAAGACTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2464760 AGTCTCCAAGGTCAAAGCCAATAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* *
2464802 AGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAGGGAA-AGAG
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AA
* *
2464844 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2464886 AGTCTCCAAGGTCAAAGTCGATAGGTAGACTAAGGGTAAG-AA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAA
* ** *
2464928 AGTCTCTAGGGTCAAAGCCGACAAACACACTAAGGGAA-AGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AA
* * *
2464970 AGTCTCTAGGGTCAAAGTCGACAAGCAGACTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2465012 AGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAGGGAAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
2465054 AGTCT
1 AGTCT
2465059 TCAGAAGTTT
Statistics
Matches: 501, Mismatches: 74, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
40 68 0.14
41 13 0.03
42 406 0.81
43 14 0.03
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
Found at i:2473302 original size:22 final size:23
Alignment explanation
Indices: 2473277--2473321 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2473267 ATTCTTAGTA
*
2473277 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
2473299 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
2473322 CCATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Found at i:2479384 original size:31 final size:31
Alignment explanation
Indices: 2479337--2479402 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
2479327 TTCTTTCCAT
*
2479337 TTGCTTGTGTCCCCCATGATTGCATGCTACA
1 TTGCATGTGTCCCCCATGATTGCATGCTACA
*
2479368 TTGCATGTGTCTCCCATGATTGCATGCTACA
1 TTGCATGTGTCCCCCATGATTGCATGCTACA
2479399 TTGC
1 TTGC
2479403 CTTGCATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (31 bp):
TTGCATGTGTCCCCCATGATTGCATGCTACA
Found at i:2484347 original size:79 final size:77
Alignment explanation
Indices: 2484211--2484461 Score: 220
Period size: 79 Copynumber: 3.2 Consensus size: 77
2484201 AAAAATGATA
** * * *** * *
2484211 TTTTAGAAATAAAATTGGGGTTGGAGTATCCTTTTGGAAATAACAAGG-TTAGGGTATCCCTGAT
1 TTTTAGAAATAAAATCAGGGTTAGAGTATCCTCTCAAAAATAAC-GGGTTTAGAGTATCCC-GAT
*
2484275 AGTGAAAAATCAGTG
64 GGTGAAAAAT-AGTG
* * *
2484290 TTTTAGAAATAAAATC-GTGGTTAGAGTATCCTAC-CAAAAATTATGGGTTTGGAGTATCTCCGA
1 TTTTAGAAATAAAATCAG-GGTTAGAGTATCCT-CTCAAAAATAACGGGTTTAGAGTATC-CCGA
* *
2484353 TGGTAAAAAATTGATG
63 TGGTGAAAAATAG-TG
* * * *
2484369 TTTTAGAAATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACGGGTTTAGAATATCCCAAATG
1 TTTTAGAAATAAAATCAGGGTTAGAGTATCCTCTCAAAAATAACGGGTTTAGAGTATCCC-GATG
2484434 GTGAAAAAATAGTG
65 GTG-AAAAATAGTG
*
2484448 TTTTAAAAATAAAA
1 TTTTAGAAATAAAA
2484462 CTAGGGGTCA
Statistics
Matches: 139, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
78 7 0.05
79 122 0.88
80 10 0.07
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.31
Consensus pattern (77 bp):
TTTTAGAAATAAAATCAGGGTTAGAGTATCCTCTCAAAAATAACGGGTTTAGAGTATCCCGATGG
TGAAAAATAGTG
Found at i:2486634 original size:25 final size:25
Alignment explanation
Indices: 2486587--2486633 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
2486577 ACCTACATTC
2486587 TAGAAAATGCTGTTTGGTCTTTTGG
1 TAGAAAATGCTGTTTGGTCTTTTGG
2486612 TAGAAAATGACT-TTTGG-CTTTT
1 TAGAAAATG-CTGTTTGGTCTTTT
2486634 TACAAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.24
25 14 0.67
26 2 0.10
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (25 bp):
TAGAAAATGCTGTTTGGTCTTTTGG
Found at i:2486870 original size:20 final size:22
Alignment explanation
Indices: 2486845--2486898 Score: 85
Period size: 20 Copynumber: 2.5 Consensus size: 22
2486835 CGAAACCCAG
2486845 AATGTATCGATACAA-TGAAA-
1 AATGTATCGATACAATTGAAAT
2486865 AATGTATCGATACAATTGAAAT
1 AATGTATCGATACAATTGAAAT
*
2486887 AATGTATTGATA
1 AATGTATCGATA
2486899 TATTTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 15 0.48
21 5 0.16
22 11 0.35
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.31
Consensus pattern (22 bp):
AATGTATCGATACAATTGAAAT
Found at i:2492960 original size:73 final size:73
Alignment explanation
Indices: 2492876--2493177 Score: 195
Period size: 73 Copynumber: 4.1 Consensus size: 73
2492866 CCAACTACGT
* * *
2492876 AGCCTACACAAGC-GATTGGCATCTATCTACCTTAGTCCTCAAAGAGCAAGATACTTTTCTTTAC
1 AGCCCACACAAGCTGATTGGCACCTATCAACCTTAGTCCTCAAAGAGCAAGATACTTTT-TTTAC
**
2492940 CTACTGCAA
65 CTACCACAA
* * *** *
2492949 AGCCCACACAAGCTG-GTGGCACCTATCAACCTTAGT-CTAGAAAGAGTTCAACCCA-TTTTTCT
1 AGCCCACACAAGCTGATTGGCACCTATCAACCTTAGTCCT-CAAAGAG--CAAGATACTTTTTTT
2493011 AGCCTACCACAA
63 A-CCTACCACAA
* * * * * * * * *
2493023 AGTCCACAAAAGATG-GTAGCACCTATCAACCTTAG-CCTTCAAAGAGTAGGATGCTTTTCCTTA
1 AGCCCACACAAGCTGATTGGCACCTATCAACCTTAGTCC-TCAAAGAGCAAGATACTTTT-TTTA
* *
2493086 CCTACTATAA
64 CCTACCACAA
* * * * * * * *
2493096 AGCCTACACAAACTGA-TGGCAACTATCTACCTTAGTCTTCAAGGAGCAGGATGCTTTTTCTTAC
1 AGCCCACACAAGCTGATTGGCACCTATCAACCTTAGTCCTCAAAGAGCAAGATACTTTTT-TTAC
**
2493160 CTACCGTAA
65 CTACCACAA
2493169 AGCCCACAC
1 AGCCCACAC
2493178 GAGTTAGTAC
Statistics
Matches: 176, Mismatches: 41, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
72 3 0.02
73 114 0.65
74 54 0.31
75 5 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (73 bp):
AGCCCACACAAGCTGATTGGCACCTATCAACCTTAGTCCTCAAAGAGCAAGATACTTTTTTTACC
TACCACAA
Found at i:2493291 original size:128 final size:129
Alignment explanation
Indices: 2493058--2493291 Score: 278
Period size: 128 Copynumber: 1.8 Consensus size: 129
2493048 TCAACCTTAG
* * * *
2493058 CCTTCAAAGAGTAGGATGCTTTTCCTTACCTACTATAAAGCCTACACAAACTGATGGCAACTATC
1 CCTTCAAAGAGTAAGATGCTTTTCCTTACATACCACAAAGCCTACACAAACTGATGGCAACTATC
* ** * *
2493123 TACCTTAGTCTTCAAGGAGCAGGATGCTTTTTCTTACCTACCGTAAAGCCCACACGAGTTAGTA
66 TACCTCAGTCCACAAAGAGCAGGATCCTTTTTCTTACCTACCGTAAAGCCCACACGAGTTAGTA
* * **
2493187 CCTT-AAAGATTAAGATGCTTTTTCTTACATACCACAAAGCCTACACATGCT-AGTGGC-ACTTA
1 CCTTCAAAGAGTAAGATGCTTTTCCTTACATACCACAAAGCCTACACAAACTGA-TGGCAAC-TA
* *
2493249 TCTACCTCAGTCCACAAAGAGCTGGA-CCTTTTTTTTAACCTAC
64 TCTACCTCAGTCCACAAAGAGCAGGATCCTTTTTCTT-ACCTAC
2493292 TACAAAGCCC
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
127 11 0.13
128 72 0.83
129 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (129 bp):
CCTTCAAAGAGTAAGATGCTTTTCCTTACATACCACAAAGCCTACACAAACTGATGGCAACTATC
TACCTCAGTCCACAAAGAGCAGGATCCTTTTTCTTACCTACCGTAAAGCCCACACGAGTTAGTA
Found at i:2493316 original size:73 final size:71
Alignment explanation
Indices: 2493204--2493913 Score: 376
Period size: 73 Copynumber: 9.7 Consensus size: 71
2493194 GATTAAGATG
* * * * * *
2493204 CTTTTTCTTACATACCACAAAGCCTACACATGCTAGTGGCACTTATCTACCTCAGTCCACAAAGA
1 CTTTTTTTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAAGA
*
2493269 GCTGGA
66 GCTAGA
* * * * * *
2493275 CCTTTTTTTTAACCTACTACAAAGCCCATACAAGCTGGTGGCACCTATCTGCCTTTGTCCATAAA
1 -CTTTTTTTT-ACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAA
* ** *
2493340 AAAATGGA
64 GAGCTAGA
* * * * * *
2493348 CTCTTTTTCTTACCTACCAAAAAGTCCACACGAGCTAATGGTACCTATCTACCTTAGTCGAC-AA
1 CT-TTTTT-TTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAA
2493412 GAAGCTAGA
64 G-AGCTAGA
* * * * * ***
2493421 CTTATTTTTCTTACCTACC-CTGAAGCCCACAAAAGCCAGTGGCACCTATCTACCTCAATCTTTA
1 C-T-TTTTT-TTACCTACCAC-AAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACA
* *
2493485 AAGAACAAGA
62 AAGAGCTAGA
* * * * *
2493495 TGTTTTTTTTACCTACCACAAAGCCCACATAAGCTAGTGGC-CCTAATATACCTCTAATCCTCAA
1 -CTTTTTTTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCT-ATCTACCT-TAGTCCACAA
*
2493559 ATAGC-AGGA
63 AGAGCTA-GA
* * * * * * *
2493568 -TGCTTTTTTAATCTACCATAAA-CCCACGCAAGTTAGTGGCACCTATCTACCTTCAGTTCTCAA
1 CT--TTTTTTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTT-AGTCCACAA
**
2493631 AGAGAAAGA
63 AGAGCTAGA
* ** * ** * ** * *
2493640 CATTTTTTCTTACTTACTGCAAAGCCCACATAAATTGGTGATACCTATATACCTTAGTCCATAAA
1 C-TTTTTT-TTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAA
2493705 GAGCTTA-A
64 GAGC-TAGA
* * * * * * * *
2493713 CTCTTTTCTTATCTGCCACAAAGCCCACATAAGCTGGTGGCACTTATCCACCTTAGTCCACAAAA
1 CT-TTTTTTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAAG
2493778 AGCTAGAA
65 AGCTAG-A
* * ** ** * * *
2493786 TTTTTTTCTTACCCACTTCAAAGCCCATGCAAGCT-GATGGCAACTATCCACTTTAGTCCACAAA
1 CTTTTTT-TTACCTACCACAAAGCCCACACAAGCTAG-TGGCACCTATCTACCTTAGTCCAC-AA
*
2493850 AGAGCTGGA
63 AGAGCTAGA
* * * * *
2493859 -TTTCTTTTCTCACCTACCAAAAAGCCTACACGAGCTGGTGACACCTATCTACCTT
1 CTTT-TTTT-T-ACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTT
2493914 TTTCTATAAA
Statistics
Matches: 478, Mismatches: 128, Indels: 62
0.72 0.19 0.09
Matches are distributed among these distances:
71 7 0.01
72 143 0.30
73 206 0.43
74 118 0.25
75 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (71 bp):
CTTTTTTTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTTAGTCCACAAAGA
GCTAGA
Found at i:2494838 original size:114 final size:114
Alignment explanation
Indices: 2494638--2494864 Score: 283
Period size: 114 Copynumber: 2.0 Consensus size: 114
2494628 TCAAATTTTT
* * * ** * *
2494638 ATAAGATGTATTGATTCCCATCATGATTGTATTGATACAGACCTTGGCAGTGGCTATAGTTATGA
1 ATAAGATGTATCGATACCCATCATGATTGTATTAATACAGACCTTAACAGTAGCTATAGTTAGGA
* *
2494703 ATTTTAGCAAAATGTGTCGATACACAAGCTTATGTATCGATACAAGTTA
66 ATTTTAACAAAATGTATCGATACACAAGCTTATGTATCGATACAAGTTA
* * * * *
2494752 ATAAGATGTATCGATACCCATCATGATTGTATTAATATAGGCCTTAACAGTAGTTATCGTTGGGA
1 ATAAGATGTATCGATACCCATCATGATTGTATTAATACAGACCTTAACAGTAGCTATAGTTAGGA
* * ** *
2494817 TTTTTAATAAAATGTATCGATACATGAGCTTATGTATTGATACAAGTT
66 ATTTTAACAAAATGTATCGATACACAAGCTTATGTATCGATACAAGTT
2494865 TAGGAAGTAT
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (114 bp):
ATAAGATGTATCGATACCCATCATGATTGTATTAATACAGACCTTAACAGTAGCTATAGTTAGGA
ATTTTAACAAAATGTATCGATACACAAGCTTATGTATCGATACAAGTTA
Found at i:2497566 original size:107 final size:106
Alignment explanation
Indices: 2497322--2497580 Score: 290
Period size: 105 Copynumber: 2.4 Consensus size: 106
2497312 TCCATTATTC
* * * * * * *
2497322 AAAAAGAACTTAAATTTACTCTTTGTTCCTAATTATTTTTATCATCTTTGACTTTAGGGAATCTT
1 AAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCATAATCTTCGACTTTAGGGAATCTT
* * * * *
2497387 GAACCCCACTACTTTGAGGGAATTCTCTAGCCTCGTTCTTT
66 GAACCCCACTACTCTAAGGGAATACTCCAGACTCGTTCTTT
* * *
2497428 -AAAGAAACTCAAATTTTCTTTTTGTTCCTAAATATTTTCATAATCTTCGACTTTGGGGAA-CTT
1 AAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCATAATCTTCGACTTTAGGGAATCTT
* * *
2497491 TAACCCCACTACTCTAAGGGGATACTCCA-ACTTGTTCTTT
66 GAACCCCACTACTCTAAGGGAATACTCCAGACTCGTTCTTT
* *
2497531 ACAAAAAAAAACTCAAATTTTCTCTTTGTTTCTAAATATGTTCATAATCT
1 ---AAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCATAATCT
2497581 AATCTTTGGG
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
103 9 0.07
104 26 0.20
105 50 0.39
107 42 0.33
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (106 bp):
AAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCATAATCTTCGACTTTAGGGAATCTT
GAACCCCACTACTCTAAGGGAATACTCCAGACTCGTTCTTT
Found at i:2500179 original size:2 final size:2
Alignment explanation
Indices: 2500172--2500197 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2500162 GAGTATCTGC
2500172 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
2500198 TTCGGCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2502191 original size:14 final size:13
Alignment explanation
Indices: 2502169--2502208 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
2502159 GAATCTAGAG
2502169 AAGGAAAAAATAA
1 AAGGAAAAAATAA
2502182 AA-GAGAAAAATAA
1 AAGGA-AAAAATAA
2502195 AAGGAAAAAGATAA
1 AAGGAAAAA-ATAA
2502209 TTTCTTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 16 0.67
14 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAGGAAAAAATAA
Found at i:2502912 original size:27 final size:28
Alignment explanation
Indices: 2502865--2502922 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
2502855 TTTAGTCATT
* *
2502865 TTTCATAATTTAGAAATTATT-ATGTCA
1 TTTCATAATTTAGAAAGTATTAAAGTCA
*
2502892 TTTCAGTATTTTAG-AAGTATTAAAGTCA
1 TTTCA-TAATTTAGAAAGTATTAAAGTCA
2502920 TTT
1 TTT
2502923 TTATGATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (28 bp):
TTTCATAATTTAGAAAGTATTAAAGTCA
Found at i:2503058 original size:58 final size:57
Alignment explanation
Indices: 2502996--2503220 Score: 197
Period size: 58 Copynumber: 3.9 Consensus size: 57
2502986 TCAGATGTTA
* * *
2502996 TTATGTAATTTCATGCATTTTTGCGTCATTTTAGTCATTTGCCATATTTTAGGACCAT
1 TTATGCAATTTCATGCATTTTTG-GTCATTTTAGTAATTTGCCATGTTTTAGGACCAT
* ** * *
2503054 TTATGCAATTTTATGC-TTTTTAAGGTCATTTTAGTAATTTGCCATGGCTTAAGACTAT
1 TTATGCAATTTCATGCATTTTT--GGTCATTTTAGTAATTTGCCATGTTTTAGGACCAT
*** * * *
2503112 TTACAAAATTTCATGTATTTTAGGATCATTTTAGTAATTTGACATGTTTTAAGG-CCAT
1 TTATGCAATTTCATGCATTTTTGG-TCATTTTAGTAATTTGCCATGTTTT-AGGACCAT
* * * * *
2503170 TTATGCAATTTTATGCATTTTAAGATCATTTTA--AATTTGTCATATTTTAGG
1 TTATGCAATTTCATGCATTTT-TGGTCATTTTAGTAATTTGCCATGTTTTAGG
2503221 GATTTTTACA
Statistics
Matches: 134, Mismatches: 27, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
55 3 0.02
56 13 0.10
57 7 0.05
58 102 0.76
59 9 0.07
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.48
Consensus pattern (57 bp):
TTATGCAATTTCATGCATTTTTGGTCATTTTAGTAATTTGCCATGTTTTAGGACCAT
Found at i:2503150 original size:29 final size:30
Alignment explanation
Indices: 2503118--2503202 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 30
2503108 CTATTTACAA
*
2503118 AATTTCATGTATTTTAGGATCATTTTA-GT
1 AATTTCATGTATTTTAGGATCATTTTATGC
* *
2503147 AATTTGACATGT-TTTAAGG-CCA-TTTATGC
1 AATTT--CATGTATTTTAGGATCATTTTATGC
* * *
2503176 AATTTTATGCATTTTAAGATCATTTTA
1 AATTTCATGTATTTTAGGATCATTTTA
2503203 AATTTGTCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.07
28 9 0.21
29 15 0.36
30 10 0.24
31 5 0.12
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.48
Consensus pattern (30 bp):
AATTTCATGTATTTTAGGATCATTTTATGC
Found at i:2503246 original size:56 final size:56
Alignment explanation
Indices: 2503021--2503246 Score: 154
Period size: 58 Copynumber: 3.9 Consensus size: 56
2503011 CATTTTTGCG
* * ** *
2503021 TCATTTTAGTCATTTGCCATATTTT-AGGACCATTTATGCAATTTTATGCT-TTTTAAGG
1 TCATTTTAG-AATTTGACATATTTTAAGGA-CATTTACACAA-TTTATG-TATTTTAAGA
* *** * *
2503079 TCATTTTAGTAATTTGCCATGGCTTAA-GACTATTTACAAAATTTCATGTATTTTAGGA
1 TCATTTTAG-AATTTGACATATTTTAAGGAC-ATTTACACAATTT-ATGTATTTTAAGA
* * ** *
2503137 TCATTTTAGTAATTTGACATGTTTTAAGGCCATTTATGCAATTTTATGCATTTTAAGA
1 TCATTTTAG-AATTTGACATATTTTAAGGACATTTACACAA-TTTATGTATTTTAAGA
* * **
2503195 TCATTTTA-AATTTGTCATATTTTAGGGATTTTTACACAATTCTATGTATTTT
1 TCATTTTAGAATTTGACATATTTTAAGGACATTTACACAATT-TATGTATTTT
2503247 GGAACCATTT
Statistics
Matches: 134, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
55 2 0.01
56 32 0.24
57 5 0.04
58 89 0.66
59 6 0.04
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.48
Consensus pattern (56 bp):
TCATTTTAGAATTTGACATATTTTAAGGACATTTACACAATTTATGTATTTTAAGA
Found at i:2504628 original size:18 final size:18
Alignment explanation
Indices: 2504605--2504640 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2504595 GAGGAAGGAA
2504605 AAATAAAAAGTTATTATT
1 AAATAAAAAGTTATTATT
2504623 AAATAAAAAGTTATTATT
1 AAATAAAAAGTTATTATT
2504641 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATAAAAAGTTATTATT
Found at i:2505716 original size:31 final size:32
Alignment explanation
Indices: 2505680--2505757 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 32
2505670 ATTAAAATTT
* **
2505680 AAAATAATTTAAAATTAAAATGATTCAATCTC
1 AAAATAATTTAAAATTAAAATAATTCAAAATC
* * *
2505712 -AAATAATTTGAATTTAAAATAATTTAAAATC
1 AAAATAATTTAAAATTAAAATAATTCAAAATC
2505743 AAAATAATTTAAAAT
1 AAAATAATTTAAAAT
2505758 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (32 bp):
AAAATAATTTAAAATTAAAATAATTCAAAATC
Found at i:2505737 original size:10 final size:10
Alignment explanation
Indices: 2505722--2505767 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
2505712 AAATAATTTG
2505722 AATTTAAAAT
1 AATTTAAAAT
2505732 AATTT--AA-
1 AATTTAAAAT
*
2505739 AA-TCAAAAT
1 AATTTAAAAT
2505748 AATTTAAAAT
1 AATTTAAAAT
2505758 AATTTAAAAT
1 AATTTAAAAT
2505768 TAAAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
6 1 0.03
7 2 0.07
8 4 0.13
9 2 0.07
10 21 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:2505741 original size:26 final size:26
Alignment explanation
Indices: 2505722--2505772 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2505712 AAATAATTTG
2505722 AATTTAAAATAATTTAAAATCAAAAT
1 AATTTAAAATAATTTAAAATCAAAAT
*
2505748 AATTTAAAATAATTTAAAATTAAAA
1 AATTTAAAATAATTTAAAATCAAAA
2505773 AAAGATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
AATTTAAAATAATTTAAAATCAAAAT
Found at i:2505772 original size:16 final size:16
Alignment explanation
Indices: 2505671--2505757 Score: 88
Period size: 16 Copynumber: 5.4 Consensus size: 16
2505661 ATTAGATTGA
2505671 TTAAAATTTAAAATAAT
1 TTAAAA-TTAAAATAAT
*
2505688 TTAAAATTAAAATGA-
1 TTAAAATTAAAATAAT
* *
2505703 TT-CAATCTCAAATAAT
1 TTAAAAT-TAAAATAAT
* *
2505719 TTGAATTTAAAATAAT
1 TTAAAATTAAAATAAT
*
2505735 TTAAAATCAAAATAAT
1 TTAAAATTAAAATAAT
2505751 TTAAAAT
1 TTAAAAT
2505758 AATTTAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 38 0.67
17 8 0.14
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (16 bp):
TTAAAATTAAAATAAT
Found at i:2505820 original size:32 final size:31
Alignment explanation
Indices: 2505758--2505820 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
2505748 AATTTAAAAT
*
2505758 AATTTAAAATTAAAAAAAGATTCAACTCAAA
1 AATTTAAAATTAAAAAAAGATTCAAATCAAA
2505789 AATTTAAAAATTTAAAAAAA-ACTT-AAATCAAA
1 AATTT-AAAA-TTAAAAAAAGA-TTCAAATCAAA
2505821 TTAACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.18
32 12 0.43
33 11 0.39
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (31 bp):
AATTTAAAATTAAAAAAAGATTCAAATCAAA
Found at i:2506448 original size:24 final size:25
Alignment explanation
Indices: 2506416--2506465 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
2506406 ATCTAAACAA
2506416 TAGGTAACG-ATGGAAAATAGAGTG
1 TAGGTAACGCATGGAAAATAGAGTG
2506440 TAGGTAACGCATGGAAAATAGAGTG
1 TAGGTAACGCATGGAAAATAGAGTG
2506465 T
1 T
2506466 TTAACTGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (25 bp):
TAGGTAACGCATGGAAAATAGAGTG
Found at i:2507871 original size:17 final size:19
Alignment explanation
Indices: 2507851--2507887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2507841 TATAAAATAG
2507851 ATTAT-TAAA-ATTCAAAA
1 ATTATATAAATATTCAAAA
*
2507868 ATTATATAAATATTTAAAA
1 ATTATATAAATATTCAAAA
2507887 A
1 A
2507888 AAATATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTATATAAATATTCAAAA
Found at i:2508332 original size:36 final size:36
Alignment explanation
Indices: 2508292--2508371 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
2508282 TAAGTATTTT
* *
2508292 CTAATATTCTGATTACGATTACATGATCGTAATCTC
1 CTAATATTCTGATTACAATTACAAGATCGTAATCTC
* *
2508328 CTAATATTTTGATTACAATTATAAGATCGTAATCTC
1 CTAATATTCTGATTACAATTACAAGATCGTAATCTC
*
2508364 TTAATATT
1 CTAATATT
2508372 GAGTACAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (36 bp):
CTAATATTCTGATTACAATTACAAGATCGTAATCTC
Found at i:2510048 original size:11 final size:11
Alignment explanation
Indices: 2510032--2510056 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2510022 TGATACTCTT
2510032 AAAAGATTTTA
1 AAAAGATTTTA
2510043 AAAAGATTTTA
1 AAAAGATTTTA
2510054 AAA
1 AAA
2510057 GGGATGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAAGATTTTA
Found at i:2510109 original size:155 final size:154
Alignment explanation
Indices: 2509950--2510298 Score: 357
Period size: 155 Copynumber: 2.3 Consensus size: 154
2509940 AATAGACTCG
* * * *
2509950 GTGACAACCTA-AGAGTTCGTTTTAGAAAATTGTGAAAAT-GCTCTTAGGGGATACCTTCGATG-
1 GTGACAACCTAGA-AATTCGTTCTAGAAAATTATGAAAATACCT-TTAGGGGATACCTTCGATGT
* * * * * * * *
2510012 TAGAAGTACCTGATACTCTTAAAAGATTTTAA-AAAGATTTTAAAAGGGATGAACCTATCTTAAA
64 TA-AAATACCTGATACCCCTAAAAGA-CTTAAGAAAGAATTT-AAAGGGATGAACCGACCCTAAA
2510076 TATCCACCTTCAACATAAAAGCAGACCTA
126 TATCCACCTTCAACATAAAAGCAGACCTA
* * * **
2510105 GTGACGATCTAGAAATTGGTTCTAGAAAATTATGAAAATACCTTTAGGGGATACCTTTTATGTTA
1 GTGACAACCTAGAAATTCGTTCTAGAAAATTATGAAAATACCTTTAGGGGATACCTTCGATGTTA
* * *
2510170 AAATACCTGATACCCCTAAAAGACTTAAGAAGGAATTTAAATGGATGAACCGGCCCTAAATATCC
66 AAATACCTGATACCCCTAAAAGACTTAAGAAAGAATTTAAAGGGATGAACCGACCCTAAATATCC
* *
2510235 ACCTTCAGCATAAAAGCAGACCTG
131 ACCTTCAACATAAAAGCAGACCTA
* * * * *
2510259 GTGATAACTTAGGACTT-GTTTCTAGAGAAATTATAAAAAT
1 GTGACAACCTAGAAATTCG-TTCTAGA-AAATTATGAAAAT
2510299 GTCCTTATGG
Statistics
Matches: 159, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
153 1 0.01
154 66 0.42
155 87 0.55
156 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (154 bp):
GTGACAACCTAGAAATTCGTTCTAGAAAATTATGAAAATACCTTTAGGGGATACCTTCGATGTTA
AAATACCTGATACCCCTAAAAGACTTAAGAAAGAATTTAAAGGGATGAACCGACCCTAAATATCC
ACCTTCAACATAAAAGCAGACCTA
Found at i:2511810 original size:14 final size:13
Alignment explanation
Indices: 2511783--2511834 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
2511773 ATTGTTTTAT
*
2511783 TTTTTCTTTTTTTC
1 TTTTT-TTTCTTTC
2511797 TCTTTTTTTCTTTC
1 T-TTTTTTTCTTTC
* *
2511811 TATTTTTCTCTCTC
1 T-TTTTTTTCTTTC
2511825 TTTTTTTTCT
1 TTTTTTTTCT
2511835 GAGTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 8 0.25
14 20 0.62
15 4 0.12
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:2511810 original size:22 final size:23
Alignment explanation
Indices: 2511777--2511834 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
2511767 CTAACTATTG
2511777 TTTTATTTTTTCT-TTTTT-TCTC
1 TTTT-TTTTTTCTATTTTTCTCTC
2511799 TTTTTTTCTTTCTATTTTTCTCTC
1 TTTTTTT-TTTCTATTTTTCTCTC
*
2511823 TCTTTTTTTTCT
1 TTTTTTTTTTCT
2511835 GAGTTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 3 0.09
22 9 0.28
23 10 0.31
24 10 0.31
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTCTATTTTTCTCTC
Found at i:2512425 original size:166 final size:167
Alignment explanation
Indices: 2512183--2512592 Score: 429
Period size: 167 Copynumber: 2.5 Consensus size: 167
2512173 ATGGGACTTT
* ** ** * *
2512183 AATAATAATATTAT-ATG-ATTTAAAAAATTTTAAATTGAGAAAAATTCCC-CCAATAATATTTA
1 AATAATAATATT-TGATGAATTTCAAAAATTAAAAACCGAGAAAAA-TCCCTCCAAAAACATTTA
* * * * * * * *
2512245 TGGAATAGAAAACTCAATTTTTTAG-AAA-CA-GAGAAATTTTAAAGAAAAAATTCAAAACT-TA
64 CGGAGTAAAAAACTCAA-TATTTAGAAAATAAGGAG-AATTTT-AAGAAAAAAATCAAAAATGGA
* * *
2512306 TGAAGATAAATTAATTTTTCAAAACTAATTTAATATGAAATA
126 TGAAAATAAATGAAATTTTCAAAACTAATTTAATATGAAATA
* * **
2512348 AATGATGATATTTGATGAATTTCAAAAATTAAAAACCGAGAAAAATCCCTCTGAAAACATTTACG
1 AATAATAATATTTGATGAATTTCAAAAATTAAAAACCGAGAAAAATCCCTCCAAAAACATTTACG
* * * *
2512413 GAGTGAAAAACTCCATATTTCGAAAATAAGGAGAATTTTAAGAAAAAAATGAAAAATGGATGAAA
66 GAGTAAAAAACTCAATATTTAGAAAATAAGGAGAATTTTAAGAAAAAAATCAAAAATGGATGAAA
* *
2512478 ATGAATGAAATTTTGAAAACTAATTTAATATGAAATA
131 ATAAATGAAATTTTCAAAACTAATTTAATATGAAATA
* * * * *
2512515 AATAATAATATTTGATGAATTTTAAAAATTAGAAACTGAGAAAAATCCTTCCAAAAACATTTATG
1 AATAATAATATTTGATGAATTTCAAAAATTAAAAACCGAGAAAAATCCCTCCAAAAACATTTACG
2512580 GAGTAAAAAACTC
66 GAGTAAAAAACTC
2512593 TGTATTTCGA
Statistics
Matches: 200, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
164 1 0.00
165 22 0.11
166 61 0.31
167 113 0.56
168 3 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (167 bp):
AATAATAATATTTGATGAATTTCAAAAATTAAAAACCGAGAAAAATCCCTCCAAAAACATTTACG
GAGTAAAAAACTCAATATTTAGAAAATAAGGAGAATTTTAAGAAAAAAATCAAAAATGGATGAAA
ATAAATGAAATTTTCAAAACTAATTTAATATGAAATA
Found at i:2513174 original size:20 final size:21
Alignment explanation
Indices: 2513139--2513183 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2513129 CAATAATTTG
*
2513139 TATCGATACAATAAGTGAATA
1 TATCAATACAATAAGTGAATA
*
2513160 TATCAATAC-ATAAGTGAATG
1 TATCAATACAATAAGTGAATA
2513180 TATC
1 TATC
2513184 GATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (21 bp):
TATCAATACAATAAGTGAATA
Found at i:2516855 original size:13 final size:13
Alignment explanation
Indices: 2516837--2516862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2516827 CACACCTAGA
2516837 TGTATCGATACAT
1 TGTATCGATACAT
2516850 TGTATCGATACAT
1 TGTATCGATACAT
2516863 CATAAATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2516877 original size:20 final size:20
Alignment explanation
Indices: 2516852--2516902 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2516842 CGATACATTG
2516852 TATCGATACATCATAAATTA
1 TATCGATACATCATAAATTA
2516872 TATCGATACATCATAAATTA
1 TATCGATACATCATAAATTA
2516892 TATCGATACAT
1 TATCGATACAT
2516903 AAAACTGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (20 bp):
TATCGATACATCATAAATTA
Found at i:2526787 original size:21 final size:21
Alignment explanation
Indices: 2526757--2526796 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2526747 AACAACCTCC
*
2526757 AAGTTCAAAAAATTTAATTTT
1 AAGTTCAAAAAATTAAATTTT
* *
2526778 AAGTTTAAAATATTAAATT
1 AAGTTCAAAAAATTAAATT
2526797 AAATATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AAGTTCAAAAAATTAAATTTT
Found at i:2530225 original size:17 final size:17
Alignment explanation
Indices: 2530196--2530243 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2530186 AAAAAAATAA
2530196 ATTTATCTTTTATTTATT-
1 ATTTAT-TTTTATTT-TTC
2530214 ATTTATTTTTATTTTTC
1 ATTTATTTTTATTTTTC
*
2530231 ATTCATTTTTATT
1 ATTTATTTTTATT
2530244 CAAAACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 20 0.71
18 6 0.21
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATTTTTATTTTTC
Found at i:2537459 original size:20 final size:21
Alignment explanation
Indices: 2537434--2537485 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2537424 CATGAAGGTT
2537434 TGGTATCGATACCCAATGT-A
1 TGGTATCGATACCCAATGTGA
* *
2537454 TGGTATCGATACCTAGTGTGA
1 TGGTATCGATACCCAATGTGA
*
2537475 TTGTATCGATA
1 TGGTATCGATA
2537486 GAAGCATTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCCAATGTGA
Found at i:2538503 original size:128 final size:129
Alignment explanation
Indices: 2538292--2538529 Score: 352
Period size: 128 Copynumber: 1.8 Consensus size: 129
2538282 CTTCCCTACG
* * *
2538292 CCACCACCATAAAACCTTCAACAACCTAACTTTACACACTCTTTCACCTTTAAAAGGCTTTACCA
1 CCACCACCATAAAACCTTCAACAACCCAACTTTA-ACACTCTTTCACCCTTAAAAGGCCTTACCA
* *
2538357 TCAACCATACCACCAAAAAGCTACTTCATCTCGTCCTTTTCTTACCACCAAAAAGCTCCCCTAAA
65 TCAACCATACCACCAAAAAACTACTTCATCTCATCCTTTTCTTACCACCAAAAAGCTCCCCTAAA
* *
2538422 CCACCACCATAAAACCTTCAATAACCCAACTTT-ACACTCTTTCACCCTTAAAAGGCCTTGCCAT
1 CCACCACCATAAAACCTTCAACAACCCAACTTTAACACTCTTTCACCCTTAAAAGGCCTTACCAT
* * * * *
2538486 CAACCGTGCCACCAAAAAACTGCTTTATCTCATCTTTTTCTTAC
66 CAACCATACCACCAAAAAACTACTTCATCTCATCCTTTTCTTAC
2538530 TAAATAATAG
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
128 65 0.68
130 31 0.32
ACGTcount: A:0.33, C:0.36, G:0.05, T:0.27
Consensus pattern (129 bp):
CCACCACCATAAAACCTTCAACAACCCAACTTTAACACTCTTTCACCCTTAAAAGGCCTTACCAT
CAACCATACCACCAAAAAACTACTTCATCTCATCCTTTTCTTACCACCAAAAAGCTCCCCTAAA
Found at i:2544111 original size:20 final size:20
Alignment explanation
Indices: 2544066--2544114 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
2544056 TTATAATTTG
*
2544066 TATCGATACAAATAATGAATG
1 TATCGATAC-AATAATGAATA
*
2544087 CATCGATAC-ATAAGTGAATA
1 TATCGATACAATAA-TGAATA
2544107 TATCGATA
1 TATCGATA
2544115 TATGTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACAATAATGAATA
Found at i:2546447 original size:28 final size:28
Alignment explanation
Indices: 2546366--2546447 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2546356 TTTTGGAGAT
*
2546366 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2546394 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2546422 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2546448 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2546590 original size:51 final size:51
Alignment explanation
Indices: 2546430--2546600 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2546420 GAAATAACGA
* * *
2546430 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2546482 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2546535 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2546586 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2546601 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2546646 original size:27 final size:28
Alignment explanation
Indices: 2546583--2546658 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2546573 AAAATAAAGT
*
2546583 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2546611 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2546638 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2546659 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2549146 original size:13 final size:13
Alignment explanation
Indices: 2549128--2549153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2549118 ACAAAGATCC
2549128 ATGTATCGATACA
1 ATGTATCGATACA
2549141 ATGTATCGATACA
1 ATGTATCGATACA
2549154 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2549149 original size:33 final size:33
Alignment explanation
Indices: 2549107--2549173 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2549097 AAAATTTCCA
***
2549107 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2549140 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2549173 A
1 A
2549174 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2549217 original size:19 final size:18
Alignment explanation
Indices: 2549193--2549260 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2549183 CAGTAGCTAA
2549193 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2549212 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2549227 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2549244 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2549261 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Done.