Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 103 of 318
Found at i:33416074 original size:38 final size:38
Alignment explanation
Indices: 33416023--33416099 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
33416013 TCGCCCTGAG
33416023 TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
1 TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
33416061 TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
1 TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
33416099 T
1 T
33416100 CTTCTATCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (38 bp):
TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
Found at i:33419159 original size:46 final size:46
Alignment explanation
Indices: 33418893--33419166 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
33418883 TTTGACATGA
* * * * *
33418893 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
33418939 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *** *
33418985 TGCCGTGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
33419031 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTAATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
33419077 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
33419123 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
33419167 AGAGCACACT
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:33422967 original size:12 final size:11
Alignment explanation
Indices: 33422959--33423049 Score: 68
Period size: 12 Copynumber: 8.2 Consensus size: 11
33422949 AAAATAAAGT
33422959 AATAAATAATA
1 AATAAATAATA
33422970 AA-ATAA-AATA
1 AATA-AATAATA
33422980 AAGT-AATGAATA
1 AA-TAAAT-AATA
33422992 AATAAATAATAA
1 AATAAATAAT-A
33423004 AATAAATAATA
1 AATAAATAATA
33423015 AA-ATAA-AATAA
1 AATA-AATAAT-A
33423026 AATAAAATAATA
1 AAT-AAATAATA
*
33423038 AA-ATATAATA
1 AATAAATAATA
33423048 AA
1 AA
33423050 AATGAAGAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 25
0.72 0.01 0.27
Matches are distributed among these distances:
10 22 0.33
11 16 0.24
12 25 0.37
13 4 0.06
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAATAATA
Found at i:33422996 original size:16 final size:16
Alignment explanation
Indices: 33422959--33423049 Score: 103
Period size: 17 Copynumber: 5.4 Consensus size: 16
33422949 AAAATAAAGT
33422959 AATAAATAATAAAATAA
1 AATAAATAATAAAAT-A
*
33422976 AATAAAGTAAT-GAATA
1 AATAAA-TAATAAAATA
33422992 AATAAATAATAAAATA
1 AATAAATAATAAAATA
*
33423008 AATAATAAAATAAAATAA
1 AATAA-ATAATAAAAT-A
33423026 AATAAAATAATAAAATA
1 AAT-AAATAATAAAATA
33423043 TAATAAA
1 -AATAAA
33423050 AATGAAGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.06
16 16 0.25
17 22 0.34
18 20 0.31
19 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AATAAATAATAAAATA
Found at i:33423000 original size:33 final size:32
Alignment explanation
Indices: 33422959--33423050 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 32
33422949 AAAATAAAGT
*
33422959 AATAAATAATAAAATAAAATAAAGTAATGAAT-A
1 AATAAATAATAAAATAAAATAAAATAA--AATAA
33422992 AATAAATAATAAAATAAATAATAAAATAAAATAA
1 AATAAATAATAAAAT-AA-AATAAAATAAAATAA
*
33423026 AATAAAATAATAAAATATAATAAAA
1 AAT-AAATAATAAAATAAAATAAAA
33423051 ATGAAGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
33 25 0.47
34 7 0.13
35 21 0.40
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (32 bp):
AATAAATAATAAAATAAAATAAAATAAAATAA
Found at i:33423006 original size:8 final size:8
Alignment explanation
Indices: 33422951--33423042 Score: 66
Period size: 8 Copynumber: 11.1 Consensus size: 8
33422941 ACCCAAACAA
*
33422951 AATAAAGT
1 AATAAAAT
33422959 AAT-AAAT
1 AATAAAAT
33422966 AATAAAAT
1 AATAAAAT
*
33422974 AAAATAAAGT
1 --AATAAAAT
*
33422984 AAT-GAAT
1 AATAAAAT
33422991 AA-ATAAAT
1 AATA-AAAT
33422999 AATAAAAT
1 AATAAAAT
33423007 AAATAATAA-
1 -AATAA-AAT
33423016 AATAAAAT
1 AATAAAAT
33423024 AAAATAAAAT
1 --AATAAAAT
33423034 AATAAAAT
1 AATAAAAT
33423042 A
1 A
33423043 TAATAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
7 12 0.18
8 33 0.49
9 6 0.09
10 17 0.25
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:33423066 original size:5 final size:5
Alignment explanation
Indices: 33422966--33423050 Score: 77
Period size: 5 Copynumber: 16.4 Consensus size: 5
33422956 AGTAATAAAT
*
33422966 AATAA AATAA AATAA AGTAA TGAAT-A AATAAA TAATAA AATAAA TAATAA
1 AATAA AATAA AATAA AATAA --AATAA AAT-AA -AATAA AAT-AA -AATAA
*
33423016 AATAA AATAA AATAA AAT-- AATAA AATAT AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
33423051 ATGAAGAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 18
0.75 0.04 0.20
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 45 0.67
6 8 0.12
7 8 0.12
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:33425972 original size:179 final size:179
Alignment explanation
Indices: 33425660--33426194 Score: 1025
Period size: 179 Copynumber: 3.0 Consensus size: 179
33425650 TGGCGGCAAC
33425660 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
* *
33425725 TTGAAAATCAAGCATATTAGCTGCTAATTTATTGACCAAAGTTTCTAGAGAATTACTTAAATCTT
66 -TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTT
33425790 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
130 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
33425840 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
33425905 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
66 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
*
33425970 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTAGAAAT
131 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
33426019 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
33426084 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
66 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
*
33426149 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGA
131 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGA
33426195 TTGGCTCCAT
Statistics
Matches: 350, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
179 285 0.81
180 65 0.19
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (179 bp):
TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
Found at i:33428423 original size:16 final size:17
Alignment explanation
Indices: 33428402--33428445 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
33428392 TACAAATAAT
*
33428402 TAAATATAAATAAA-GC
1 TAAATATAAATAAATCC
*
33428418 TAAATAAAAATAAATCC
1 TAAATATAAATAAATCC
*
33428435 TAAAAATAAAT
1 TAAATATAAAT
33428446 CTAAATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAATATAAATAAATCC
Found at i:33428440 original size:13 final size:13
Alignment explanation
Indices: 33428422--33428460 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
33428412 TAAAGCTAAA
33428422 TAAAAATAAATCC
1 TAAAAATAAATCC
33428435 TAAAAATAAAT-C
1 TAAAAATAAATCC
33428447 TAAATAAT-AATCC
1 TAAA-AATAAATCC
33428460 T
1 T
33428461 TAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATAAATCC
Found at i:33430433 original size:10 final size:10
Alignment explanation
Indices: 33430418--33430443 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33430408 CATCGGACAG
33430418 ACAGAACATT
1 ACAGAACATT
33430428 ACAGAACATT
1 ACAGAACATT
33430438 ACAGAA
1 ACAGAA
33430444 TTACTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.15
Consensus pattern (10 bp):
ACAGAACATT
Found at i:33431312 original size:17 final size:17
Alignment explanation
Indices: 33431272--33431305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33431262 TATATTAAAA
* *
33431272 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
33431289 TTATAATTATTATGATT
1 TTATAATTATTATGATT
33431306 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:33431722 original size:12 final size:12
Alignment explanation
Indices: 33431705--33431735 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33431695 GAAGCAGGGG
33431705 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
33431717 AGAAAAAGGGAA
1 AGAAAAAGAGAA
33431729 AGAAAAA
1 AGAAAAA
33431736 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:33432736 original size:39 final size:39
Alignment explanation
Indices: 33432629--33432766 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
33432619 GACCTCGAGT
* * * *
33432629 CGATGAGACACTAGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
33432670 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
33432708 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
33432747 CGATGAGGCACTGGGTGTCA
1 CGATGAGACACTGGGTGTCA
33432767 TATTGGTGTG
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.24
39 39 0.50
40 3 0.04
41 14 0.18
42 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:33432907 original size:18 final size:18
Alignment explanation
Indices: 33432884--33432924 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33432874 AGAAAAGAAA
33432884 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
33432902 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
33432920 AGAAA
1 AGAAA
33432925 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:33433435 original size:20 final size:20
Alignment explanation
Indices: 33433412--33433449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33433402 GTTATTAAGT
33433412 TAAAAATTATGTTA-ATGATA
1 TAAAAATT-TGTTATATGATA
*
33433432 TAAATATTTGTTATATGA
1 TAAAAATTTGTTATATGA
33433450 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
TAAAAATTTGTTATATGATA
Found at i:33437237 original size:23 final size:23
Alignment explanation
Indices: 33437211--33437258 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
33437201 TTATTTTGAG
33437211 TTCAAATCATTTCATATCAGAAC
1 TTCAAATCATTTCATATCAGAAC
*
33437234 TTCAAATTATTTCATATCAGAAC
1 TTCAAATCATTTCATATCAGAAC
33437257 TT
1 TT
33437259 TACTCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (23 bp):
TTCAAATCATTTCATATCAGAAC
Found at i:33457727 original size:43 final size:43
Alignment explanation
Indices: 33457680--33457822 Score: 205
Period size: 43 Copynumber: 3.3 Consensus size: 43
33457670 TCACAAAAAT
* *
33457680 GCCGCTATGGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
* *
33457723 GCCGCTATAGAACATGACCTTCAGTGGCGCTTTTCTCACAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
** * *
33457766 GCCGCTATAGAACATGACCTTCAGCAACGCTTTTACCATAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
*
33457809 GCCGCTAAAGAACA
1 GCCGCTATAGAACA
33457823 CAATCTTTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
Found at i:33463272 original size:19 final size:20
Alignment explanation
Indices: 33463223--33463273 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
33463213 GCTTTGTATA
33463223 AATATATAATATTTAAAATATT
1 AATATA-AATA-TTAAAATATT
* *
33463245 -ATTTTAATATTAAAA-ATT
1 AATATAAATATTAAAATATT
33463263 AATATAAATAT
1 AATATAAATAT
33463274 AAGGCGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 4 0.17
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAAATATTAAAATATT
Found at i:33474386 original size:18 final size:18
Alignment explanation
Indices: 33474307--33474388 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
33474297 AAAAAAGGCC
*
33474307 AAAACAAATAAATAAAATG
1 AAAATAAATAAATAAAA-G
* * *
33474326 CACAATAAATACAAGAACAG
1 -AAAATAAATA-AATAAAAG
*
33474346 ACCAAA-AAATAAATAATAG
1 A--AAATAAATAAATAAAAG
*
33474365 AAAATAAATAAATAAAAT
1 AAAATAAATAAATAAAAG
33474383 AAAATA
1 AAAATA
33474389 TGAAAAGTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.06
18 17 0.35
19 8 0.16
20 14 0.29
21 7 0.14
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATAAATAAATAAAAG
Found at i:33474388 original size:14 final size:13
Alignment explanation
Indices: 33474351--33474385 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
33474341 AACAGACCAA
33474351 AAAATAAATAATAG
1 AAAATAAATAA-AG
*
33474365 AAAATAAATAAAT
1 AAAATAAATAAAG
33474378 AAAATAAA
1 AAAATAAA
33474386 ATATGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:33474399 original size:27 final size:27
Alignment explanation
Indices: 33474351--33474404 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
33474341 AACAGACCAA
*
33474351 AAAATAAATAATAGAAAATAAATAAAT
1 AAAATAAATAATAGAAAATAAAAAAAT
33474378 AAAAT-AA-AATATGAAAAGTAAAAAAAT
1 AAAATAAATAATA-GAAAA-TAAAAAAAT
33474405 TAATTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 7 0.29
27 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAATAAATAATAGAAAATAAAAAAAT
Found at i:33476611 original size:31 final size:31
Alignment explanation
Indices: 33476569--33476635 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
33476559 AACATAGATT
* * *
33476569 ACAAAATTAAAGTA-AAGGGCTTAAACTGATA
1 ACAAAAATAAAGTATAAGAGC-TAAACTAATA
33476600 ACAAAAATAAAGTATAAGAGCTAAACTAATA
1 ACAAAAATAAAGTATAAGAGCTAAACTAATA
33476631 A-AAAA
1 ACAAAA
33476636 TAGTATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.12
31 23 0.72
32 5 0.16
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (31 bp):
ACAAAAATAAAGTATAAGAGCTAAACTAATA
Found at i:33483473 original size:23 final size:21
Alignment explanation
Indices: 33483446--33483499 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
33483436 TAGAAATATT
* *
33483446 AATTAAATTTATAACTTTAAGC
1 AATTAAATTTAGAA-TTTAACC
*
33483468 ATATTAAATGTAGAATTTAACC
1 A-ATTAAATTTAGAATTTAACC
33483490 AATTAAATTT
1 AATTAAATTT
33483500 TACTAGTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 11 0.41
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (21 bp):
AATTAAATTTAGAATTTAACC
Found at i:33483994 original size:122 final size:123
Alignment explanation
Indices: 33483777--33484020 Score: 418
Period size: 122 Copynumber: 2.0 Consensus size: 123
33483767 TGCCAACTTG
* **
33483777 GATGTCCTACGTGGAAGTTCAAATTAAATTTATTTAATTAAAAACCTATTTTTGTCCCAACAATT
1 GATGTCCTACGTGGAAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
*
33483842 GAATATCCAAGTTGGTATTTAAAACCTA-TTTGGACTGTTACGTAGGAATGTTGTTAA
66 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTAA
* *
33483899 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCTCAACAATT
1 GATGTCCTACGTGGAAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
*
33483964 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGATTGTTACGTAGGAATGTTGTTA
66 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTA
33484021 GGGAGGGAAC
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
122 87 0.76
123 27 0.24
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (123 bp):
GATGTCCTACGTGGAAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTAA
Found at i:33487951 original size:30 final size:32
Alignment explanation
Indices: 33487915--33487979 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
33487905 ATCTTGTAAC
33487915 AAGAAAAC-AAAGAAAAAGCAAAAGA-A-GAAA
1 AAGAAAACAAAAGAAAAAG-AAAAGAGAGGAAA
*
33487945 AAGAAAACAAAATAAAAAGAAAAGAGAGGAAA
1 AAGAAAACAAAAGAAAAAGAAAAGAGAGGAAA
33487977 AAG
1 AAG
33487980 GCAAGTAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 14 0.45
31 10 0.32
32 7 0.23
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (32 bp):
AAGAAAACAAAAGAAAAAGAAAAGAGAGGAAA
Found at i:33488125 original size:18 final size:17
Alignment explanation
Indices: 33488039--33488125 Score: 54
Period size: 18 Copynumber: 5.1 Consensus size: 17
33488029 TTGAAAAACA
* *
33488039 AAAAGAACTTGAACGAG
1 AAAAGAAATTGAAAGAG
* *
33488056 AAAATAAAATTGAAAAAG
1 AAAA-GAAATTGAAAGAG
*
33488074 AAAGTGAAA--GAAA-AG
1 AAA-AGAAATTGAAAGAG
* *
33488089 AGAAAGAACTTGAACGAG
1 A-AAAGAAATTGAAAGAG
33488107 AAAAGACAATTGAAAGAG
1 AAAAGA-AATTGAAAGAG
33488125 A
1 A
33488126 GAGAGAGCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 12 0.23
18 28 0.54
ACGTcount: A:0.61, C:0.06, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAAGAAATTGAAAGAG
Found at i:33493643 original size:44 final size:44
Alignment explanation
Indices: 33493580--33493665 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
33493570 ATGCCTCCGC
*
33493580 AAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAACGG
1 AAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAACGG
33493624 AAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAAC
1 AAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAAC
33493666 TCCACGATGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (44 bp):
AAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAACGG
Found at i:33494912 original size:26 final size:26
Alignment explanation
Indices: 33494866--33494918 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33494856 TCAAACATGC
*
33494866 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
33494892 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
33494918 A
1 A
33494919 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:33496439 original size:26 final size:26
Alignment explanation
Indices: 33496403--33496460 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
33496393 CATGAAATTC
33496403 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33496429 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33496455 TTATCA
1 TTATCA
33496461 ATTTGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33500230 original size:26 final size:26
Alignment explanation
Indices: 33500184--33500236 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33500174 TCAAACATGC
*
33500184 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
33500210 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
33500236 A
1 A
33500237 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:33501757 original size:26 final size:26
Alignment explanation
Indices: 33501721--33501778 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
33501711 CATGAAATTC
33501721 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
33501747 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
33501773 TTATCA
1 TTATCA
33501779 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33503767 original size:25 final size:24
Alignment explanation
Indices: 33503697--33503769 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
33503687 TAGGCGCATG
* *
33503697 TAATCGGAAAGCTCTTTCGAGCCA
1 TAATCGGGAAGCTCTTGCGAGCCA
* *
33503721 TAAACGGGAAGCT-TTGGAGAGCCA
1 TAATCGGGAAGCTCTT-GCGAGCCA
*
33503745 TTAATCGGGAAGCTCATGCGAGCCA
1 -TAATCGGGAAGCTCTTGCGAGCCA
33503770 ATATTAGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 17 0.44
25 19 0.49
26 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (24 bp):
TAATCGGGAAGCTCTTGCGAGCCA
Found at i:33503780 original size:49 final size:50
Alignment explanation
Indices: 33503727--33503829 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 50
33503717 GCCATAAACG
** **
33503727 GGAAGCTTTGGAGAGCCATTAATCGGGAAGCTCATGCGAGCC-AATATTA
1 GGAAGCTTCAGAGAGCCATTAATCGGGAAGCTCATGAAAGCCAAATATTA
* * * *
33503776 GGAAGCTTCAGAGAGCTATTAATTGTGAAGCTCGTGAAAGCCAAATATTA
1 GGAAGCTTCAGAGAGCCATTAATCGGGAAGCTCATGAAAGCCAAATATTA
33503826 GGAA
1 GGAA
33503830 ACTCATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 34 0.76
50 11 0.24
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (50 bp):
GGAAGCTTCAGAGAGCCATTAATCGGGAAGCTCATGAAAGCCAAATATTA
Found at i:33503890 original size:25 final size:24
Alignment explanation
Indices: 33503825--33503890 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
33503815 GCCAAATATT
33503825 AGGAAACTCATATGAGCCATAAAC
1 AGGAAACTCATATGAGCCATAAAC
* *
33503849 AAGAAACTCA-AGAGAGCCATATAAC
1 AGGAAACTCATA-TGAGCCATA-AAC
33503874 -GGAACACTCATATGAGC
1 AGGAA-ACTCATATGAGC
33503891 TGTGGTGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 1 0.03
24 20 0.59
25 12 0.35
26 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.15
Consensus pattern (24 bp):
AGGAAACTCATATGAGCCATAAAC
Found at i:33508260 original size:22 final size:22
Alignment explanation
Indices: 33508235--33508277 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33508225 TAATAAAAAG
33508235 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
33508257 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
33508278 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:33511958 original size:22 final size:22
Alignment explanation
Indices: 33511933--33511975 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33511923 TAATAAAAAG
33511933 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
33511955 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
33511976 CAGTTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:33513994 original size:20 final size:18
Alignment explanation
Indices: 33513960--33514013 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
33513950 TATTTAATAC
33513960 TAATATATATTTTTATTT
1 TAATATATATTTTTATTT
*
33513978 TAATATAATATTTTT-TAT
1 TAATAT-ATATTTTTATTT
*
33513996 T--TATATATTTTTAATT
1 TAATATATATTTTTATTT
33514012 TA
1 TA
33514014 TTATTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
18 9 0.30
19 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATATATATTTTTATTT
Found at i:33514003 original size:15 final size:15
Alignment explanation
Indices: 33513975--33514018 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
33513965 TATATTTTTA
*
33513975 TTTTAATATA-ATAT
1 TTTTAATTTATATAT
*
33513989 TTTTTATTTATATAT
1 TTTTAATTTATATAT
33514004 TTTTAATTTAT-TAT
1 TTTTAATTTATATAT
33514018 T
1 T
33514019 ATATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATTTATATAT
Found at i:33514022 original size:21 final size:23
Alignment explanation
Indices: 33513987--33514029 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33513977 TTAATATAAT
*
33513987 ATTTTTTATTTATAT-ATTTTTA
1 ATTTATTATTTATATAATTTTTA
33514009 ATTTATTA-TTATATAATTTTT
1 ATTTATTATTTATATAATTTTT
33514030 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTATTATTTATATAATTTTTA
Found at i:33514038 original size:23 final size:21
Alignment explanation
Indices: 33513996--33514038 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33513986 TATTTTTTAT
**
33513996 TTATATATTTTTAATTTATTA
1 TTATATATTTTTAAAATATTA
33514017 TTATATAATTTTTGAAAATATT
1 TTATAT-ATTTTT-AAAATATT
33514039 TATGTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATATATTTTTAAAATATTA
Found at i:33517408 original size:23 final size:23
Alignment explanation
Indices: 33517378--33517434 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
33517368 TTGATATAAT
* *
33517378 AAATAATAATATTATTAAAAATC
1 AAATAATAATAGTATCAAAAATC
* *
33517401 AAATAATAAAAGTATCAAACATC
1 AAATAATAATAGTATCAAAAATC
33517424 AAATAATAATA
1 AAATAATAATA
33517435 AAAATCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATAATAATAGTATCAAAAATC
Found at i:33517446 original size:24 final size:23
Alignment explanation
Indices: 33517398--33517446 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
33517388 ATTATTAAAA
**
33517398 ATCAAATAATAAAAGTATCAAAC
1 ATCAAATAATAAAAAAATCAAAC
33517421 ATCAAATAATAATAAAAATCAAAC
1 ATCAAATAATAA-AAAAATCAAAC
33517445 AT
1 AT
33517447 AACAGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
ATCAAATAATAAAAAAATCAAAC
Found at i:33525669 original size:16 final size:16
Alignment explanation
Indices: 33525650--33525680 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33525640 GAAGAAATTC
33525650 AGAAGAATAGAAGTTT
1 AGAAGAATAGAAGTTT
33525666 AGAAGAATAGAAGTT
1 AGAAGAATAGAAGTT
33525681 AGGGTTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (16 bp):
AGAAGAATAGAAGTTT
Found at i:33529347 original size:26 final size:26
Alignment explanation
Indices: 33529318--33529370 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33529308 TCAAACATGC
*
33529318 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATCTAACTCCTAGGGGT
* *
33529344 ATTTCAGTAATCTATCTCCTAGGGGT
1 ATTTAAGTAATCTAACTCCTAGGGGT
33529370 A
1 A
33529371 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (26 bp):
ATTTAAGTAATCTAACTCCTAGGGGT
Found at i:33530892 original size:26 final size:26
Alignment explanation
Indices: 33530856--33530965 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
33530846 CATGAAATTC
33530856 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33530882 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
33530908 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
33530934 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
33530960 TTATCA
1 TTATCA
33530966 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33532835 original size:20 final size:20
Alignment explanation
Indices: 33532789--33532829 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33532779 AGGGGCACAC
* *
33532789 GCCCATGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGAACAT
33532809 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
33532829 G
1 G
33532830 GTCGTGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:33532840 original size:20 final size:20
Alignment explanation
Indices: 33532797--33532840 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
33532787 ACGCCCATGT
* *
33532797 GGCCTGGGACATGCCCGTGT
1 GGCCTGGAACATGCCCGTGA
**
33532817 GGCCTGGAACATGGTCGTGA
1 GGCCTGGAACATGCCCGTGA
33532837 GGCC
1 GGCC
33532841 AGGCCGTGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.41, T:0.18
Consensus pattern (20 bp):
GGCCTGGAACATGCCCGTGA
Found at i:33535155 original size:18 final size:18
Alignment explanation
Indices: 33535134--33535167 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33535124 CTATGAAATA
33535134 AAAAAAT-TTAAAAATTT
1 AAAAAATATTAAAAATTT
33535151 AAAAAATATTAAAAATT
1 AAAAAATATTAAAAATT
33535168 ATTCTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATATTAAAAATTT
Found at i:33541936 original size:30 final size:30
Alignment explanation
Indices: 33541902--33541961 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33541892 TATATAATTC
33541902 ACTAAAGAAAGGATACTTTTTACTAATATT
1 ACTAAAGAAAGGATACTTTTTACTAATATT
33541932 ACTAAAGAAAGGATACTTTTTACTAATATT
1 ACTAAAGAAAGGATACTTTTTACTAATATT
33541962 GTATGTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
ACTAAAGAAAGGATACTTTTTACTAATATT
Found at i:33545529 original size:27 final size:27
Alignment explanation
Indices: 33545491--33545552 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
33545481 GTAAAGACTT
33545491 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
33545518 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
*
33545545 CACATTGA
1 AACATTGA
33545553 GAGCTTTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (27 bp):
AACATTGAATTCAAGCATTTTGTAGAA
Found at i:33545886 original size:3 final size:3
Alignment explanation
Indices: 33545878--33545923 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
33545868 CTATTTTTTC
*
33545878 TCT TCT TCT TCT TC- TCAT T-T TCT TCT TCT TCT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT
33545922 TC
1 TC
33545924 CTTTTCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 33 0.87
4 1 0.03
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:33545898 original size:23 final size:23
Alignment explanation
Indices: 33545873--33545923 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33545863 TATCTCTATT
33545873 TTTTC-TCTTCTTCTTCTTCTCA
1 TTTTCTTCTTCTTCTTCTTCTCA
33545895 TTTTCTTCTTCTTCTTCTTCT--
1 TTTTCTTCTTCTTCTTCTTCTCA
33545916 TTTTCTTC
1 TTTTCTTC
33545924 CTTTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.29
22 5 0.18
23 15 0.54
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCTTCTTCTTCTTCTTCTCA
Found at i:33556309 original size:5 final size:5
Alignment explanation
Indices: 33556296--33556340 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
33556286 ACAACTCTTC
*
33556296 ATTTT ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
33556341 TTCTGATCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:33557365 original size:18 final size:18
Alignment explanation
Indices: 33557338--33557430 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
33557328 TACGACCGTT
33557338 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33557356 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33557374 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33557392 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
33557410 TACGATACTGTTCACGTA
1 TACGGTACTATTCACGTA
33557428 TAC
1 TAC
33557431 AGTAGTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:33572371 original size:12 final size:12
Alignment explanation
Indices: 33572344--33572375 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
33572334 TTCCCTGTAA
33572344 AATAGTAAAAAT
1 AATAGTAAAAAT
33572356 -ATAGTAAAAAT
1 AATAGTAAAAAT
33572367 AATAGTAAA
1 AATAGTAAA
33572376 GGGGAAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:33573317 original size:20 final size:20
Alignment explanation
Indices: 33573279--33573326 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33573269 TAAATTCTAA
* **
33573279 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
33573299 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
33573319 AAA-ATAAA
1 AAAGATAAA
33573327 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:33574785 original size:18 final size:18
Alignment explanation
Indices: 33574743--33574786 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
33574733 ATCTAAAAAT
* *
33574743 AATAAATAATAAAATAAT
1 AATAAAAAATAAAATAAA
*
33574761 AAGAAAAAATAAAATAAA
1 AATAAAAAATAAAATAAA
33574779 AATAAAAA
1 AATAAAAA
33574787 TTAGGTTGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (18 bp):
AATAAAAAATAAAATAAA
Found at i:33578360 original size:20 final size:20
Alignment explanation
Indices: 33578322--33578369 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33578312 TAAATTCTAA
* **
33578322 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
33578342 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
33578362 AAA-ATAAA
1 AAAGATAAA
33578370 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:33578413 original size:15 final size:15
Alignment explanation
Indices: 33578393--33578422 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33578383 ATAATTCTAA
*
33578393 TAATTATCTTAATAT
1 TAATTATCCTAATAT
33578408 TAATTATCCTAATAT
1 TAATTATCCTAATAT
33578423 AAATGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:33580631 original size:16 final size:16
Alignment explanation
Indices: 33580610--33580643 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33580600 CCTCGACGAC
33580610 TTTTGCTTTCAACAAT
1 TTTTGCTTTCAACAAT
33580626 TTTTGCTTTCAACAAT
1 TTTTGCTTTCAACAAT
33580642 TT
1 TT
33580644 GCTTAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTTGCTTTCAACAAT
Found at i:33580646 original size:14 final size:15
Alignment explanation
Indices: 33580610--33580647 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
33580600 CCTCGACGAC
33580610 TTTTGCTTTCAACAA
1 TTTTGCTTTCAACAA
33580625 TTTTTGCTTTCAACAA
1 -TTTTGCTTTCAACAA
33580641 -TTTGCTT
1 TTTTGCTT
33580648 AACTCTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.32
16 15 0.68
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.53
Consensus pattern (15 bp):
TTTTGCTTTCAACAA
Found at i:33584542 original size:20 final size:19
Alignment explanation
Indices: 33584517--33584559 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
33584507 ACATATTACC
33584517 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
33584537 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
33584556 AATT
1 AATT
33584560 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:33584977 original size:30 final size:30
Alignment explanation
Indices: 33584943--33585001 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
33584933 CTTCTATTTG
* * *
33584943 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
33584973 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
33585002 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:33587702 original size:18 final size:19
Alignment explanation
Indices: 33587665--33587703 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
33587655 AGAAATTATG
33587665 AAGCAGGAGTTTGAGAGAAA
1 AAGCAGGAGTTT-AGAGAAA
*
33587685 AAGCTGGAGTTT-GAGAAA
1 AAGCAGGAGTTTAGAGAAA
33587703 A
1 A
33587704 GGATACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.18
Consensus pattern (19 bp):
AAGCAGGAGTTTAGAGAAA
Found at i:33588271 original size:13 final size:14
Alignment explanation
Indices: 33588253--33588282 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33588243 AGACTTGGCA
33588253 ATTGAG-CTGATGT
1 ATTGAGTCTGATGT
33588266 ATTGAGTCTGATGT
1 ATTGAGTCTGATGT
33588280 ATT
1 ATT
33588283 CATCATCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (14 bp):
ATTGAGTCTGATGT
Found at i:33588477 original size:15 final size:15
Alignment explanation
Indices: 33588443--33588487 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
33588433 ATATTCTTTA
33588443 TGCAT-TCATGCATT
1 TGCATCTCATGCATT
33588457 TGCATCTCATGGCATT
1 TGCATCTCAT-GCATT
*
33588473 T-CATCACAT-CATT
1 TGCATCTCATGCATT
33588486 TG
1 TG
33588488 TATTCAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 11 0.41
16 6 0.22
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (15 bp):
TGCATCTCATGCATT
Found at i:33607877 original size:44 final size:44
Alignment explanation
Indices: 33607663--33608018 Score: 125
Period size: 44 Copynumber: 8.0 Consensus size: 44
33607653 TATCTCTCTG
* * * * **
33607663 AGGTAGAAAAAGAGCAGGTTGAAGATTAAAGTCTTATCTTCCCG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
* * * *
33607707 AGGTAGCAAG-GAAACAGACTGAGGATTGAAGATCTTATCTCCCTA
1 AGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-TCTTATCTTCCTA
* ** * **
33607752 A-GCAATAATG-GAGCAGATCGAAGATGGTGAA-TCTTATCTTCCCG
1 AGGTAGCAA-GAGAGCAGATTGAAGAT--TGAAGTCTTATCTTCCTA
* * ** ***** * *
33607796 AGGTAGCAGGGGAGCAGATTTTAGCCACCAG-CTTTATC-TCTTTG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTC-TTATCTTC-CTA
*
33607840 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
*** * * ** ***** *
33607884 AGGTAGTGGGGGAGTAGATTTTAGCCACCAGCCTTATC-TCTCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTC-CTA
* * * * *
33607928 AGGTAGCGAGAGAACAGGTTGAAGATTGAAGTCTTATCTTCTTG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
* * *
33607972 AGGTAGCAAG-GAAGCAGATTGAAGATTGTAGATCTTGTCTCCCTA
1 AGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-TCTTATCTTCCTA
33608017 AG
1 AG
33608019 CAGTAGTGGA
Statistics
Matches: 212, Mismatches: 84, Indels: 31
0.65 0.26 0.09
Matches are distributed among these distances:
43 8 0.04
44 158 0.75
45 42 0.20
46 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
Found at i:33607896 original size:88 final size:88
Alignment explanation
Indices: 33607779--33607991 Score: 302
Period size: 88 Copynumber: 2.4 Consensus size: 88
33607769 TCGAAGATGG
* * * *
33607779 TGAA-TCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCTTTATCTCTTTGAGG
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
*
33607843 TAGCAAGAGAGCAGGTTGAAGAT
66 TAGCAAGAGAACAGGTTGAAGAT
* ** *
33607866 TGAAGTCTTATCTTCCTAAGGTAGTGGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
*
33607931 TAGCGAGAGAACAGGTTGAAGAT
66 TAGCAAGAGAACAGGTTGAAGAT
* * *
33607954 TGAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATT
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATT
33607992 GAAGATTGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 4 0.04
88 104 0.96
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (88 bp):
TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
TAGCAAGAGAACAGGTTGAAGAT
Found at i:33608112 original size:88 final size:88
Alignment explanation
Indices: 33607996--33608193 Score: 290
Period size: 88 Copynumber: 2.2 Consensus size: 88
33607986 CAGATTGAAG
*
33607996 ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAA-TAGATCGAAGACGGTGAGCCTTAACCCCCT
1 ATTGTAGATCTTGTCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGACGGTGAGCCTTAACCCCCT
* * *
33608060 AAACAGTAGGGTAACAGGCTAAAA
65 AAACAATAAGGTAACAGGATAAAA
* * **
33608084 ATTGTGGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAGGGTGGTGAGCCTTAACCCCCTA
1 ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAGCCTTAACCCCCTA
*
33608149 AGCAATAAGGTAACAGGATAAAA
66 AACAATAAGGTAACAGGATAAAA
*
33608172 ATTATAGATCTTGTCTCCCTAA
1 ATTGTAGATCTTGTCTCCCTAA
33608194 AGTTGCAGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 3 0.03
88 95 0.97
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (88 bp):
ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAGCCTTAACCCCCTA
AACAATAAGGTAACAGGATAAAA
Found at i:33611407 original size:19 final size:19
Alignment explanation
Indices: 33611385--33611421 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33611375 CATTATAAGC
33611385 AATAAA-TAACTCAATAACT
1 AATAAATTAACT-AATAACT
33611404 AATAAATTAACTAATAAC
1 AATAAATTAACTAATAAC
33611422 CTAGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAATTAACTAATAACT
Found at i:33612306 original size:16 final size:16
Alignment explanation
Indices: 33612268--33612306 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
33612258 CAGTCCAAAC
*
33612268 AATTAAAAATATATAT
1 AATTAAAAAAATATAT
33612284 -ATATAAAAAAATATAT
1 AAT-TAAAAAAATATAT
33612300 AATTAAA
1 AATTAAA
33612307 TGTCCAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAAAAAATATAT
Found at i:33613771 original size:19 final size:19
Alignment explanation
Indices: 33613747--33613844 Score: 160
Period size: 19 Copynumber: 5.1 Consensus size: 19
33613737 TCTTTAAGGT
33613747 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
33613766 TATGCAGTCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
33613785 TATGCAGTCTTAGATATGA
1 TATGCAATCTTAGATATGA
33613804 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
33613823 TATGCAATCTTGAAGATATGA
1 TATGCAATCTT--AGATATGA
33613844 T
1 T
33613845 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
19 66 0.88
21 9 0.12
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:33619481 original size:9 final size:8
Alignment explanation
Indices: 33619467--33619534 Score: 81
Period size: 8 Copynumber: 8.8 Consensus size: 8
33619457 CTTCTATTTC
33619467 AAAAAAAGG
1 AAAAAAA-G
33619476 AAAAAAAG
1 AAAAAAAG
33619484 ---AAAAG
1 AAAAAAAG
33619489 AAAAAAAG
1 AAAAAAAG
33619497 AAAAAAAG
1 AAAAAAAG
*
33619505 AAAAAGA-
1 AAAAAAAG
33619512 AAAAAAAG
1 AAAAAAAG
33619520 AGAAAAAAG
1 A-AAAAAAG
33619529 AAAAAA
1 AAAAAA
33619535 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
5 5 0.10
7 6 0.12
8 26 0.50
9 15 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:33620540 original size:44 final size:44
Alignment explanation
Indices: 33620490--33620590 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
33620480 AGCTCCTTAA
* * *
33620490 TCCCCTAAGCAGTAGGGTAACAGTTTAAATTTACAGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATC
* *
33620534 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATC
33620578 T-CCCTAAGCAGTA
1 TCCCCTAAGCAGTA
33620591 TTGGAGCATA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
43 12 0.23
44 40 0.77
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATC
Found at i:33621101 original size:220 final size:220
Alignment explanation
Indices: 33620649--33621660 Score: 1535
Period size: 220 Copynumber: 4.6 Consensus size: 220
33620639 AGGTTAAAGT
* * * *
33620649 ATAGCAGATCTGGCCTTCAGGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
33620714 TGTCAGATAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAC-G-GAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
** *
33620777 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGATATTCGTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
* *
33620842 TGTTTACAAGGAGAAAATCAAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
*
33620867 ATAGCAGATCTGACCTTCAGGTGTTTACAATGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * * *
33620932 TGTCAGATAACAAATCGAAGAAATAGATTTGGTATCTCCATATTCGACGGAGAGCAGATCGAAGG
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * *
33620997 CATAACAGATCTGACCTTTGGATGTTTTCACATCGAAGCATATCCAAGATAATTTGGCATTCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
33621062 TGTTTACAAGGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* *
33621087 ATAGTAGATCTGACCTTCAGGTGTTTACACTGAAACAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * *
33621152 TGTTAGAGAACAAATCGAAGAAACAGATTTGGCTTCTCCATATTCAACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
*
33621217 CATAGCAGATCTGACCTTTGGATGTTTTCACATCAAAGCAGATCCAAGATGATTTGGCATTCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
33621282 TGTTTACAATGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* *
33621307 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTGTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
33621372 TGTCAGAGAACAAATTGAATAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * * * * *
33621437 CATAGCAGATCTGACCTTCGGATTTTTTCACATTGAAGCAGATCAAAGATGATTTAGCATCCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
33621502 TGTTTACAAGAAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* * * *
33621527 ATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATATCTATAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * ** * *** *
33621592 TGTCA-AGGAACGAATCGAAGGTAGTAGATTTGACATCTTTGTATTCGACGGAGAGAAGATCGAA
66 TGTCAGA-GAACAAATCGAA-GAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
33621656 AACAT
129 GACAT
33621661 CAACATGACA
Statistics
Matches: 725, Mismatches: 65, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
218 106 0.15
219 2 0.00
220 578 0.80
221 39 0.05
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAGCAAATCGAAGAC
Found at i:33622012 original size:19 final size:19
Alignment explanation
Indices: 33621988--33622068 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
33621978 AATCTTTAAG
*
33621988 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
33622007 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
33622026 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33622045 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33622066 GAT
1 GAT
33622069 CTTGTAATCT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 48 0.84
21 9 0.16
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33632210 original size:18 final size:18
Alignment explanation
Indices: 33632187--33632222 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33632177 ATTTAATTTA
33632187 ATCTAATATAATTTGTTC
1 ATCTAATATAATTTGTTC
33632205 ATCTAATATAATTTGTTC
1 ATCTAATATAATTTGTTC
33632223 TGATCAAGCC
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:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
ATCTAATATAATTTGTTC
Found at i:33638572 original size:17 final size:18
Alignment explanation
Indices: 33638529--33638574 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
33638519 GATTGGGTGG
*
33638529 TGGGTATTGGGTTGATTT
1 TGGGTATTGGGTTGATTA
*
33638547 TGGGT-TTGGGTTTA-TA
1 TGGGTATTGGGTTGATTA
33638563 TGGGTATTGGGT
1 TGGGTATTGGGT
33638575 ATGGTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.48
Consensus pattern (18 bp):
TGGGTATTGGGTTGATTA
Found at i:33645612 original size:7 final size:7
Alignment explanation
Indices: 33645600--33645626 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33645590 AAATTAATAA
33645600 AATAAAT
1 AATAAAT
33645607 AATAAAT
1 AATAAAT
33645614 AATAAAT
1 AATAAAT
33645621 AATAAA
1 AATAAA
33645627 AAAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:33645635 original size:14 final size:14
Alignment explanation
Indices: 33645598--33645629 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33645588 CTAAATTAAT
33645598 AAAATAAATAATAA
1 AAAATAAATAATAA
*
33645612 ATAATAAATAATAA
1 AAAATAAATAATAA
33645626 AAAA
1 AAAA
33645630 ATAATATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAAATAATAA
Found at i:33647490 original size:38 final size:38
Alignment explanation
Indices: 33647432--33647732 Score: 426
Period size: 38 Copynumber: 7.9 Consensus size: 38
33647422 GAATCCAGTC
* **
33647432 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
* * * *
33647470 ATCAGCATGAAGCCTACGGGATAAAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
* *
33647508 ACTAGCACGAAGCCTGCGGGAT-AAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
*
33647545 ACCAGCACGAAGCCTACGGGATAAAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
* *
33647583 ACCAGCACTAAGCCTGCGGAATAAAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
* * *
33647621 TCCAGTAC-AACGCCTGCGGGATAAAACCTGGATATAAT
1 ACCAGCACGAA-GCCTGCGGGATAAAACCCGGATATAAT
* *
33647659 ACTAGCACGAAGCCGGCGGGATAAAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
33647697 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATA
1 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATA
33647733 CATCAAATAT
Statistics
Matches: 232, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
37 37 0.16
38 193 0.83
39 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
Found at i:33657777 original size:26 final size:26
Alignment explanation
Indices: 33657726--33657797 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
33657716 TTTTAATCCT
**
33657726 TTTTTATTT-TAAATATTTTTTA-TA
1 TTTTTATTTATAAATATTAGTTATTA
33657750 TTATTTATTTTTATAAATATTAGTTATTA
1 TT-TTTA--TTTATAAATATTAGTTATTA
*
33657779 TTTTTATTTATATATATTA
1 TTTTTATTTATAAATATTA
33657798 TCCATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.05
25 4 0.10
26 12 0.30
27 3 0.08
28 15 0.38
29 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTATTTATAAATATTAGTTATTA
Found at i:33657798 original size:22 final size:22
Alignment explanation
Indices: 33657746--33657798 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
33657736 AAATATTTTT
33657746 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
33657769 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
33657791 TATATTAT
1 TATATTAT
33657799 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:33657804 original size:26 final size:26
Alignment explanation
Indices: 33657749--33657810 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
33657739 TATTTTTTAT
*
33657749 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
33657775 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
33657801 ATTATATTAT
1 ATTAT-TTAT
33657811 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:33657870 original size:30 final size:31
Alignment explanation
Indices: 33657786--33657872 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 31
33657776 TTATTTTTAT
*
33657786 TTATATATATT-ATCCAT-TATAT-TATATTA
1 TTATATAT-TTCATCTATATATATATATATTA
* * * *
33657815 TTGTATATTTTATCTATAAAT-TATATTTTA
1 TTATATATTTCATCTATATATATATATATTA
33657845 TTATATATTTCAT-TATATATATATATAT
1 TTATATATTTCATCTATATATATATATAT
33657873 CTTATGCATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
28 2 0.04
29 19 0.41
30 25 0.54
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (31 bp):
TTATATATTTCATCTATATATATATATATTA
Found at i:33669171 original size:26 final size:26
Alignment explanation
Indices: 33669120--33669191 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
33669110 TTTTAATCCT
**
33669120 TTTTTATTT-TAAATATTTTTTA-TA
1 TTTTTATTTATAAATATTAGTTATTA
33669144 TTATTTATTTTTATAAATATTAGTTATTA
1 TT-TTTA--TTTATAAATATTAGTTATTA
*
33669173 TTTTTATTTATATATATTA
1 TTTTTATTTATAAATATTA
33669192 TCCATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.05
25 4 0.10
26 12 0.30
27 3 0.08
28 15 0.38
29 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTATTTATAAATATTAGTTATTA
Found at i:33669192 original size:22 final size:22
Alignment explanation
Indices: 33669140--33669192 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
33669130 AAATATTTTT
33669140 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
33669163 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
33669185 TATATTAT
1 TATATTAT
33669193 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:33669198 original size:26 final size:26
Alignment explanation
Indices: 33669143--33669204 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
33669133 TATTTTTTAT
*
33669143 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
33669169 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
33669195 ATTATATTAT
1 ATTAT-TTAT
33669205 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:33669264 original size:30 final size:31
Alignment explanation
Indices: 33669180--33669266 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 31
33669170 TTATTTTTAT
*
33669180 TTATATATATT-ATCCAT-TATAT-TATATTA
1 TTATATAT-TTCATCTATATATATATATATTA
* * * *
33669209 TTGTATATTTTATCTATAAAT-TATATTTTA
1 TTATATATTTCATCTATATATATATATATTA
33669239 TTATATATTTCAT-TATATATATATATAT
1 TTATATATTTCATCTATATATATATATAT
33669267 ATCTTATGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
28 2 0.04
29 19 0.41
30 25 0.54
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (31 bp):
TTATATATTTCATCTATATATATATATATTA
Found at i:33680379 original size:3 final size:3
Alignment explanation
Indices: 33680371--33680412 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
33680361 TTTTTGACAA
33680371 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33680413 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33681418 original size:43 final size:43
Alignment explanation
Indices: 33681370--33681456 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
33681360 AAACAGATCC
* *
33681370 AAGATGATTTGG-AGTCTCTGTATTGTCAGGGAGCAGATCGAAG
1 AAGATGATTTGGCA-TCTCTGTATTGGCAGAGAGCAGATCGAAG
*
33681413 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
33681456 A
1 A
33681457 CAGAGCTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (43 bp):
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
Found at i:33681559 original size:87 final size:87
Alignment explanation
Indices: 33681413--33681630 Score: 355
Period size: 87 Copynumber: 2.5 Consensus size: 87
33681403 CAGATCGAAG
* *
33681413 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGACAGAGCTGATCTGGCTTTCAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
33681478 GTGTTTACATTGAAGCAAATCT
66 GTGTTTACATTGAAGCAAATCT
* * * *
33681500 AAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTTAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
*
33681565 GTGTTTACGTTGAAGCAAATCT
66 GTGTTTACATTGAAGCAAATCT
* *
33681587 AAGATGATTTGGCGTCTCTGTATTGTCAGAGTGCAGATCGAAGA
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
33681631 TAACAGATTT
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 121 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (87 bp):
AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
GTGTTTACATTGAAGCAAATCT
Found at i:33681871 original size:213 final size:213
Alignment explanation
Indices: 33681488--33681877 Score: 523
Period size: 213 Copynumber: 1.8 Consensus size: 213
33681478 GTGTTTACAT
* * ** * * *
33681488 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTCACAAGGAGCAAATCGAAGACATAGCAGA
* * * * * * *
33681553 TTTGGCTTTTACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGTCAGAG
66 TTTAGCTTTCACGTGTTTACGCTGAAGCAAATATAAGATGATTTGGCATCTCTGTACTGTCAGAA
** * * * *
33681618 TGCAGATCGAAGATAACAGATTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTA
131 AACAAATCAAAGATAACAGATTTGGCATCTCAAGTTCGACGGAGAGCAGATACATAGCAGATCTA
33681683 ACCTTCAGATGATTTTAC
196 ACCTTCAGATGATTTTAC
* *
33681701 TGAAGCAGATCCAAGATGATTTGGCATC-CTTGTGTTCACAAGGAGCAAATCGAAGACATAGCAG
1 TGAAGCAAATCCAAGATGATTTGGCATCTC-TGTATTCACAAGGAGCAAATCGAAGACATAGCAG
*
33681765 ATTTAGCTTTCACGTGTTTACGCTGAAGCAGATATAAGATGATTTGGCATCTCTGTACTGTCAGA
65 ATTTAGCTTTCACGTGTTTACGCTGAAGCAAATATAAGATGATTTGGCATCTCTGTACTGTCAGA
* *
33681830 AAACAAATCAAAGA-AGCAGATTTGGCGTCTCTAAGTTCGACGGAGAGC
130 AAACAAATCAAAGATAACAGATTTGGCATCTC-AAGTTCGACGGAGAGC
33681878 TGATCGAAGA
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
212 16 0.11
213 134 0.89
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (213 bp):
TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTCACAAGGAGCAAATCGAAGACATAGCAGA
TTTAGCTTTCACGTGTTTACGCTGAAGCAAATATAAGATGATTTGGCATCTCTGTACTGTCAGAA
AACAAATCAAAGATAACAGATTTGGCATCTCAAGTTCGACGGAGAGCAGATACATAGCAGATCTA
ACCTTCAGATGATTTTAC
Found at i:33686255 original size:28 final size:26
Alignment explanation
Indices: 33686221--33686279 Score: 86
Period size: 24 Copynumber: 2.3 Consensus size: 26
33686211 AACATGCATG
33686221 CAAGAATCGATATCAAACAACCCAGAAT
1 CAAGAAT--ATATCAAACAACCCAGAAT
33686249 CAAG-A-ATATCAAACAACCCAGAAT
1 CAAGAATATATCAAACAACCCAGAAT
33686273 CAAGAAT
1 CAAGAAT
33686280 TTTTCTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 23 0.79
25 1 0.03
27 1 0.03
28 4 0.14
ACGTcount: A:0.53, C:0.24, G:0.10, T:0.14
Consensus pattern (26 bp):
CAAGAATATATCAAACAACCCAGAAT
Found at i:33686259 original size:24 final size:24
Alignment explanation
Indices: 33686230--33686279 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
33686220 GCAAGAATCG
33686230 ATATCAAACAACCCAGAATCAAGA
1 ATATCAAACAACCCAGAATCAAGA
33686254 ATATCAAACAACCCAGAATCAAGA
1 ATATCAAACAACCCAGAATCAAGA
33686278 AT
1 AT
33686280 TTTTCTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.24, G:0.08, T:0.14
Consensus pattern (24 bp):
ATATCAAACAACCCAGAATCAAGA
Found at i:33689378 original size:171 final size:171
Alignment explanation
Indices: 33689093--33689438 Score: 692
Period size: 171 Copynumber: 2.0 Consensus size: 171
33689083 TTACGGTTAT
33689093 AAATGGCATGTATAAGGCTCATATGTAATAGGTGTATTTGTATATTCTTGGATACTTATTACAAA
1 AAATGGCATGTATAAGGCTCATATGTAATAGGTGTATTTGTATATTCTTGGATACTTATTACAAA
33689158 TTTTATGTATTAAGCTTGGTATAAACTTACTTGTGTTTGTGCCTTTAATCTTGGTGTGAATATGT
66 TTTTATGTATTAAGCTTGGTATAAACTTACTTGTGTTTGTGCCTTTAATCTTGGTGTGAATATGT
33689223 TTATATAAAGTTGTTTTGGTCTTTTGATATAAATCTTATTC
131 TTATATAAAGTTGTTTTGGTCTTTTGATATAAATCTTATTC
33689264 AAATGGCATGTATAAGGCTCATATGTAATAGGTGTATTTGTATATTCTTGGATACTTATTACAAA
1 AAATGGCATGTATAAGGCTCATATGTAATAGGTGTATTTGTATATTCTTGGATACTTATTACAAA
33689329 TTTTATGTATTAAGCTTGGTATAAACTTACTTGTGTTTGTGCCTTTAATCTTGGTGTGAATATGT
66 TTTTATGTATTAAGCTTGGTATAAACTTACTTGTGTTTGTGCCTTTAATCTTGGTGTGAATATGT
33689394 TTATATAAAGTTGTTTTGGTCTTTTGATATAAATCTTATTC
131 TTATATAAAGTTGTTTTGGTCTTTTGATATAAATCTTATTC
33689435 AAAT
1 AAAT
33689439 ATTTGAATCA
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 175 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (171 bp):
AAATGGCATGTATAAGGCTCATATGTAATAGGTGTATTTGTATATTCTTGGATACTTATTACAAA
TTTTATGTATTAAGCTTGGTATAAACTTACTTGTGTTTGTGCCTTTAATCTTGGTGTGAATATGT
TTATATAAAGTTGTTTTGGTCTTTTGATATAAATCTTATTC
Found at i:33708437 original size:17 final size:17
Alignment explanation
Indices: 33708415--33708449 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33708405 AAAATCAAAG
33708415 AATTATAATATAAAAAT
1 AATTATAATATAAAAAT
33708432 AATTATAATATAAAAAT
1 AATTATAATATAAAAAT
33708449 A
1 A
33708450 GTGCAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTATAATATAAAAAT
Found at i:33711458 original size:334 final size:334
Alignment explanation
Indices: 33710849--33711524 Score: 1226
Period size: 334 Copynumber: 2.0 Consensus size: 334
33710839 AAGAAGTAAG
*
33710849 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
33710914 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* **
33710979 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACTGT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
* *
33711044 AGCCATTATTTTAGATCATGAATACCATGTTTGCCTCGATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
* *
33711109 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTATTTTCCTATTCGCGTTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
33711174 CTTGTCAGT
326 CTTGTCAGT
*
33711183 ATAGATTATATTATCATATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
*
33711248 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* *
33711313 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTTTCCACACTTGTTTCGACAAAACACT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
33711378 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
33711443 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTTGCATTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
*
33711508 CTTGTTAGT
326 CTTGTCAGT
33711517 ATAGATTA
1 ATAGATTA
33711525 ACAAAAAATG
Statistics
Matches: 328, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
334 328 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (334 bp):
ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
CTTGTCAGT
Found at i:33712807 original size:9 final size:9
Alignment explanation
Indices: 33712793--33712821 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
33712783 CGACTTTTAA
33712793 TTATTATTT
1 TTATTATTT
33712802 TTATTATTT
1 TTATTATTT
33712811 TTATTATTT
1 TTATTATTT
33712820 TT
1 TT
33712822 TAAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTATTT
Found at i:33713018 original size:20 final size:20
Alignment explanation
Indices: 33712993--33713040 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
33712983 TATTTTTTTA
33712993 TTTTTATATTAAAAAAATAT
1 TTTTTATATTAAAAAAATAT
* * *
33713013 TTTTTA-AATAAAATATTAT
1 TTTTTATATTAAAAAAATAT
33713032 TTTTT-TATT
1 TTTTTATATT
33713041 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTATATTAAAAAAATAT
Found at i:33713027 original size:16 final size:16
Alignment explanation
Indices: 33712996--33713034 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
33712986 TTTTTTATTT
*
33712996 TTATATTAAAAAAATA
1 TTATTTTAAAAAAATA
33713012 TT-TTTTAAATAAAATA
1 TTATTTTAAA-AAAATA
33713028 TTATTTT
1 TTATTTT
33713035 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTTTAAAAAAATA
Found at i:33713928 original size:27 final size:27
Alignment explanation
Indices: 33713886--33713959 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
33713876 TACCATTTTC
* *
33713886 CGCCTCTAAGATAGGCACGATTAGTCG
1 CGCCTCTGAGATAGGCACAATTAGTCG
* *
33713913 CGCCTCTGAGAAAGGCTCAATTAGTCG
1 CGCCTCTGAGATAGGCACAATTAGTCG
* *
33713940 CACCTCTGACATAGGCACAA
1 CGCCTCTGAGATAGGCACAA
33713960 CCTATATTCG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (27 bp):
CGCCTCTGAGATAGGCACAATTAGTCG
Found at i:33716563 original size:17 final size:19
Alignment explanation
Indices: 33716533--33716579 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33716523 CTAAAATTTT
33716533 ATTTATAAATATAT-AAAAA
1 ATTTA-AAATATATCAAAAA
*
33716552 ATTTAAAA-ATATCAACAA
1 ATTTAAAATATATCAAAAA
*
33716570 ACTTAAAATA
1 ATTTAAAATA
33716580 GAGCACATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTAAAATATATCAAAAA
Found at i:33724283 original size:55 final size:55
Alignment explanation
Indices: 33724163--33724272 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
33724153 ATGGGGACGT
33724163 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
1 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
33724218 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
1 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
33724273 TTGTGTAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (55 bp):
GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
Found at i:33725469 original size:7 final size:7
Alignment explanation
Indices: 33725457--33725481 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33725447 TCAAATAAAT
33725457 AATTTTA
1 AATTTTA
33725464 AATTTTA
1 AATTTTA
33725471 AATTTTA
1 AATTTTA
33725478 AATT
1 AATT
33725482 ATTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:33729119 original size:18 final size:17
Alignment explanation
Indices: 33729096--33729129 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33729086 AATGGAAAAT
33729096 TTATATTAAATTATTAAG
1 TTATATTAAA-TATTAAG
*
33729114 TTATATTCAATATTAA
1 TTATATTAAATATTAA
33729130 ATTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTATATTAAATATTAAG
Found at i:33729270 original size:21 final size:22
Alignment explanation
Indices: 33729245--33729286 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33729235 TACTTGGACT
*
33729245 TAACACTTTTTTCT-AATTTGA
1 TAACAATTTTTTCTCAATTTGA
*
33729266 TAACAATTTTTTTTCAATTTG
1 TAACAATTTTTTCTCAATTTG
33729287 GCACCTGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (22 bp):
TAACAATTTTTTCTCAATTTGA
Found at i:33729475 original size:13 final size:13
Alignment explanation
Indices: 33729457--33729527 Score: 65
Period size: 13 Copynumber: 5.2 Consensus size: 13
33729447 CAATATAATG
33729457 AATTTTTTAATTT
1 AATTTTTTAATTT
*
33729470 AATTTTTTAAATGT
1 AATTTTTT-AATTT
*
33729484 -A-TTTTAAATGTT
1 AATTTTTTAAT-TT
33729496 CAATTCCTTTTAATTT
1 -AATT--TTTTAATTT
33729512 AATTTTTTAATTT
1 AATTTTTTAATTT
33729525 AAT
1 AAT
33729528 ATAATGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
11 3 0.06
12 5 0.11
13 21 0.45
14 5 0.11
15 5 0.11
16 2 0.04
17 6 0.13
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (13 bp):
AATTTTTTAATTT
Found at i:33730040 original size:25 final size:26
Alignment explanation
Indices: 33729991--33730040 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
33729981 TTAGTGCTAA
* *
33729991 ATTAAATAAAAAAGCTTAACCACCAG
1 ATTAAATAAAAAACCTTAAACACCAG
*
33730017 ATTAAA-AAAAAACCTTAAATACCA
1 ATTAAATAAAAAACCTTAAACACCA
33730041 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.20
Consensus pattern (26 bp):
ATTAAATAAAAAACCTTAAACACCAG
Found at i:33734517 original size:24 final size:24
Alignment explanation
Indices: 33734454--33734505 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33734444 TTTCTAAAAG
* * *
33734454 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33734478 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33734502 ATTT
1 ATTT
33734506 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:33738881 original size:24 final size:24
Alignment explanation
Indices: 33738853--33738905 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
33738843 TTTCTAAAAG
*
33738853 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
*
33738877 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
33738901 ATTTA
1 ATTTA
33738906 ACTTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATGAGTATAATAT
Found at i:33738915 original size:24 final size:24
Alignment explanation
Indices: 33738860--33738916 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
33738850 AAGATTTAGT
* *
33738860 ATTTATGAGTATAATATATTTAGC
1 ATTTATTAGTATAATATATTTAAC
33738884 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGTATAATATATTTAAC
33738908 -TTTGATTAG
1 ATTT-ATTAG
33738917 AATTAGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTAAC
Found at i:33739335 original size:22 final size:23
Alignment explanation
Indices: 33739304--33739347 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
33739294 TTTATGAAGA
33739304 TTCATTAAAA-CATCATGCATTTC
1 TTCATTAAAATCATCAT-CATTTC
33739327 TTCA-TAAAATCATCATCATTT
1 TTCATTAAAATCATCATCATTT
33739348 AATTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (23 bp):
TTCATTAAAATCATCATCATTTC
Found at i:33739673 original size:13 final size:13
Alignment explanation
Indices: 33739655--33739681 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33739645 TCCTTTTTAC
33739655 AACTTAAAACCCA
1 AACTTAAAACCCA
33739668 AACTTAAAACCCA
1 AACTTAAAACCCA
33739681 A
1 A
33739682 TTACAAATCC
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:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (13 bp):
AACTTAAAACCCA
Found at i:33742046 original size:14 final size:14
Alignment explanation
Indices: 33742027--33742080 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
33742017 TTCTTTTATG
33742027 TAAATATTTTCTTT
1 TAAATATTTTCTTT
* *
33742041 TAAATATTTATGTATA
1 TAAATATTT-TCT-TT
*
33742057 TATATATTTTCTTT
1 TAAATATTTTCTTT
33742071 TAAATATTTT
1 TAAATATTTT
33742081 TTGTGTATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.59
15 4 0.12
16 9 0.28
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (14 bp):
TAAATATTTTCTTT
Found at i:33742048 original size:30 final size:29
Alignment explanation
Indices: 33742014--33742087 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
33742004 TGTTGATTTT
33742014 ATATTCTTTTATGTAAATATTTTCTTTTAA
1 ATATT-TTTTATGTAAATATTTTCTTTTAA
* * *
33742044 ATATTTATGTATATATATATTTTCTTTTAA
1 ATATTT-TTTATGTAAATATTTTCTTTTAA
*
33742074 ATATTTTTTGTGTA
1 ATATTTTTTATGTA
33742088 TCTAATCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (29 bp):
ATATTTTTTATGTAAATATTTTCTTTTAA
Found at i:33744040 original size:21 final size:21
Alignment explanation
Indices: 33744016--33744055 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33744006 TATTTTTGTA
*
33744016 TTTGTTTACTATTATTTTTAG
1 TTTGCTTACTATTATTTTTAG
* *
33744037 TTTGCTTATTATTCTTTTT
1 TTTGCTTACTATTATTTTT
33744056 CTTATTTGTA
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:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTGCTTACTATTATTTTTAG
Found at i:33744582 original size:6 final size:6
Alignment explanation
Indices: 33744561--33744618 Score: 80
Period size: 6 Copynumber: 9.2 Consensus size: 6
33744551 GAAAATCCTA
*
33744561 TTTTAT TTTATTT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTGAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT
33744611 TTTATAT T
1 TTT-TAT T
33744619 AAATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
6 33 0.70
7 13 0.28
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:33759304 original size:11 final size:10
Alignment explanation
Indices: 33759272--33759327 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
33759262 CATGAGATTT
33759272 TGATAT-ACA
1 TGATATGACA
*
33759281 TGATTTGACA
1 TGATATGACA
33759291 TGATATGCACA
1 TGATATG-ACA
**
33759302 TGATATGTTA
1 TGATATGACA
*
33759312 TGAGATGCACA
1 TGATATG-ACA
33759323 TGATA
1 TGATA
33759328 CACTCATTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 5 0.14
10 16 0.44
11 15 0.42
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Done.