Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 140 of 276
Found at i:45610535 original size:34 final size:34
Alignment explanation
Indices: 45610463--45610535 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
45610453 CATACTGCAC
* *
45610463 TGAAATGGGCTAAGGCCCAGACTGCCTCTATTAC
1 TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
* * *
45610497 TGAAATGGGCTCAGGCCTAGACTG-ATACTGTTAA
1 TGAAATGGGCTAAGGCCCAGACTGCAT-CTATTAA
45610531 TGAAA
1 TGAAA
45610536 AGGGGTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
Found at i:45616691 original size:6 final size:6
Alignment explanation
Indices: 45616682--45616733 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
45616672 ACAATAAACG
* * *
45616682 TAAAAA TAAAAA TAAAAC TAAAAA TAAGAAAA TAAAAT TGAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAAA
45616732 TA
1 TA
45616734 TATGATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 31 0.82
7 2 0.05
8 5 0.13
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:45616713 original size:26 final size:26
Alignment explanation
Indices: 45616684--45616733 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
45616674 AATAAACGTA
45616684 AAAATAAAAAT-AAAACTAAAAATAAG
1 AAAATAAAAATGAAAA-TAAAAATAAG
*
45616710 AAAATAAAATTGAAAATAAAAATA
1 AAAATAAAAATGAAAATAAAAATA
45616734 TATGATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAATAAAAATGAAAATAAAAATAAG
Found at i:45616715 original size:20 final size:19
Alignment explanation
Indices: 45616677--45616731 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
45616667 ACATAACAAT
45616677 AAACGTAAAAAT-AAAAATA
1 AAAC-TAAAAATAAAAAATA
45616696 AAACTAAAAATAAGAAAATA
1 AAACTAAAAATAA-AAAATA
* *
45616716 AAATTGAAAATAAAAA
1 AAACTAAAAATAAAAA
45616732 TATATGATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
20 17 0.53
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACTAAAAATAAAAAATA
Found at i:45616875 original size:23 final size:23
Alignment explanation
Indices: 45616843--45616886 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45616833 AGTGTCTCAT
*
45616843 CAATATGGTCAAACCTCTGATCG
1 CAATACGGTCAAACCTCTGATCG
* *
45616866 CAATACGGTCGAACCTTTGAT
1 CAATACGGTCAAACCTCTGAT
45616887 TGTAGTACTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (23 bp):
CAATACGGTCAAACCTCTGATCG
Found at i:45624040 original size:37 final size:37
Alignment explanation
Indices: 45623976--45624051 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
45623966 TCAAAAGTGA
* ** *
45623976 TAGGTTTTATGTAAATATAGAGTATATATTGTTTGTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
* *
45624013 TAGGTTTTATGTAAGTATACAACATATATTATTTTTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
45624050 TA
1 TA
45624052 TCTTAATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (37 bp):
TAGGTTTTATGTAAATATACAACATATATTATTTGTC
Found at i:45624423 original size:22 final size:22
Alignment explanation
Indices: 45624374--45624417 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
45624364 TTTTTGTTCA
45624374 TGATTTGTTAATTAGATTTATT
1 TGATTTGTTAATTAGATTTATT
45624396 TGATTTGTTACA-TA-ATTTATT
1 TGATTTGTTA-ATTAGATTTATT
45624417 T
1 T
45624418 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TGATTTGTTAATTAGATTTATT
Found at i:45625893 original size:9 final size:9
Alignment explanation
Indices: 45625881--45625906 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45625871 ATAACTATTC
45625881 AAACTAACA
1 AAACTAACA
45625890 AAACTAACA
1 AAACTAACA
45625899 AAACTAAC
1 AAACTAAC
45625907 TCTCTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
AAACTAACA
Found at i:45634288 original size:46 final size:47
Alignment explanation
Indices: 45634176--45634349 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
45634166 CGACCACCTT
* ** *
45634176 ATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAACATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAG
* * * *
45634224 ACGAGAGCTAGTATAAGA-CATGTCTGGGACATGCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAG
*
45634270 ATGTA-AGCCAGTGTAAGA-CATGTCTAGGACATGCATCGG-CTATGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAG
* **
45634316 ATGATAGTGAGTGTAAGACCATGTCTGGGACATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
45634350 GTATTGACAC
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.03
46 60 0.57
47 28 0.26
48 15 0.14
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAG
Found at i:45641786 original size:47 final size:44
Alignment explanation
Indices: 45641720--45641890 Score: 139
Period size: 47 Copynumber: 3.7 Consensus size: 44
45641710 ATTGTTGGCT
*
45641720 AGTGTAAGACATGTTTGGGACAT-GCATCGTCCACCTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCA--TTATGAGAGCC
* * *
45641766 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCATT---ATGAGAGCC
* * ** * *
45641814 AGTGTAAGACATGTCTGGCACAT-GCATCGGCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GC-CA-TTATGAGAGCC
45641860 AGTGTAAGATCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
45641891 ACTTGAGACA
Statistics
Matches: 101, Mismatches: 14, Indels: 19
0.75 0.10 0.14
Matches are distributed among these distances:
45 2 0.02
46 28 0.28
47 43 0.43
48 28 0.28
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCATTATGAGAGCC
Found at i:45641878 original size:94 final size:93
Alignment explanation
Indices: 45641717--45641899 Score: 249
Period size: 94 Copynumber: 2.0 Consensus size: 93
45641707 GTTATTGTTG
* * * * **
45641717 GCTAGTGTAAGACATGTTTGGGACATGCATCGTCCACCTTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGCACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
*
45641782 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGAC-TTGAGACGAGA
* * * * *
45641811 GCTAGTGTAAGACATGTCTGGCACATGCATCGGCTAAGAGATGATAGTCAGTGTAAGATCATGTC
1 GCTAGTGTAAGACATGTCTGGCACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
45641876 TGGGACATGGCATCGACTTGAGAC
66 TGGGACATGGCATCGACTTGAGAC
45641900 ATGAGCCACT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
93 7 0.09
94 70 0.91
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGCACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACTTGAGACGAGA
Found at i:45641913 original size:47 final size:47
Alignment explanation
Indices: 45641761--45641939 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
45641751 CACCTTATGA
*
45641761 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGAC-AT
* * * * *
45641809 GAGCTAGTGTAAGA-CATGTCTGGCACAT-GCATCGGC-TAAGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACAT
* *
45641853 GATAGTCAGTGTAAGATCATGTCTGGGACATGGCATCGACTTGAGACAT
1 G--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACAT
* * *
45641902 GAGCCACTGTAAGCCCATGTCTAGGACATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
45641940 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 19 0.17
47 58 0.53
48 20 0.18
49 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACAT
Found at i:45641921 original size:94 final size:95
Alignment explanation
Indices: 45641765--45641937 Score: 246
Period size: 94 Copynumber: 1.8 Consensus size: 95
45641755 TTATGAGAGC
* * *
45641765 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCACTGTAAGACATGTCT
45641830 -GGCACAT-GCATCGGCTAAGAGATGATAGT
66 AGG-ACATGGCATCGGCTAAGAGATGATAGT
* *
45641859 CAGTGTAAGATCATGTCTGGGACATGGCATCGAC-TTGAGAC-ATGAGCCACTGTAAGCCCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-GAGCCACTGTAAG-ACATGT
45641922 CTAGGACATGGCATCG
64 CTAGGACATGGCATCG
45641938 ACACCTTACC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
92 1 0.01
93 18 0.26
94 43 0.61
95 8 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCACTGTAAGACATGTCT
AGGACATGGCATCGGCTAAGAGATGATAGT
Found at i:45643012 original size:13 final size:13
Alignment explanation
Indices: 45642994--45643018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45642984 AATTCTACAC
45642994 GGGTGTGGGACAA
1 GGGTGTGGGACAA
45643007 GGGTGTGGGACA
1 GGGTGTGGGACA
45643019 CGGGCATGTC
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:0.20, C:0.08, G:0.56, T:0.16
Consensus pattern (13 bp):
GGGTGTGGGACAA
Found at i:45651040 original size:20 final size:20
Alignment explanation
Indices: 45651015--45651058 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45651005 TGCACACAGA
*
45651015 GAAGAACGAAGAAAAGACTC
1 GAAGAACAAAGAAAAGACTC
*
45651035 GAAGAACAAAGAAAAGACTT
1 GAAGAACAAAGAAAAGACTC
45651055 GAAG
1 GAAG
45651059 GAAGCCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.25, T:0.07
Consensus pattern (20 bp):
GAAGAACAAAGAAAAGACTC
Found at i:45656046 original size:22 final size:22
Alignment explanation
Indices: 45656006--45656047 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45655996 TATTTGTTTT
* **
45656006 TTTTCCTTATTCTTTTTACTTG
1 TTTTCATTATTCTGATTACTTG
45656028 TTTTCATTATTCTGATTACT
1 TTTTCATTATTCTGATTACT
45656048 GTTATTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTCATTATTCTGATTACTTG
Found at i:45666484 original size:28 final size:28
Alignment explanation
Indices: 45666453--45666544 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
45666443 CATGCAGTAA
45666453 CAGTCTGGGCCTTAGCCCTATACAATAT
1 CAGTCTGGGCCTTAGCCCTATACAATAT
* *
45666481 CAGTGCAGTTTGGGCCTTAGCTCTATACAATAA
1 CAGT-C----TGGGCCTTAGCCCTATACAATAT
* * * *
45666514 CAGTATGGGCCTAAGCCCAATACAGTAT
1 CAGTCTGGGCCTTAGCCCTATACAATAT
45666542 CAG
1 CAG
45666545 AAAATGTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 25 0.49
29 1 0.02
33 25 0.49
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (28 bp):
CAGTCTGGGCCTTAGCCCTATACAATAT
Found at i:45666500 original size:33 final size:33
Alignment explanation
Indices: 45666453--45666517 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
45666443 CATGCAGTAA
*
45666453 CAGTCTGGGCCTTAGCCCTATACAATATCAGTG
1 CAGTCTGGGCCTTAGCCCTATACAATAACAGTG
* *
45666486 CAGTTTGGGCCTTAGCTCTATACAATAACAGT
1 CAGTCTGGGCCTTAGCCCTATACAATAACAGT
45666518 ATGGGCCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (33 bp):
CAGTCTGGGCCTTAGCCCTATACAATAACAGTG
Found at i:45666716 original size:27 final size:27
Alignment explanation
Indices: 45666678--45666749 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
45666668 GCCAGCAACA
45666678 GTGGCA-AGCCACCAGTATCAAT-AATT
1 GTGGCATAGCCACCAGTATCAATGAA-T
*
45666704 GTGGCATAGCCACCAGTAACAATGAAT
1 GTGGCATAGCCACCAGTATCAATGAAT
* *
45666731 GTGACATAGTCACCAGTAT
1 GTGGCATAGCCACCAGTAT
45666750 AGTACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.15
27 32 0.80
28 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
GTGGCATAGCCACCAGTATCAATGAAT
Found at i:45666830 original size:23 final size:23
Alignment explanation
Indices: 45666800--45666846 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
45666790 GTCATGTCAT
*
45666800 AAACATTACGTGTATACAAAGTC
1 AAACATTACATGTATACAAAGTC
45666823 AAACATTACATGTATACAAAGTC
1 AAACATTACATGTATACAAAGTC
45666846 A
1 A
45666847 TACTCAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (23 bp):
AAACATTACATGTATACAAAGTC
Found at i:45666967 original size:27 final size:27
Alignment explanation
Indices: 45666913--45667110 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
45666903 GGCATAATCA
*
45666913 TCATTTTACCATACATGGGGTATTACGG
1 TCATTTTACCCTACA-GGGGTATTACGG
* * *
45666941 TTATTTTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
45666968 TCATCTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
45666995 TCATCTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
45667022 TTATTTTACCTTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
** *
45667049 TCA-TTTACCCTACAGGGCCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
45667075 CCATTTTAGCCTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
45667102 TCATTTTAC
1 TCATTTTAC
45667111 AACCTAAGGA
Statistics
Matches: 140, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 20 0.14
27 107 0.76
28 13 0.09
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:45666995 original size:54 final size:54
Alignment explanation
Indices: 45666913--45667110 Score: 254
Period size: 54 Copynumber: 3.7 Consensus size: 54
45666903 GGCATAATCA
* * * *
45666913 TCATTTTACCATACATGGGGTATTACGGTTATTTTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTATA-GGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* *
45666968 TCATCTTACCCTATAGGGGTATTACGGTCATCTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * * *
45667022 TTATTTTACCTTATAGGGGTATTACGGTCA-TTTACCCTACAGGGCCATTACGA
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * * *
45667075 CCATTTTAGCCTACAGGGGTATTATGGTCATTTTAC
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTAC
45667111 AACCTAAGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 44 0.35
54 68 0.55
55 12 0.10
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
Found at i:45669937 original size:7 final size:7
Alignment explanation
Indices: 45669910--45669948 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
45669900 GGATTTTATC
*
45669910 TTTATTC
1 TTTATTT
45669917 TTTATTT
1 TTTATTT
45669924 TTTATTT
1 TTTATTT
45669931 TTTATTT
1 TTTATTT
45669938 ATTTATTT
1 -TTTATTT
45669946 TTT
1 TTT
45669949 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:45669938 original size:18 final size:20
Alignment explanation
Indices: 45669903--45669948 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
45669893 TTAAGTAGGA
*
45669903 TTTTATCTTTATTCTTTATT
1 TTTTATCTTTATTATTTATT
*
45669923 TTTTATTTTTTATTTATTTATT
1 TTTTA-TCTTTA-TTATTTATT
45669945 TTTT
1 TTTT
45669949 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 12 0.55
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATCTTTATTATTTATT
Found at i:45677125 original size:40 final size:40
Alignment explanation
Indices: 45677070--45677527 Score: 656
Period size: 40 Copynumber: 11.5 Consensus size: 40
45677060 CGGATGATAA
* *
45677070 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * * *
45677110 CCGGGCTAAGCCCCGAAGGCATTTGTTCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
45677150 CTGGGCTAAGCCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45677190 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45677230 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45677270 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45677310 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45677350 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45677390 CTGGGCTAAG-CCTCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
* * *
45677430 CCGGGCTAAGCCCCGAAGGCATTGGTGCGGGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45677470 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45677510 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45677528 TACTTGGCTT
Statistics
Matches: 386, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
39 17 0.04
40 366 0.95
41 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45690443 original size:40 final size:40
Alignment explanation
Indices: 45690336--45690536 Score: 275
Period size: 40 Copynumber: 5.0 Consensus size: 40
45690326 CGGATGATAA
* * *
45690336 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
45690376 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
45690415 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
45690455 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
45690495 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
45690535 CC
1 CC
45690537 TGTTAAATTC
Statistics
Matches: 146, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
39 35 0.24
40 111 0.76
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:45694131 original size:40 final size:40
Alignment explanation
Indices: 45694087--45694216 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
45694077 GCTACTCTTT
* *
45694087 CAAATGCCTTCAGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGGATT-TAGTAACTCGCA
* *
45694127 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
* * * * ** *
45694167 CAAATGCCTTC-GGGCTTAGCCCGGAATTAGTGTCTCGGA
1 CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
45694206 CAAATGCCTTC
1 CAAATGCCTTC
45694217 GGATCTTAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.42
40 44 0.56
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
Found at i:45694187 original size:79 final size:80
Alignment explanation
Indices: 45694115--45694271 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
45694105 AGCCTGGTTA
* *
45694115 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTC
45694178 GGGCTTAGCCCGGAAT
65 GGGCTTAGCCCGGAAT
** * ** * *
45694194 TAGTGTCTCGGACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCG
45694258 GGACTTAGCCCGGA
66 GG-CTTAGCCCGGA
45694272 CATCATTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 44 0.67
80 19 0.29
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCG
GGCTTAGCCCGGAAT
Found at i:45694209 original size:39 final size:40
Alignment explanation
Indices: 45694115--45694271 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
45694105 AGCCTGGTTA
*
45694115 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
45694155 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
** * **
45694194 TAGTGTCTCGGACAAATGCCTTC-GGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT
* * * *
45694233 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
45694272 CATCATTCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.33
40 54 0.55
41 10 0.10
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:45712315 original size:43 final size:43
Alignment explanation
Indices: 45712210--45712317 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
45712200 TAGCCCAGCT
* * * *
45712210 ATGGTCTTATACAAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
* *
45712253 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
45712296 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
45712318 CTCTTTAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:45713767 original size:13 final size:13
Alignment explanation
Indices: 45713749--45713774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45713739 TATTTCGCAA
45713749 AATTTTATACCAT
1 AATTTTATACCAT
45713762 AATTTTATACCAT
1 AATTTTATACCAT
45713775 GAGGTTTACT
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:0.00, T:0.46
Consensus pattern (13 bp):
AATTTTATACCAT
Found at i:45714717 original size:5 final size:5
Alignment explanation
Indices: 45714707--45714750 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
45714697 TTAATTTCGA
*
45714707 TTTTC TTTTC TTTTC TCTTC TTTTC -TTTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
45714751 TGTTTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:45719853 original size:46 final size:46
Alignment explanation
Indices: 45719789--45719968 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 46
45719779 TTATTGCGAG
* *
45719789 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
*
45719835 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTC-A-AT
* * * *
45719885 --TGATGCATATCCCAGACATGTCTTACACTGGCTCTCATGCT--GT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT
* *
45719928 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT
45719969 ATCACCCATT
Statistics
Matches: 113, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
45 1 0.01
46 71 0.63
47 2 0.02
48 34 0.30
49 2 0.02
50 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
Found at i:45719863 original size:94 final size:94
Alignment explanation
Indices: 45719748--45719962 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 94
45719738 AAGCTGACAC
* * *** * * *
45719748 CATGTCCCAGACAGGTTTTACACTAGCTTGTTTAT-TGCGAGGCCGATGCATGTCTCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCT-CGAGACCGATGCATATCCCAGACATGT
*
45719812 CTTACACTAGCTCTCGT-CTCAAT-GCCGATG
65 CTTACACTAGCTCTCATGCT--ATGGCCGATG
**
45719842 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGATTGATGCATATCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGACCGATGCATATCCCAGACATGTC
* * *
45719907 TTACACTGGCTCTCATGCTGTGGCTGATG
66 TTACACTAGCTCTCATGCTATGGCCGATG
45719936 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
45719963 ACTCATATCA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 100 0.96
95 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGACCGATGCATATCCCAGACATGTC
TTACACTAGCTCTCATGCTATGGCCGATG
Found at i:45719907 original size:48 final size:46
Alignment explanation
Indices: 45719748--45719962 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 46
45719738 AAGCTGACAC
* * * * * *
45719748 CATGTCCCAGACAGGTTTTACACTAGCTTGTTTATTGC-GAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC---TCTAATGCTGAGACTGATG
* ** * *
45719796 CATGTCTCAGACATGTCTTACACTAGCTCTCGT-CTCA-ATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTAATGCTGAGA--CTGATG
* *
45719842 CATGTCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGATTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-AAT-GCT-GAGACTGATG
* * * * *
45719890 CATATCCCAGACATGTCTTACACTGGCTCTCATGCTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTAATGCTGAGACTGATG
45719936 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
45719963 ACTCATATCA
Statistics
Matches: 135, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 66 0.49
47 2 0.01
48 58 0.43
49 2 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTAATGCTGAGACTGATG
Found at i:45721590 original size:27 final size:27
Alignment explanation
Indices: 45721552--45721626 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
45721542 CAACATATGG
45721552 AGTCCA-CTGGGACAATAAACACAAGGT
1 AGTCCATC-GGGACAATAAACACAAGGT
* * * *
45721579 AGTGCATCGGGATAGTAAACACGAGGT
1 AGTCCATCGGGACAATAAACACAAGGT
* *
45721606 AGTCCATCAGGACATTAAACA
1 AGTCCATCGGGACAATAAACA
45721627 TGGGGTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (27 bp):
AGTCCATCGGGACAATAAACACAAGGT
Found at i:45726686 original size:40 final size:40
Alignment explanation
Indices: 45726612--45726734 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
45726602 AACCCAAGTA
* * *
45726612 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
45726651 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
45726691 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
45726731 CCTT
1 CCTT
45726735 ATCAATAAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 11 0.14
40 64 0.84
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:45727039 original size:40 final size:40
Alignment explanation
Indices: 45726931--45727059 Score: 222
Period size: 40 Copynumber: 3.1 Consensus size: 40
45726921 GAACGATTTT
45726931 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
45726971 GGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTCGCCC
1 GGATATAGT-A--ACTCGCACAAATGCCTTCGGGACTTAGCCC
45727014 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
45727054 GGATAT
1 GGATAT
45727060 CATCCGAATA
Statistics
Matches: 84, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
40 44 0.52
41 1 0.01
42 1 0.01
43 38 0.45
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:45732639 original size:27 final size:28
Alignment explanation
Indices: 45732555--45732652 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
45732545 TAAATCGTAC
*
45732555 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
45732583 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
45732611 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
45732638 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45732653 GACTTAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.35
28 44 0.65
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:45732663 original size:27 final size:27
Alignment explanation
Indices: 45732555--45732665 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
45732545 TAAATCGTAC
* * *
45732555 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45732583 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45732611 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
45732638 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
45732665 A
1 A
45732666 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:45738294 original size:46 final size:46
Alignment explanation
Indices: 45738080--45738350 Score: 167
Period size: 46 Copynumber: 5.8 Consensus size: 46
45738070 CATATATTGA
* *
45738080 GGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATC-TAT
1 GGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT
* * * * * * *
45738126 CGGTGTCAATGCCATGTCTCAGACATGTCTTACACTGACACACAACA-A-
1 --G-GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT
* * * * * * * *
45738174 -GCTGACGCCATGTCCCAGACAGGTCTTACGCTAGCTTGTATATCCTGA-
1 GGCCGATG-CATGTCCCAGACATGTCTTACACTGGC-TCT-CATCAT-AT
* * * * *
45738222 GGCTGCTGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAT-AT
* * * *
45738269 -GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATGATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT
*
45738314 GGCCGATGCATGTCCCAGACATGTTTTACACTGGCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
45738351 ACATACCACC
Statistics
Matches: 169, Mismatches: 45, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
44 26 0.15
45 1 0.01
46 74 0.44
47 2 0.01
48 27 0.16
49 39 0.23
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT
Found at i:45747718 original size:41 final size:41
Alignment explanation
Indices: 45747672--45747749 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
45747662 CTCATCGGAT
*
45747672 AATTCGAAGTAATAAATTGACACCCAGTGTCTCATCAAATA
1 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCAAATA
45747713 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCA
1 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCA
45747750 GTTAAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (41 bp):
AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCAAATA
Found at i:45747926 original size:25 final size:25
Alignment explanation
Indices: 45747898--45747956 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
45747888 AATACAACCA
*
45747898 ATATCCAATT-ATCATATTTACACAT
1 ATAT-CAATTCATAATATTTACACAT
*
45747923 ATAT--ATTCATAATATTTATACAT
1 ATATCAATTCATAATATTTACACAT
45747946 ATATCAATTCA
1 ATATCAATTCA
45747957 ACCCAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
25 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATCAATTCATAATATTTACACAT
Found at i:45748652 original size:4 final size:4
Alignment explanation
Indices: 45748643--45748689 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
45748633 TTTGCGTCTG
*
45748643 TTTC TTTC -TTC TTTC TCTC TTTC TTT- TTTC TTT- TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
45748687 TTT
1 TTT
45748690 TTTTTTCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 12 0.32
4 25 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:45748680 original size:26 final size:24
Alignment explanation
Indices: 45748643--45748707 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
45748633 TTTGCGTCTG
*
45748643 TTTCTTTCTTCTTTCTCTCTTTCTTT
1 TTTCTTTTTTCTTT-TCTCTTT-TTT
*
45748669 TTTCTTTTTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTCTCTTTTTT
* *
45748693 TTTCCTTTTTGTTTT
1 TTTCTTTTTTCTTTT
45748708 GTTTTACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 16 0.46
25 6 0.17
26 13 0.37
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTCTCTTTTTT
Found at i:45748691 original size:15 final size:15
Alignment explanation
Indices: 45748647--45748693 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
45748637 CGTCTGTTTC
* * *
45748647 TTTCTTCTTTCTCTC
1 TTTCTTTTTTCTTTT
45748662 TTTCTTTTTTC-TTT
1 TTTCTTTTTTCTTTT
45748676 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
45748691 TTT
1 TTT
45748694 TTCCTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:45748702 original size:7 final size:7
Alignment explanation
Indices: 45748647--45748692 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
45748637 CGTCTGTTTC
*
45748647 TTTCTTC
1 TTTCTTT
*
45748654 TTTCTCTC
1 TTTCT-TT
45748662 TTTCTTT
1 TTTCTTT
45748669 TTTCTTT
1 TTTCTTT
45748676 TTTCTTT
1 TTTCTTT
45748683 TTTCTTT
1 TTTCTTT
45748690 TTT
1 TTT
45748693 TTTCCTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:45748863 original size:38 final size:36
Alignment explanation
Indices: 45748768--45748865 Score: 89
Period size: 38 Copynumber: 2.7 Consensus size: 36
45748758 TTTATTATAA
45748768 TTAATTTATT-AT-AT-TATATAA-ATATATTTACT
1 TTAATTTATTAATAATATATATAATATATATTTACT
* * *
45748800 TAAATATTAAGTAA-AACATATTATAATATATATTTTAACT
1 TTAAT-TT-ATTAATAATATA-TATAATATATA-TTT-ACT
45748840 TTAATTTATTAATAATATATATAATA
1 TTAATTTATTAATAATATATATAATA
45748866 ATTTACACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
32 4 0.08
33 2 0.04
34 2 0.04
35 2 0.04
36 2 0.04
37 5 0.10
38 16 0.32
39 10 0.20
40 7 0.14
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (36 bp):
TTAATTTATTAATAATATATATAATATATATTTACT
Found at i:45748877 original size:29 final size:28
Alignment explanation
Indices: 45748818--45748877 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
45748808 AAGTAAAACA
** *
45748818 TATTATAATATATATTTTAACTTTAATT
1 TATTATAATATATATAATAACTTTAACT
45748846 TATTAATAATATATATAATAA-TTTACACT
1 TATT-ATAATATATATAATAACTTTA-ACT
45748875 TAT
1 TAT
45748878 ACTGCCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATAATAACTTTAACT
Found at i:45755603 original size:25 final size:25
Alignment explanation
Indices: 45755546--45755604 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
45755536 AACACAACTA
* *
45755546 ATATCCAATT-ATGATATTTACACGT
1 ATAT-CAATTCATAATATTTACACAT
*
45755571 ATAT--ATTCATAATATTTATACAT
1 ATATCAATTCATAATATTTACACAT
45755594 ATATCAATTCA
1 ATATCAATTCA
45755605 ATCCAATTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.11
23 16 0.57
25 9 0.32
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (25 bp):
ATATCAATTCATAATATTTACACAT
Found at i:45756301 original size:4 final size:4
Alignment explanation
Indices: 45756292--45756375 Score: 59
Period size: 4 Copynumber: 21.0 Consensus size: 4
45756282 TTTGCGTCTA
*
45756292 TTTC TTTC -TTC TTTC TATTT TTTC TTT- TTTC TTTC TTTCC TTTC TGTTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTT-C TTTC --TTTC
* * * *
45756342 ATT- TTAC TTTC TCTC TTTC TTT- TTTC TTTA TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
45756376 ATTTACTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
3 10 0.16
4 41 0.66
5 7 0.11
6 4 0.06
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:45756317 original size:16 final size:17
Alignment explanation
Indices: 45756288--45756323 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45756278 AGCTTTTGCG
45756288 TCTATTTCTTTCTTCTT
1 TCTATTTCTTTCTTCTT
*
45756305 TCTATTT-TTTCTTTTT
1 TCTATTTCTTTCTTCTT
45756321 TCT
1 TCT
45756324 TTCTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTATTTCTTTCTTCTT
Found at i:45756351 original size:26 final size:25
Alignment explanation
Indices: 45756312--45756361 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
45756302 CTTTCTATTT
* * *
45756312 TTTCTTTTTTCTTTCTTTCCTTTCTG
1 TTTCATTTTACTTTCTCT-CTTTCTG
45756338 TTTCATTTTACTTTCTCTCTTTCT
1 TTTCATTTTACTTTCTCTCTTTCT
45756362 TTTTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTCATTTTACTTTCTCTCTTTCTG
Found at i:45756428 original size:26 final size:26
Alignment explanation
Indices: 45756378--45756436 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
45756368 TTTATTTCAT
*
45756378 TTACTTATTCATTTGTTTTATTATAA
1 TTACTTATTCATTTGTATTATTATAA
45756404 TTACTTTATT-ATTT-TATTA-TATATA
1 TTAC-TTATTCATTTGTATTATTATA-A
45756429 TTAACTTA
1 TT-ACTTA
45756437 AATGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
25 10 0.34
26 10 0.34
27 5 0.17
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
TTACTTATTCATTTGTATTATTATAA
Found at i:45756512 original size:29 final size:28
Alignment explanation
Indices: 45756453--45756513 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
45756443 AAGTAAAACA
** *
45756453 TATTATAATATATATTTTAACTTTAATT
1 TATTATAATATATATAATAACTTTAACT
45756481 TATTAATAATATATATAATAA-TTTACACT
1 TATT-ATAATATATATAATAACTTTA-ACT
45756510 TATT
1 TATT
45756514 CCATCTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATAATAACTTTAACT
Found at i:45761742 original size:14 final size:15
Alignment explanation
Indices: 45761720--45761749 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45761710 GAATATCAAA
45761720 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
45761735 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
45761749 A
1 A
45761750 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:45761908 original size:115 final size:115
Alignment explanation
Indices: 45761706--45761936 Score: 435
Period size: 115 Copynumber: 2.0 Consensus size: 115
45761696 TGAATCGGTA
*
45761706 TCCTGAATATCAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAA
1 TCCTGAATATAAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAA
45761771 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
66 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
*
45761821 TCCTGAATATAAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
1 TCCTGAATATAAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAA
*
45761886 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCGTTCCCCTTAGATAT
66 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
45761936 T
1 T
45761937 TAGGGGATTT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (115 bp):
TCCTGAATATAAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAA
TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
Found at i:45762241 original size:13 final size:13
Alignment explanation
Indices: 45762223--45762247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45762213 CTCAATAGGG
45762223 ACACGCCCGTGTA
1 ACACGCCCGTGTA
45762236 ACACGCCCGTGT
1 ACACGCCCGTGT
45762248 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:45772628 original size:43 final size:43
Alignment explanation
Indices: 45772567--45772653 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
45772557 GGCTCGAGAG
45772567 AGTGCTTCTGATAATGTGCTCTAATAAGTACTACTGAATATGA
1 AGTGCTTCTGATAATGTGCTCTAATAAGTACTACTGAATATGA
45772610 AGTGCTTCTGATAATGTGCTCTAATAAGTACTACTGAATATGA
1 AGTGCTTCTGATAATGTGCTCTAATAAGTACTACTGAATATGA
45772653 A
1 A
45772654 TTGACGGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (43 bp):
AGTGCTTCTGATAATGTGCTCTAATAAGTACTACTGAATATGA
Found at i:45779188 original size:48 final size:48
Alignment explanation
Indices: 45779089--45779407 Score: 228
Period size: 47 Copynumber: 6.8 Consensus size: 48
45779079 TTATTTGTGT
* *
45779089 GCTAGTGTAAGA-CATG--TGGGACAT-GCATCAGCCATATTATGAG--A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATATGA-GAGATA
* *
45779133 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGACGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATGAGA-GATA
* *
45779181 GCTAGTGTAAGA-CATGTCTCGGACAT-GCATCGGC-TACGAGATG-T-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATGAGA-GATA
* * *
45779225 G-TCAATGTAAGACCATGTCTGGGATATGGCATCGGCACGTAT-AGAGGTA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--TATGAGAGATA
* * * *
45779274 TC-AGTGTAAGATCATGTCTGGGACATGGCATCGACACGGATATGTGAG--A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG----GCATATGAGAGATA
*
45779323 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-T-TGATG-GATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATGA-GAGAT-A
* * *
45779370 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
45779408 CATACCCTAT
Statistics
Matches: 219, Mismatches: 28, Indels: 52
0.73 0.09 0.17
Matches are distributed among these distances:
43 1 0.00
44 23 0.11
45 22 0.10
46 23 0.11
47 58 0.26
48 50 0.23
49 4 0.02
50 33 0.15
51 3 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATGAGAGATA
Found at i:45779246 original size:92 final size:96
Alignment explanation
Indices: 45779138--45779355 Score: 245
Period size: 92 Copynumber: 2.3 Consensus size: 96
45779128 TGAGAGCCAG
45779138 TGTAAGACCATGTCTGGGACATGGCATCAGCA-T-TGAGACGATAGCTAGTGTAAGA-CATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCAGCACTAT-AGA-GATAGC-AGTGTAAGATCATGTCT
* *
45779200 CGGACAT-GCATCGGCTAC-GAGATGT-G-TC-AA
63 CGGACATGGCATCGAC-ACGGAGATGTAGAGCTAA
* * * * *
45779230 TGTAAGACCATGTCTGGGATATGGCATCGGCACGTATAGAGGTATCAGTGTAAGATCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC-TATAGAGATAGCAGTGTAAGATCATGTCTCG
* *
45779295 GACATGGCATCGACACGGATATGTGAGAGCTAG
65 GACATGGCATCGACACGGAGATGT-AGAGCTAA
45779328 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
45779356 GACTTGATGG
Statistics
Matches: 106, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
92 39 0.37
93 19 0.18
94 17 0.16
95 1 0.01
96 1 0.01
97 1 0.01
98 28 0.26
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCACTATAGAGATAGCAGTGTAAGATCATGTCTCGG
ACATGGCATCGACACGGAGATGTAGAGCTAA
Found at i:45780606 original size:20 final size:21
Alignment explanation
Indices: 45780567--45780606 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45780557 GTTATAATGA
*
45780567 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
45780588 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
45780607 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:45786585 original size:46 final size:46
Alignment explanation
Indices: 45786470--45786610 Score: 210
Period size: 46 Copynumber: 3.0 Consensus size: 46
45786460 ACACATCTCA
* *** *
45786470 TACATATTTCACATTAGCCATTTGGCTTTACCACATATGCATGGCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT--ATATATCT
45786518 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCT
*
45786564 TACATATTTTACATTAGCCATTCGGCTTTACCACATATATATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCT
45786610 T
1 T
45786611 GTACATCAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 50 0.57
48 37 0.43
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (46 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCT
Found at i:45792018 original size:17 final size:17
Alignment explanation
Indices: 45791996--45792028 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45791986 AAAAGAAAAG
45791996 AAAAAAAGAAAACAAAC
1 AAAAAAAGAAAACAAAC
*
45792013 AAAAAACGAAAACAAA
1 AAAAAAAGAAAACAAA
45792029 AGCAGAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAACAAAC
Found at i:45793024 original size:28 final size:27
Alignment explanation
Indices: 45792993--45793063 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
45792983 GATTAATGAG
* *
45792993 AATTTCAAAAAAAATAAAATTAATAAAA
1 AATTTAAAAAAAAAT-AAATAAATAAAA
* *
45793021 AATTTTGAAAATAAATAAATAAATAAAA
1 AA-TTTAAAAAAAAATAAATAAATAAAA
45793049 AATTTAAAAAAAAAT
1 AATTTAAAAAAAAAT
45793064 TGAAGGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.30
28 15 0.41
29 11 0.30
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (27 bp):
AATTTAAAAAAAAATAAATAAATAAAA
Found at i:45795818 original size:27 final size:27
Alignment explanation
Indices: 45795790--45795897 Score: 91
Period size: 27 Copynumber: 4.0 Consensus size: 27
45795780 TAAAAGCTAT
*
45795790 AAATATTATTAAATTTTAATAAAAAATA
1 AAATATTA-AAAATTTTAATAAAAAATA
45795818 AAATATTAAAAATTTTAATAAAAATTATA
1 AAATATTAAAAATTTTAATAAAAA--ATA
* **
45795847 AAAAATATAAAAA---TCGTAAAAAATA
1 AAATAT-TAAAAATTTTAATAAAAAATA
*
45795872 AAA-ATTGTAAAATTTT-ATAAAAAATA
1 AAATATT-AAAAATTTTAATAAAAAATA
45795898 TAAAATATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.01
24 6 0.09
25 6 0.09
26 9 0.13
27 23 0.34
28 8 0.12
29 8 0.12
30 6 0.09
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (27 bp):
AAATATTAAAAATTTTAATAAAAAATA
Found at i:45795858 original size:18 final size:18
Alignment explanation
Indices: 45795835--45795921 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 18
45795825 AAAAATTTTA
45795835 ATAAAAATTATAAAAAAT
1 ATAAAAATTATAAAAAAT
**
45795853 ATAAAAATCGT-AAAAA-
1 ATAAAAATTATAAAAAAT
* **
45795869 ATAAAAATTGTAAAATTTT
1 ATAAAAATTATAAAA-AAT
* *
45795888 ATAAAAAATATAAAATAT
1 ATAAAAATTATAAAAAAT
**
45795906 ATAGCAA-TATAAAAAA
1 ATAAAAATTATAAAAAA
45795922 ATTATAAAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 10 0.18
17 16 0.29
18 16 0.29
19 13 0.24
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAAAAATTATAAAAAAT
Found at i:45795867 original size:16 final size:16
Alignment explanation
Indices: 45795848--45795884 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45795838 AAAATTATAA
45795848 AAAATATAAAAATCGT
1 AAAATATAAAAATCGT
* *
45795864 AAAAAATAAAAATTGT
1 AAAATATAAAAATCGT
45795880 AAAAT
1 AAAAT
45795885 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (16 bp):
AAAATATAAAAATCGT
Found at i:45795923 original size:53 final size:53
Alignment explanation
Indices: 45795808--45795921 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 53
45795798 TTAAATTTTA
*
45795808 ATAAAAAATAAAATATTAAAAATTTTAATAAAAATTATAAAAAATATAAAAATC
1 ATAAAAAATAAAA-ATTAAAAATTTTAATAAAAAATATAAAAAATATAAAAATC
* * * **
45795862 GTAAAAAATAAAAATTGTAAAATTTT-ATAAAAAATATAAAATATATAGCAAT-
1 ATAAAAAATAAAAATT-AAAAATTTTAATAAAAAATATAAAAAATATAAAAATC
45795914 ATAAAAAA
1 ATAAAAAA
45795922 ATTATAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 7 0.13
53 25 0.48
54 20 0.38
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (53 bp):
ATAAAAAATAAAAATTAAAAATTTTAATAAAAAATATAAAAAATATAAAAATC
Found at i:45796241 original size:27 final size:25
Alignment explanation
Indices: 45796180--45796241 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
45796170 TTTTTATTAA
*
45796180 AAAATTTCTAATTTTTAGTAAAATTT
1 AAAATTT-TAATTTTTAATAAAATTT
*
45796206 AAATTTTTTATATTTTTAATAAAATTT
1 AAA-ATTTTA-ATTTTTAATAAAATTT
45796233 AATAATTTT
1 AA-AATTTT
45796242 TCTAACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 24 0.80
28 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
AAAATTTTAATTTTTAATAAAATTT
Found at i:45796252 original size:46 final size:46
Alignment explanation
Indices: 45796176--45796269 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 46
45796166 AAGATTTTTA
* *
45796176 TTAAAAAATTTCTAATTTTTAGTAAAATTTAA-ATTTTTTAT-ATTT
1 TTAAAAAATTTATAATTTTTACTAAAATTTAATA-TTTTTATGATTT
* *
45796221 TTAATAAAATTTAATAATTTTT-CTAACATTTATTATTTTTATGATTT
1 TTAA-AAAATTT-ATAATTTTTACTAAAATTTAATATTTTTATGATTT
45796268 TT
1 TT
45796270 TTCTAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.10
46 22 0.54
47 15 0.37
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (46 bp):
TTAAAAAATTTATAATTTTTACTAAAATTTAATATTTTTATGATTT
Found at i:45796736 original size:31 final size:31
Alignment explanation
Indices: 45796701--45796761 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
45796691 CAAATGAAAT
*
45796701 ATTATTAAAATAAGAGATTATGGCTAGATTC
1 ATTATTAAAATAAGAGATTATAGCTAGATTC
45796732 ATTATTAAAATAAGAGATTATAGCTAGATT
1 ATTATTAAAATAAGAGATTATAGCTAGATT
45796762 TATTTTGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (31 bp):
ATTATTAAAATAAGAGATTATAGCTAGATTC
Found at i:45797434 original size:17 final size:17
Alignment explanation
Indices: 45797383--45797423 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
45797373 ACACGAGCTG
45797383 GGCACACGACCGTGTGA
1 GGCACACGACCGTGTGA
45797400 GGCACACGACCGTGTGA
1 GGCACACGACCGTGTGA
45797417 GGCACAC
1 GGCACAC
45797424 AACCTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (17 bp):
GGCACACGACCGTGTGA
Found at i:45798552 original size:14 final size:12
Alignment explanation
Indices: 45798512--45798554 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
45798502 AATTTAGAAT
* *
45798512 TTTTTATTTTTA
1 TTTTTAATTTAA
45798524 TTTTTAATTTAA
1 TTTTTAATTTAA
45798536 TTTTTACATTCTAA
1 TTTTTA-ATT-TAA
45798550 TTTTT
1 TTTTT
45798555 CTTTTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:45801405 original size:20 final size:18
Alignment explanation
Indices: 45801370--45801408 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45801360 TTTAAAAAAA
*
45801370 TAAAAAAAAATTAAAATT
1 TAAAAAAAAATGAAAATT
45801388 TAAAAAAAAAGCTGAAAATT
1 TAAAAAAAAA--TGAAAATT
45801408 T
1 T
45801409 TTAGTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAAAAATGAAAATT
Found at i:45801974 original size:10 final size:9
Alignment explanation
Indices: 45801920--45801979 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
45801910 ATTTATTTTG
45801920 TTTTTTGTT
1 TTTTTTGTT
*
45801929 TTTTGTTTTT
1 TTTT-TTGTT
45801939 TGTTTTTGTT
1 T-TTTTTGTT
45801949 TTTGTTT-TT
1 TTT-TTTGTT
*
45801958 GTTTTTGCTT
1 TTTTTTG-TT
45801968 TTTTTTGTT
1 TTTTTTGTT
45801977 TTT
1 TTT
45801980 AATTTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.07
9 15 0.36
10 21 0.50
11 3 0.07
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:45801993 original size:20 final size:20
Alignment explanation
Indices: 45801967--45802006 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
45801957 TGTTTTTGCT
45801967 TTTTTTTGTTTTTAATTTTAA
1 TTTTTTTGTTTTT-ATTTTAA
45801988 TTTTTTTGTTTTTATTTTA
1 TTTTTTTGTTTTTATTTTA
45802007 TTATGCACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTTTGTTTTTATTTTAA
Found at i:45801999 original size:6 final size:6
Alignment explanation
Indices: 45801915--45801979 Score: 80
Period size: 6 Copynumber: 10.7 Consensus size: 6
45801905 ATTTTATTTA
45801915 TTTTGTT TTTTGTT TTTTGTT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG-
1 TTTTG-T TTTTG-T TTTTG-T TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
*
45801965 CTTT-T TTTTGT TTTT
1 TTTTGT TTTTGT TTTT
45801980 AATTTTAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
5 6 0.11
6 29 0.54
7 19 0.35
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:45801999 original size:7 final size:7
Alignment explanation
Indices: 45801915--45801979 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
45801905 ATTTTATTTA
45801915 TTTTGTT
1 TTTTGTT
45801922 TTTTGTT
1 TTTTGTT
45801929 TTTTGTT
1 TTTTGTT
45801936 TTTTG-T
1 TTTTGTT
45801942 TTTTG-T
1 TTTTGTT
45801948 TTTTG-T
1 TTTTGTT
45801954 TTTTGTT
1 TTTTGTT
*
45801961 TTTGCTTTT
1 TTT--TGTT
45801970 TTTTGTT
1 TTTTGTT
45801977 TTT
1 TTT
45801980 AATTTTAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
6 18 0.34
7 29 0.55
9 6 0.11
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:45805390 original size:19 final size:18
Alignment explanation
Indices: 45805368--45805415 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
45805358 ACATTTATGC
*
45805368 ATATATA-TATAATTTTT
1 ATATATATTATAATTATT
* *
45805385 ATATATGTTA-ACTTATT
1 ATATATATTATAATTATT
45805402 ATATATATTATAAT
1 ATATATATTATAAT
45805416 AATAAAATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATATATTATAATTATT
Found at i:45806652 original size:19 final size:18
Alignment explanation
Indices: 45806616--45806666 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
45806606 GAAATGGAAA
45806616 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
45806634 AGATGAGAAATGTAATATG
1 AGATGAGAAATG-AATATG
*
45806653 AAATGATGAAATGA
1 AGATGA-GAAATGA
45806667 GATGTGAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.40
19 12 0.40
20 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:45807181 original size:24 final size:24
Alignment explanation
Indices: 45807131--45807184 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
45807121 TGAGGCTATG
*
45807131 TTGGTATGTAGCTTAGCTTGTAGT
1 TTGGTATGTAGCTTAGCTTGAAGT
* *
45807155 TTGGTATGT-GTTTAGCTTGAAATT
1 TTGGTATGTAGCTTAGCTTG-AAGT
45807179 TTGGTA
1 TTGGTA
45807185 GCCTAAGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.48
Consensus pattern (24 bp):
TTGGTATGTAGCTTAGCTTGAAGT
Found at i:45814902 original size:40 final size:40
Alignment explanation
Indices: 45814876--45815941 Score: 1856
Period size: 40 Copynumber: 26.6 Consensus size: 40
45814866 TGATTACTCT
* * *
45814876 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGC-TC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
* * *
45814915 TTCGAGG-TTTAGCACGGATATATTACTAGCACGAATGC-TC
1 -TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
* * *
45814955 TTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTTT
1 -TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
* *
45814996 TCGAGACTTAGCCCGGATACATCACTAGCACGAATGC-TC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
* * *
45815035 TTCGAGACTTAGCCCGGATACATCACTAGCATGAATGC-TC
1 -TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
* ** * *
45815075 TTCGAGACTTAGCCCAAATACATCACTAGCATGAATGC-TC
1 -TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815115 TTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 -TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
*
45815156 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815196 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815236 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815276 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815316 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815356 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815396 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815436 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815476 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815516 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815556 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815596 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815636 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815676 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815716 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815756 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815796 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815836 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815876 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
45815916 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
45815942 CTAAATTCTC
Statistics
Matches: 996, Mismatches: 25, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 2 0.00
40 989 0.99
41 5 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
Found at i:45817197 original size:37 final size:37
Alignment explanation
Indices: 45817147--45817225 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
45817137 TTATTACGAA
* * *
45817147 GTCTTACCAGGACATAATCTCC-ACATGAAGTTATCGG
1 GTCTTACCAGGACAAAATC-CCTACACGAAGTCATCGG
* *
45817184 GTCTTACCCGGACAAAATCCCTACACGTAGTCATCGG
1 GTCTTACCAGGACAAAATCCCTACACGAAGTCATCGG
45817221 GTCTT
1 GTCTT
45817226 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCAGGACAAAATCCCTACACGAAGTCATCGG
Found at i:45817565 original size:49 final size:49
Alignment explanation
Indices: 45817344--45818521 Score: 2173
Period size: 49 Copynumber: 24.3 Consensus size: 49
45817334 CCCTTCGGGA
* * * * *
45817344 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45817391 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45817438 CTTATCAC--ATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817485 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817532 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817581 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817630 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817728 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817777 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817826 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817875 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817924 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45817973 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818022 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818071 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818120 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818169 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818218 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818267 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45818316 CTTATCAC--ATATATACATTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818363 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818410 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45818459 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45818508 CTTATCTCATATAT
1 CTTATCACATATAT
45818522 GCATGTTCAC
Statistics
Matches: 1109, Mismatches: 16, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 225 0.20
49 883 0.80
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45833039 original size:49 final size:46
Alignment explanation
Indices: 45832906--45833062 Score: 147
Period size: 49 Copynumber: 3.2 Consensus size: 46
45832896 TCCTAGAAAT
* *
45832906 GGTCTTACACTGGCTTTCATATAGCGAGGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTAGCTTTC-TACAG-GAGG-CGATGCCATGTCCCAGACA
* * * *
45832955 GGTCTTACGCTAGCTCTCATCTATC-GGTGTCGATGCCATGCCCCAGACA
1 GGTCTTACACTAGCT-T--TCTA-CAGGAGGCGATGCCATGTCCCAGACA
45833004 GGTCTTACACTAGCTTGTCTACAGTGAGGCTGATG-CATGTCCCAGACA
1 GGTCTTACACTAGCTT-TCTACAG-GAGGC-GATGCCATGTCCCAGACA
*
45833052 TGTCTTACACT
1 GGTCTTACACT
45833063 GGCTCTTATA
Statistics
Matches: 89, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
46 1 0.01
47 5 0.06
48 26 0.29
49 49 0.55
50 3 0.03
51 3 0.03
52 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (46 bp):
GGTCTTACACTAGCTTTCTACAGGAGGCGATGCCATGTCCCAGACA
Found at i:45839002 original size:16 final size:16
Alignment explanation
Indices: 45838983--45839013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45838973 TAAATAGTAA
*
45838983 TATAAATTTTATATAT
1 TATAAAATTTATATAT
45838999 TATAAAATTTATATA
1 TATAAAATTTATATA
45839014 ATACGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAAAATTTATATAT
Found at i:45839135 original size:22 final size:21
Alignment explanation
Indices: 45839110--45839155 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
45839100 AAGTTATGAT
45839110 TGAAAAACTATAATATTATTTA
1 TGAAAAACTATAATATT-TTTA
* * *
45839132 TGAATAAGTATATTATTTTTA
1 TGAAAAACTATAATATTTTTA
45839153 TGA
1 TGA
45839156 TTTATAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (21 bp):
TGAAAAACTATAATATTTTTA
Found at i:45839688 original size:17 final size:18
Alignment explanation
Indices: 45839666--45839705 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
45839656 CAAATACTAC
45839666 TAAAATAAAAT-TATTAA
1 TAAAATAAAATATATTAA
*
45839683 TAAAATAAGATGATATTAA
1 TAAAATAAAAT-ATATTAA
45839702 TAAA
1 TAAA
45839706 TGATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAAATAAAATATATTAA
Found at i:45839927 original size:18 final size:18
Alignment explanation
Indices: 45839896--45839953 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
45839886 TTTTAAAGAA
45839896 ATAT-AAATATAAAATAAT
1 ATATAAAATA-AAAATAAT
45839914 ATATAAAATAAAAA-AATT
1 ATATAAAATAAAAATAA-T
*
45839932 TTATAAAA-AAATTAATAAT
1 ATATAAAATAAA--AATAAT
45839951 ATA
1 ATA
45839954 GAGATAACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 10 0.30
20 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAAAATAAAAATAAT
Found at i:45863397 original size:67 final size:68
Alignment explanation
Indices: 45863266--45863401 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 68
45863256 CGAAAGTCTA
* * * * * *
45863266 CCAGGACAATAAACATGGGATTACACTATGTAATACCATAGCTAAGCTATGATAACATATGAAGT
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
45863331 CCG
66 CCG
* * * *
45863334 CCAGGAAAATAAACAT-GGATCATACTATGTAAGACTATAAC-AGGGCTATGGCAACAAATGAAG
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTA-AGCTATGACAACAAATGAAG
45863397 TCCG
65 TCCG
45863401 C
1 C
45863402 ATGATAGTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
66 1 0.02
67 41 0.72
68 15 0.26
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (68 bp):
CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
CCG
Found at i:45867978 original size:55 final size:57
Alignment explanation
Indices: 45867907--45868019 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
45867897 ATATTATAAG
45867907 AAGTTGAAGAACGGAAGAAGAAG-A-AGACTTACCTAGATGAAGAAGGAGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTAGATGAAGAAGGAGATGGAAA
* * *
45867962 AAGTTGAAGAATGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGGGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTAGATGAAGAAGGAGATGGAAA
45868019 A
1 A
45868020 TGTCTTATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 22 0.42
56 1 0.02
57 30 0.57
ACGTcount: A:0.48, C:0.06, G:0.33, T:0.13
Consensus pattern (57 bp):
AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTAGATGAAGAAGGAGATGGAAA
Found at i:45875636 original size:3 final size:3
Alignment explanation
Indices: 45875623--45875883 Score: 88
Period size: 3 Copynumber: 86.0 Consensus size: 3
45875613 TTAAAACCTT
* * * *
45875623 TAA TGA TAA TAA TATA TAGA TAA AAA TGTA TAA TAA T-A TAA AAA TGACA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* * *
45875672 TAA TAA T-A TAA -AA TAA TTA TAA TATA TAA T-A TAA GAG TATA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TA-A
45875717 TAA -AA -AA GTAA TATA TAA T-A TATA TAA TTAA TAA -ACA T-A TAA
1 TAA TAA TAA -TAA TA-A TAA TAA TA-A TAA -TAA TAA TA-A TAA TAA
* *
45875759 T-A TAA TAA TAA TATA TAAA TAA TAA T-G TAA -AA TAA TAA TAA T-T
1 TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
45875802 TGC GAA AAA TAA TATA TAAA TAA TAA TAA TAA T-A TAAA TAA TATA TAA
1 TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA
* *
45875850 TAA -AA TAA TTA T-A TAA TATA TAA T-A TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
45875884 GGTTAAAAAT
Statistics
Matches: 197, Mismatches: 27, Indels: 68
0.67 0.09 0.23
Matches are distributed among these distances:
2 31 0.16
3 116 0.59
4 46 0.23
5 4 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:45875665 original size:18 final size:19
Alignment explanation
Indices: 45875642--45875684 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45875632 TAATATATAG
*
45875642 ATAAAAATG-TATAATAAT
1 ATAAAAATGACATAATAAT
45875660 ATAAAAATGACATAATAAT
1 ATAAAAATGACATAATAAT
45875679 ATAAAA
1 ATAAAA
45875685 TAATTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAAAATGACATAATAAT
Found at i:45875693 original size:19 final size:19
Alignment explanation
Indices: 45875651--45875874 Score: 84
Period size: 19 Copynumber: 11.9 Consensus size: 19
45875641 GATAAAAATG
*
45875651 TATAATAATATAAAAATGA-
1 TATAATAATAT-AAAATAAT
*
45875670 CATAATAATATAAAATAAT
1 TATAATAATATAAAATAAT
*
45875689 TATAAT-ATATAATATAA-
1 TATAATAATATAAAATAAT
*
45875706 GAGT-ATATATATAAAA-AAGT
1 TA-TAATA-ATATAAAATAA-T
* *
45875726 AATATATAATAT-ATATAAT
1 TATA-ATAATATAAAATAAT
*
45875745 TAATAA-ACATATAATATAAT
1 T-ATAATA-ATATAAAATAAT
*
45875765 AATAAT-ATAT-AAATAAT
1 TATAATAATATAAAATAAT
* * *
45875782 AAT-GTAAAATAATAATAATT
1 TATAATAATATAA-AATAA-T
*
45875802 TGCGAAAAATAATATATAAATAAT
1 T----ATAATAATATA-AAATAAT
*
45875826 AATAATAATAT-AAATAA-
1 TATAATAATATAAAATAAT
45875843 TAT-AT-A-ATAAAATAAT
1 TATAATAATATAAAATAAT
*
45875859 TAT-ATAATATATAATA
1 TATAATAATATAAAATA
45875875 TAAAAATAAG
Statistics
Matches: 157, Mismatches: 21, Indels: 55
0.67 0.09 0.24
Matches are distributed among these distances:
14 2 0.01
15 7 0.04
16 8 0.05
17 18 0.11
18 38 0.24
19 40 0.25
20 27 0.17
21 3 0.02
24 2 0.01
25 11 0.07
26 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (19 bp):
TATAATAATATAAAATAAT
Found at i:45875700 original size:13 final size:14
Alignment explanation
Indices: 45875671--45875876 Score: 82
Period size: 13 Copynumber: 14.6 Consensus size: 14
45875661 TAAAAATGAC
45875671 ATAATAATATAA-A-
1 ATAAT-ATATAATAT
45875684 ATAAT-TATAATAT
1 ATAATATATAATAT
45875697 ATAATATA-AGAGTAT
1 ATAATATATA-A-TAT
*
45875712 AT-ATATA-AA-AA
1 ATAATATATAATAT
45875723 AGTAATATATAATAT
1 A-TAATATATAATAT
*
45875738 AT-ATA-ATTAATAA
1 ATAATATA-TAATAT
*
45875751 ACATATAATATAATA-
1 ATA-AT-ATATAATAT
45875766 ATAATATATAA-AT
1 ATAATATATAATAT
* *
45875779 AATAATGTAAAATA-
1 -ATAATATATAATAT
* *
45875793 ATAATAATTTGCGAA-AA
1 ATAAT-ATAT---AATAT
45875810 ATAATATATAA-AT
1 ATAATATATAATAT
45875823 AATAATA-ATAATAT
1 -ATAATATATAATAT
*
45875837 AAATAATATATAATAAA
1 --ATAATATATAAT-AT
45875854 ATAATTATATAATAT
1 ATAA-TATATAATAT
45875869 ATAATATA
1 ATAATATA
45875877 AAAATAAGGT
Statistics
Matches: 151, Mismatches: 14, Indels: 55
0.69 0.06 0.25
Matches are distributed among these distances:
11 7 0.05
12 4 0.03
13 44 0.29
14 36 0.24
15 28 0.19
16 23 0.15
17 9 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:45875705 original size:50 final size:47
Alignment explanation
Indices: 45875651--45875883 Score: 125
Period size: 50 Copynumber: 4.5 Consensus size: 47
45875641 GATAAAAATG
45875651 TATAATAATATAAAAATGACATAATAATATAAAATAATTATAATATATAA
1 TATAATAATATAAAAAT-A-ATAATAATAT-AAATAATTATAATATATAA
* *
45875701 TATAAGAGTATATATATAAAAAAGTAATATATAATATATATAATTAATAAACATATAA
1 TAT---A--ATA-ATAT-AAAAA-TAATA-ATAATATAAATAATT-AT-AATATATAA
* * *
45875759 TATAATAATAATATATAAATAATAAT-GTA-AAATAATAATAATTTGCGA-AA
1 TATAATAAT-ATA-A-AAATAATAATAATATAAATAATTATAATAT---ATAA
* *
45875809 AATAAT-ATATAAATAATAATAATAATATAAATAATATATAATAAAATAA
1 TATAATAATATAAA-AATAATAATAATATAAATAAT-TATAAT-ATATAA
* *
45875858 T-TATATAATATATAATATAAAAATAA
1 TATA-ATAATATA-AAAATAATAATAA
45875884 GGTTAAAAAT
Statistics
Matches: 142, Mismatches: 15, Indels: 52
0.68 0.07 0.25
Matches are distributed among these distances:
46 1 0.01
47 10 0.07
48 11 0.08
49 15 0.11
50 35 0.25
51 5 0.04
52 5 0.04
53 12 0.08
54 3 0.02
55 4 0.03
56 14 0.10
57 15 0.11
58 12 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (47 bp):
TATAATAATATAAAAATAATAATAATATAAATAATTATAATATATAA
Found at i:45875715 original size:17 final size:18
Alignment explanation
Indices: 45875691--45875869 Score: 69
Period size: 16 Copynumber: 10.8 Consensus size: 18
45875681 AAAATAATTA
*
45875691 TAATATATAATATAAGAG
1 TAATATATAATATAAAAG
*
45875709 T-ATATAT-ATAAAAAAG
1 TAATATATAATATAAAAG
*
45875725 TAATATATAATATATATAAT
1 TAATATATAATATA-A-AAG
*
45875745 TAATA-A-ACATATAATA-
1 TAATATATA-ATATAAAAG
*
45875761 TAATA-ATAATAT-ATA-
1 TAATATATAATATAAAAG
*
45875776 -AATA-ATAATGTAAAA-
1 TAATATATAATATAAAAG
* *
45875791 TAATA-ATAATTTGCGAAAAA
1 TAATATATAATAT---AAAAG
45875811 TAATATATAA-AT--AA-
1 TAATATATAATATAAAAG
45875825 TAATA-ATAATAT-AAA-
1 TAATATATAATATAAAAG
45875840 TAATATAT-A-ATAAAA-
1 TAATATATAATATAAAAG
45875855 TAATTATATAATATA
1 TAA-TATATAATATA
45875870 TAATATAAAA
Statistics
Matches: 132, Mismatches: 9, Indels: 40
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.03
14 19 0.14
15 21 0.16
16 35 0.27
17 15 0.11
18 10 0.08
19 11 0.08
20 13 0.10
21 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
TAATATATAATATAAAAG
Found at i:45875735 original size:76 final size:73
Alignment explanation
Indices: 45875635--45875780 Score: 179
Period size: 76 Copynumber: 2.0 Consensus size: 73
45875625 ATGATAATAA
* *
45875635 TATATAGATAAAAATGTATAATAATATA-AAAATGACATAATA-ATATAAAATAATTATAATATA
1 TATATAGATAAAAAAGTATAATAATATATAAAATGA-ATAA-ACATATAAAATAATAATAATATA
45875698 TAATATAAGAG
64 TAA-ATAAGAG
* * * *
45875709 TATATATATAAAAAAGTAATATATAATATATATAATTAATAAACATATAATATAATAATAATATA
1 TATATAGATAAAAAAGT-ATA-ATAATATATAAAATGAATAAACATATAAAATAATAATAATATA
45875774 TAAATAA
64 TAAATAA
45875781 TAATGTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
74 15 0.24
75 8 0.13
76 34 0.55
77 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (73 bp):
TATATAGATAAAAAAGTATAATAATATATAAAATGAATAAACATATAAAATAATAATAATATATA
AATAAGAG
Found at i:45877881 original size:205 final size:206
Alignment explanation
Indices: 45877529--45878027 Score: 678
Period size: 205 Copynumber: 2.4 Consensus size: 206
45877519 CAAATCTGCT
* * * * * * *
45877529 TCTTCGATTTGTTCCTTGTAAACACAAGGGT-ACCAAACCATCTTGGATCTGCTTCAGCATAAAC
1 TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
45877593 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGAAGCTAGACTTCGATTCG
66 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCAAAGTGAAGAAGCCAGACTTCGATTCG
* * * *
45877658 TTCTCTGATAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACACATGAAAGCCA
*
45877723 AATCAGCCATG
196 AATCAACCATG
* * * *
45877734 TCTTCGATTTGCTCATTGTAGGCATAAGGATG-CTAAATCATCTTGGATCTACTTCAGTATAAAC
1 TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCCAAATCATCTTGGATCTGCTTCAGTATAAAC
** * * *
45877798 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAAGTGGAGATGCCAGACTTCGATTTG
66 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCAAAGTGAAGAAGCCAGACTTCGATTCG
* **
45877863 TTCTCTGACAATACAGAGATGATAAATCATCTTAGATTTGCTTCATTGTAAACACATGAAAGCCA
131 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACACATGAAAGCCA
*
45877928 AATCAACTATG
196 AATCAACCATG
* * * *
45877939 TCTTTGATTTGTTCCTTGTAAGCACAATGATGCCCAAATCATCTTGGATCTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* **
45878004 ATCTGAATGCCAGATCTGCTATGT
66 ATCTGAAGGTGAGATCTGCTATGT
45878028 TGTGGCCTGT
Statistics
Matches: 255, Mismatches: 37, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
205 204 0.80
206 51 0.20
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCCAAATCATCTTGGATCTGCTTCAGTATAAAC
ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCAAAGTGAAGAAGCCAGACTTCGATTCG
TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACACATGAAAGCCA
AATCAACCATG
Found at i:45886122 original size:15 final size:15
Alignment explanation
Indices: 45886080--45886129 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
45886070 ATAACTTTGA
*
45886080 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
45886094 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
45886109 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
45886123 ATGCAAA
1 ATGCAAA
45886130 AAGGATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:45888422 original size:15 final size:16
Alignment explanation
Indices: 45888402--45888436 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
45888392 AAAGTTTAAC
45888402 TCTATATGAGGTT-GT
1 TCTATATGAGGTTGGT
45888417 TCTATATGAGGTTGGT
1 TCTATATGAGGTTGGT
45888433 TCTA
1 TCTA
45888437 AAGTTTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.46
Consensus pattern (16 bp):
TCTATATGAGGTTGGT
Found at i:45890144 original size:40 final size:40
Alignment explanation
Indices: 45890074--45891011 Score: 1740
Period size: 40 Copynumber: 23.5 Consensus size: 40
45890064 AAGCCAAGTA
* * * * *
45890074 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45890113 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890153 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890193 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890233 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890273 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890313 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890353 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890393 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890433 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890473 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890513 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890553 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890593 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890633 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890673 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890713 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890753 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890793 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890833 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890873 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45890913 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
45890953 CCTTCGGGACTTAGCCCGGA-ACTAG-ACACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTA-ACTCGCACAAATG
45890993 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45891012 TTATCATCCA
Statistics
Matches: 885, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
39 14 0.02
40 871 0.98
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45898629 original size:19 final size:19
Alignment explanation
Indices: 45898582--45898636 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
45898572 AAATCATTCC
45898582 ATAACAGTAACTT-ATCCAT
1 ATAACAGT-ACTTCATCCAT
* *
45898601 TTAAATAGTACTTCATCCAT
1 AT-AACAGTACTTCATCCAT
*
45898621 ATAACAGTAATTCATC
1 ATAACAGTACTTCATC
45898637 TGTATAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAACAGTACTTCATCCAT
Found at i:45898898 original size:26 final size:25
Alignment explanation
Indices: 45898839--45898907 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
45898829 TGAGCTAAAA
*
45898839 CAGTAAGCTCTGACGAGCTGAGAAT
1 CAGTAAGCTCTTACGAGCTGAGAAT
*
45898864 -AGTAAGCTCTTACGAGCTGATATAT
1 CAGTAAGCTCTTACGAGCTGAGA-AT
*
45898889 CAGTAAGCTCATACGAGCT
1 CAGTAAGCTCTTACGAGCT
45898908 AAGGTGAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 20 0.51
25 2 0.05
26 17 0.44
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
CAGTAAGCTCTTACGAGCTGAGAAT
Found at i:45901711 original size:16 final size:16
Alignment explanation
Indices: 45901675--45901711 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45901665 CGACAAATTT
*
45901675 CGAAATGCCAAAGAGC
1 CGAAATGCCAAAAAGC
*
45901691 TGAAATGCCAAAAAGC
1 CGAAATGCCAAAAAGC
45901707 CGAAA
1 CGAAA
45901712 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.22, T:0.08
Consensus pattern (16 bp):
CGAAATGCCAAAAAGC
Found at i:45901964 original size:29 final size:29
Alignment explanation
Indices: 45901922--45902017 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
45901912 GAAAGCATGT
*
45901922 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
45901951 ATATGAATTTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
45901980 ATACGAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
45902009 ATATGAATG
1 ATATGAATG
45902018 CCTAGTGGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:45906861 original size:42 final size:43
Alignment explanation
Indices: 45906798--45906893 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
45906788 TATGATTTAT
*
45906798 GTGTAAGACCATGTCTAGGACA-TCAGCATC-ATATTTGATTTC
1 GTGTAAGACCATGTCTAGGACAGT-AGCATCGATATTTGATTAC
* * * *
45906840 GTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTAGGACAGTAGCATCGATATTTGATTAC
*
45906883 ATGTAAGACCA
1 GTGTAAGACCA
45906894 CATCTGGGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 24 0.53
43 21 0.47
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTAGCATCGATATTTGATTAC
Found at i:45906875 original size:43 final size:42
Alignment explanation
Indices: 45906740--45906892 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 42
45906730 ACATAGGATC
* * *
45906740 CGATATGTGTTTTCGTGTAAGACCAC-GTCTGGGACCTTGGCAT
1 CGATATTTGATTTCGTGTAAGACC-CTGTCTGGGA-CATGGCAT
* * * * * *
45906783 TGACT-TATGATTTATGTGTAAGACCATGTCTAGGACATCAGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCCTGTCTGGGACAT-GGCAT
*
45906827 C-ATATTTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCCTGTCTGGGACA-TGGCAT
* *
45906869 CGATATTTGATTACATGTAAGACC
1 CGATATTTGATTTCGTGTAAGACC
45906893 ACATCTGGGA
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
42 25 0.29
43 39 0.45
44 22 0.26
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
CGATATTTGATTTCGTGTAAGACCCTGTCTGGGACATGGCAT
Found at i:45906902 original size:43 final size:42
Alignment explanation
Indices: 45906823--45906911 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
45906813 TAGGACATCA
* * * *
45906823 GCATCATATTTGATTTCGTGTAAGACCCTGTTTGGGACAG-TG
1 GCATCATATTTGATTACATGTAAGACCCTATCTGGGAC-GTTG
45906865 GCATCGATATTTGATTACATGTAAGACCAC-ATCTGGGACGTTG
1 GCATC-ATATTTGATTACATGTAAGACC-CTATCTGGGACGTTG
45906908 GCAT
1 GCAT
45906912 TGTATGAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 6 0.15
43 33 0.82
44 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
GCATCATATTTGATTACATGTAAGACCCTATCTGGGACGTTG
Found at i:45909269 original size:18 final size:19
Alignment explanation
Indices: 45909248--45909286 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
45909238 CTTGGGCTTA
*
45909248 TTGGGCCACACGGG-CGTG
1 TTGGCCCACACGGGCCGTG
*
45909266 TTGGCCCACATGGGCCGTG
1 TTGGCCCACACGGGCCGTG
45909285 TT
1 TT
45909287 ATGGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.23
Consensus pattern (19 bp):
TTGGCCCACACGGGCCGTG
Found at i:45917345 original size:14 final size:13
Alignment explanation
Indices: 45917322--45917353 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
45917312 GGGATATCAA
45917322 AACAATAATTAAG
1 AACAATAATTAAG
45917335 AACACATAATTAAG
1 AACA-ATAATTAAG
45917349 AACAA
1 AACAA
45917354 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:45934419 original size:43 final size:42
Alignment explanation
Indices: 45934348--45934477 Score: 138
Period size: 43 Copynumber: 3.1 Consensus size: 42
45934338 ACACACAGTA
* *
45934348 TCATA-CCAATGCCATATCCCTGATATGGTCTTACATGTAATC
1 TCATATCC-ATGCCATAGCCCAGATATGGTCTTACATGTAATC
* *
45934390 TCGTATCCATGCCAGTAGCCCAGCTATGGTCTTACATG-AAGTC
1 TCATATCCATGCCA-TAGCCCAGATATGGTCTTACATGTAA-TC
* * * * *
45934433 TCATATCGATGCCATATCCCAGATATGGTATTACACGTAGTC
1 TCATATCCATGCCATAGCCCAGATATGGTCTTACATGTAATC
45934475 TCA
1 TCA
45934478 AAAATCCTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (42 bp):
TCATATCCATGCCATAGCCCAGATATGGTCTTACATGTAATC
Found at i:45934467 original size:42 final size:42
Alignment explanation
Indices: 45934348--45934477 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
45934338 ACACACAGTA
*
45934348 TCATA-CCAATGCCATATCCCTGATATGGTCTTACATGTAA-TC
1 TCATATCC-ATGCCATATCCCAGATATGGTCTTACATG-AAGTC
* * *
45934390 TCGTATCCATGCCAGTAGCCCAGCTATGGTCTTACATGAAGTC
1 TCATATCCATGCCA-TATCCCAGATATGGTCTTACATGAAGTC
* * * *
45934433 TCATATCGATGCCATATCCCAGATATGGTATTACACGTAGTC
1 TCATATCCATGCCATATCCCAGATATGGTCTTACATGAAGTC
45934475 TCA
1 TCA
45934478 AAAATCCTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 38 0.51
43 36 0.49
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (42 bp):
TCATATCCATGCCATATCCCAGATATGGTCTTACATGAAGTC
Found at i:45943677 original size:39 final size:39
Alignment explanation
Indices: 45943634--45943712 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45943624 TTTAGAAGTA
45943634 AGAAAAATAGTAGATTTAGGCATAGTTGACAATTTTTTT
1 AGAAAAATAGTAGATTTAGGCATAGTTGACAATTTTTTT
*
45943673 AGAAAAATAGTAGATTTAGGCATAGTTGACATTTTTTTT
1 AGAAAAATAGTAGATTTAGGCATAGTTGACAATTTTTTT
45943712 A
1 A
45943713 ATAATTGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (39 bp):
AGAAAAATAGTAGATTTAGGCATAGTTGACAATTTTTTT
Found at i:45948213 original size:34 final size:34
Alignment explanation
Indices: 45948170--45948239 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
45948160 ACTCGTAAAC
45948170 ACATATCAGAATTATATATCGATGCCATGGTCTT
1 ACATATCAGAATTATATATCGATGCCATGGTCTT
45948204 ACATATCAGAATTATATATCGATGCCATGGTCTT
1 ACATATCAGAATTATATATCGATGCCATGGTCTT
45948238 AC
1 AC
45948240 TCGTGCACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (34 bp):
ACATATCAGAATTATATATCGATGCCATGGTCTT
Found at i:45949978 original size:42 final size:42
Alignment explanation
Indices: 45949927--45950043 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 42
45949917 GACTTCTGTT
45949927 TTACGTGTAAGACCATGTCTGGGACATCGGCACCGTAT-CTAAA
1 TTACGTGTAAGACCATGTCTGGGACAT-GGCACCG-ATGCTAAA
* * * * **
45949970 TT-CGTGTAAGACCCTGTCTCGGACAGTGGCATCGATGTTTGA
1 TTACGTGTAAGACCATGTCTGGGACA-TGGCACCGATGCTAAA
*
45950012 TTACATGTAAGACCATGTCTGGGACATTGGCA
1 TTACGTGTAAGACCATGTCTGGGACA-TGGCA
45950044 TTGTATATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.03
42 31 0.51
43 28 0.46
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATGGCACCGATGCTAAA
Found at i:45955600 original size:5 final size:5
Alignment explanation
Indices: 45955580--45955614 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
45955570 ATCGAACCTA
*
45955580 TCTTC TTCTAC TCTTC TCTTC TCTTC TCTTC TCTT
1 TCTTC -TCTTC TCTTC TCTTC TCTTC TCTTC TCTT
45955615 TTTACTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (5 bp):
TCTTC
Found at i:45965478 original size:17 final size:18
Alignment explanation
Indices: 45965450--45965484 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45965440 GTTTTGATCG
*
45965450 GTTTTTGATAATTTTTGC
1 GTTTTTGATAATTGTTGC
45965468 GTTTTTG-TAATTGTTGC
1 GTTTTTGATAATTGTTGC
45965485 TTCGTATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.06, G:0.20, T:0.60
Consensus pattern (18 bp):
GTTTTTGATAATTGTTGC
Found at i:45968363 original size:23 final size:24
Alignment explanation
Indices: 45968328--45968373 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
45968318 TCAATCAATA
*
45968328 CAAATTCAAGA-TTCTTTTTAAAT
1 CAAATTCAAGATTTCTTATTAAAT
**
45968351 CAAATTCTTGATTTCTTATTAAA
1 CAAATTCAAGATTTCTTATTAAA
45968374 GTTTATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (24 bp):
CAAATTCAAGATTTCTTATTAAAT
Done.