Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 35
Found at i:1976865 original size:43 final size:45
Alignment explanation
Indices: 1976800--1976895 Score: 146
Period size: 43 Copynumber: 2.2 Consensus size: 45
1976790 CATTTTGAAA
1976800 ATATATATAATATATAGTTTTTAAAACA-TTTT-AAAATATATAT
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAAATATATAT
*
1976843 ATATATATATATATATAG-TTTTAAAATATTTTTGAAAATATATAT
1 ATATATATA-ATATATAGTTTTTAAAACATTTTTGAAAATATATAT
1976888 AT-TATATA
1 ATATATATA
1976896 GTTTTGGGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
43 18 0.37
44 18 0.37
45 13 0.27
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (45 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAAATATATAT
Found at i:1976990 original size:14 final size:14
Alignment explanation
Indices: 1976969--1976995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1976959 TATATGATTT
1976969 ATTTTATTTTATTA
1 ATTTTATTTTATTA
1976983 ATTTTATTTTATT
1 ATTTTATTTTATT
1976996 TTGGTCCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTATTTTATTA
Found at i:1978202 original size:4 final size:4
Alignment explanation
Indices: 1978193--1978219 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1978183 AATTAAACCC
1978193 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1978220 TTTCGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1978296 original size:3 final size:3
Alignment explanation
Indices: 1978283--1978321 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1978273 TCTATTTTGT
*
1978283 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA ATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1978322 TTTTATTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1978301 original size:23 final size:23
Alignment explanation
Indices: 1978253--1978304 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1978243 TTTTTACTCA
1978253 ATTTTATTTATCTTTATTTATCT
1 ATTTTATTTATCTTTATTTATCT
*
1978276 ATTTTGTTTAT-TTTA-TTAT-T
1 ATTTTATTTATCTTTATTTATCT
1978296 ATTATTATT
1 ATT-TTATT
1978305 ATTATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 4 0.15
23 10 0.38
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
ATTTTATTTATCTTTATTTATCT
Found at i:1981048 original size:64 final size:64
Alignment explanation
Indices: 1980974--1981122 Score: 162
Period size: 64 Copynumber: 2.3 Consensus size: 64
1980964 TGACCGTTGG
* * *
1980974 ACCCTTAGTGCATCGGTGCACT-AAGAGTGCACCGATGCATGAAGA-GCATTCGATG-TTTCA-A
1 ACCCTAAGTGCATCGATGCA-TGAAGAGTGCACCGATGCATCAA-ATGCATTC-ATGTTTTCATA
1981035 AA
63 AA
* *** *
1981037 TAGCCTAAGTGCATCGATGCATGACTTGTGCATCGATGCATCAAATGCATTCATGTTTTCATAAA
1 -ACCCTAAGTGCATCGATGCATGAAGAGTGCACCGATGCATCAAATGCATTCATGTTTTCATAAA
1981102 ACCCTAAGTGCATCGATGCAT
1 ACCCTAAGTGCATCGATGCAT
1981123 AAAATACATT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 5 0.07
64 64 0.89
65 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (64 bp):
ACCCTAAGTGCATCGATGCATGAAGAGTGCACCGATGCATCAAATGCATTCATGTTTTCATAAA
Found at i:1983115 original size:24 final size:25
Alignment explanation
Indices: 1983082--1983128 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1983072 ACTCCCCCTT
1983082 ACTTTAACACTTCT-CCCCTTTTAC
1 ACTTTAACACTTCTCCCCCTTTTAC
*
1983106 ACTTTTACACTTCTCCCCCTTTT
1 ACTTTAACACTTCTCCCCCTTTT
1983129 GTTAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (25 bp):
ACTTTAACACTTCTCCCCCTTTTAC
Found at i:1985019 original size:23 final size:22
Alignment explanation
Indices: 1984988--1985065 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
1984978 GGCCTTGTGC
1984988 ATCGATGCACATTCAAGGCGTGT
1 ATCGATGCACATTCAAGG-GTGT
* * *
1985011 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
*
1985032 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCACATTC-AAGGG-TGT
1985056 ATCGATGCAC
1 ATCGATGCAC
1985066 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.36
22 2 0.04
23 15 0.33
24 12 0.27
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:1988883 original size:22 final size:21
Alignment explanation
Indices: 1988841--1988880 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1988831 GAGTTTATTT
*
1988841 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
1988862 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1988881 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:1990853 original size:64 final size:63
Alignment explanation
Indices: 1990776--1990940 Score: 165
Period size: 64 Copynumber: 2.6 Consensus size: 63
1990766 TGACCGTTGG
* * **
1990776 ACCCTTAGTGCATCGATGCACTAAGAGTGCATCGATGCATGAAGA-GCATTTGATG-TTTCA-AA
1 ACCCTGAGTGCATCGATGCA-TAA-AGTGCATCGATGCATCAA-ATGCATTCAATGTTTTCATAA
1990838 A
63 A
* ** *
1990839 TAGCCTGAGTGCATCGATGCATGACTTGTGCATCGATGCATCAAATGTATTCAATGTTTTCATAA
1 -ACCCTGAGTGCATCGATGCAT-A-AAGTGCATCGATGCATCAAATGCATTCAATGTTTTCATAA
1990904 A
63 A
*
1990905 ACCCTGAGTGCATCGATGCATAAAATGCATTCGATG
1 ACCCTGAGTGCATCGATGCATAAAGTGCA-TCGATG
1990941 TTTAATTTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
63 6 0.07
64 49 0.59
65 25 0.30
66 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (63 bp):
ACCCTGAGTGCATCGATGCATAAAGTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAA
Found at i:1991352 original size:22 final size:22
Alignment explanation
Indices: 1991321--1991376 Score: 89
Period size: 20 Copynumber: 2.6 Consensus size: 22
1991311 TGCTGAAGGG
1991321 AGTATCGATACCATAATATAGA
1 AGTATCGATACCATAATATAGA
*
1991343 AGTATTGATA-C-TAATATAGA
1 AGTATCGATACCATAATATAGA
1991363 AGTATCGATACCAT
1 AGTATCGATACCAT
1991377 GGTAGGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 18 0.60
21 2 0.07
22 10 0.33
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (22 bp):
AGTATCGATACCATAATATAGA
Found at i:1991933 original size:54 final size:53
Alignment explanation
Indices: 1991719--1992057 Score: 387
Period size: 55 Copynumber: 6.2 Consensus size: 53
1991709 TTATGTGTAC
* *
1991719 TATCGACACTAAGTGTGCAAAACTACTG-AATTCATAATATGTTTATGAACGACCA
1 TATCGACACTAAGTGT--AAAACCAC-GAAATTCATAATATGTTTATGAACGACCG
* * * *
1991774 TATTTG-CACTAAGTGTGCAAAACCACAAAATTCATAATATGTTTATGAACAACCT
1 TA-TCGACACTAAGTGT--AAAACCACGAAATTCATAATATGTTTATGAACGACCG
* *
1991829 TATCGACAATATGTGTACAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGT--AAAACCACGAAATTCATAATATGTTTATGAACGACCG
* *
1991884 TATCGACACTAAGTGTACAACTCACGGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTAAAAC-CACGAAATTCATAATATGTTTATGAACGACCG
* * * *
1991938 TATCAACACTATATGTGCAAAACCATGAAATTCATAATATATTTATGAACGACCG
1 TATCGACACTA-A-GTGTAAAACCACGAAATTCATAATATGTTTATGAACGACCG
**
1991993 TATC-AGCACTAAGTGTGCAACTCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGA-CACTAAGTGTAAAAC-CACGAAATTCATAATATGTTTATGAACGACCG
*
1992047 TATCGGCACTA
1 TATCGACACTA
1992058 CGTATGCACC
Statistics
Matches: 247, Mismatches: 28, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
53 10 0.04
54 84 0.34
55 144 0.58
56 9 0.04
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (53 bp):
TATCGACACTAAGTGTAAAACCACGAAATTCATAATATGTTTATGAACGACCG
Found at i:1991969 original size:109 final size:109
Alignment explanation
Indices: 1991719--1992057 Score: 445
Period size: 109 Copynumber: 3.1 Consensus size: 109
1991709 TTATGTGTAC
* * *
1991719 TATCGACACTA-AGTGTGCAAAACTACTG-AATTCATAATATGTTTATGAACGACCATATTTG-C
1 TATCGACACTATA-TGTGCAAAACCA-TGAAATTCATAATATGTTTATGAACGACCGTA-TCGAC
* * * *
1991781 ACTAAGTGTGCAAAAC-CACAAAATTCATAATATGTTTATGAACAACCT
63 ACTAAGTGT--ACAACTCACGAAATTCATAATATGTTTATGAACGACCG
* * * *
1991829 TATCGACAATATGTGTACAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACT
1 TATCGACACTATATGTGCAAAACCATGAAATTCATAATATGTTTATGAACGACCGTATCGACACT
*
1991894 AAGTGTACAACTCACGGAATTCATAATATGTTTATGAACGACCG
66 AAGTGTACAACTCACGAAATTCATAATATGTTTATGAACGACCG
* *
1991938 TATCAACACTATATGTGCAAAACCATGAAATTCATAATATATTTATGAACGACCGTATC-AGCAC
1 TATCGACACTATATGTGCAAAACCATGAAATTCATAATATGTTTATGAACGACCGTATCGA-CAC
*
1992002 TAAGTGTGCAACTCACGAAATTCATAATATGTTTATGAACGACCG
65 TAAGTGTACAACTCACGAAATTCATAATATGTTTATGAACGACCG
*
1992047 TATCGGCACTA
1 TATCGACACTA
1992058 CGTATGCACC
Statistics
Matches: 202, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
108 5 0.02
109 139 0.69
110 58 0.29
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (109 bp):
TATCGACACTATATGTGCAAAACCATGAAATTCATAATATGTTTATGAACGACCGTATCGACACT
AAGTGTACAACTCACGAAATTCATAATATGTTTATGAACGACCG
Found at i:1993685 original size:21 final size:21
Alignment explanation
Indices: 1993659--1993703 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1993649 GATTTCTGGG
* *
1993659 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1993680 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1993701 CAA
1 CAA
1993704 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1995569 original size:23 final size:23
Alignment explanation
Indices: 1995525--1995569 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1995515 ATCATTATAT
*
1995525 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1995548 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1995570 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1998859 original size:21 final size:21
Alignment explanation
Indices: 1998833--1998877 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1998823 GATTTCTGGG
* *
1998833 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1998854 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1998875 CAA
1 CAA
1998878 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2002288 original size:2 final size:2
Alignment explanation
Indices: 2002281--2002324 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2002271 ATTCTGATCA
2002281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2002323 AT
1 AT
2002325 TACAATACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2002381 original size:12 final size:12
Alignment explanation
Indices: 2002361--2002396 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2002351 AATTTTAATT
2002361 TATATATATAAA
1 TATATATATAAA
*
2002373 TATAAATATAAA
1 TATATATATAAA
*
2002385 AATATATATAAA
1 TATATATATAAA
2002397 CTGAGCGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATATATATAAA
Found at i:2015602 original size:20 final size:20
Alignment explanation
Indices: 2015537--2015595 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
2015527 AACAAGTAAC
* *
2015537 AAATTTGACTAAACCGATT-
1 AAATTTAACAAAACCGATTG
** *
2015556 AAAAATAGACAAAACCGGTTG
1 AAATTTA-ACAAAACCGATTG
2015577 AAATTTAACAAAACCGATT
1 AAATTTAACAAAACCGATT
2015596 TTAATTTGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
19 4 0.13
20 21 0.70
21 5 0.17
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (20 bp):
AAATTTAACAAAACCGATTG
Found at i:2016015 original size:197 final size:199
Alignment explanation
Indices: 2015572--2016138 Score: 563
Period size: 197 Copynumber: 2.9 Consensus size: 199
2015562 AGACAAAACC
* * * * * * *
2015572 GGTTGAAATTTAACAAAACCGATTTTAATTTGAGAAAACCGGTAAAGAGCTACCAGAGTTGTTGA
1 GGTTAAAATTTAACAAAACTGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAGATGTTGA
* * * * *
2015637 AATTTGTATCGATACATTTATAAGTATATGTATCAAAGTATCGGTACTATAGGAATTTAAAAGAA
66 AATTTGTATCGATACATTTATAAGCATATGCACCAAAATATCGATACTATAGGAATTTAAAAGAA
*
2015702 ATGAAAAAAGGAAAACGTCTCAAAAGTATCGATACCTTACACACATGTATCGATACATAACAATA
131 ATGAAAAAA-GAAAACGCCTCAAAAGTATCGATACCTTACACACATGTATCGATACATAACAATA
2015767 TAACA
195 TAACA
* * *
2015772 GGTTGAAGTTTGACAAAACTGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGA-ATGATTG
1 GGTTAAAATTTAACAAAACTGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAGATG-TTG
* * *
2015836 ATATTTGTATCGATACTTTTATAAGCATATGCACCAAAATATCGATACTTTAGGAATTTAAAAGA
65 AAATTTGTATCGATACATTTATAAGCATATGCACCAAAATATCGATACTATAGGAATTTAAAAGA
* * * * * * * * *
2015901 ATTG-CAATA-ATAGCGCCT-ATAAAGTATCGATACCTTAGACATATGTATTGATACATGACAAT
130 AATGAAAAAAGAAAACGCCTCA-AAAGTATCGATACCTTACACACATGTATCGATACATAACAAT
2015963 ATAACA
194 ATAACA
* * * * *** ** *
2015969 TGTTAAAATTTAAAAAAACTGGTTTCAATTTGACAAATCAGGTAAAGCCCTACTGGATATGTTG-
1 GGTTAAAATTTAACAAAACTGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAGATGTTGA
** * * * * * * * * * *
2016033 -ACGT-TATCTATACTTTTATAAGTATATGTATCATAGTATCGGTACTTTAGGAATTGAAAAGAA
66 AATTTGTATCGATACATTTATAAGCATATGCACCAAAATATCGATACTATAGGAATTTAAAAGAA
* * * *
2016096 ATGAAAAAATTAAAACGTCTCGAAAGTATTGATACCTTACACA
131 ATGAAAAAA-GAAAACGCCTCAAAAGTATCGATACCTTACACA
2016139 AAATTATCGA
Statistics
Matches: 303, Mismatches: 57, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
194 53 0.17
195 5 0.02
196 1 0.00
197 123 0.41
198 3 0.01
199 5 0.02
200 113 0.37
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (199 bp):
GGTTAAAATTTAACAAAACTGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAGATGTTGA
AATTTGTATCGATACATTTATAAGCATATGCACCAAAATATCGATACTATAGGAATTTAAAAGAA
ATGAAAAAAGAAAACGCCTCAAAAGTATCGATACCTTACACACATGTATCGATACATAACAATAT
AACA
Found at i:2016523 original size:10 final size:10
Alignment explanation
Indices: 2016508--2016541 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
2016498 TGTAACTTGT
*
2016508 ATTTGATTTG
1 ATTTGATTTA
2016518 ATTTGATTTA
1 ATTTGATTTA
2016528 ATTTGATTTA
1 ATTTGATTTA
2016538 ATTT
1 ATTT
2016542 AATGCTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (10 bp):
ATTTGATTTA
Found at i:2016531 original size:15 final size:15
Alignment explanation
Indices: 2016508--2016544 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2016498 TGTAACTTGT
* *
2016508 ATTTGATTTGATTTG
1 ATTTAATTTGATTTA
2016523 ATTTAATTTGATTTA
1 ATTTAATTTGATTTA
2016538 ATTTAAT
1 ATTTAAT
2016545 GCTTGAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (15 bp):
ATTTAATTTGATTTA
Found at i:2016544 original size:5 final size:5
Alignment explanation
Indices: 2016508--2016541 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2016498 TGTAACTTGT
* *
2016508 ATTTG ATTTG ATTTG ATTTA ATTTG ATTTA ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
2016542 AATGCTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (5 bp):
ATTTG
Found at i:2023632 original size:19 final size:20
Alignment explanation
Indices: 2023605--2023650 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
2023595 GCGTCGAGTC
* *
2023605 GGATCTGGGT-GCTTGGGTT
1 GGATTTGGGTAGCCTGGGTT
2023624 GGATTTGGGTGAGCCTGGGTT
1 GGATTTGGGT-AGCCTGGGTT
2023645 GGATTT
1 GGATTT
2023651 TAGGGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.09, C:0.09, G:0.46, T:0.37
Consensus pattern (20 bp):
GGATTTGGGTAGCCTGGGTT
Found at i:2029749 original size:199 final size:197
Alignment explanation
Indices: 2029404--2029885 Score: 569
Period size: 199 Copynumber: 2.4 Consensus size: 197
2029394 TCCAAGTTTT
* ** * ** *
2029404 GATACTTTTTATATCCGTATCGATACTTTTATT-CTCGTATGGTTCTCAAACAATTTGCCCA-CA
1 GATACTTATTATATAAGTATCGATACTTTTATTAC-AGTATGCATCTCAAACAATTTG-CAAGCA
* * *
2029467 ACAAAGT-TCGATACCCATATATA-AAGTATCGATACTTGGAATTTTGAAACCTATTACTTTACA
64 A-AAAGTATCGATA--CATATA-ACAAGTATCAATACTTAGAATTTTGAAACCTATTACTTTAAA
* * * *
2029530 GTAATAGGTAAATATACAATGGAAACGGTAAATATCTACTGGTTTGATGATAATGGGCGTAAACA
125 GTAATAGGTAAATTTACAATGTAAACGGTAAA-ATCTACTGGTTTAATGATAATAGGCGTAAACA
*
2029595 TAAATTATC
189 TAAAGTATC
* * *
2029604 GATACTTACTATATAAGTATTGATACTTTTATTACAGTATCCATCTCAAACAATTTGCAAGCAGA
1 GATACTTATTATATAAGTATCGATACTTTTATTACAGTATGCATCTCAAACAATTTGCAAGCA-A
* * *
2029669 AAAGTATCGATATATATAACAAGTATCGATACTTAGAATTTTGAAACCTTTTACTTTAAAGTAAT
65 AAAGTATCGATACATATAACAAGTATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAAT
* * * * *
2029734 AGGTAAATTTACAATGAAAACGGTAAAAGTCTACCGATTTAATGATAATAGGTGAAAACAT-AAG
130 AGGTAAATTTACAATGTAAACGGTAAAA-TCTACTGGTTTAATGATAATAGGCGTAAACATAAAG
2029798 TATC
194 TATC
* *
2029802 GATACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAA
1 GATACTTATTATATAAGTATCGATACTTTTATTACAGTATGCATCTCAAACAATTTGCAAGC-AA
* *
2029867 AAAGTATCAATACTTATAA
65 AAAGTATCGATACATATAA
2029886 TTTCGAAACC
Statistics
Matches: 244, Mismatches: 31, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
198 82 0.34
199 101 0.41
200 53 0.22
201 8 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (197 bp):
GATACTTATTATATAAGTATCGATACTTTTATTACAGTATGCATCTCAAACAATTTGCAAGCAAA
AAGTATCGATACATATAACAAGTATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATA
GGTAAATTTACAATGTAAACGGTAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAAAGTA
TC
Found at i:2029841 original size:20 final size:21
Alignment explanation
Indices: 2029793--2029833 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2029783 AGGTGAAAAC
2029793 ATAAGTATCGATACTTATTAT
1 ATAAGTATCGATACTTATTAT
2029814 ATAAGTATCGATACTT-TTAT
1 ATAAGTATCGATACTTATTAT
2029834 TCCAGTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
ATAAGTATCGATACTTATTAT
Found at i:2029909 original size:179 final size:177
Alignment explanation
Indices: 2029689--2030235 Score: 558
Period size: 179 Copynumber: 3.1 Consensus size: 177
2029679 TATATATAAC
*
2029689 AAGTATCGATACTTAGAATTTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAATGAAAA
1 AAGTATCAATACTTAGAA-TTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAATGAAAA
2029754 CGGTAAAAGTCTACCGATTTAATGATAATAGGTGA-AAACAT-AAGTATCGATACTTATTATATA
65 CGGTAAAAGTCTACCGATTTAATGATAATAGGT-ATAAACATAAAGTATCGATACTTATTATAT-
* *
2029817 AGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAA
128 AGTATCGATA-TCTTATACCAGTATGCATCTCAAACAATTTGCACGCAAAA
* ** * *
2029868 AAGTATCAATACTTATAATTTCGAAACCTAGTACCTTAAAGTAATAGGTAAAATTACAAT-ATAA
1 AAGTATCAATACTTAGAATTT-GAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAATGA-AA
** * * * * *
2029932 ACGGTAAAAGTCTATTGGTTTATTAATAATAGGCATAAACATAAAGTATTGATACTT-TTAT-TC
64 ACGGTAAAAGTCTACCGATTTAATGATAATAGGTATAAACATAAAGTATCGATACTTATTATAT-
* * * * * ** * * * **
2029995 CAGTAT-G-TATCTCA-AACAATTTGC-GCAAAAATACA-TCGATACATATATAA
128 -AGTATCGATATCTTATACCAGTATGCATCTCAAACA-ATTTG-CACGCA-A-AA
* * * *
2030045 CAAGTATCGATACTTAGAATGTTGAAACCTTTTATTTTAAAGTAATAGGTAAATTTACAAGGTAA
1 -AAGTATCAATACTTAGAAT-TTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAATGAAA
* * *
2030110 ACTGTAAAAATCTACCAATTTAATGATAATAGGTATAAACATAAAGTATCGATACTTATTATATA
64 ACGGTAAAAGTCTACCGATTTAATGATAATAGGTATAAACATAAAGTATCGATACTTATTATATA
*
2030175 GATATCGATATCGTTATGCCAGTATGCATCTCAAACAATTTGCACGCAAAA
129 G-TATCGATATC-TTATACCAGTATGCATCTCAAACAATTTGCACGCAAAA
2030226 AA-TATCAATA
1 AAGTATCAATA
2030236 AACATATAAC
Statistics
Matches: 286, Mismatches: 61, Indels: 42
0.74 0.16 0.11
Matches are distributed among these distances:
174 7 0.02
175 10 0.03
176 4 0.01
177 4 0.01
178 107 0.37
179 111 0.39
180 17 0.06
181 6 0.02
182 3 0.01
183 10 0.03
184 7 0.02
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (177 bp):
AAGTATCAATACTTAGAATTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAATGAAAAC
GGTAAAAGTCTACCGATTTAATGATAATAGGTATAAACATAAAGTATCGATACTTATTATATAGT
ATCGATATCTTATACCAGTATGCATCTCAAACAATTTGCACGCAAAA
Found at i:2030141 original size:178 final size:177
Alignment explanation
Indices: 2029618--2030171 Score: 529
Period size: 178 Copynumber: 3.1 Consensus size: 177
2029608 CTTACTATAT
* **
2029618 AAGTATTGATACTT-TTATTACAGTATCCATCTCAAACAATTTGCAAGCAGAAAAGT-ATCGAT-
1 AAGTATCGATACTTATTATT-CAGTATGTATCTCAAACAATTTGC-AGCA-AAAA-TAATCGATA
2029680 -ATATATAACAAGTATCGATACTTAGAATTTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTT
62 CATATATAACAAGTATCGATACTTAGAA-TTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTT
* *
2029744 ACAATGAAAACGGTAAAAGTCTACCGATTTAATGATAATAGGTGA-AAACAT-
126 ACAATGTAAACGGTAAAAGTCTACCGATTTAATGATAATAGG-CATAAACATA
* * * ** * * * ** * *
2029795 AAGTATCGATACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTG-
1 AAGTATCGATACTTATTAT-TCAGTAT-G-TA-TCTCA-AACAATTTGCAGCAAAAATAA-TCGA
* ** * * ** * *
2029859 CACGCA-A-AA-AAGTATCAATACTTATAATTTCGAAACCTAGTACCTTAAAGTAATAGGTAAAA
60 TACATATATAACAAGTATCGATACTTAGAATTT-GAAACCTTTTACTTTAAAGTAATAGGTAAAT
* ** * * *
2029921 TTACAATATAAACGGTAAAAGTCTATTGGTTTATTAATAATAGGCATAAACATA
124 TTACAATGTAAACGGTAAAAGTCTACCGATTTAATGATAATAGGCATAAACATA
*
2029975 AAGTATTGATACTT-TTATTCCAGTATGTATCTCAAACAATTTGC-GCAAAAATACATCGATACA
1 AAGTATCGATACTTATTATT-CAGTATGTATCTCAAACAATTTGCAGCAAAAATA-ATCGATACA
*
2030038 TATATAACAAGTATCGATACTTAGAATGTTGAAACCTTTTATTTTAAAGTAATAGGTAAATTTAC
64 TATATAACAAGTATCGATACTTAGAAT-TTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTAC
* * * * *
2030103 AAGGTAAACTGTAAAAATCTACCAATTTAATGATAATAGGTATAAACATA
128 AATGTAAACGGTAAAAGTCTACCGATTTAATGATAATAGGCATAAACATA
2030153 AAGTATCGATACTTATTAT
1 AAGTATCGATACTTATTAT
2030172 ATAGATATCG
Statistics
Matches: 289, Mismatches: 67, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
174 7 0.02
175 10 0.03
176 4 0.01
177 17 0.06
178 114 0.39
179 102 0.35
180 20 0.07
181 8 0.03
182 7 0.02
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (177 bp):
AAGTATCGATACTTATTATTCAGTATGTATCTCAAACAATTTGCAGCAAAAATAATCGATACATA
TATAACAAGTATCGATACTTAGAATTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAAT
GTAAACGGTAAAAGTCTACCGATTTAATGATAATAGGCATAAACATA
Found at i:2030582 original size:197 final size:200
Alignment explanation
Indices: 2029977--2030783 Score: 880
Period size: 199 Copynumber: 4.1 Consensus size: 200
2029967 TAAACATAAA
* * * *
2029977 GTATTGATACTTTTATTCCAGTATGTATCTCAAACAATTTG--CGCAAAAATACATCGATACATA
1 GTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAA-ATATCGATACACA
* * * * * *
2030040 TATAACAAGTATCGATACTTAGAATGTTGAAACCTTTTATTTTAAAGTAATAGGTAAATTTACAA
65 TATAACAAATATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATATGTAAATTTACAA
* * * * * **
2030105 GGTAAACTGTAAAAATCTACCAATTTAATGATAATAGGTATAAACATAAAGTATCGATACTTATT
130 TGTAAACGGTAAAAATCTATCAGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTTATT
2030170 ATATAG
195 ATATAG
* * * * *
2030176 ATATCGATA-TCGTTATGCCAGTATGCATCTCAAACAATTTGCACGCAAAAAATATCAATAAACA
1 GTATCGATACT-TTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAATATCGATACACA
* * * * * * * *
2030240 TATAACAAATATTAATACTTGGACTTTAGAAATCTATTACTTTAAAATAATAGGTAACTTTACAA
65 TATAACAAATATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATATGTAAATTTACAA
* * * *
2030305 TGTAAACGATAAAAATCTATCGGTGTAATGATAATAAGCGTAAACATAAAGTATCGATACTT-TT
130 TGTAAACGGTAAAAATCTATCAGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTTATT
*
2030369 A-ATATT
195 ATATA-G
* * * * *
2030375 GTATCGATACTTTTATTACAATATGCATTTTAAACAATTTGCACGTAAAAAATATCGATACACAT
1 GTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAATATCGATACACAT
* * * * **
2030440 AT-A-AAGTACCAATACTTGGAATTTTGAAACCCATTACTTTAAAGTAATATGTTTATTTACAAT
66 ATAACAAATATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATATGTAAATTTACAAT
* * * * *
2030503 GTAAACGGTAAATATATATC-GTATAATGATGATAGGCGTAAACATAAAGTATCAATACTTAGTA
131 GTAAACGGTAAAAATCTATCAGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTA
2030567 TATAG
196 TATAG
* * * *
2030572 GTATCGATACTTTTATT-CAGTATGCATTTAAAATAATTTGCATGCAAAAAAGTATCGATACACA
1 GTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAA-TATCGATACACA
* * *
2030636 TATAACAAATATCAATACTTATAATTTCGAAACCTAGTAC-TTAAAGTAATATGTAAATTTACAA
65 TATAACAAATATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATATGTAAATTTACAA
* * * * * * * *
2030700 TGTAAACTGTAAAAGTCTACCAGTTTAATGATATTAGTCGTAAA-TTAAAAGTATCGATACTTTT
130 TGTAAACGGTAAAAATCTATCAGTATAATGATAATAGGCGTAAACAT-AAAGTATCGATACTTAT
*
2030764 TATATAT
194 TATATAG
*
2030771 GTATCTATACTTT
1 GTATCGATACTTT
2030784 CGATCTAAAC
Statistics
Matches: 504, Mismatches: 92, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
196 65 0.13
197 99 0.20
198 48 0.10
199 169 0.34
200 115 0.23
201 8 0.02
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (200 bp):
GTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAATATCGATACACAT
ATAACAAATATCAATACTTAGAATTTTGAAACCTATTACTTTAAAGTAATATGTAAATTTACAAT
GTAAACGGTAAAAATCTATCAGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTA
TATAG
Found at i:2035001 original size:171 final size:171
Alignment explanation
Indices: 2034716--2035057 Score: 675
Period size: 171 Copynumber: 2.0 Consensus size: 171
2034706 CTCGTTGGTT
2034716 GTTGTGTTCTCTCTGTCTTGCTCTCTATTCGTTGTGGTCTCCTTCTTTTGCAGGTTTGGTGACCA
1 GTTGTGTTCTCTCTGTCTTGCTCTCTATTCGTTGTGGTCTCCTTCTTTTGCAGGTTTGGTGACCA
2034781 TTTTTATAGGCCACCACCGAGCTGTCTTCGGATCGGTCACAGAGGCCTTTCTCGGTGAGTCACCA
66 TTTTTATAGGCCACCACCGAGCTGTCTTCGGATCGGTCACAGAGGCCTTTCTCGGTGAGTCACCA
*
2034846 TACTATAGTGGTGACTCACCTTGTCGTTGCGACGTGGGGGG
131 TACTATAGTGGTGACTCACCTTGTAGTTGCGACGTGGGGGG
2034887 GTTGTGTTCTCTCTGTCTTGCTCTCTATTCGTTGTGGTCTCCTTCTTTTGCAGGTTTGGTGACCA
1 GTTGTGTTCTCTCTGTCTTGCTCTCTATTCGTTGTGGTCTCCTTCTTTTGCAGGTTTGGTGACCA
2034952 TTTTTATAGGCCACCACCGAGCTGTCTTCGGATCGGTCACAGAGGCCTTTCTCGGTGAGTCACCA
66 TTTTTATAGGCCACCACCGAGCTGTCTTCGGATCGGTCACAGAGGCCTTTCTCGGTGAGTCACCA
2035017 TACTATAGTGGTGACTCACCTTGTAGTTGCGACGTGGGGGG
131 TACTATAGTGGTGACTCACCTTGTAGTTGCGACGTGGGGGG
2035058 TAGCTGGCTC
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 170 1.00
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (171 bp):
GTTGTGTTCTCTCTGTCTTGCTCTCTATTCGTTGTGGTCTCCTTCTTTTGCAGGTTTGGTGACCA
TTTTTATAGGCCACCACCGAGCTGTCTTCGGATCGGTCACAGAGGCCTTTCTCGGTGAGTCACCA
TACTATAGTGGTGACTCACCTTGTAGTTGCGACGTGGGGGG
Found at i:2035293 original size:3 final size:3
Alignment explanation
Indices: 2035285--2035340 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
2035275 GCCTGTAATT
* * **
2035285 TAA TAA TAA TAA TAA TAA TAC TAA TAC TAA TAA TAA TTG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2035333 TAA -AA TAA
1 TAA TAA TAA
2035341 AAAAAGGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2035621 original size:45 final size:45
Alignment explanation
Indices: 2035547--2036310 Score: 1190
Period size: 45 Copynumber: 17.0 Consensus size: 45
2035537 TCAAAAAGCT
* * ** **
2035547 CCCGAAGGCTTTTTGAAAGCATCATGCACTGTAGGTTTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
** * *
2035594 CCTAAAGGTTTTGAGAACATCATGCACTGAAGGGCTTACAGATGG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
2035639 CCCTAAGGCTTTGAAAACATCTTGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2035684 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
2035729 TCCGAAGGCTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2035774 -CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2035818 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
2035863 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACATATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * * * *
2035908 ACCGAAGGCTTTGAAAACATCCTGTATTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
** * *
2035953 CCCGAAGACTTTGAAAACATCCTGCACTGAAAGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2035998 -CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2036042 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGC
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2036087 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2036132 CCCGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2036177 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATTA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
**
2036222 TTCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2036267 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
2036311 TGGGAAATAG
Statistics
Matches: 660, Mismatches: 55, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
44 82 0.12
45 572 0.87
47 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:2035804 original size:25 final size:25
Alignment explanation
Indices: 2035776--2035895 Score: 64
Period size: 25 Copynumber: 5.2 Consensus size: 25
2035766 ACAGATGACC
2035776 GAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGCACT
** * *
2035801 GAAGGGCTT----ACA-GATG-ACCC
1 GAAGGTTTTGAAAACATCATGCA-CT
2035821 GAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGCACT
** * * *
2035846 GAAGGGCTT-ACAA-ATGA--C-CC
1 GAAGGTTTTGAAAACATCATGCACT
*
2035866 AAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGCACT
2035891 GAAGG
1 GAAGG
2035896 GCTTACATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 24
0.59 0.19 0.22
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 7 0.11
22 3 0.05
23 3 0.05
24 7 0.11
25 23 0.37
26 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
GAAGGTTTTGAAAACATCATGCACT
Found at i:2035947 original size:224 final size:224
Alignment explanation
Indices: 2035548--2036310 Score: 1229
Period size: 224 Copynumber: 3.4 Consensus size: 224
2035538 CAAAAAGCTC
* * ** ** ** *
2035548 CCGAAGGCTTTTTGAAAGCATCATGCACTGTAGGTTTTATGGATGACCTAAAGGTTTTGAGAACA
1 CCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
* * *
2035613 TCATGCACTGAAGGGCTTACAGATGGCCCTAAGGCTTTGAAAACATCTTGCACTGAAGGGCTTAC
64 TCATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCATGCACTGAAGGGCTTAC
*
2035678 AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGATCCGAAGGCTTTGA
129 AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGA
2035743 AAACATCCTGCACTGAAGGGCTTACAGATGA
194 AAACATCCTGCACTGAAGGGCTTACAGATGA
2035774 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
* * *
2035839 ATGCACTGAAGGGCTTACAAATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAT
66 ATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * * * * *
2035904 ATGAACCGAAGGCTTTGAAAACATCCTGTATTGAAGGGCTTACAGATGACCCGAAGACTTTGAAA
131 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
*
2035969 ACATCCTGCACTGAAAGGCTTACAGATGA
196 ACATCCTGCACTGAAGGGCTTACAGATGA
2035998 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
* *
2036063 ATGCACTGAAGGGCTTACAGATGCCCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAG
66 ATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAG
* *
2036128 ATGACCCGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
131 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
* *
2036193 ACATCATGCACTGAAGGGCTTACAGATTA
196 ACATCCTGCACTGAAGGGCTTACAGATGA
*
2036222 TTCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 -CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
2036287 CATGCACTGAAGGGCTTACAGATG
65 CATGCACTGAAGGGCTTACAGATG
2036311 TGGGAAATAG
Statistics
Matches: 496, Mismatches: 40, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
224 402 0.81
225 87 0.18
226 7 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (224 bp):
CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
ATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAG
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
ACATCCTGCACTGAAGGGCTTACAGATGA
Found at i:2038418 original size:75 final size:75
Alignment explanation
Indices: 2038259--2038402 Score: 225
Period size: 75 Copynumber: 1.9 Consensus size: 75
2038249 GATATGGATC
*
2038259 TTCAGCATGCCCCAACATTGGCTAATACAAAAATTCAAAATACATCAACATTCCTGATTCTGATT
1 TTCAGCATGCCCCAACATTGGCTAATACAAAAATTCAAAATACATCAACATTCCTGATTATGATT
2038324 GAAAGGGGTT
66 GAAAGGGGTT
** *** *
2038334 TTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATGTGTCAATATTCCTGATTATGATT
1 TTCAGCATGCCCCAACATTGGCTAATACAAAAATTCAAAATACATCAACATTCCTGATTATGATT
2038399 GAAA
66 GAAA
2038403 TGGTATTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTGGCTAATACAAAAATTCAAAATACATCAACATTCCTGATTATGATT
GAAAGGGGTT
Found at i:2041652 original size:72 final size:72
Alignment explanation
Indices: 2041535--2041669 Score: 252
Period size: 72 Copynumber: 1.9 Consensus size: 72
2041525 TATAATAGGC
*
2041535 TAGCTAAATATTATCCATAAAGCCTGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
1 TAGCTAAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
2041600 AACAGAT
66 AACAGAT
*
2041607 TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGC
1 TAGCTAAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGC
2041670 TTTATTGTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (72 bp):
TAGCTAAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
AACAGAT
Found at i:2044102 original size:35 final size:34
Alignment explanation
Indices: 2044051--2044118 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
2044041 AAATGTAATT
* *
2044051 ATGCAAGAATGAAAATGTAAATACAAACGTAAAA
1 ATGCAAAAATGAAAATGCAAATACAAACGTAAAA
* *
2044085 ATGCAAAAATGCAAAATGCAAATGCAAATGTAAA
1 ATGCAAAAATG-AAAATGCAAATACAAACGTAAA
2044119 TATGTGAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.18
Consensus pattern (34 bp):
ATGCAAAAATGAAAATGCAAATACAAACGTAAAA
Found at i:2046327 original size:21 final size:22
Alignment explanation
Indices: 2046303--2046344 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2046293 AGGGTATAAA
2046303 ATAAATTGAAA-AAAA-TGAATC
1 ATAAATT-AAATAAAATTGAATC
2046324 ATAAATTAAATAAAATTGAAT
1 ATAAATTAAATAAAATTGAAT
2046345 TCTCAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAATTAAATAAAATTGAATC
Found at i:2047168 original size:17 final size:18
Alignment explanation
Indices: 2047146--2047180 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2047136 AATATAATAA
2047146 TAAAATAATAA-TTAAAT
1 TAAAATAATAATTTAAAT
*
2047163 TAAAATACTAATTTAAAT
1 TAAAATAATAATTTAAAT
2047181 GTATTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATAATAATTTAAAT
Found at i:2048445 original size:3 final size:3
Alignment explanation
Indices: 2048437--2048504 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
2048427 GCCTGTAATT
* * * * *
2048437 TAA TAA TAA TAA TAA TAT TAA T-A TAT TAT TAA TAA TGA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
2048484 TAA TAA TTG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2048505 AAGAAAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2053791 original size:20 final size:20
Alignment explanation
Indices: 2053766--2053814 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2053756 TAAGGTAGGC
2053766 ATCGGTACACTCTATAGTGT
1 ATCGGTACACTCTATAGTGT
2053786 ATCGGTACACTCTATAGTGT
1 ATCGGTACACTCTATAGTGT
*
2053806 ATCGATACA
1 ATCGGTACA
2053815 TTCCTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (20 bp):
ATCGGTACACTCTATAGTGT
Found at i:2056571 original size:18 final size:18
Alignment explanation
Indices: 2056548--2056582 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2056538 CTGAATATTT
*
2056548 GTCCCGAATGACCACTAC
1 GTCCCGAAGGACCACTAC
2056566 GTCCCGAAGGACCACTA
1 GTCCCGAAGGACCACTA
2056583 TTAATCCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.37, G:0.20, T:0.14
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAC
Found at i:2057277 original size:2 final size:2
Alignment explanation
Indices: 2057270--2057303 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2057260 TATAACATTA
2057270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2057304 GCATGTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2059123 original size:12 final size:12
Alignment explanation
Indices: 2059106--2059136 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2059096 TAGTAAGCTA
2059106 AATTTGAAACTG
1 AATTTGAAACTG
2059118 AATTTGAAACTG
1 AATTTGAAACTG
2059130 AATTTGA
1 AATTTGA
2059137 CTTGTCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (12 bp):
AATTTGAAACTG
Found at i:2059560 original size:24 final size:24
Alignment explanation
Indices: 2059528--2059587 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
2059518 ACCTAGGCAG
* *
2059528 TGTATCGATACCTCAGTGAAGGGA
1 TGTACCGATACCTCAGTGAAAGGA
2059552 TGTACCGATACCTCAGTGAAAGGA
1 TGTACCGATACCTCAGTGAAAGGA
2059576 TGTACCGATACC
1 TGTACCGATACC
2059588 CTATAGAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (24 bp):
TGTACCGATACCTCAGTGAAAGGA
Found at i:2060347 original size:23 final size:23
Alignment explanation
Indices: 2060321--2060365 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2060311 GAGTTGAGGG
* *
2060321 TTCTACATGGTCCTTCGGGACAT
1 TTCTACATGGTCATTCAGGACAT
*
2060344 TTCTACGTGGTCATTCAGGACA
1 TTCTACATGGTCATTCAGGACA
2060366 AATTCATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCTACATGGTCATTCAGGACAT
Found at i:2061320 original size:30 final size:30
Alignment explanation
Indices: 2061286--2061383 Score: 169
Period size: 30 Copynumber: 3.2 Consensus size: 30
2061276 CCCGAAGGAC
*
2061286 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2061316 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2061346 CTATCCAGATGTCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
2061377 CTATCCA
1 CTATCCA
2061384 TATGTTCCTT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 56 0.86
31 9 0.14
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2062082 original size:15 final size:15
Alignment explanation
Indices: 2062062--2062093 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2062052 TTAATGAAGG
2062062 TATGCATCAATGCAC
1 TATGCATCAATGCAC
2062077 TATGCATCAATGCAC
1 TATGCATCAATGCAC
2062092 TA
1 TA
2062094 CACTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (15 bp):
TATGCATCAATGCAC
Found at i:2066119 original size:30 final size:30
Alignment explanation
Indices: 2066085--2066182 Score: 178
Period size: 30 Copynumber: 3.2 Consensus size: 30
2066075 CCCGAATAAC
*
2066085 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2066115 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2066145 CTATCCAGAGGTCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
2066176 CTATCCA
1 CTATCCA
2066183 TATGTTCCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
30 57 0.86
31 9 0.14
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2067396 original size:18 final size:18
Alignment explanation
Indices: 2067373--2067408 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2067363 CATTCAAGAA
2067373 CTCCAAATCTTTAATCTT
1 CTCCAAATCTTTAATCTT
* *
2067391 CTCCAACTCTTTTATCTT
1 CTCCAAATCTTTAATCTT
2067409 TTGATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (18 bp):
CTCCAAATCTTTAATCTT
Found at i:2068972 original size:12 final size:12
Alignment explanation
Indices: 2068955--2068991 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
2068945 TATGCAGTTC
2068955 TCAATTTGAATT
1 TCAATTTGAATT
2068967 TCAATTTGAATT
1 TCAATTTGAATT
*
2068979 TCAATTTAAATT
1 TCAATTTGAATT
2068991 T
1 T
2068992 GAGCTCCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (12 bp):
TCAATTTGAATT
Found at i:2068984 original size:18 final size:18
Alignment explanation
Indices: 2068957--2068993 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2068947 TGCAGTTCTC
* *
2068957 AATTTGAATTTCAATTTG
1 AATTTCAATTTAAATTTG
2068975 AATTTCAATTTAAATTTG
1 AATTTCAATTTAAATTTG
2068993 A
1 A
2068994 GCTCCACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
AATTTCAATTTAAATTTG
Found at i:2074089 original size:12 final size:13
Alignment explanation
Indices: 2074063--2074091 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2074053 TAACCTATCT
2074063 TTCTCTTCTTCGC
1 TTCTCTTCTTCGC
2074076 TTCTCTTC-TCGC
1 TTCTCTTCTTCGC
2074088 TTCT
1 TTCT
2074092 TTAACCTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.38, G:0.07, T:0.55
Consensus pattern (13 bp):
TTCTCTTCTTCGC
Found at i:2074238 original size:2 final size:2
Alignment explanation
Indices: 2074231--2074255 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2074221 ATCCAAACAA
2074231 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2074256 CTTATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2074659 original size:23 final size:23
Alignment explanation
Indices: 2074625--2074693 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2074615 CACCACAGCT
* *
2074625 CGTATAAATGCACCGATGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
2074648 CGTAGAATTGCACCTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
2074671 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2074694 TATAAGATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2074975 original size:30 final size:29
Alignment explanation
Indices: 2074922--2074980 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
2074912 TGTAAACATA
* *
2074922 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
2074952 TCACATATACATGTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
2074981 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:2079504 original size:2 final size:2
Alignment explanation
Indices: 2079497--2079537 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2079487 AAATAAATAA
2079497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2079538 CTTATTGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2079960 original size:23 final size:23
Alignment explanation
Indices: 2079924--2079987 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
2079914 CAGCTCGTAT
*
2079924 AAATGCACCGAAGTGCCACATAG
1 AAATGCACTGAAGTGCCACATAG
* * *
2079947 AATTGCATCT-AAGTGCCGCGTAG
1 AAATGCA-CTGAAGTGCCACATAG
2079970 AAATGCACTGAAGTGCCA
1 AAATGCACTGAAGTGCCA
2079988 TATAAGATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.06
23 30 0.91
24 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
AAATGCACTGAAGTGCCACATAG
Found at i:2081393 original size:19 final size:19
Alignment explanation
Indices: 2081369--2081421 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
2081359 ATTTAAGGGG
2081369 GTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
2081388 GTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
2081407 GTGCATCGATGCACT
1 GTGCATCGATGCACT
2081422 GATGGAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCACTACTT
Found at i:2082865 original size:2 final size:2
Alignment explanation
Indices: 2082809--2082856 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
2082799 TCTTATGCAC
2082809 AT AT CAT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2082851 AT AT AT
1 AT AT AT
2082857 TTCATATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2084857 original size:2 final size:2
Alignment explanation
Indices: 2084850--2084878 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2084840 CCAAACATAA
2084850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2084879 CTTATTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2085608 original size:30 final size:29
Alignment explanation
Indices: 2085555--2085613 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
2085545 CGTAAACATA
* *
2085555 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
2085585 TCACATATACATGTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
2085614 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:2090139 original size:2 final size:2
Alignment explanation
Indices: 2090132--2090160 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2090122 CCAAACATAA
2090132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2090161 CTTATTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2090589 original size:23 final size:23
Alignment explanation
Indices: 2090545--2090608 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
2090535 CAGCTTGTAT
* *
2090545 AAATGAACTGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * *
2090568 AATTGCACCTAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
2090591 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
2090609 TATAAGATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:2090894 original size:30 final size:29
Alignment explanation
Indices: 2090841--2090899 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
2090831 TATAAACATA
* *
2090841 TCACATATACATATAAACTCGTAGCTTCAT
1 TCACATATAAATATAAACACGTAG-TTCAT
* *
2090871 TCACATATAAATGTAATCACGTAGTTCAT
1 TCACATATAAATATAAACACGTAGTTCAT
2090900 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (29 bp):
TCACATATAAATATAAACACGTAGTTCAT
Found at i:2096929 original size:21 final size:20
Alignment explanation
Indices: 2096906--2096986 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 20
2096896 TTGGTGCAGA
*
2096906 GGGAATCGATCCCCCCCAAG
1 GGGAACCGATCCCCCCCAAG
**
2096926 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGA-TCCCCC--CCAAG
*
2096950 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATCCCCCCCA-AG
*
2096971 GGGAATCGATACCCCC
1 GGGAACCGAT-CCCCC
2096987 TTGGGGTTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 19 0.40
22 15 0.32
23 9 0.19
24 3 0.06
ACGTcount: A:0.25, C:0.37, G:0.25, T:0.14
Consensus pattern (20 bp):
GGGAACCGATCCCCCCCAAG
Found at i:2099495 original size:11 final size:12
Alignment explanation
Indices: 2099474--2099505 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2099464 AATTAAGTTT
2099474 TAATCTT-AAAA
1 TAATCTTCAAAA
2099485 TAAT-TTCAAAA
1 TAATCTTCAAAA
2099496 TAATCTTCAA
1 TAATCTTCAA
2099506 GTATTTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 12 0.63
12 5 0.26
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATCTTCAAAA
Found at i:2104618 original size:47 final size:44
Alignment explanation
Indices: 2104526--2104637 Score: 145
Period size: 47 Copynumber: 2.5 Consensus size: 44
2104516 GTAAGTATGC
2104526 AAATAAGCTTACGAGCTTAT-GAATAATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
* * * *
2104569 AAATAAACTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--T-AATGGCAAGTATATTGATA
*
2104616 AAATAAGCTTACGAACTTATGG
1 AAATAAGCTTACGAGCTTATGG
2104638 GGGAAAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 19 0.32
44 3 0.05
46 1 0.02
47 36 0.61
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
Found at i:2106055 original size:200 final size:199
Alignment explanation
Indices: 2105748--2106525 Score: 749
Period size: 200 Copynumber: 3.9 Consensus size: 199
2105738 GATACATATT
*
2105748 ATATAGGTATCGAT-ATTGTTATAAT-CGGTATGCA-TCTCAAACAATTTGCACGCAAAAAGTC-
1 ATATAGGTATCGATAATT-TTAT--TCCAGTATG-ATTCTCAAACAATTTGCACGCAAAAAG-CA
* *
2105809 TCGATACACA--TACAACAAGTATCGATACTTGGACTTTTGAAACCTATTACTTTAAAGTAATAG
61 TCGATACACATGTAC-A-AAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAG
* * * * * **
2105872 GTAAATTAACAATGTAAACCGTAAAAATATATCGGTTTATTGATAATAGACGTAAACATAAAATA
124 GTAAATTAACAATGTAAACGGTAAAAGTATATCGGTATATTGATAATAGGCGTAAATACCAAATA
2105937 TATATACGTTTA
189 T-TATACGTTTA
* *
2105949 ATATAGGTATCGATAATTTTATTCCAGTATGATTCCCAAACAATTTACACGTC-AAAAGCATCGA
1 ATATAGGTATCGATAATTTTATTCCAGTATGATTCTCAAACAATTTGCACG-CAAAAAGCATCGA
* *
2106013 TACACATGTACAAAGTATCGATGCTTGGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAAT
65 TACACATGTACAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAAT
* * * * * * *
2106078 TAACAATATAAAGGGTAAAAGTTTTATCGGTATAATGATAATAGGCGTATATACCAAGTATCGAT
130 TAACAATGTAAACGGTAAAAG-TATATCGGTATATTGATAATAGGCGTAAATACCAAATAT-TAT
2106143 AC-TTTA
193 ACGTTTA
* * * * * *
2106149 TAGATAGGTATTGAT-ATTGTTATT--AGTATGCTTCTC-AACAATTTGCACGCTAAATGTATCG
1 -ATATAGGTATCGATAATT-TTATTCCAGTATGATTCTCAAACAATTTGCACGCAAAAAGCATCG
* ** * * *
2106210 ATACACATGTCCAAAGTATCGATACACGTAATTTCGAAA-CTGATTACTTTAAAATAATAAGTAA
64 ATACACATGTACAAAGTATCGATACTTGGAATTTCGAAACCT-ATTACTTTAAAGTAATAGGTAA
* * * * * * *
2106274 ATTTACAATGTAAATGATAAAAGTCTACCGATATATTGATAATAGGCGTAAATACCAGATATTGA
128 ATTAACAATGTAAACGGTAAAAGTATATCGGTATATTGATAATAGGCGTAAATACCAAATATT-A
*
2106339 TACTGTCT-
192 TAC-GTTTA
* * * * * * * * *
2106347 ATATAAGTATCGATACTTTCATTCCAGTATGTTTCTTAAACAATTTGCACGTAAAATGTATCAAT
1 ATATAGGTATCGATAATTTTATTCCAGTATGATTCTCAAACAATTTGCACGCAAAAAGCATCGAT
* * * ** *
2106412 AAACATATATAAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTTAATT
66 ACACATGTACAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATT
* * * * *
2106477 TACAATGAAAACGGTAAAAGTATAAT-TGTATAATGATAATAGGAGTAAA
131 AACAATGTAAACGGTAAAAGTAT-ATCGGTATATTGATAATAGGCGTAAA
2106526 CATCAAGTAT
Statistics
Matches: 477, Mismatches: 79, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
197 54 0.11
198 94 0.20
199 25 0.05
200 224 0.47
201 74 0.16
202 6 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (199 bp):
ATATAGGTATCGATAATTTTATTCCAGTATGATTCTCAAACAATTTGCACGCAAAAAGCATCGAT
ACACATGTACAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATT
AACAATGTAAACGGTAAAAGTATATCGGTATATTGATAATAGGCGTAAATACCAAATATTATACG
TTTA
Found at i:2107142 original size:226 final size:226
Alignment explanation
Indices: 2106724--2107324 Score: 741
Period size: 226 Copynumber: 2.7 Consensus size: 226
2106714 ATGTAATTTA
* * *
2106724 TTGATAATATTGA-AA-AAATCAATTAATTAA-TCTATTTTGTTATTGTCAGG-TTTCTAAGG-T
1 TTGATAATATTGATAACAAATCAAGTAATTAACT-TATTTTGTTATCGT-AGGATTTCTAAGGCC
* *
2106784 CCATC-ATCTTTAAACAGACGCTGCCTATTACATTAAATAAGCGCTACTTGTTATGTTATTATGG
64 CCATCAAT-TTTAAACAGACGCTACCTATTACATTAAATAAACGCTACTTGTTATGTTATTATGG
* ** ** *
2106848 TTGATAATGTTT-TCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTTCATCAACTT
128 TTGATAATGTTTCT-AGTAATTAACCTATTTTGGTATCGTCAAATTTCTAACCCTCCATCAACTT
* * * *
2106912 AAACTTTGGTAACATTTTAAGTGTTACCTAATATG
192 AAACTTTGATAACATTTTAAGCGCTACCAAATATG
* *
2106947 TTGATAATACTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTTGGATTTCTAAGGCCCC
1 TTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTAGGATTTCTAAGGCCCC
** ** *
2107012 ATCAATTTTAAACAGGTGCTACCTATTACATTAAATAAACATTGCTTGTTATGTTATTATGGTTG
66 ATCAATTTTAAACAGACGCTACCTATTACATTAAATAAACGCTACTTGTTATGTTATTATGGTTG
**
2107077 ATAATGTTTCTAGTAATTAACCTATTTTGGTATCGTCAAATTTCTAACCCTCCATCAGTTTAAAC
131 ATAATGTTTCTAGTAATTAACCTATTTTGGTATCGTCAAATTTCTAACCCTCCATCAACTTAAAC
2107142 TTTGATAACATTTTAAGCGCTACCAAATATG
196 TTTGATAACATTTTAAGCGCTACCAAATATG
* * * *
2107173 ATGATAATATTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCA-GATTTCTAAGGCCT
1 TTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGT-AGGATTTCTAAGGCCC
* ** * * * * * *
2107237 TATCAGCTTTAAAAAGACGATACCTATTACGTTACATAAACGCTACCTGTTATGTTATTATTGTT
65 CATCAATTTTAAACAGACGCTACCTATTACATTAAATAAACGCTACTTGTTATGTTATTATGGTT
* * *
2107302 GATAATATTTCCAATAATTAACC
130 GATAATGTTTCTAGTAATTAACC
2107325 GGTTATGTTA
Statistics
Matches: 323, Mismatches: 47, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
223 12 0.04
224 4 0.01
225 36 0.11
226 268 0.83
227 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (226 bp):
TTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTAGGATTTCTAAGGCCCC
ATCAATTTTAAACAGACGCTACCTATTACATTAAATAAACGCTACTTGTTATGTTATTATGGTTG
ATAATGTTTCTAGTAATTAACCTATTTTGGTATCGTCAAATTTCTAACCCTCCATCAACTTAAAC
TTTGATAACATTTTAAGCGCTACCAAATATG
Found at i:2114452 original size:36 final size:36
Alignment explanation
Indices: 2114412--2114483 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
2114402 TTTTATCGAA
** *
2114412 TACTATAGTAAATTTCATAATTCAAAAAATAATTTT
1 TACTATAACAAATATCATAATTCAAAAAATAATTTT
* * *
2114448 TACTATAACAAATATCATTATTTAGAAAATAATTTT
1 TACTATAACAAATATCATAATTCAAAAAATAATTTT
2114484 ATTACATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (36 bp):
TACTATAACAAATATCATAATTCAAAAAATAATTTT
Found at i:2122803 original size:10 final size:10
Alignment explanation
Indices: 2122753--2122801 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
2122743 GCGTTGACCA
2122753 TTGACCGACG
1 TTGACCGACG
*
2122763 TTGACCGCCG
1 TTGACCGACG
*
2122773 TTGACCAGAACT
1 TTGACC-G-ACG
*
2122785 TTGACCGGCG
1 TTGACCGACG
2122795 TTGACCG
1 TTGACCG
2122802 GCCCTTGAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 23 0.72
11 2 0.06
12 7 0.22
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (10 bp):
TTGACCGACG
Found at i:2125065 original size:64 final size:64
Alignment explanation
Indices: 2124992--2125154 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 64
2124982 ATTGTTTGAA
* *** *
2124992 GGTGTATCGATGCACAAGTAGTGCATCGATGCA-CTCTTTTAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCATC-CCAGTAAT-AAACAAACATCGAATGCAAT
2125055 T
64 T
* * * *
2125056 GGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGTATTT
1 GGTGCATCGATGCACAA-GTAGTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATT
* * *
2125120 TGTGCACCGATGCACAAGTAGTGCATCGATTCATC
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCATC
2125155 GGTAGGGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
63 4 0.05
64 74 0.91
65 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (64 bp):
GGTGCATCGATGCACAAGTAGTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:2125972 original size:20 final size:20
Alignment explanation
Indices: 2125947--2125991 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2125937 GTCTATGTGG
2125947 TTCTTCGGGACATATATGTA
1 TTCTTCGGGACATATATGTA
2125967 TTCTTCGGGACATATATGTA
1 TTCTTCGGGACATATATGTA
2125987 TTCTT
1 TTCTT
2125992 TGGAACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
TTCTTCGGGACATATATGTA
Found at i:2125999 original size:20 final size:20
Alignment explanation
Indices: 2125947--2125999 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2125937 GTCTATGTGG
*
2125947 TTCTTCGGGACATATATGTA
1 TTCTTCGGAACATATATGTA
*
2125967 TTCTTCGGGACATATATGTA
1 TTCTTCGGAACATATATGTA
*
2125987 TTCTTTGGAACAT
1 TTCTTCGGAACAT
2126000 GTGTGAAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (20 bp):
TTCTTCGGAACATATATGTA
Found at i:2126148 original size:103 final size:103
Alignment explanation
Indices: 2125969--2126177 Score: 373
Period size: 103 Copynumber: 2.0 Consensus size: 103
2125959 TATATGTATT
* *
2125969 CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTT
1 CTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCT
* *
2126034 GGCATATGTATATGATTCTTAAGGAATTATATGTGGTC
66 AGCATATGTATATGATTCTTAAGGAATGATATGTGGTC
2126072 CTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCT
1 CTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCT
*
2126137 AGTATATGTATATGATTCTTAAGGAATGATATGTGGTC
66 AGCATATGTATATGATTCTTAAGGAATGATATGTGGTC
2126175 CTT
1 CTT
2126178 ATAGACATTA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
CTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCT
AGCATATGTATATGATTCTTAAGGAATGATATGTGGTC
Found at i:2126260 original size:23 final size:23
Alignment explanation
Indices: 2126184--2126261 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2126174 CCTTATAGAC
*
2126184 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGTA
* * * *
2126208 ATTCTACGCGGCACTCCGGTGTA
1 ATTATATGTGGCACTACGGTGTA
*
2126231 ATTATATGTGGCACTTCGGTGTA
1 ATTATATGTGGCACTACGGTGTA
2126254 ATTATATG
1 ATTATATG
2126262 AACTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGTA
Found at i:2128001 original size:20 final size:19
Alignment explanation
Indices: 2127934--2128001 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
2127924 TAATAATAGT
*
2127934 AATAATAATTAAAAGTAAATA
1 AATAA-AATTAAAA-TATATA
* * *
2127955 TATAAAATTAACATATAATG
1 AATAAAATTAAAATAT-ATA
*
2127975 AACAAAATTAAAACTATATA
1 AATAAAATTAAAA-TATATA
2127995 AATAAAA
1 AATAAAA
2128002 ATTGAAATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.75
21 7 0.19
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAAAATTAAAATATATA
Found at i:2129255 original size:3 final size:3
Alignment explanation
Indices: 2129247--2129321 Score: 109
Period size: 3 Copynumber: 24.7 Consensus size: 3
2129237 GGCCTGTTTG
2129247 TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA TATA TAA -AA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
2129292 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
2129322 GAAAATGGAG
Statistics
Matches: 67, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.06
3 54 0.81
4 9 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2129279 original size:24 final size:24
Alignment explanation
Indices: 2129247--2129321 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
2129237 GGCCTGTTTG
2129247 TAATAATAATAATAAATAAAATAA
1 TAATAATAATAATAAATAAAATAA
*
2129271 TAATAATAATAATATATAAAATAA
1 TAATAATAATAATAAATAAAATAA
2129295 TAATAATAATAATAAATAATAATAA
1 TAATAATAATAATAAATAA-AATAA
2129320 TA
1 TA
2129322 GAAAATGGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 41 0.85
25 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
TAATAATAATAATAAATAAAATAA
Found at i:2129715 original size:124 final size:124
Alignment explanation
Indices: 2129544--2129855 Score: 498
Period size: 124 Copynumber: 2.5 Consensus size: 124
2129534 TGTAATTTGG
* * * *
2129544 AAAAGGGTTGAACAAGTTCTTCTCATTATAAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 AAAA-GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
2129609 TTATGAACTTTCCCTGGAAAAGTTGATGTTGACCTATTTCCTTCTGTGATAGAGTCATTC
65 TTATGAACTTTCCCTGGAAAAATTGATGCTGACCTATCTCCTTCTGTGATAGAATCATGC
*
2129669 AAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
2129734 TATGAACTTTCTCTGGAAAAATTGATGCTGATCTATCTCCTTCTGTGATAGAATTATGC
66 TATGAACTTTCCCTGGAAAAATTGATGCTGACCTATCTCCTTCTGTGATAGAATCATGC
2129793 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2129856 TATCTAGCAA
Statistics
Matches: 173, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 169 0.98
125 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (124 bp):
AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCCCTGGAAAAATTGATGCTGACCTATCTCCTTCTGTGATAGAATCATGC
Found at i:2129908 original size:102 final size:107
Alignment explanation
Indices: 2129791--2130298 Score: 684
Period size: 113 Copynumber: 4.6 Consensus size: 107
2129781 ATAGAATTAT
* *
2129791 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2129856 -TAT-C-T-A-GCAATGTTGATCCATAGAATGATGAATTCAA
66 ATATACTTGATGCAATGCTGATCCATAGAATGATGAATTCAA
*
2129893 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2129958 ATTATGAACTTGATCTGGCAATGCTGATCCATCGAATGATGAATTCAA
66 A-TAT--ACTTGA--T-GCAATGCTGATCCATAGAATGATGAATTCAA
* *
2130006 GCGAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
2130071 ATTATGAACTTGACCTGGCAATGCTAATCCATCGAATGATGAATTCAA
66 A-TAT--ACTTGA--T-GCAATGCTGATCCATAGAATGATGAATTCAA
* *
2130119 GCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2130184 ATTATGAACTTGACTTGGCAATGCTGATCCATCGAATGATGAATTCAA
66 A-TAT--ACTTGA--T-GCAATGCTGATCCATAGAATGATGAATTCAA
* * *
2130232 GCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2130297 AT
66 AT
2130299 TATGAACTCG
Statistics
Matches: 381, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
102 63 0.17
104 3 0.01
107 1 0.00
108 1 0.00
109 1 0.00
112 1 0.00
113 311 0.82
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (107 bp):
GCAAAAAGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATATACTTGATGCAATGCTGATCCATAGAATGATGAATTCAA
Found at i:2130060 original size:113 final size:113
Alignment explanation
Indices: 2129862--2130337 Score: 835
Period size: 113 Copynumber: 4.2 Consensus size: 113
2129852 TCTCTATCTA
* * *
2129862 GCAATGTTGATCCATAGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
2129927 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGATCTG
66 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
*
2129975 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGATCTTCTCATTATGAAC
1 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
2130040 TTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTGACCTG
66 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
*
2130088 GCAATGCTAATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
2130153 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACTTG
66 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
2130201 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
* * *
2130266 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTA
66 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
* *
2130314 GTAATGCTGATCCATTGAATGATG
1 GCAATGCTGATCCATCGAATGATG
2130338 GATTTGAACT
Statistics
Matches: 346, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 346 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (113 bp):
GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
Found at i:2131250 original size:114 final size:114
Alignment explanation
Indices: 2131050--2131274 Score: 369
Period size: 114 Copynumber: 2.0 Consensus size: 114
2131040 ACGATCATGC
* * * *
2131050 AGTTCATCTTGCAATTCTAATGATTGGTTCTGGGGTTCCTACCGAACCAGATTAGATAACTCAAA
1 AGTTCATCTTGCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* *
2131115 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCA
* *
2131164 AGTTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AGTTCATCTTGCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
2131229 GATCACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
66 GAACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
2131275 TAACGTGGCA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (114 bp):
AGTTCATCTTGCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCA
Found at i:2139313 original size:17 final size:17
Alignment explanation
Indices: 2139288--2139321 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2139278 TGTAATGAAT
2139288 AATGAATGTATGCAAAA
1 AATGAATGTATGCAAAA
*
2139305 AATGCATGTATGCAAAA
1 AATGAATGTATGCAAAA
2139322 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (17 bp):
AATGAATGTATGCAAAA
Found at i:2143337 original size:109 final size:109
Alignment explanation
Indices: 2143151--2143357 Score: 249
Period size: 109 Copynumber: 1.9 Consensus size: 109
2143141 AATTATGAAA
* * *
2143151 AATATATATTAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTACCTTAAG
1 AATATATATTAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTACCTTAAG
* *
2143216 ACAGCTCTTTTCTTCGATATAAAAAAATAAATAATTAAAACAATT
66 ACAGCTCATTTCTT-AATATAAAAAAATAAATAATTAAAACAATT
* * ***
2143261 AATATATAATTTAT-AAA-ATTTATTTATTTAAAAATATCAGAAAATTGACATCCAGTTGTTTTA
1 AATATAT-ATTAATAAAATATTTATTTATTTAAAAATATCAGAAAA-TGACATCCAGGTACCTTA
* **
2143324 AGACTG-TCATTTCTTAATATTGAAAAATAAATAA
64 AGACAGCTCATTTCTTAATATAAAAAAATAAATAA
2143358 ATATTAAAAC
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
108 16 0.20
109 34 0.41
110 27 0.33
111 5 0.06
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (109 bp):
AATATATATTAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTACCTTAAG
ACAGCTCATTTCTTAATATAAAAAAATAAATAATTAAAACAATT
Found at i:2144781 original size:3 final size:3
Alignment explanation
Indices: 2144773--2144847 Score: 109
Period size: 3 Copynumber: 24.7 Consensus size: 3
2144763 GGCCTGTTTG
2144773 TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
2144819 -AA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
2144848 GAAAATGGAG
Statistics
Matches: 67, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.06
3 54 0.81
4 9 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2144811 original size:27 final size:27
Alignment explanation
Indices: 2144773--2144842 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
2144763 GGCCTGTTTG
2144773 TAATAATAATAATAAATAAAATAATAA
1 TAATAATAATAATAAATAAAATAATAA
*
2144800 TAATAATAATAATATATAAAATAATAA
1 TAATAATAATAATAAATAAAATAATAA
2144827 TAATAATAAATAATAA
1 TAATAAT-AATAATAA
2144843 TAATAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 33 0.82
28 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
TAATAATAATAATAAATAAAATAATAA
Found at i:2146271 original size:2 final size:2
Alignment explanation
Indices: 2146264--2146294 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2146254 GATACAATTG
2146264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2146295 CTGATCATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2148649 original size:64 final size:65
Alignment explanation
Indices: 2148503--2148658 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 65
2148493 GAAGGTGTAT
* *** * *
2148503 CGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAATCTAAAAACATCGAATGCAATTGGTGCAT
1 CGATGCACAAGTAGTGCATCGATGCATCTCCGATAATCAAAAAACATCGAATGCAATTGGTGCAC
* * * * *
2148567 CGATGCATAAGGCA-TGCATCGATGCATC-CCGATAAT-AAACAAACATCGAATGTATTTTGTGC
1 CGATGCACAA-GTAGTGCATCGATGCATCTCCGATAATCAAA-AAACATCGAATGCAATTGGTGC
2148629 AC
64 AC
*
2148631 CGATGCACAAGTAGTGCATCGATTCATC
1 CGATGCACAAGTAGTGCATCGATGCATC
2148659 GGTAGGGAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
63 4 0.05
64 67 0.91
65 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (65 bp):
CGATGCACAAGTAGTGCATCGATGCATCTCCGATAATCAAAAAACATCGAATGCAATTGGTGCAC
Found at i:2149628 original size:103 final size:103
Alignment explanation
Indices: 2149444--2149661 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
2149434 GTCGAGGGTC
* *
2149444 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
2149509 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATTA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2149547 TATGTGGTCCTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
2149612 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2149650 TATGTGGTCCTT
1 TATGTGGTCCTT
2149662 ATAGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGAATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2149717 original size:23 final size:23
Alignment explanation
Indices: 2149691--2149743 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2149681 ACTACAGTGT
*
2149691 AATTCTACGCGGCACTCCGGTGC
1 AATTATACGCGGCACTCCGGTGC
* * *
2149714 AATTATATGTGGCACTTCGGTGC
1 AATTATACGCGGCACTCCGGTGC
2149737 AATTATA
1 AATTATA
2149744 TGAGCTGTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
AATTATACGCGGCACTCCGGTGC
Found at i:2149744 original size:23 final size:23
Alignment explanation
Indices: 2149701--2149745 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2149691 AATTCTACGC
2149701 GGCACTCCGGTGCAATTATATGT
1 GGCACTCCGGTGCAATTATATGT
*
2149724 GGCACTTCGGTGCAATTATATG
1 GGCACTCCGGTGCAATTATATG
2149746 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATATGT
Found at i:2151279 original size:24 final size:24
Alignment explanation
Indices: 2151252--2151342 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
2151242 TCTGATTTGA
* * *
2151252 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACCTGACATGG
2151276 ATTCTGATCTGATA-CTGACATGG
1 ATTCTGATCTGATACCTGACATGG
* *
2151299 ATTCTGATCTGATACATGACATAG
1 ATTCTGATCTGATACCTGACATGG
* *
2151323 ATTCTGATCTTATACTTGAC
1 ATTCTGATCTGATACCTGAC
2151343 CTGAATTATG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 22 0.37
24 37 0.63
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACCTGACATGG
Found at i:2156350 original size:2 final size:2
Alignment explanation
Indices: 2156343--2156388 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2156333 CCAATAGAAG
2156343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2156385 AT AT
1 AT AT
2156389 GCTTCATCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2158212 original size:22 final size:21
Alignment explanation
Indices: 2158163--2158211 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2158153 TAGGAAACCA
2158163 ATTCCCCATGAGGGGGTACCG
1 ATTCCCCATGAGGGGGTACCG
2158184 ATTCCCCATGAGGGGGTACCG
1 ATTCCCCATGAGGGGGTACCG
2158205 ATTCCCC
1 ATTCCCC
2158212 CTACGCTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (21 bp):
ATTCCCCATGAGGGGGTACCG
Found at i:2158583 original size:19 final size:19
Alignment explanation
Indices: 2158559--2158595 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2158549 ATGACCAACA
*
2158559 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
2158578 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
2158596 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2158909 original size:22 final size:22
Alignment explanation
Indices: 2158884--2158934 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2158874 CTACGGCGAC
2158884 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
2158906 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
2158928 ATCCGTC
1 ATCCGTC
2158935 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2159335 original size:20 final size:20
Alignment explanation
Indices: 2159310--2159409 Score: 58
Period size: 20 Copynumber: 5.3 Consensus size: 20
2159300 AAAATCGCAA
2159310 CGATAGTTTAATTCGCGTTG
1 CGATAGTTTAATTCGCGTTG
*
2159330 CGATAGTCATT--TTCGTGTTG
1 CGATAGT--TTAATTCGCGTTG
*
2159350 CGAT--TTTCATTTCGCGTTG
1 CGATAGTTT-AATTCGCGTTG
*
2159369 C-A-A--TT-A-TCTCGTTG
1 CGATAGTTTAATTCGCGTTG
**
2159383 CGATAGTCAAATTCGCGTTG
1 CGATAGTTTAATTCGCGTTG
2159403 CGATAGT
1 CGATAGT
2159410 CATTTTCGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
14 8 0.13
15 1 0.02
16 3 0.05
17 2 0.03
18 2 0.03
19 10 0.16
20 33 0.54
22 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (20 bp):
CGATAGTTTAATTCGCGTTG
Found at i:2159432 original size:20 final size:20
Alignment explanation
Indices: 2159321--2159436 Score: 93
Period size: 20 Copynumber: 6.2 Consensus size: 20
2159311 GATAGTTTAA
*
2159321 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATATTCATT
* *
2159341 TTCGTGTTGCGATTTTCA-T
1 TTCGCGTTGCGATATTCATT
2159360 TTCGCGTTGC-A-ATT-A--
1 TTCGCGTTGCGATATTCATT
* * **
2159375 -TCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATATTCATT
*
2159394 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATATTCATT
* *
2159414 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATATTCATT
2159434 TTC
1 TTC
2159437 TTGTTGCAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
14 8 0.10
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
19 10 0.13
20 51 0.66
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTCGCGTTGCGATATTCATT
Found at i:2159441 original size:20 final size:20
Alignment explanation
Indices: 2159321--2159449 Score: 74
Period size: 20 Copynumber: 6.8 Consensus size: 20
2159311 GATAGTTTAA
* **
2159321 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2159341 TTCGTGTTGCGATTTTCA-T
1 TTCGTGTTGCGATTTTCATT
* *
2159360 TTCGCGTTGC-A-ATT-A-T
1 TTCGTGTTGCGATTTTCATT
* ** **
2159376 CTC--GTTGCGATAGTCAAA
1 TTCGTGTTGCGATTTTCATT
* **
2159394 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2159414 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
* *
2159434 TTCTTGTTGCAATTTT
1 TTCGTGTTGCGATTTT
2159450 AAGTTTCAGA
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
14 5 0.06
15 1 0.01
16 6 0.07
17 3 0.03
18 3 0.03
19 10 0.11
20 59 0.68
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.46
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2159456 original size:20 final size:20
Alignment explanation
Indices: 2159413--2159456 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2159403 CGATAGTCAT
* * *
2159413 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
*
2159433 TTTCTTGTTGCAATTTTAAG
1 TTTCGTGTTGCAATTTTAAG
2159453 TTTC
1 TTTC
2159457 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:2161384 original size:20 final size:20
Alignment explanation
Indices: 2161359--2161407 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2161349 AAACTTAAAA
*
2161359 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATAACT
**
2161379 ATCGCAACGCGAATTTAACT
1 ATCGCAACGCGAAAATAACT
2161399 ATCGCAACG
1 ATCGCAACG
2161408 GGATAATCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATAACT
Found at i:2161505 original size:19 final size:18
Alignment explanation
Indices: 2161478--2161537 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2161468 CGCAACGTGA
2161478 ATTTTGTTTCGCGTTGCG
1 ATTTTGTTTCGCGTTGCG
*
2161496 ATTTTGGTTT-GTGTTGCG
1 ATTTT-GTTTCGCGTTGCG
* * *
2161514 ATTTTTATTTCGCATTGTG
1 A-TTTTGTTTCGCGTTGCG
2161533 ATTTT
1 ATTTT
2161538 CCCGTTGCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.57
Consensus pattern (18 bp):
ATTTTGTTTCGCGTTGCG
Found at i:2161563 original size:20 final size:20
Alignment explanation
Indices: 2161533--2161588 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
2161523 TCGCATTGTG
*
2161533 ATTTTCCCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
2161553 A-TTTCTGCGTTGCGATAGTC
1 ATTTTC-GCGTTGCGATAGTC
2161573 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
2161589 TTAAGTTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:2161603 original size:19 final size:20
Alignment explanation
Indices: 2161575--2161617 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2161565 CGATAGTCAT
2161575 TTTCGCGTTGCGA-TTTAAG
1 TTTCGCGTTGCGATTTTAAG
* *
2161594 TTTCGTGTTGCTATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
2161614 TTTC
1 TTTC
2161618 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:2162165 original size:42 final size:42
Alignment explanation
Indices: 2162099--2162210 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
2162089 CTGTCATCGT
* *
2162099 TCAAGAGG-CCTCTCCTATCATTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGTCC-CTCCCACCATTCAAGAGGCCCCTATCATCCC
* **
2162141 TCAAGA-GTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCGT
1 TCAAGAGGT-CCCTCCCACCATTCAAGAGGCCCCTATCATCCC
*
2162183 TGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCAAGAGGTCCCTCCCACCATTCAAGAG
2162211 CCCGATTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 55 0.92
43 4 0.07
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.21
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
Found at i:2162183 original size:21 final size:21
Alignment explanation
Indices: 2162092--2162195 Score: 93
Period size: 21 Copynumber: 5.0 Consensus size: 21
2162082 GACTCACCTG
*
2162092 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
* *
2162112 CCTATCATTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * *
2162134 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* *
2162155 CCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
* *
2162176 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
2162196 CCCACCATTC
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:2162209 original size:21 final size:21
Alignment explanation
Indices: 2162098--2162210 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
2162088 CCTGTCATCG
* * *
2162098 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCCCTCCCACCA
**
2162119 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCA
* * *
2162140 CTCAAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCA
** * *
2162161 TTCAAGAGGCCCCTATCATCG
1 TTCAAGAGGCCCCTCCCACCA
* *
2162182 TTGAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
2162203 TTCAAGAG
1 TTCAAGAG
2162211 CCCGATTCAT
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:2163619 original size:14 final size:14
Alignment explanation
Indices: 2163600--2163661 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
2163590 TTGCTTGTTT
2163600 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
2163614 AATTGATCTGTAAA
1 AATTGATTTGTAAA
* *
2163628 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
2163643 TATTGATGTGTAAA
1 AATTGATTTGTAAA
2163657 TAATT
1 -AATT
2163662 CTTATTTGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 24 0.65
15 13 0.35
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:2163654 original size:29 final size:28
Alignment explanation
Indices: 2163602--2163656 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2163592 GCTTGTTTAA
2163602 TTGATTTGTAAAAATTGATCTGTAAAAG
1 TTGATTTGTAAAAATTGATCTGTAAAAG
* * *
2163630 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTG-TAAAAATTGATCTGTAAA
2163657 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (28 bp):
TTGATTTGTAAAAATTGATCTGTAAAAG
Found at i:2163682 original size:79 final size:77
Alignment explanation
Indices: 2163591--2163763 Score: 292
Period size: 79 Copynumber: 2.2 Consensus size: 77
2163581 TAGCATTTTT
2163591 TGCTTGTTTAATTGATTTGTAAAAATTGATCTGTAAAAGTTGATTTGTTTAATATTGATGTGTAA
1 TGCTTGTTTAATTGATTTGTAAAAATTGATCTGTAAAAGTTGATTTGTTT-A-ATTGATGTGTAA
2163656 ATAATTCTTATTTG
64 ATAATTCTTATTTG
* * *
2163670 TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTAAAAGTTGCTTTGTTTAATTGATGTGTAAAT
1 TGCTTGTTTAATTGATTTGTAAAAATTGATCTGTAAAAGTTGATTTGTTTAATTGATGTGTAAAT
2163735 AATTCTTATTTG
66 AATTCTTATTTG
*
2163747 TGCTTATTTAATTGATT
1 TGCTTGTTTAATTGATT
2163764 GAAATGTAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 42 0.47
78 1 0.01
79 47 0.52
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (77 bp):
TGCTTGTTTAATTGATTTGTAAAAATTGATCTGTAAAAGTTGATTTGTTTAATTGATGTGTAAAT
AATTCTTATTTG
Found at i:2163691 original size:36 final size:36
Alignment explanation
Indices: 2163635--2163762 Score: 123
Period size: 36 Copynumber: 3.4 Consensus size: 36
2163625 AAAAGTTGAT
2163635 TTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTT-A-ATTGATGTGTAAATAATTCTTATTTGTGC
* * ***
2163673 TTGTTTAATTGATTTGTAAAAGTTGATT-TGTAAAAGTTGC
1 TTGTTTAATTGATGTGT-AAA--TAATTCT-TATTTG-TGC
2163713 TTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 -TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
2163750 TTATTTAATTGAT
1 TTGTTTAATTGAT
2163763 TGAAATGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
36 21 0.29
37 7 0.10
38 14 0.19
39 8 0.11
40 6 0.08
41 16 0.22
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.52
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:2163700 original size:14 final size:14
Alignment explanation
Indices: 2163681--2163717 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2163671 GCTTGTTTAA
2163681 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2163695 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
2163709 TTGCTTTGT
1 TTGATTTGT
2163718 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2163726 original size:41 final size:39
Alignment explanation
Indices: 2163590--2163733 Score: 125
Period size: 41 Copynumber: 3.6 Consensus size: 39
2163580 TTAGCATTTT
* *
2163590 TTGCTTGTTTAATTGATTTGTAAAAATTGATCTGTAAAAG
1 TTGCTTGTTTAATTGATGTGT-AAAATTGATTTGTAAAAG
* * ***
2163630 TTGATTTGTTTAATATTGATGTGT-AAA-TAATTCT-TATTTG
1 TTG-CTTGTTT-A-ATTGATGTGTAAAATTGATT-TGTAAAAG
*
2163670 -TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTAAAAG
1 TTGCTTGTTTAATTGATGTGTAAAA-TTGATTTGTAAAAG
2163709 TTGCTTTGTTTAATTGATGTGTAAA
1 TTGC-TTGTTTAATTGATGTGTAAA
2163734 TAATTCTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
36 9 0.11
37 4 0.05
38 7 0.09
39 9 0.11
40 12 0.15
41 29 0.36
42 1 0.01
43 9 0.11
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.49
Consensus pattern (39 bp):
TTGCTTGTTTAATTGATGTGTAAAATTGATTTGTAAAAG
Found at i:2163862 original size:20 final size:20
Alignment explanation
Indices: 2163837--2163914 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
2163827 AGGTACACTT
*
2163837 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
2163857 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
2163877 TCGCAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
* *
2163897 TTGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
2163915 TTCGCGTTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:2163881 original size:40 final size:40
Alignment explanation
Indices: 2163837--2163914 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
2163827 AGGTACACTT
* *
2163837 TCGCAACGCTAAA-CTCAAAATCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGC-CAAAATCGCAACGCGAAAGTCAAAA
* *
2163877 TCGCAATGCGAAAGCCAAAATTGCAACGCGAAAGTCAA
1 TCGCAACGCGAAAGCCAAAATCGCAACGCGAAAGTCAA
2163915 TTCGCGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (40 bp):
TCGCAACGCGAAAGCCAAAATCGCAACGCGAAAGTCAAAA
Found at i:2163981 original size:20 final size:20
Alignment explanation
Indices: 2163953--2164137 Score: 151
Period size: 20 Copynumber: 9.8 Consensus size: 20
2163943 GCGATTTTCT
*
2163953 CGTTGCGATAATCAAATTCC
1 CGTTGCGATAATCAAATTCG
* *
2163973 CGTTACGATAATCAAATTCA
1 CGTTGCGATAATCAAATTCG
* *
2163993 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAATCAAATTCG
* *
2164013 GGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
2164033 CGTTGC---AAT---TTTTG
1 CGTTGCGATAATCAAATTCG
*
2164047 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
2164067 CGTTGCGAT--T----TTTG
1 CGTTGCGATAATCAAATTCG
* *
2164081 AGTTGTGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
2164101 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
2164121 CGTTGCGATATTCAAAT
1 CGTTGCGATAATCAAAT
2164138 GAATGTGTAA
Statistics
Matches: 130, Mismatches: 23, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
14 19 0.15
16 1 0.01
17 4 0.03
18 1 0.01
20 105 0.81
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:2164107 original size:34 final size:34
Alignment explanation
Indices: 2164014--2164109 Score: 156
Period size: 34 Copynumber: 2.8 Consensus size: 34
2164004 TCATATTCGG
* *
2164014 GTTGCGATAGTCAAATTCGCGTTGCAATTTTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
2164048 GTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
1 GTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
* *
2164082 GTTGTGATAATCAAATTCGCGTTGCGAT
1 GTTGCGATAGTCAAATTCGCGTTGCGAT
2164110 AGTCAAATTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (34 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
Found at i:2164360 original size:140 final size:140
Alignment explanation
Indices: 2164108--2164390 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 140
2164098 TCGCGTTGCG
2164108 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAGAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAGAACTGAACAGATCA
2164173 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTAAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTAAAAATGTTAAAAGTTTACACATAA
2164238 AATACACATA
131 AATACACATA
*
2164248 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAATAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAGAACTGAACAGATCA
*
2164313 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTAAAAATGTTAAAAGTTTACACATAA
2164378 AATACACATA
131 AATACACATA
2164388 ATA
1 ATA
2164391 CAACATTTTC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAGAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTAAAAATGTTAAAAGTTTACACATAA
AATACACATA
Done.