Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_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: 1504526
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:891884 original size:20 final size:20
Alignment explanation
Indices: 891868--891921 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
891858 GCTAATCAAT
891868 TGTAGTCAGCTGCAATCAGC
1 TGTAGTCAGCTGCAATCAGC
*
891888 TGTAGGCAGCTGCAATCAGC
1 TGTAGTCAGCTGCAATCAGC
891908 TGTAGTCAGCTGCA
1 TGTAGTCAGCTGCA
891922 TTATTATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (20 bp):
TGTAGTCAGCTGCAATCAGC
Found at i:891888 original size:10 final size:10
Alignment explanation
Indices: 891873--891921 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
891863 TCAATTGTAG
891873 TCAGCTGCAA
1 TCAGCTGCAA
* *
891883 TCAGCTGTAG
1 TCAGCTGCAA
*
891893 GCAGCTGCAA
1 TCAGCTGCAA
* *
891903 TCAGCTGTAG
1 TCAGCTGCAA
891913 TCAGCTGCA
1 TCAGCTGCA
891922 TTATTATACT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (10 bp):
TCAGCTGCAA
Found at i:894582 original size:2 final size:2
Alignment explanation
Indices: 894577--894608 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
894567 ACACACACAG
894577 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
894609 CAGTAGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:897580 original size:18 final size:17
Alignment explanation
Indices: 897523--897580 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
897513 TTTAATCTTT
897523 AAAAGTTAAGGAATTATTA
1 AAAAGTTAA--AATTATTA
*
897542 AAAA-TGTAAAACTATTGA
1 AAAAGT-TAAAATTATT-A
897560 AAAAGTTAAAATTTATTA
1 AAAAGTTAAAA-TTATTA
897578 AAA
1 AAA
897581 TAGTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 6 0.18
18 15 0.45
19 12 0.36
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (17 bp):
AAAAGTTAAAATTATTA
Found at i:897587 original size:18 final size:16
Alignment explanation
Indices: 897534--897588 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
897524 AAAGTTAAGG
897534 AATTATTAAAAATGTAA
1 AATTATTAAAAA-GTAA
*
897551 AACTATTGAAAAAGTTAA
1 AATTATT-AAAAAG-TAA
897569 AATTTATTAAAATAGTAA
1 AA-TTATTAAAA-AGTAA
897587 AA
1 AA
897589 AACATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.22
18 19 0.59
19 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (16 bp):
AATTATTAAAAAGTAA
Found at i:899014 original size:20 final size:21
Alignment explanation
Indices: 898991--899074 Score: 70
Period size: 20 Copynumber: 4.2 Consensus size: 21
898981 TATAATATCA
*
898991 TAAAAATAT-TTATTTATTTT
1 TAAAAATATATTAATTATTTT
899011 TAAAAATATATTAATTATTTAT
1 TAAAAATATATTAATTATTT-T
**
899033 TTGAAATA-A-T-ATTATTTT
1 TAAAAATATATTAATTATTTT
* * *
899051 T-AAATTATTTTCATTATTTT
1 TAAAAATATATTAATTATTTT
899071 TAAA
1 TAAA
899075 TAATTTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.08
18 2 0.04
19 8 0.15
20 19 0.37
21 12 0.23
22 7 0.13
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (21 bp):
TAAAAATATATTAATTATTTT
Found at i:899075 original size:20 final size:20
Alignment explanation
Indices: 899043--899080 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
899033 TTGAAATAAT
*
899043 ATTATTTTTAAATTATTTTC
1 ATTATTTTTAAATAATTTTC
899063 ATTATTTTTAAATAATTT
1 ATTATTTTTAAATAATTT
899081 AAAATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATTTTTAAATAATTTTC
Found at i:899183 original size:26 final size:23
Alignment explanation
Indices: 899163--899240 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
899153 TAAATAATTT
899163 AAAAATAATATTATTTCAAATAA
1 AAAAATAATATTATTTCAAATAA
* *
899186 ATAATTAATATTATTTCAAAT-A
1 AAAAATAATATTATTTCAAATAA
* * * *
899208 AATAATAATATGAGTTTAAAATTA
1 AAAAATAATATTA-TTTCAAATAA
899232 AAAAATAAT
1 AAAAATAAT
899241 TTAATATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
22 10 0.22
23 26 0.58
24 9 0.20
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (23 bp):
AAAAATAATATTATTTCAAATAA
Found at i:899189 original size:19 final size:19
Alignment explanation
Indices: 899134--899214 Score: 71
Period size: 23 Copynumber: 4.2 Consensus size: 19
899124 GGTTCCATAA
*
899134 AATATTATTTAAAATTAAAT
1 AATATTATTTCAAA-TAAAT
*
899154 AA-ATAATTT--AA-AAAT
1 AATATTATTTCAAATAAAT
899169 AATATTATTTCAAATAAATAATT
1 AATATTATTTCAAAT--A-AA-T
899192 AATATTATTTCAAATAAAT
1 AATATTATTTCAAATAAAT
899211 AATA
1 AATA
899215 ATATGAGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 2 0.04
18 2 0.04
19 11 0.22
20 4 0.08
21 2 0.04
22 2 0.04
23 16 0.31
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATTATTTCAAATAAAT
Found at i:899198 original size:23 final size:22
Alignment explanation
Indices: 899162--899218 Score: 98
Period size: 23 Copynumber: 2.6 Consensus size: 22
899152 ATAAATAATT
899162 TAAA-AATAATATTATTTCAAA
1 TAAATAATAATATTATTTCAAA
899183 TAAATAATTAATATTATTTCAAA
1 TAAATAA-TAATATTATTTCAAA
899206 TAAATAATAATAT
1 TAAATAATAATAT
899219 GAGTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 22 0.65
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATAATAATATTATTTCAAA
Found at i:899918 original size:20 final size:19
Alignment explanation
Indices: 899893--899936 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
899883 AAAAATATTA
899893 TATTA-TATT-ATATTTAT
1 TATTATTATTAATATTTAT
899910 TATTATTATTAATATTT-T
1 TATTATTATTAATATTTAT
899928 T-TTATTATT
1 TATTATTATT
899937 TTTGTAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.52
18 6 0.24
19 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTATTAATATTTAT
Found at i:900026 original size:33 final size:33
Alignment explanation
Indices: 899989--900070 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
899979 AAAAATAAGT
*
899989 CAACGTATTTGAGTCTTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
900022 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
*
900055 CGAA-GCATTTGAGTCC
1 C-AACGTATTTGAGTCC
900071 ATGTAGGACT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 44 0.96
34 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (33 bp):
CAACGTATTTGAGTCCTATTGAAACACTAAAAC
Found at i:900570 original size:19 final size:19
Alignment explanation
Indices: 900546--900586 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
900536 TAATACATTA
*
900546 TTTATTA-TTATTTATTTAT
1 TTTATTATTTA-TTATTCAT
900565 TTTATTATTTATTATTCAT
1 TTTATTATTTATTATTCAT
900584 TTT
1 TTT
900587 TTTCTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTATTTATTATTCAT
Found at i:900572 original size:26 final size:27
Alignment explanation
Indices: 900542--900594 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
900532 ATGATAATAC
900542 ATTATTTATTATT-ATTTATTTATTTT
1 ATTATTTATTATTCATTTATTTATTTT
* *
900568 ATTATTTATTATTCATTTTTTTCTTTT
1 ATTATTTATTATTCATTTATTTATTTT
900595 TGTTTAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (27 bp):
ATTATTTATTATTCATTTATTTATTTT
Found at i:904756 original size:110 final size:108
Alignment explanation
Indices: 904601--904859 Score: 360
Period size: 110 Copynumber: 2.4 Consensus size: 108
904591 GCTTTCCAAT
* * * *
904601 TTCAGAGCCAATTTCAATTTCACAGCGAATGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* * *
904666 CGAAGAAGGGGCGGCTGATTGTCAACAAACAACTTTTCAATTTC
66 CGAAGAAGGGGCGACTGATTGTCAACAAACAA-TTTCCAAGTTC
* *
904710 ATTCAGAGTCAATTTCAACTTCATAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTC
1 -TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTC
* *
904775 ACGACGAAGGGGCGACTGATTGTCAACAAACAATTTCCCAGTTC
65 ACGAAGAAGGGGCGACTGATTGTCAACAAACAATTTCCAAGTTC
* * *
904819 --CATAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
904860 GAGCAATACA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
106 36 0.27
109 8 0.06
110 89 0.67
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (108 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
CGAAGAAGGGGCGACTGATTGTCAACAAACAATTTCCAAGTTC
Found at i:905952 original size:33 final size:33
Alignment explanation
Indices: 905914--905980 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
905904 AAAAATAAGT
*
905914 CAACATATTTGAGTCTTATTGAAAAACTAAAAC
1 CAACATATTTGAGTCCTATTGAAAAACTAAAAC
*
905947 CAACATATTTGAGTCCTATTGAAACACTAAAAC
1 CAACATATTTGAGTCCTATTGAAAAACTAAAAC
905980 C
1 C
905981 GAAGCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (33 bp):
CAACATATTTGAGTCCTATTGAAAAACTAAAAC
Found at i:905990 original size:33 final size:32
Alignment explanation
Indices: 905914--905995 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
905904 AAAAATAAGT
*
905914 CAACATATTTGAGTCTTATTGAAAAACTAAAAC
1 CAACA-ATTTGAGTCCTATTGAAAAACTAAAAC
*
905947 CAACATATTTGAGTCCTATTGAAACACTAAAAC
1 CAACA-ATTTGAGTCCTATTGAAAAACTAAAAC
905980 CGAAGC-ATTTGAGTCC
1 C-AA-CAATTTGAGTCC
905996 ATATAGGACT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 42 0.93
34 2 0.04
35 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (32 bp):
CAACAATTTGAGTCCTATTGAAAAACTAAAAC
Found at i:906492 original size:22 final size:21
Alignment explanation
Indices: 906466--906508 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
906456 ATGATAATAC
906466 ATTATTTATTATTATTTATTTT
1 ATTATTTATTATTATTT-TTTT
*
906488 ATTATTTATTATTCTTTTTTT
1 ATTATTTATTATTATTTTTTT
906509 CCTTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTATTTATTATTATTTTTTT
Found at i:908484 original size:40 final size:40
Alignment explanation
Indices: 908436--908902 Score: 283
Period size: 40 Copynumber: 11.7 Consensus size: 40
908426 TACGTATCTC
* *
908436 GTACAATACATCACCTTTCTTGTGGTTGGGTGTGTATCAT
1 GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* ** * *
908476 ATACAATACATCACCACTCTTTTATTTAGGTGTGTAT-AT
1 GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
** * *
908515 CGTACAATACATCACCACTCTTTTATTTAGGTGTGTATC-T
1 -GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * *
908555 CGTACAATACATCACCTTTCTTATGGTCGTA--TGTGTATCAC
1 -GTACAATACATCACCTTTCTTGT-GT-TTAGGTGTGTATCAT
* * ** * * **
908596 GCACAATAGATCACCACTCTTGTATTTAGGTATGTATCCC
1 GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * **
908636 GTACAATACAAT-ACCTTTCTTGTGGTTAGGTATGTATCCC
1 GTACAATAC-ATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * ** * * * *
908676 ATACAATATATCACCACTCTTGTATTTAGATGTATATCTT
1 GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * *
908716 GTACAATACATCA-CTATTC-GGTTATTTAGGTGTGTAT-GT
1 GTACAATACATCACCT-TTCTTG-TGTTTAGGTGTGTATCAT
* * * * **
908755 CGTACAATACATCATCTTTCTAGTGATTGGGTGTGTATCCC
1 -GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * *
908796 ATACAATATATCACCTTTCTTGTGGTT-GG-GTGTATC-T
1 GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
* * ** * *
908833 CGTATAATATATCACCACTCTTGTGTTTAGGTGTGCAT-TT
1 -GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
*
908873 GATACAATACATCACCTTTCTTGTATTTAG
1 G-TACAATACATCACCTTTCTTGTGTTTAG
908903 TACACTAAAC
Statistics
Matches: 336, Mismatches: 71, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
38 31 0.09
39 13 0.04
40 284 0.85
41 6 0.02
42 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (40 bp):
GTACAATACATCACCTTTCTTGTGTTTAGGTGTGTATCAT
Found at i:908567 original size:80 final size:80
Alignment explanation
Indices: 908429--908902 Score: 401
Period size: 80 Copynumber: 6.0 Consensus size: 80
908419 AATAAGGTAC
** ** * * **
908429 GTATCTCGTACAATACATCACCTTTCTTGTGGTTGGGTGTGTATCAT-ATACAATACATCACCAC
1 GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATC-TCGTACAATACATCACCTT
*
908493 TCTTTTATTTAGGTGT
65 TCTTGTATTTAGGTGT
* *
908509 GTATATCGTACAATACATCACCACTCTTTTATTTAGGTGTGTATCTCGTACAATACATCACCTTT
1 GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATCTCGTACAATACATCACCTTT
* * *
908574 C-T-TATGGTCGTATGT
66 CTTGTAT-TTAG-GTGT
* * * * *
908589 GTATCACGCACAATAGATCACCACTCTTGTATTTAGGTATGTATCCCGTACAATACAAT-ACCTT
1 GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATCTCGTACAATAC-ATCACCTT
** *
908653 TCTTGTGGTTAGGTAT
65 TCTTGTATTTAGGTGT
* * * * * *
908669 GTATCCCATACAATATATCACCACTCTTGTATTTAGATGTATATCTTGTACAATACATCA-CTAT
1 GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATCTCGTACAATACATCACCT-T
*
908733 TC-GGTTATTTAGGTGT
65 TCTTG-TATTTAGGTGT
* * ** * * * * *
908749 GTATGTCGTACAATACATCATCTTTCTAGTGA-TTGGGTGTGTATCCCATACAATATATCACCTT
1 GTATCTCGTACAATACATCACCACTCTTGT-ATTTAGGTGTGTATCTCGTACAATACATCACCTT
**
908813 TCTTGTGGTT-GG-GT
65 TCTTGTATTTAGGTGT
* * * * *
908827 GTATCTCGTATAATATATCACCACTCTTGTGTTTAGGTGTGCAT-TTGATACAATACATCACCTT
1 GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATCTCG-TACAATACATCACCTT
908891 TCTTGTATTTAG
65 TCTTGTATTTAG
908903 TACACTAAAC
Statistics
Matches: 306, Mismatches: 73, Indels: 31
0.75 0.18 0.08
Matches are distributed among these distances:
78 61 0.20
79 12 0.04
80 223 0.73
81 9 0.03
82 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (80 bp):
GTATCTCGTACAATACATCACCACTCTTGTATTTAGGTGTGTATCTCGTACAATACATCACCTTT
CTTGTATTTAGGTGT
Found at i:908665 original size:120 final size:119
Alignment explanation
Indices: 908437--908896 Score: 412
Period size: 120 Copynumber: 3.8 Consensus size: 119
908427 ACGTATCTCG
* ** ** *
908437 TACAATACATCACCTTTCTTGTGGTTGGGTGTGTATCATATACAATACATCACCACTCTTTTATT
1 TACAATACATCACCTTTCTTATGG-TGTATGTGTATCACGTACAATACATCACCACTCTTGTATT
** * * *
908502 TAGGTGTGTATATCGTACAATACATCACCACTCTT-TTATTTAGGTGTGTATCTCG
65 TAGGTGTGTATATCGTACAATACATCACCTTTCTTGTGA-TTAGGTGTGTATCCCA
* *
908557 TACAATACATCACCTTTCTTATGGTCGTATGTGTATCACGCACAATAGATCACCACTCTTGTATT
1 TACAATACATCACCTTTCTTATGGT-GTATGTGTATCACGTACAATACATCACCACTCTTGTATT
* ** * *
908622 TAGGTATGTATCCCGTACAATACAAT-ACCTTTCTTGTGGTTAGGTATGTATCCCA
65 TAGGTGTGTATATCGTACAATAC-ATCACCTTTCTTGTGATTAGGTGTGTATCCCA
* ** * * ** * * *
908677 TACAATATATCACCACTCTTGTAT-TTAG-ATGTATATCTTGTACAATACATCACTATTC-GGTT
1 TACAATACATCACCTTTC-T-TATGGT-GTATGTGTATCACGTACAATACATCACCACTCTTG-T
* * * *
908739 ATTTAGGTGTGTATGTCGTACAATACATCATCTTTCTAGTGATTGGGTGTGTATCCCA
62 ATTTAGGTGTGTATATCGTACAATACATCACCTTTCTTGTGATTAGGTGTGTATCCCA
* * ** * * * *
908797 TACAATATATCACCTTTCTTGTGGT-TGGGTGTATCTCGTATAATATATCACCACTCTTGTGTTT
1 TACAATACATCACCTTTCTTATGGTGTATGTGTATCACGTACAATACATCACCACTCTTGTATTT
* *
908861 AGGTGTGCAT-TTGATACAATACATCACCTTTCTTGT
66 AGGTGTGTATATCG-TACAATACATCACCTTTCTTGT
908897 ATTTAGTACA
Statistics
Matches: 272, Mismatches: 57, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
117 2 0.01
118 57 0.21
119 7 0.03
120 197 0.72
121 6 0.02
122 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (119 bp):
TACAATACATCACCTTTCTTATGGTGTATGTGTATCACGTACAATACATCACCACTCTTGTATTT
AGGTGTGTATATCGTACAATACATCACCTTTCTTGTGATTAGGTGTGTATCCCA
Found at i:909026 original size:51 final size:51
Alignment explanation
Indices: 908957--909136 Score: 252
Period size: 51 Copynumber: 3.5 Consensus size: 51
908947 CAATTCCAAT
*
908957 AGTGGAATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGC
1 AGTGGTATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGC
* * * * * * *
909008 AGTGTTATATAAAATAGACTTATATCAATTAAATAATCAGTTAATTCCAGC
1 AGTGGTATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGC
* * * *
909059 AGTGGTATATAACATAGACTTACATCAATTAAATCATCACCTAATTTCAGT
1 AGTGGTATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGC
909110 AGTGGTATATAACATAGACTTACACCA
1 AGTGGTATATAACATAGACTTACACCA
909137 GTGAAACTTA
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 112 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (51 bp):
AGTGGTATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGC
Found at i:909127 original size:102 final size:102
Alignment explanation
Indices: 908948--909131 Score: 287
Period size: 102 Copynumber: 1.8 Consensus size: 102
908938 TTTAACACTC
* * *
908948 AATTCCAATAGTGGAATATAACATAGACTTACACCAATTAAATCATCACTTAATTACAGCAGTGT
1 AATTCCAACAGTGGAATATAACATAGACTTACACCAATTAAATCATCACCTAATTACAGCAGTGG
909013 TATATAAAATAGACTTATATCAATTAAATAATCAGTT
66 TATATAAAATAGACTTATATCAATTAAATAATCAGTT
* * * * *
909050 AATTCCAGCAGTGGTATATAACATAGACTTACATCAATTAAATCATCACCTAATTTCAGTAGTGG
1 AATTCCAACAGTGGAATATAACATAGACTTACACCAATTAAATCATCACCTAATTACAGCAGTGG
*
909115 TATATAACATAGACTTA
66 TATATAAAATAGACTTA
909132 CACCAGTGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 73 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (102 bp):
AATTCCAACAGTGGAATATAACATAGACTTACACCAATTAAATCATCACCTAATTACAGCAGTGG
TATATAAAATAGACTTATATCAATTAAATAATCAGTT
Found at i:909156 original size:77 final size:77
Alignment explanation
Indices: 909068--909213 Score: 197
Period size: 77 Copynumber: 1.9 Consensus size: 77
909058 CAGTGGTATA
* ** * *
909068 TAACATAGACTTACA-TCAATTAAATCATCACCTAATTTCAGT-AGTGGTATATAACATAGACTT
1 TAACATAGACTTACACT-AATTAAATCATCACCTAATTCCA-TCAACGATATATAACATAAACTT
909131 ACACCAGTGAAACT
64 ACACCAGTGAAACT
* *
909145 TAACATAGACTTGCACTAGTTAAATCATCACCTAATTCCATCAACGATATATAACATAAACTTAC
1 TAACATAGACTTACACTAATTAAATCATCACCTAATTCCATCAACGATATATAACATAAACTTAC
909210 ACCA
66 ACCA
909214 ATTAATTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
76 1 0.02
77 58 0.97
78 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (77 bp):
TAACATAGACTTACACTAATTAAATCATCACCTAATTCCATCAACGATATATAACATAAACTTAC
ACCAGTGAAACT
Found at i:909196 original size:128 final size:128
Alignment explanation
Indices: 909064--909308 Score: 359
Period size: 128 Copynumber: 1.9 Consensus size: 128
909054 CCAGCAGTGG
* * *
909064 TATATAACATAGACTTACATCAATTAAATCATCACCTAATT-TCAGT-AGTGGTATATAACATAG
1 TATATAACATAAACTTACACCAATTAAATCATCACCTAATTCT-A-TCAGTGATATATAACATAG
* *
909127 ACTTACACCAGTGAAACTTAACATAGACTTGCACTAGTTAAATCATCACCTAATTCCATCAACGA
64 ACTTACACCAGTGAAACTTAACATAGACTTACACCAGTTAAATCATCACCTAATTCCATCAACGA
* * *
909192 TATATAACATAAACTTACACCAATTAATTCATCACTTAATTCTATCAGTGATTTATAACATAGAC
1 TATATAACATAAACTTACACCAATTAAATCATCACCTAATTCTATCAGTGATATATAACATAGAC
* * *
909257 TTACACCGGTGAAACTTAACATAGATTTACACCAGTTAAATCATCACTTAAT
66 TTACACCAGTGAAACTTAACATAGACTTACACCAGTTAAATCATCACCTAAT
909309 CCCAGCAGAT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
127 1 0.01
128 102 0.98
129 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (128 bp):
TATATAACATAAACTTACACCAATTAAATCATCACCTAATTCTATCAGTGATATATAACATAGAC
TTACACCAGTGAAACTTAACATAGACTTACACCAGTTAAATCATCACCTAATTCCATCAACGA
Found at i:909232 original size:51 final size:51
Alignment explanation
Indices: 909145--909263 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
909135 CAGTGAAACT
* * *
909145 TAACATAGACTTGCACTAGTTAAATCATCACCTAATTCCATCAACGATATA
1 TAACATAGACTTACACCAATTAAATCATCACCTAATTCCATCAACGATATA
* * * * ** *
909196 TAACATAAACTTACACCAATTAATTCATCACTTAATTCTATCAGTGATTTA
1 TAACATAGACTTACACCAATTAAATCATCACCTAATTCCATCAACGATATA
909247 TAACATAGACTTACACC
1 TAACATAGACTTACACC
909264 GGTGAAACTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (51 bp):
TAACATAGACTTACACCAATTAAATCATCACCTAATTCCATCAACGATATA
Found at i:909277 original size:77 final size:76
Alignment explanation
Indices: 909196--909408 Score: 252
Period size: 73 Copynumber: 2.8 Consensus size: 76
909186 CAACGATATA
* * * *
909196 TAACATAAACTTACACCAATTAATTCATCACTTAATTCTATCAGTGATTTATAACATAGACTTAC
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCATCAGTGA-TTATAACATAGACTTAC
**
909261 ACCGGTGAAACT
65 ACCACTGAAACT
* * * *
909273 TAACATAGATTTACACCAGTTAAATCATCACTTAATCCCAGCA--GA-TATAACATAGATTTACA
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCATCAGTGATTATAACATAGACTTACA
** *
909335 TTACTGAAATT
66 CCACTGAAACT
* *
909346 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCATTAGTGGTATATAACATAGACTT
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCATCAGTGAT-TATAACATAGACTT
909409 TCTCTGGTAA
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
73 61 0.54
75 3 0.03
77 49 0.43
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (76 bp):
TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCATCAGTGATTATAACATAGACTTACA
CCACTGAAACT
Found at i:909793 original size:13 final size:13
Alignment explanation
Indices: 909777--909803 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
909767 AAGCTTTCTC
909777 TTTTTGTTTAGCT
1 TTTTTGTTTAGCT
909790 TTTTTGTTTAGCT
1 TTTTTGTTTAGCT
909803 T
1 T
909804 GAGAAGCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTTTGTTTAGCT
Found at i:910170 original size:43 final size:44
Alignment explanation
Indices: 909981--910180 Score: 214
Period size: 43 Copynumber: 4.7 Consensus size: 44
909971 ATAGGTCAAT
* * * *
909981 ATCTATCGCGGC-GTTTTTAGA-ACAAACGCCGCAAAAGATCGAG
1 ATCTATAGCGGCATTTTTTA-ATACAAACGCCGCAAAAGATCTAA
* * * * *
910024 ATATATAGCGTCATTTTTTGA-ACAAACGCCGCAAAAGGTCT-G
1 ATCTATAGCGGCATTTTTTAATACAAACGCCGCAAAAGATCTAA
** *
910066 ATCTATAGCGGCATTTTTTGGTACAAACGCCGCAAAAGTTC-AA
1 ATCTATAGCGGCATTTTTTAATACAAACGCCGCAAAAGATCTAA
* *
910109 ATCTATAGCGGCGTTTTTTAATACAAACGCCGCAAAA-ATTTAA
1 ATCTATAGCGGCATTTTTTAATACAAACGCCGCAAAAGATCTAA
*
910152 ATCTATAGCGGCATTTTTTTATACAAACG
1 ATCTATAGCGGCATTTTTTAATACAAACG
910181 TCGCCAAATA
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 20 0.15
43 109 0.81
44 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTATAGCGGCATTTTTTAATACAAACGCCGCAAAAGATCTAA
Found at i:914239 original size:41 final size:41
Alignment explanation
Indices: 914086--914297 Score: 157
Period size: 41 Copynumber: 5.2 Consensus size: 41
914076 ATTTTTGCTT
* * * *
914086 AAAACGCCACTAAAGTACAAGTATTTAGCGCCGTTTG-TCA
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTGTTTA
* * *
914126 AAAACGTCACTAAAGTACTAGGT-TTTAGTGGCGTTTGTCTA
1 AAAACGCCACTAAAGTACTA-GTCTTTAGCGGCGTTTGTTTA
* * * **
914167 AAAACGCCACGATA-TATGTACCCTATT-GCGGCGTTTGTTTA
1 AAAACGCCACTAAAGTA-CTAGTCT-TTAGCGGCGTTTGTTTA
* **
914208 CAAACGCCACTAAAGTACTTA-TCTTTAGCGGCGTTTGTCAA
1 AAAACGCCACTAAAGTAC-TAGTCTTTAGCGGCGTTTGTTTA
* * * * *
914249 ATAAATGCCACTAAAGTACGAGT-TTTAGCAGCGTTTATTGA
1 A-AAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTGTTTA
914290 AAAACGCC
1 AAAACGCC
914298 GTTAATGTTA
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
40 40 0.30
41 70 0.53
42 23 0.17
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTGTTTA
Found at i:918736 original size:21 final size:21
Alignment explanation
Indices: 918712--918761 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
918702 TTATTATGCC
* *
918712 AGTTACAAGTGTAATTACATG
1 AGTTACAAGAGTAATTACAAG
*
918733 AGTTACAGGAGTAATTACAAG
1 AGTTACAAGAGTAATTACAAG
918754 AGTTACAA
1 AGTTACAA
918762 ACAACTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (21 bp):
AGTTACAAGAGTAATTACAAG
Found at i:922177 original size:16 final size:17
Alignment explanation
Indices: 922156--922188 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
922146 TTACTGTTCA
922156 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
922172 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
922189 TGTCGACGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:928284 original size:20 final size:20
Alignment explanation
Indices: 928244--928284 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
928234 CGATAAAAAA
*
928244 TTATTTAAAAATTATTATTT
1 TTATTTAAAAATCATTATTT
928264 TTATTTAAAACATCATT-TTT
1 TTATTTAAAA-ATCATTATTT
928284 T
1 T
928285 AACATTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTTAAAAATCATTATTT
Found at i:929724 original size:22 final size:24
Alignment explanation
Indices: 929683--929726 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
929673 GGAAAAATAA
929683 TATTTTTCTAAGAATAAGAAAAAC
1 TATTTTTCTAAGAATAAGAAAAAC
929707 TATTTTTC-AAG-ATAAGAAAA
1 TATTTTTCTAAGAATAAGAAAA
929727 TTTCTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (24 bp):
TATTTTTCTAAGAATAAGAAAAAC
Found at i:931129 original size:37 final size:37
Alignment explanation
Indices: 931075--931172 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
931065 GTCCTATTAG
** * *
931075 GATTCAAACTCAAAAAAATAGGATAGAATTTTGCTAT
1 GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAT
*
931112 GATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAT
1 GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAT
* *
931149 GATTTAAACTCCTAAAGATAGGAT
1 GATTCAAACTCCTAAAAATAGGAT
931173 CCACAAGCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAT
Found at i:931561 original size:9 final size:9
Alignment explanation
Indices: 931533--931573 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
931523 ATATTAGTCC
931533 TTTTATTTA
1 TTTTATTTA
* *
931542 TTGTATGTA
1 TTTTATTTA
931551 TTTTATTTA
1 TTTTATTTA
931560 -TTTATTT-
1 TTTTATTTA
931567 TTTTATT
1 TTTTATT
931574 ATTGTCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:931705 original size:2 final size:2
Alignment explanation
Indices: 931696--931725 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
931686 TTATTTTTTA
931696 AT AT -T 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 A
931726 CACTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:931959 original size:20 final size:21
Alignment explanation
Indices: 931915--931972 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
931905 TTTGGTTTTT
*
931915 TTATTTGTCTATATTATATTA
1 TTATTTGTCTATATTATATCA
931936 -TATTT-TC-ATATTACTATCA
1 TTATTTGTCTATATTA-TATCA
931955 TTA-TTGT-TATGATTATAT
1 TTATTTGTCTAT-ATTATAT
931973 TTTTCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
18 6 0.19
19 8 0.26
20 13 0.42
21 4 0.13
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTTGTCTATATTATATCA
Found at i:932061 original size:29 final size:30
Alignment explanation
Indices: 932016--932083 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
932006 TATATTAATA
* *
932016 TTCATTTATTATTTATTATTTTCCTTTTATT
1 TTCATTTATTACTTATTATTTTCATTTT-TT
*
932047 TT-ATTT-TTACTTATTTTTTTCATTTTTT
1 TTCATTTATTACTTATTATTTTCATTTTTT
932075 TTCATTTAT
1 TTCATTTAT
932084 CATTTTTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 21 0.66
30 5 0.16
31 2 0.06
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (30 bp):
TTCATTTATTACTTATTATTTTCATTTTTT
Found at i:936301 original size:18 final size:18
Alignment explanation
Indices: 936280--936327 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
936270 CAAAAAGGGC
936280 AAAAATAAAAAAAAGAAA
1 AAAAATAAAAAAAAGAAA
*
936298 AAAACA-AAAAAAAAGAAC
1 AAAA-ATAAAAAAAAGAAA
936316 AAAAATCAAAAA
1 AAAAAT-AAAAA
936328 GAAAAGGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 19 0.73
19 6 0.23
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.04
Consensus pattern (18 bp):
AAAAATAAAAAAAAGAAA
Found at i:937898 original size:106 final size:105
Alignment explanation
Indices: 937718--938767 Score: 1492
Period size: 106 Copynumber: 9.9 Consensus size: 105
937708 CAAGATAACA
* ** * * *
937718 CAAGTTCAACTTTATAACGAAGGGACGGCTGGTTGACAAC-AACAATTTTCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCA
* *
937782 ATTTTAACTTCACAACGAAGGATATTGGACTTCAGACAACG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
937823 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTTCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCA
* *
937888 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACA
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
937929 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCA
* *
937994 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
938035 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTC-CAATTTCAGAGCCA
*
938100 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACT
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * * *
938141 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAATCAACTTCCCAATTTTAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCA
* *
938206 ATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
** * *
938247 CAAGTTCAACTTCAAAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTC-CAATTTCAGAGCCA
*
938312 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * *
938353 TAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTC-CAATTTCAGAGCCA
* *
938418 ATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAATG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
938459 CAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTT-CCAATTTCAGAGCCA
* * *
938524 ATTTCTACTTCACAGCGAAGGATATTGGACTCAAGACAACG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * *
938565 CAAGTTTAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTC-CAATTTCAGAGCCA
* * *
938630 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACA
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * ** *
938671 CAAGTTCAACTTCACAACGAATGGG-CGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCC
1 CAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAACAAACAATTT-CCAATTTCAGAGCC
* *
938735 AATTTCAACTTCACGACGGAGGATATTGGACTC
64 AATTTCAACTTCACAACGAAGGATATTGGACTC
938768 GGAACAATGC
Statistics
Matches: 854, Mismatches: 83, Indels: 15
0.90 0.09 0.02
Matches are distributed among these distances:
105 40 0.05
106 807 0.94
107 7 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (105 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCAATTTCAGAGCCAA
TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:939594 original size:35 final size:37
Alignment explanation
Indices: 939498--939596 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
939488 TTCGTCCTAC
* * *
939498 TAGGATTCAAACTCATAAAAATAGGATAGAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTGA
*
939535 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT-A
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTGA
* *
939571 TATGATT-AAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
939597 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 18 0.32
36 6 0.11
37 32 0.57
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTGA
Found at i:940292 original size:21 final size:21
Alignment explanation
Indices: 940260--940321 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
940250 TTATAAGTCA
*
940260 ATTATCATATATGTATACTTTT
1 ATTATTATATAT-TATACTTTT
940282 A-TATT-TGATA-TATA-TTTT
1 ATTATTAT-ATATTATACTTTT
940300 ATTATTATATATATATACTTTT
1 ATTATTATATAT-TATACTTTT
940322 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 5 0.15
19 11 0.33
20 2 0.06
21 10 0.30
22 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTATTATATATTATACTTTT
Found at i:940295 original size:19 final size:22
Alignment explanation
Indices: 940273--940321 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 22
940263 ATCATATATG
940273 TATACTTTTA-TATT-T-GATA
1 TATACTTTTATTATTATAGATA
*
940292 TATA-TTTTATTATTATATATA
1 TATACTTTTATTATTATAGATA
940313 TATACTTTT
1 TATACTTTT
940322 TTTAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 8 0.32
20 1 0.04
21 7 0.28
22 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TATACTTTTATTATTATAGATA
Found at i:940333 original size:194 final size:190
Alignment explanation
Indices: 940109--940499 Score: 637
Period size: 193 Copynumber: 2.0 Consensus size: 190
940099 TTTTTAATAT
940109 TTATTTATATATATATTTTTTTAAAATA-TTTATTTATAAGCGTATTATTACC-ATATATATATA
1 TTATTTATATATATATTTTTTTAAAATATTTTA-TTATAAGCGTATTATTACCAATATATATATA
940172 GATATATATATTGTAATTATCTTATTTAGTTTTTTTTATT-TATCATTATACGTATATATGTATG
65 GATATATATATTGTAATTATCTTATTTAGTTTTTTTT-TTAT-TCATTATACG--TATATGTATG
940236 TTTTAATAGTTTATTTATAAGTCAATTATCA-TATATGTATACTTTTATATTTGATATATATTTT
126 TTTTAATAGTTTATTTATAAGTCAATTATCATTATATGTATACTTTTATATTTGATATATA-TTT
940300 A
190 A
940301 TTATTATATATATATACTTTTTTTAAAATATTTTATTATAAGCGTATTATTACCATATATATATA
1 TTATT-TATATATATA-TTTTTTTAAAATATTTTATTATAAGCGTATTATTACCA-ATATATATA
* * *
940366 TATATATATATATTGTAATTATCTTTTTTAGTTTTTTTTTTATTTATTATACGTATATGTATGTT
63 TAGATATATATATTGTAATTATCTTATTTAGTTTTTTTTTTATTCATTATACGTATATGTATGTT
*
940431 TTAATAGTTTATTTATAAGTCAATTATCATTATATGTATACTTTTATATTTGATTTATATTTA
128 TTAATAGTTTATTTATAAGTCAATTATCATTATATGTATACTTTTATATTTGATATATATTTA
940494 TTATTT
1 TTATTT
940500 TTGTTTTGGT
Statistics
Matches: 188, Mismatches: 4, Indels: 14
0.91 0.02 0.07
Matches are distributed among these distances:
192 6 0.03
193 60 0.32
194 60 0.32
195 15 0.08
196 47 0.25
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (190 bp):
TTATTTATATATATATTTTTTTAAAATATTTTATTATAAGCGTATTATTACCAATATATATATAG
ATATATATATTGTAATTATCTTATTTAGTTTTTTTTTTATTCATTATACGTATATGTATGTTTTA
ATAGTTTATTTATAAGTCAATTATCATTATATGTATACTTTTATATTTGATATATATTTA
Found at i:940496 original size:193 final size:191
Alignment explanation
Indices: 940109--940499 Score: 639
Period size: 194 Copynumber: 2.0 Consensus size: 191
940099 TTTTTAATAT
940109 TTATTTATATATATATTTTTTTAAAATATTTATTTATAAGCGTATTATTACCATATATATATAGA
1 TTATTTATATATATATTTTTTTAAAATATTTATTTATAAGCGTATTATTACCATATATATATAGA
940174 TATATATATTGTAATTATCTTATTTAGTTTTTTTTATTTATCATTATACGTATATATGTATGTTT
66 TATATATATTGTAATTATCTTATTTAGTTTTTTTTATTTATCATTATACG-ATATATGTATGTTT
940239 TAATAGTTTATTTATAAGTCAATTATCATATATGTATACTTTTATATTTGATATATATTTTA
130 TAATAGTTTATTTATAAGTCAATTATCATATATGTATACTTTTATATTTGATATATATTTTA
940301 TTATTATATATATATACTTTTTTTAAAATATTT-TATTATAAGCGTATTATTACCATATATATAT
1 TTATT-TATATATATA-TTTTTTTAAAATATTTAT-TTATAAGCGTATTATTACC--ATATATAT
* * *
940365 ATATATATATATATTGTAATTATCTTTTTTAG-TTTTTTT-TTTATTTATTATACG-TATATGTA
61 ATAGATATATATATTGTAATTATCTTATTTAGTTTTTTTTATTTA-TCATTATACGATATATGTA
*
940427 TGTTTTAATAGTTTATTTATAAGTCAATTATCATTATATGTATACTTTTATATTTGATTTATA-T
125 TGTTTTAATAGTTTATTTATAAGTCAATTATCA-TATATGTATACTTTTATATTTGATATATATT
940491 TTA
189 TTA
940494 TTATTT
1 TTATTT
940500 TTGTTTTGGT
Statistics
Matches: 188, Mismatches: 4, Indels: 14
0.91 0.02 0.07
Matches are distributed among these distances:
192 6 0.03
193 61 0.32
194 67 0.36
195 16 0.09
196 38 0.20
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (191 bp):
TTATTTATATATATATTTTTTTAAAATATTTATTTATAAGCGTATTATTACCATATATATATAGA
TATATATATTGTAATTATCTTATTTAGTTTTTTTTATTTATCATTATACGATATATGTATGTTTT
AATAGTTTATTTATAAGTCAATTATCATATATGTATACTTTTATATTTGATATATATTTTA
Found at i:940663 original size:13 final size:12
Alignment explanation
Indices: 940625--940682 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
940615 TTTCATTTAT
940625 TTATTTCTTTTTC
1 TTATTT-TTTTTC
*
940638 -T-TTTTCTTT-
1 TTATTTTTTTTC
940647 TTATTTTTTTTAC
1 TTATTTTTTTT-C
*
940660 TTATTTTTATTC
1 TTATTTTTTTTC
940672 TTCATTTTTTT
1 TT-ATTTTTTT
940683 CATTTATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
10 5 0.14
11 10 0.28
12 4 0.11
13 17 0.47
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTTTTC
Found at i:945515 original size:34 final size:35
Alignment explanation
Indices: 945472--945537 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
945462 CTCAAACTAG
945472 ATATCTTTTAATATCT-AAAT-TTAAATAGATAATA
1 ATATCTTTTAA-ATCTAAAATATTAAATAGATAATA
*
945506 ATATCTTTTAAATTTAAAATATTAAATAGATA
1 ATATCTTTTAAATCTAAAATATTAAATAGATA
945538 TACACTCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 3 0.10
34 15 0.52
35 11 0.38
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (35 bp):
ATATCTTTTAAATCTAAAATATTAAATAGATAATA
Found at i:947717 original size:148 final size:144
Alignment explanation
Indices: 947460--947879 Score: 576
Period size: 148 Copynumber: 2.9 Consensus size: 144
947450 GACATTTCAC
* *
947460 TGAAAAGTTGTTGAAGATGATTGATGGGACACTGAAAAGTTGCATTTTTTGGCATCATTG-ATTA
1 TGAAAAGTTGTTGAAGATGATTGATGGGGCACTGAAAAGTTGCATTTTTTTGCATCA-TGCATTA
* *
947524 TTAATGGCCCGTTCTGAAGAGTATTAATGGCCCGTTTTGACATTTTTGGGCATGATGCATTATTA
65 TTAATGGCCCGTTCTGAAGAGTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGCATTATTA
**
947589 GAGATGTCATTTTAT
130 GAGATGAAATTTTAT
** *
947604 TGAAAAGTTACTGAAGATGATTGATGGGGCACTGAAAAGTTGTTGGCATTTTTTTGCATCCTGCA
1 TGAAAAGTTGTTGAAGATGATTGATGGGGCACTGAAAA---GTT-GCATTTTTTTGCATCATGCA
* * * * * *
947669 TTATCAATAGCCCATTCTGAAGAGTATTAATGGCTCATTTTGAAATTTTCGGGCATGGTGCATTA
62 TTATTAATGGCCCGTTCTGAAGAGTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGCATTA
947734 TTAGAGATGAAATTTTAT
127 TTAGAGATGAAATTTTAT
* * *
947752 TGAAAAATTGTTGAAGATGATTGAT-GGGCACTGAAAAGTTACA-TTTTCTGACATCATGCATTA
1 TGAAAAGTTGTTGAAGATGATTGATGGGGCACTGAAAAGTTGCATTTTTTTG-CATCATGCATTA
** *
947815 TTAATGGAACGTTCTGAAGAGTATTAATGGTTCGTTTTGACATTTTCGGGCATGATGCATTATTA
65 TTAATGGCCCGTTCTGAAGAGTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGCATTATTA
947880 AATTGGCTTG
Statistics
Matches: 240, Mismatches: 30, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
142 6 0.03
143 69 0.29
144 38 0.16
147 17 0.07
148 110 0.46
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (144 bp):
TGAAAAGTTGTTGAAGATGATTGATGGGGCACTGAAAAGTTGCATTTTTTTGCATCATGCATTAT
TAATGGCCCGTTCTGAAGAGTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGCATTATTAG
AGATGAAATTTTAT
Found at i:950681 original size:3 final size:3
Alignment explanation
Indices: 950667--950712 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
950657 GTTTTCTAAG
* *
950667 TCT TCAT TCT TCT TCT TCT TCT TCT TCT TCT TAT TCT CCT TCT TCT
1 TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
950713 CCTCCTCTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:956288 original size:23 final size:23
Alignment explanation
Indices: 956262--956320 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
956252 TTATTATTTA
956262 ATTATTTAGGATTCTAGTTTACT
1 ATTATTTAGGATTCTAGTTTACT
*
956285 ATTATTTAGGATTCTAGTTTTCT
1 ATTATTTAGGATTCTAGTTTACT
*
956308 ATCATTTAGGATT
1 ATTATTTAGGATT
956321 TAAGTATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (23 bp):
ATTATTTAGGATTCTAGTTTACT
Found at i:960048 original size:17 final size:17
Alignment explanation
Indices: 960001--960058 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
959991 ATTTATTTTG
960001 TTTATT-TTAATTTAATT
1 TTTATTATTAATTT-ATT
960018 TTAGTATTTGATTAATTTATT
1 TT--TA-TT-ATTAATTTATT
960039 TTTATTATTAATTTATT
1 TTTATTATTAATTTATT
960056 TTT
1 TTT
960059 CTTTGATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 16 0.44
18 2 0.06
19 4 0.11
20 2 0.06
21 5 0.14
22 7 0.19
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTATTAATTTATT
Found at i:961813 original size:16 final size:16
Alignment explanation
Indices: 961792--961830 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
961782 GGTATTACCC
961792 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
961808 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
*
961824 AACCTGT
1 GACCTGT
961831 AAATGATCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:962343 original size:21 final size:21
Alignment explanation
Indices: 962319--962359 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
962309 ATGGTTTAAA
*
962319 GTTTAGGGTTTAGGGTTTTTG
1 GTTTAGAGTTTAGGGTTTTTG
**
962340 GTTTCTAGTTTAGGGTTTTT
1 GTTTAGAGTTTAGGGTTTTT
962360 ATAAACTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.32, T:0.56
Consensus pattern (21 bp):
GTTTAGAGTTTAGGGTTTTTG
Found at i:962478 original size:11 final size:10
Alignment explanation
Indices: 962464--962514 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
962454 ACATGGTTTA
962464 TATATACAAAT
1 TATATA-AAAT
962475 TATATAAAAT
1 TATATAAAAT
962485 TATTTAATAAAAT
1 TA--T-ATAAAAT
962498 TA-ATAAAAT
1 TATATAAAAT
*
962507 TATTTAAA
1 TATATAAA
962515 TATAAATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 9 0.26
10 10 0.29
11 6 0.17
12 1 0.03
13 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATATAAAAT
Found at i:962487 original size:23 final size:22
Alignment explanation
Indices: 962461--962530 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
962451 TATACATGGT
962461 TTATATATACAAATTATATAAAA
1 TTATATATA-AAATTATATAAAA
*
962484 TTATTTAATAAAATTA-ATAAAA
1 TTATAT-ATAAAATTATATAAAA
*
962506 TTATTTAAATATAAATTATATAAAA
1 TTA--TATATA-AAATTATATAAAA
962531 CATGATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 9 0.23
23 14 0.36
24 10 0.26
25 6 0.15
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATATATAAAATTATATAAAA
Found at i:962842 original size:14 final size:14
Alignment explanation
Indices: 962823--962887 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
962813 TCCATTTATA
962823 TTAGGGTTTATGAT
1 TTAGGGTTTATGAT
962837 TTAGGGTTTAAT-AT
1 TTAGGGTTT-ATGAT
* * *
962851 TTATGATTTA-AAGT
1 TTAGGGTTTATGA-T
962865 TTAGGGTTTATGAT
1 TTAGGGTTTATGAT
*
962879 TTAGTGTTT
1 TTAGGGTTT
962888 CTATAAACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
13 2 0.05
14 36 0.88
15 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:962854 original size:21 final size:21
Alignment explanation
Indices: 962829--962887 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
962819 TATATTAGGG
* *
962829 TTTATGATTTAGGGTTTAATA
1 TTTATGATTTAGAGTTTAAGA
* * *
962850 TTTATGATTTAAAGTTTAGGG
1 TTTATGATTTAGAGTTTAAGA
*
962871 TTTATGATTTAGTGTTT
1 TTTATGATTTAGAGTTT
962888 CTATAAACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTATGATTTAGAGTTTAAGA
Found at i:962932 original size:13 final size:13
Alignment explanation
Indices: 962914--962956 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
962904 TAATTTCCTT
962914 TATATAGTTTATA
1 TATATAGTTTATA
*
962927 TATATAGGTTATA
1 TATATAGTTTATA
962940 TATATAGTTTATA
1 TATATAGTTTATA
962953 TATA
1 TATA
962957 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:962961 original size:20 final size:21
Alignment explanation
Indices: 962937--962987 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
962927 TATATAGGTT
*
962937 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
962958 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
962978 ATATTATATA
1 ATA-TATATA
962988 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:962995 original size:13 final size:13
Alignment explanation
Indices: 962985--963011 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
962975 TACATATTAT
962985 ATAAAATTATTTA
1 ATAAAATTATTTA
962998 ATAAAATTATTTA
1 ATAAAATTATTTA
963011 A
1 A
963012 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:963021 original size:15 final size:14
Alignment explanation
Indices: 962985--963027 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
962975 TACATATTAT
962985 ATAAAATTATTT-A
1 ATAAAATTATTTAA
962998 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
963012 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
963027 A
1 A
963028 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:963048 original size:498 final size:504
Alignment explanation
Indices: 962432--963344 Score: 1577
Period size: 498 Copynumber: 1.8 Consensus size: 504
962422 TAATTTACTT
*
962432 TATATAGTTTATATATATATATACATGGTTTATATATACAAATTATATAAAATTATTTAATAAAA
1 TATATAGTTTATATATATATATACATGGTTTATACATACAAATTATATAAAA-TATTTAAT---A
*
962497 TTAATAAAATTATTTAAATATAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
62 TTAATAAAATTATTTAAATATAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTAT
* * *
962562 GTCACATTGCATATTATATGGTTCATAAATAGAAGTACATGTCATATTAAATTCATTTGCATAAT
127 GTCACATTGCATATTATATGGTTCATAAATAGAACTACATGCCATATTAAATTCATTTACATAAT
962627 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
192 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
962692 AGTAATAATAAAACCAAAAAATAAGTCCATTTGCAATAGTGCTAGTCCATTTACATTAGTTTACA
257 AGTAATAATAAAACCAAAAAATAAGTCCATTTGCAATAGTGCTAGTCCATTTACATTAATTTACA
*
962757 TAGGCCCAATACATAAGCACACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
322 TAGGCCCAATACATAAGCACACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAC
*
962822 ATTAGGGTTTATGATTTAGGGTTTAATATTTATGATTTAAAGTTTAGGGTTTATGATTTAGTGTT
387 ATTAGGGTTTAGGATTTAGGGTTTAATATTTATGATTTAAAGTTTAGGGTTTATGATTTAGTGTT
962887 TCTATAAACTATATAAGTAATTTCCTTTATATAGTTTATATATATAGGTTATA
452 TCTATAAACTATATAAGTAATTTCCTTTATATAGTTTATATATATAGGTTATA
* *
962940 TATATAGTTTATATATA-CTATACATGGTTTATACATACATATTATAT-AAA-A-TT-AT-TTAA
1 TATATAGTTTATATATATATATACATGGTTTATACATACAAATTATATAAAATATTTAATATTAA
*
962999 TAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCA
66 TAAAATTATTTAAATATAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCA
* *
963064 CATTGCATATTATATGGTTCATAAATAGTACTACATGCCATATTAATTTCATTTACATAATTAGT
131 CATTGCATATTATATGGTTCATAAATAGAACTACATGCCATATTAAATTCATTTACATAATTAGT
*
963129 ATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCTCATTTATTTTGTTGTTATGAATAAGTA
196 ATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTA
* *
963194 ATAATAAAATCAAAAAATAAGTCCATTTGCAATAGTGTTAGTCCATTTACATTAATTTACATAGG
261 ATAATAAAACCAAAAAATAAGTCCATTTGCAATAGTGCTAGTCCATTTACATTAATTTACATAGG
*
963259 CCCAATACATAAGCTCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTA
326 CCCAATACATAAGCACACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTA
* *
963324 TGGTTTAGGGTTTAGGGTTTA
391 GGGTTTAGGATTTAGGGTTTA
963345 GGGTTCAGGG
Statistics
Matches: 386, Mismatches: 19, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
498 334 0.87
502 2 0.01
503 2 0.01
504 1 0.00
506 3 0.01
507 27 0.07
508 17 0.04
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (504 bp):
TATATAGTTTATATATATATATACATGGTTTATACATACAAATTATATAAAATATTTAATATTAA
TAAAATTATTTAAATATAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCA
CATTGCATATTATATGGTTCATAAATAGAACTACATGCCATATTAAATTCATTTACATAATTAGT
ATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTA
ATAATAAAACCAAAAAATAAGTCCATTTGCAATAGTGCTAGTCCATTTACATTAATTTACATAGG
CCCAATACATAAGCACACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTA
GGGTTTAGGATTTAGGGTTTAATATTTATGATTTAAAGTTTAGGGTTTATGATTTAGTGTTTCTA
TAAACTATATAAGTAATTTCCTTTATATAGTTTATATATATAGGTTATA
Found at i:963337 original size:7 final size:7
Alignment explanation
Indices: 963325--963399 Score: 78
Period size: 7 Copynumber: 10.7 Consensus size: 7
963315 TTTACATTAT
963325 GGTTTAG
1 GGTTTAG
963332 GGTTTAG
1 GGTTTAG
963339 GGTTTAG
1 GGTTTAG
*
963346 GGTTCAG
1 GGTTTAG
*
963353 GGTTTAT
1 GGTTTAG
* *
963360 GGCTTAT
1 GGTTTAG
* *
963367 GGCTTAA
1 GGTTTAG
*
963374 AGTTTAG
1 GGTTTAG
963381 GGTTTAG
1 GGTTTAG
963388 GGTTTAG
1 GGTTTAG
*
963395 AGTTT
1 GGTTT
963400 CTATAAACTA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.17, C:0.04, G:0.36, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:963494 original size:23 final size:19
Alignment explanation
Indices: 963444--963483 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
963434 TATGCATAGT
963444 GTTTCTTTAAATTATATAA
1 GTTTCTTTAAATTATATAA
963463 GTTTCTTTAAATTATATAA
1 GTTTCTTTAAATTATATAA
963482 GT
1 GT
963484 AATTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (19 bp):
GTTTCTTTAAATTATATAA
Found at i:963513 original size:15 final size:15
Alignment explanation
Indices: 963506--963548 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
963496 ATAGTTTACA
963506 TATATATATATAGGT
1 TATATATATATAGGT
*
963521 TATATATATATAGTT
1 TATATATATATAGGT
963536 TATATATACTATA
1 TATATATA-TATA
963549 CATGGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (15 bp):
TATATATATATAGGT
Found at i:963543 original size:19 final size:19
Alignment explanation
Indices: 963493--963532 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
963483 TAATTTACTT
*
963493 TATATAGTTTACATATATA
1 TATATAGGTTACATATATA
*
963512 TATATAGGTTATATATATA
1 TATATAGGTTACATATATA
963531 TA
1 TA
963533 GTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (19 bp):
TATATAGGTTACATATATA
Found at i:964053 original size:19 final size:20
Alignment explanation
Indices: 964029--964069 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
964019 TAATTTATTT
964029 TATATAATTTATATATA-TA
1 TATATAATTTATATATACTA
*
964048 TATATAGTTTATATATACTA
1 TATATAATTTATATATACTA
964068 TA
1 TA
964070 CATGGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATAATTTATATATACTA
Found at i:964077 original size:20 final size:19
Alignment explanation
Indices: 964036--964080 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
964026 TTTTATATAA
*
964036 TTTATATATATATATATAG
1 TTTATATATATATACATAG
*
964055 TTTATATATACTATACATGG
1 TTTATATATA-TATACATAG
964075 TTTATA
1 TTTATA
964081 CATGCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTATATATATATACATAG
Found at i:964316 original size:23 final size:21
Alignment explanation
Indices: 964299--964351 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
964289 AATATAATTT
964299 ATAATTTATAAACTATATATTTT
1 ATAATTTAT--ACTATATATTTT
964322 ATATAGTTTATACTATATATTTT
1 ATA-A-TTTATACTATATATTTT
*
964345 AAAATTT
1 ATAATTT
964352 TATTTGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.11
22 1 0.04
23 17 0.63
24 1 0.04
25 5 0.19
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATTTATACTATATATTTT
Found at i:964756 original size:64 final size:65
Alignment explanation
Indices: 964675--964795 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 65
964665 GACATCGATT
964675 CGAACTGAATATGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACC
1 CGAACTGAATATGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACC
* * * *
964740 CGAACTG-ATTTGACCTGACCTGAACTCGATCTGGATCTGGTTTCAAATCAACCTGA
1 CGAACTGAATATGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGA
964796 GTTGACTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
64 45 0.87
65 7 0.13
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (65 bp):
CGAACTGAATATGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAATCAACCTGAAAATAACC
Found at i:969360 original size:60 final size:59
Alignment explanation
Indices: 969277--969408 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 59
969267 CACATGTCCT
* * * * *
969277 CAAAGTATGATCATTATTTTAAATTGGT-CTCTATAC-TTTTAAATATTCCAATTTCATCCC
1 CAAACTATGA-CATTATTCTAAATTGATCCTC-AAACTTTTTAAACATTCCAATTTCAT-CC
* *
969337 CAAACTATGACATTCATTCTAAATTGATCCTCAAACTTTTTAAACATTCCAATTTTATCT
1 CAAACTATGACATT-ATTCTAAATTGATCCTCAAACTTTTTAAACATTCCAATTTCATCC
969397 CAAACTAT-ACAT
1 CAAACTATGACAT
969409 ATATACTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 8 0.13
60 32 0.52
61 22 0.35
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
CAAACTATGACATTATTCTAAATTGATCCTCAAACTTTTTAAACATTCCAATTTCATCC
Found at i:987508 original size:126 final size:127
Alignment explanation
Indices: 987171--987785 Score: 1000
Period size: 127 Copynumber: 4.9 Consensus size: 127
987161 TGTGTTCCTA
* *
987171 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
*
987236 CCCCGGGAACTATTCATTTCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
*
987298 GGGGTGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* * * *
987363 CCCCGGGAACTATTCATATCAATATCTATTATTTCTTAGGGAACCGTGAAAGCGCGTTCTCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
*
987425 GGGG-GAGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* *
987489 CCCCAGGAACTATTTATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
*
987551 GGGGTGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* * * *
987616 CCTCGGGAACTATTCATGTCAATATCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
* * * *
987678 GGGGGGCGCCTTCCATT-TTTTGTCAAAGAATATGATATCATTGCTCTATTATGTCACTTATGTC
1 GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGT-
* * *
987742 CCCCCAGGAACTATTCATGTCAATACCTATTATTACTTAGGGGA
65 CCCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGA
987786 ATTTAAAGCG
Statistics
Matches: 453, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
126 161 0.36
127 292 0.64
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (127 bp):
GGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
CCCCGGGAACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCG
Found at i:987626 original size:253 final size:254
Alignment explanation
Indices: 987178--987785 Score: 1033
Period size: 253 Copynumber: 2.4 Consensus size: 254
987168 CTAGGGGCGC
* *
987178 GCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTCACTTATGTCCCCCGGG
1 GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCAGG
*
987243 AACTATTCATTTCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGTGCGCC
66 AACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGTGCGCC
987308 TTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCGGGAAC
131 TTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCGGGAAC
* *
987373 TATTCATATCAATATCTATTATTTCTTAGGGAACCGTGAAAGCGCGTTCTC-GGGGGGA
196 TATTCATATCAATATCTATTATTCCTTAGGGAACCGTGAAAGCGCGTTCCCGGGGGGGA
987431 GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCAGG
1 GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCAGG
*
987496 AACTATTTATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGTGCGCC
66 AACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGTGCGCC
*
987561 TT-TCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCTCGGGAA
131 TTCT-ATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCGGGAA
* * * *
987625 CTATTCATGTCAATATCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGGGC
195 CTATTCATATCAATATCTATTATTCCTTAGGGAACCGTGAAAGCGCGTTCCCGGGGGGGA
* * *
987685 GCCTTCCATT-TTTTGTCAAAGAATATGATATCATTGCTCTATTATGTCACTTATGTCCCCCCAG
1 GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGT-CCCCCAG
* *
987749 GAACTATTCATGTCAATACCTATTATTACTTAGGGGA
65 GAACTATTCATATCAATACCTATTATTTCTTAGGGGA
987786 ATTTAAAGCG
Statistics
Matches: 335, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
252 1 0.00
253 277 0.83
254 57 0.17
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (254 bp):
GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCAGG
AACTATTCATATCAATACCTATTATTTCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGTGCGCC
TTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCCCGGGAAC
TATTCATATCAATATCTATTATTCCTTAGGGAACCGTGAAAGCGCGTTCCCGGGGGGGA
Found at i:988841 original size:21 final size:21
Alignment explanation
Indices: 988789--988841 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
988779 TATGGTATAA
* * *
988789 AACCCTACGGGCTAGGCATGT
1 AACCCTACGGACTAGGAATAT
*
988810 AA-CCTGGCGGACTAGGAATAT
1 AACCCT-ACGGACTAGGAATAT
988831 AACCCTACGGA
1 AACCCTACGGA
988842 GATGGCATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (21 bp):
AACCCTACGGACTAGGAATAT
Found at i:989686 original size:14 final size:14
Alignment explanation
Indices: 989667--989696 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
989657 AAATATCACC
*
989667 ATATTTAATTAAAA
1 ATATTTAAATAAAA
989681 ATATTTAAATAAAA
1 ATATTTAAATAAAA
989695 AT
1 AT
989697 TTAGTTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATTTAAATAAAA
Found at i:990489 original size:17 final size:16
Alignment explanation
Indices: 990444--990489 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
990434 GTATTATAAA
*
990444 AAATTAAAATTAATAT
1 AAATTAAAATAAATAT
*
990460 AAATTAATAATAAATTT
1 AAATTAA-AATAAATAT
990477 AAATTAAACATAA
1 AAATTAAA-ATAA
990490 TAATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTAAAATAAATAT
Found at i:990496 original size:17 final size:16
Alignment explanation
Indices: 990439--990497 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
990429 AATATGTATT
*
990439 ATAAAAAATTAAAATTA
1 ATAATAAATTAAAA-TA
990456 AT-ATAAATTAATAATA
1 ATAATAAATTAA-AATA
*
990472 A-ATTTAAATTAAACATA
1 ATA-ATAAATTAAA-ATA
990489 ATAATAAAT
1 ATAATAAAT
990498 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 12 0.35
17 21 0.62
18 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAAATTAAAATA
Found at i:990707 original size:14 final size:14
Alignment explanation
Indices: 990625--990709 Score: 54
Period size: 14 Copynumber: 6.3 Consensus size: 14
990615 AGCACAAAAA
990625 ATAATTA-ATTAAT
1 ATAATTATATTAAT
* *
990638 A-AATTTAAATAAAT
1 ATAA-TTATATTAAT
990652 AATAATTATA-TAA-
1 -ATAATTATATTAAT
*
990665 AT-ATTATTTTAAT
1 ATAATTATATTAAT
* ** *
990678 AAAAAAATATTTAT
1 ATAATTATATTAAT
990692 ATAATTATATTAAT
1 ATAATTATATTAAT
990706 ATAA
1 ATAA
990710 AATATAATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 13
0.67 0.17 0.17
Matches are distributed among these distances:
11 5 0.10
12 7 0.13
13 5 0.10
14 28 0.54
15 5 0.10
16 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATTATATTAAT
Found at i:990722 original size:24 final size:22
Alignment explanation
Indices: 990677--990736 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
990667 ATTATTTTAA
990677 TAAAAAAATATTTATATAATTATAT
1 TAAAAAAATA--TA-ATAATTATAT
*
990702 TAATATAAAATATAATAATTATTT
1 TAA-A-AAAATATAATAATTATAT
990726 TAAAAAAATAT
1 TAAAAAAATAT
990737 TAACTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 7 0.22
23 1 0.03
24 12 0.38
25 5 0.16
26 1 0.03
27 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAAAAATATAATAATTATAT
Found at i:991905 original size:20 final size:21
Alignment explanation
Indices: 991880--991972 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
991870 TTTTCCCAAT
*
991880 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
991900 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
991921 TCGCAATGCGAA-AAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
991941 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
991962 TCGCAATGCGA
1 TCGCAATGCGA
991973 TACTTACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:991925 original size:41 final size:41
Alignment explanation
Indices: 991880--991972 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
991870 TTTTCCCAAT
*
991880 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAAAAAGTAAATCGCAACGCGAATTGGGAAAA
991921 TCGCAATGCGAAAAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAAAAAGTAAATCGCAACGCGAATTGGGAAAA
991962 TCGCAATGCGA
1 TCGCAATGCGA
991973 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (41 bp):
TCGCAATGCGAAAAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:991985 original size:41 final size:41
Alignment explanation
Indices: 991899--992033 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
991889 GAATAAGTAA
* ** *
991899 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAAAAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
991940 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
991981 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
992022 TTCGCAACGCGA
1 ATCGCAACGCGA
992034 TACTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:991986 original size:20 final size:20
Alignment explanation
Indices: 991961--992055 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
991951 AATTGGGAAA
*
991961 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
991981 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
992002 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
992022 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
992042 TTCGCAACGCGATA
1 ATCGCAACGCGATA
992056 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:992271 original size:22 final size:22
Alignment explanation
Indices: 992243--992286 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
992233 CACTCTCTCA
992243 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
992265 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
992287 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:995752 original size:33 final size:33
Alignment explanation
Indices: 995695--995793 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
995685 ACGAGATAAT
*
995695 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
995729 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* * **
995762 AACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
995794 GCGAAATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:995787 original size:19 final size:19
Alignment explanation
Indices: 995670--995873 Score: 196
Period size: 19 Copynumber: 11.1 Consensus size: 19
995660 TCTTTTGGTT
*
995670 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
995689 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
995709 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
995727 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
995743 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
995761 --AA--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
995776 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
995796 GAAAT-AAAATTCGCAACGT
1 GAAATGAAAA-TCGCAACGC
995815 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
995834 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
995853 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
995872 GA
1 GA
995874 TTTTGGTTTC
Statistics
Matches: 155, Mismatches: 15, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
14 18 0.12
15 2 0.01
16 4 0.03
17 3 0.02
18 3 0.02
19 78 0.50
20 45 0.29
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:996541 original size:20 final size:20
Alignment explanation
Indices: 996448--996541 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
996438 CGCTATGTAA
* *
996448 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
996468 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
996488 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
996509 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
996529 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
996542 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:996559 original size:21 final size:21
Alignment explanation
Indices: 996530--996622 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 21
996520 ATAGTAAGTA
996530 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
996551 TCGCTTTGCGA-CTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
996571 TCACATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
996592 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
996612 TCGCATTGCGA
1 TCGCATTGCGA
996623 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
20 30 0.56
21 24 0.44
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:996560 original size:41 final size:41
Alignment explanation
Indices: 996469--996603 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
996459 AAAGTCAGTA
* * * ** *
996469 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* *
996509 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* **
996551 TCGCTTTGCGACT--TACTTATTCACATTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TAGTAAGTA-TCACATTGCGATTTTCCCAAT
996592 TCGCGTTGCGAT
1 TCGCGTTGCGAT
996604 TTACTTATTC
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.06
41 71 0.90
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:996608 original size:41 final size:41
Alignment explanation
Indices: 996533--996622 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
996523 GTAAGTATCG
*
996533 CATTGCGATTTTCCCAATTCGCTTTGCGACTTACTTATTCA
1 CATTGCGATTTTCCCAATTCGCGTTGCGACTTACTTATTCA
* *
996574 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGACTTACTTATTCA
996615 CATTGCGA
1 CATTGCGA
996623 ATTGGGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGACTTACTTATTCA
Found at i:998029 original size:36 final size:36
Alignment explanation
Indices: 997989--998074 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
997979 AAAAGGCTCA
* *
997989 TTCGTTCATTTATGTTCGTGAACATTCGGTAATCTG
1 TTCGTTCATTTATGTTCGTGAACATTCGGCAATATG
* *
998025 TTCGTTCGTTTATGTTCGTGAACGTTCGGCAATATG
1 TTCGTTCATTTATGTTCGTGAACATTCGGCAATATG
998061 TTCGTTCATTTATG
1 TTCGTTCATTTATG
998075 CTTGTTCGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.45
Consensus pattern (36 bp):
TTCGTTCATTTATGTTCGTGAACATTCGGCAATATG
Found at i:998163 original size:17 final size:17
Alignment explanation
Indices: 998141--998182 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
998131 AAATTTTAGC
998141 TTTAAACCT-AATAATAT
1 TTTAAACCTCAATAA-AT
* *
998158 TTTAAAACTCAATTAAT
1 TTTAAACCTCAATAAAT
998175 TTTAAACC
1 TTTAAACC
998183 CAAAAGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAACCTCAATAAAT
Found at i:1002708 original size:12 final size:12
Alignment explanation
Indices: 1002680--1002720 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1002670 AAATTTAATT
*
1002680 TTATTTATTTTTG
1 TTATTTA-TTATG
1002693 TTATTTATTATG
1 TTATTTATTATG
1002705 TTATTTATTAT-
1 TTATTTATTATG
1002716 TTATT
1 TTATT
1002721 GTTATCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 15 0.56
13 7 0.26
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (12 bp):
TTATTTATTATG
Found at i:1002735 original size:23 final size:25
Alignment explanation
Indices: 1002709--1002769 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
1002699 ATTATGTTAT
1002709 TTATTATTTATTGTTATCAA-TA-A
1 TTATTATTTATTGTTATCAATTAGA
* * *
1002732 TTATTATTAACTGTTATTAATTAGTA
1 TTATTATTTATTGTTATCAATTAG-A
1002758 TTATTATTTATT
1 TTATTATTTATT
1002770 TATATTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 17 0.57
24 2 0.07
26 11 0.37
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (25 bp):
TTATTATTTATTGTTATCAATTAGA
Found at i:1003193 original size:20 final size:22
Alignment explanation
Indices: 1003170--1003211 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
1003160 ATCACCCGCA
1003170 TCATCCATCCAT-TA-ATATAT
1 TCATCCATCCATATATATATAT
1003190 TCATCCATCCATATATATATAT
1 TCATCCATCCATATATATATAT
1003212 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATCCATCCATATATATATAT
Found at i:1003205 original size:2 final size:2
Alignment explanation
Indices: 1003200--1003255 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
1003190 TCATCCATCC
1003200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1003241 AT AT -T AT AT GT AT AT
1 AT AT AT AT AT AT AT AT
1003256 CCGTATTCAG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1003434 original size:167 final size:167
Alignment explanation
Indices: 1003245--1003578 Score: 668
Period size: 167 Copynumber: 2.0 Consensus size: 167
1003235 TATATTATAT
1003245 TATATGTATATCCGTATTCAGTAGCCAACATCCGTTTGATGGATTTCTCCATTTCACCCACTTTG
1 TATATGTATATCCGTATTCAGTAGCCAACATCCGTTTGATGGATTTCTCCATTTCACCCACTTTG
1003310 GTTCCCTGGTGATGGAGGAATATTCCAATTCCTTAGCTTTTTTAATATCATTTGCTAGAGTATAT
66 GTTCCCTGGTGATGGAGGAATATTCCAATTCCTTAGCTTTTTTAATATCATTTGCTAGAGTATAT
1003375 AAACTGTGTTTCATTTTATTTTTGTTTGAATTTGATG
131 AAACTGTGTTTCATTTTATTTTTGTTTGAATTTGATG
1003412 TATATGTATATCCGTATTCAGTAGCCAACATCCGTTTGATGGATTTCTCCATTTCACCCACTTTG
1 TATATGTATATCCGTATTCAGTAGCCAACATCCGTTTGATGGATTTCTCCATTTCACCCACTTTG
1003477 GTTCCCTGGTGATGGAGGAATATTCCAATTCCTTAGCTTTTTTAATATCATTTGCTAGAGTATAT
66 GTTCCCTGGTGATGGAGGAATATTCCAATTCCTTAGCTTTTTTAATATCATTTGCTAGAGTATAT
1003542 AAACTGTGTTTCATTTTATTTTTGTTTGAATTTGATG
131 AAACTGTGTTTCATTTTATTTTTGTTTGAATTTGATG
1003579 AAAATTTATT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 167 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (167 bp):
TATATGTATATCCGTATTCAGTAGCCAACATCCGTTTGATGGATTTCTCCATTTCACCCACTTTG
GTTCCCTGGTGATGGAGGAATATTCCAATTCCTTAGCTTTTTTAATATCATTTGCTAGAGTATAT
AAACTGTGTTTCATTTTATTTTTGTTTGAATTTGATG
Found at i:1005394 original size:114 final size:114
Alignment explanation
Indices: 1005192--1005908 Score: 1088
Period size: 114 Copynumber: 6.3 Consensus size: 114
1005182 AACTTTCAAC
* * *
1005192 AAAGTATCGATATATTTTTATAAAAAAGATCGATACTTTCAACGTATTAGGTAGCTCTTTACCGG
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
*
1005257 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
* *
1005306 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCAG
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
* *
1005371 TTTTGTCATAATGAAACTAGTTTTATCATATTTTTACTTGTTATATTGT
66 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
** * * *
1005420 AAAGTATCGATATATTTTTATAAAAATAATCGATATTTTCAACATATCAAGTAGCTCTTTACCGA
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
1005485 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
1005534 AAAGTATCGCTATATTTTTATAAAAAGGATCGATACTTTCAACATATCGGGTAGCTCTTTATCGG
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
*
1005599 TTTTGTCATAATGAAACTGAG-TTTATCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACT-AGTTTTGTCATATTTTTACCTGTTATATTGT
* * * * *
1005648 AAAGTATCGATACA----TATAAAAAGGATCGATACTTTCAATATATTATGTAGCTCTTTATCGG
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
* *
1005709 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
66 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
* *
1005758 AAAGTATCGATATATTTTTATAAAAATGATCGATACTTTCAACATATTAGGTAGCTCTTTACCGG
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
* * *
1005823 TTTTGTTATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
1005872 AAAGGATCGATACATTTTTAT--AAAGTATCGATACTTT
1 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTT
1005909 ATAGGCGTTA
Statistics
Matches: 550, Mismatches: 47, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
109 1 0.00
110 100 0.18
112 14 0.03
114 433 0.79
115 2 0.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (114 bp):
AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
TTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:1006100 original size:74 final size:74
Alignment explanation
Indices: 1005989--1006233 Score: 388
Period size: 74 Copynumber: 3.4 Consensus size: 74
1005979 TCAACATATC
* *
1005989 CGGTAGGTAGTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT
1 CGGTAGGTATTTTAATGTAATAGGTAACGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT
1006054 CAAAAAAAT
66 CAAAAAAAT
* * *
1006063 TGGTAGGTATTTTAATGTAATAGGTAAC-ACTA-TTTTTTTACCGTTTACATTATTAGCAACCTT
1 CGGTAGGTATTTTAATGTAATAGGTAACGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT
1006126 CAAAAAAAT
66 CAAAAAAAT
* * * *
1006135 CGGTAGGTATTTTAATGTAATAGGTAACGCCTATTTATTTTACCGTTTACATTATTAACTACTTT
1 CGGTAGGTATTTTAATGTAATAGGTAACGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT
1006200 CAAAAAAAT
66 CAAAAAAAT
1006209 CGGTAGGTA-TTTAATGTAATAGGTA
1 CGGTAGGTATTTTAATGTAATAGGTA
1006234 GTTTAAATTT
Statistics
Matches: 158, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
72 66 0.42
73 22 0.14
74 70 0.44
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (74 bp):
CGGTAGGTATTTTAATGTAATAGGTAACGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT
CAAAAAAAT
Found at i:1006461 original size:135 final size:135
Alignment explanation
Indices: 1006295--1006610 Score: 503
Period size: 135 Copynumber: 2.3 Consensus size: 135
1006285 ACAAATTAAG
* *
1006295 TAAGTAATT-ACCTATTTTGTTATATAAGCGCTACCTAATATGTTATTATGCTT-GATAATGTTT
1 TAAGTAATTAACATATTTTATTATATAAGCGCTACCTAATATGTTATTATG-TTCGATAATGTTT
* *
1006358 -CTAGTAATTAACTGGTTATGTTATCATTGGTAACATTTTAATCGTTTACCTAATATGTTGTAAT
65 AC-AGTAATTAACCGGTTATGTTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAAT
1006422 AACAAAT
129 AACAAAT
* *
1006429 TAAGTAATTAACATATTTTATTGTATAAGCGCTACCTAATATGTTATTGTGTTCGATAATGTTTA
1 TAAGTAATTAACATATTTTATTATATAAGCGCTACCTAATATGTTATTATGTTCGATAATGTTTA
*
1006494 CAGTAATTAACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAA
66 CAGTAATTAACCGGTTATGTTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAA
1006559 CAAAT
131 CAAAT
* * *
1006564 TAAGTAATTAACATATTTTATAATATAAGCGCTACCTATTACGTTAT
1 TAAGTAATTAACATATTTTATTATATAAGCGCTACCTAATATGTTAT
1006611 ATAAGCGCTA
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
134 11 0.07
135 156 0.93
136 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (135 bp):
TAAGTAATTAACATATTTTATTATATAAGCGCTACCTAATATGTTATTATGTTCGATAATGTTTA
CAGTAATTAACCGGTTATGTTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAA
CAAAT
Found at i:1006632 original size:23 final size:23
Alignment explanation
Indices: 1006586--1006633 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1006576 ATATTTTATA
*
1006586 ATATAAGCGCTACCTATTACGTT
1 ATATAAGCGCTACCTAATACGTT
*
1006609 ATATAAGCGCTACCTAATATGTT
1 ATATAAGCGCTACCTAATACGTT
1006632 AT
1 AT
1006634 TGTGTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACGTT
Found at i:1006664 original size:158 final size:158
Alignment explanation
Indices: 1006452--1007136 Score: 1151
Period size: 158 Copynumber: 4.3 Consensus size: 158
1006442 TATTTTATTG
* *
1006452 TATAAGCGCTACCTAATATGTTATTGTGTTCGATAATGTTTACAGTAATTAACCGGTTATGTTAT
1 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCGGTTATGTTAT
*
1006517 CCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATATTT
66 CCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATATTT
*
1006582 TATAATATAAGCGCTACCTATTACGTTA
131 TATTATATAAGCGCTACCTATTACGTTA
*
1006610 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCGGTTACGTTAT
1 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCGGTTATGTTAT
*
1006675 CCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATATTT
66 CCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATATTT
1006740 TATTATATAAGCGCTACCTATTACGTTA
131 TATTATATAAGCGCTACCTATTACGTTA
* * * *
1006768 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTTAGTAAATAATCAGTTATGTTAT
1 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCGGTTATGTTAT
* *
1006833 CCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAATATATTT
66 CCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATATTT
1006898 TATTATATAAGCGCTACCTATTACGTTA
131 TATTATATAAGCGCTACCTATTACGTTA
* * * *
1006926 TATAAGCGCTACCTAATATGTTATTGTGCTTAATAATG-TTTCTAGTAAATAACCGATTATGTTA
1 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTC-AGTAATTAACCGGTTATGTTA
*
1006990 TCCTTGGTAACATTTT-AGACGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATAT
65 TCCTTGGTAACATTTTAAG-CGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATAT
*
1007054 TTTATTATATAAACGCTACCTATTACGTTA
129 TTTATTATATAAGCGCTACCTATTACGTTA
*
1007084 TATAAGCGCTACCTAATATGTTATTGTGCTTGATAATG-TTTCTAGTAATTAAC
1 TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTC-AGTAATTAAC
1007137 ATATTTTATT
Statistics
Matches: 501, Mismatches: 24, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
157 4 0.01
158 497 0.99
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (158 bp):
TATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCGGTTATGTTAT
CCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATATTT
TATTATATAAGCGCTACCTATTACGTTA
Found at i:1006769 original size:21 final size:23
Alignment explanation
Indices: 1006742--1006791 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1006732 ACATATTTTA
*
1006742 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
1006765 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
1006788 TTAT
1 TTAT
1006792 TGTGTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:1006927 original size:21 final size:23
Alignment explanation
Indices: 1006900--1006949 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1006890 ATATATTTTA
*
1006900 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
1006923 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
1006946 TTAT
1 TTAT
1006950 TGTGCTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:1007106 original size:23 final size:23
Alignment explanation
Indices: 1007058--1007107 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1007048 ACATATTTTA
*
1007058 TTATATAAACGCTACCTATTACG
1 TTATATAAACGCTACCTAATACG
* *
1007081 TTATATAAGCGCTACCTAATATG
1 TTATATAAACGCTACCTAATACG
1007104 TTAT
1 TTAT
1007108 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (23 bp):
TTATATAAACGCTACCTAATACG
Found at i:1007194 original size:23 final size:23
Alignment explanation
Indices: 1007144--1007188 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1007134 AACATATTTT
*
1007144 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
1007167 ATTATATAAGTGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1007189 TGTTATTATA
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:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1007205 original size:87 final size:87
Alignment explanation
Indices: 1007040--1007212 Score: 267
Period size: 87 Copynumber: 2.0 Consensus size: 87
1007030 TAACAAATTA
*
1007040 AGTAATTAACATATTTTATTATATAAACGCTACCTATTACGTTATATAAGCGCTACCTAATATGT
1 AGTAATTAACATATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGT
* * *
1007105 TATTGTGCTTGATAATGTTTCT
66 TATTATGATTGATAATATTTCT
* * *
1007127 AGTAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGTTACCTAATATGT
1 AGTAATTAACATATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGT
1007192 TATTAT-ATGTGATAATATTTC
66 TATTATGAT-TGATAATATTTC
1007213 AGATTAAATG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 77 0.99
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (87 bp):
AGTAATTAACATATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGT
TATTATGATTGATAATATTTCT
Found at i:1010353 original size:10 final size:10
Alignment explanation
Indices: 1010325--1010354 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1010315 TTTTGCGAGG
*
1010325 TTACTATTAA
1 TTACTATTCA
1010335 TTACTATTCA
1 TTACTATTCA
1010345 TTACTATTCA
1 TTACTATTCA
1010355 CATAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (10 bp):
TTACTATTCA
Found at i:1016857 original size:53 final size:53
Alignment explanation
Indices: 1016791--1017067 Score: 419
Period size: 53 Copynumber: 5.2 Consensus size: 53
1016781 GAACTCGAAT
* *
1016791 AATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
* * *
1016844 AATCTTCTTCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
* *
1016899 AATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
*
1016952 AATCTTCATCAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
* * *
1017005 AATCTTCATCAATAGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAGC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-CCA-C
1017060 AATCTTCA
1 AATCTTCA
1017068 ACAAATGGGT
Statistics
Matches: 203, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
53 143 0.70
54 4 0.02
55 56 0.28
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (53 bp):
AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
Found at i:1016917 original size:108 final size:108
Alignment explanation
Indices: 1016783--1017067 Score: 439
Period size: 108 Copynumber: 2.6 Consensus size: 108
1016773 GGAGTATGGA
* *
1016783 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
*
1016848 TTCTTCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
1016891 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
* *
1016956 TTCATCAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
1016999 AC-C-CACAATCTTCATCAATAGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAGCAA
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-CCA-CAA
1017062 TCTTCA
64 TCTTCA
1017068 ACAAATGGGT
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
106 47 0.29
107 3 0.02
108 113 0.69
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (108 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:1017194 original size:51 final size:51
Alignment explanation
Indices: 1017069--1017678 Score: 741
Period size: 51 Copynumber: 11.8 Consensus size: 51
1017059 CAATCTTCAA
* * * * *
1017069 CAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTT
*
1017122 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
* *
1017173 CAAACGGGTTCGTTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
*
1017224 CAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTT
* * *
1017277 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
* * * *
1017326 C-AACTTGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTT
1 CAAAC-GGGTTCGCT-CCTTCTTTCTTTAGGGAGTATAGAACTC--GAA-CATCTT
** * **
1017380 CTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
* *
1017431 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATATT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
* *
1017482 CAAATGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTT
* * * *
1017535 C--ACGGGCTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
* *
1017584 C-AACTGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTC-AGACATCTCTT
1 CAAAC-GGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGA-ACA--TCTT
*
1017637 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTC
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTC
1017679 AAATAATCTT
Statistics
Matches: 494, Mismatches: 45, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
49 10 0.02
50 5 0.01
51 339 0.69
52 5 0.01
53 97 0.20
54 36 0.07
55 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAACATCTT
Found at i:1017415 original size:258 final size:257
Alignment explanation
Indices: 1017073--1017678 Score: 1000
Period size: 258 Copynumber: 2.4 Consensus size: 257
1017063 CTTCAACAAA
* * *
1017073 TGGGTTCACTCCCTATTTC-TCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTC
1 TGGGTTCGCTCCCTTTTTCTTC-AGGGAGTATAGAACTCAAACATCTCTTCAAACGGGTTCGCTC
*
1017137 CTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGTTCCTTCTTTCTTTAAG
65 CTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
1017202 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG
130 GAGTATAGAACTCGAACATATTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG
*
1017267 AACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAC
195 AACATCTCTTCACGGGCTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAC
* * **
1017330 TTGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTC
1 TGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAACATC-TCTTCAAACGGGTTCGCTC
* *
1017395 CTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
65 CTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
1017460 GAGTATAGAACTCGAACATATTCAAATGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG
130 GAGTATAGAACTCGAACATATTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG
1017525 AACATCTCTTCACGGGCTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAC
195 AACATCTCTTCACGGGCTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAC
* * * *
1017588 TGGGTTCGCT-CCTTCTTTCTTTAAGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTC
1 TGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAACATCTCTTCAAACGGGTTCGCTC
* *
1017652 CTTCTTTCTTTAGGGAGTATGGAACTC
65 CTTCTTTCTTTAAGGAGTATAGAACTC
1017679 AAATAATCTT
Statistics
Matches: 321, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
257 81 0.25
258 240 0.75
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (257 bp):
TGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAACATCTCTTCAAACGGGTTCGCTCC
TTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGG
AGTATAGAACTCGAACATATTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGA
ACATCTCTTCACGGGCTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAC
Found at i:1018132 original size:36 final size:36
Alignment explanation
Indices: 1018060--1018257 Score: 238
Period size: 36 Copynumber: 5.5 Consensus size: 36
1018050 ACTCTTCTGA
* * *
1018060 GAAGGCTTAAAATGGATCTGCTTCACTACTT-T-TGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * * *
1018096 GAAGACTTAAGATGCTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
1018132 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
1018168 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
1018204 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
1018240 GAAGGCTTAGGATGGTTT
1 GAAGGCTTAAGATGGTTT
1018258 TTCTCCAATC
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
34 1 0.01
35 12 0.08
36 129 0.91
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:1030806 original size:49 final size:50
Alignment explanation
Indices: 1030699--1030809 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 50
1030689 GATTCAAACT
*
1030699 AAACTTTT-GATTCTTCTTCGGTCTTCAAGTCCATGGCTATGCATGACTC
1 AAACTTTTGGATTCTTCTTCGGTCTTCAAGTCCAGGGCTATGCATGACTC
* * *
1030748 AAACTTTTGGTATTCTTCTTC-G-C-TCAAAGTCCAGGGCTTTGCGTGATTC
1 AAACTTTTGG-ATTCTTCTTCGGTCTTC-AAGTCCAGGGCTATGCATGACTC
1030797 AAACTTTTGGATT
1 AAACTTTTGGATT
1030810 TTATTGTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 5 0.09
49 38 0.69
50 2 0.04
51 10 0.18
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (50 bp):
AAACTTTTGGATTCTTCTTCGGTCTTCAAGTCCAGGGCTATGCATGACTC
Found at i:1032142 original size:16 final size:16
Alignment explanation
Indices: 1032121--1032156 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1032111 TTATTACTTT
1032121 AAATTTGAA-TCTACAA
1 AAATTT-AAGTCTACAA
1032137 AAATTTAAGTCTACAA
1 AAATTTAAGTCTACAA
1032153 AAAT
1 AAAT
1032157 AATGTCAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (16 bp):
AAATTTAAGTCTACAA
Found at i:1034300 original size:28 final size:30
Alignment explanation
Indices: 1034249--1034304 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
1034239 TGAAAATAAA
1034249 AATATTCAAATATTTTCAATAAAATATTAG
1 AATATTCAAATATTTTCAATAAAATATTAG
* *
1034279 AATATT-AAATTTTTTTAA-AAAATATT
1 AATATTCAAATATTTTCAATAAAATATT
1034305 GACCCGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 10 0.42
30 6 0.25
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (30 bp):
AATATTCAAATATTTTCAATAAAATATTAG
Found at i:1034579 original size:21 final size:20
Alignment explanation
Indices: 1034493--1034650 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1034483 AAATGACCAA
**
1034493 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1034512 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1034532 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1034552 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1034573 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1034594 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1034614 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1034635 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1034651 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1034641 original size:20 final size:20
Alignment explanation
Indices: 1034617--1034864 Score: 250
Period size: 20 Copynumber: 12.5 Consensus size: 20
1034607 CGATTTTCCA
** *
1034617 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
1034637 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
1034657 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
*
1034677 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
1034697 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
1034717 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1034737 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1034757 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1034777 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1034797 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1034817 AAATCGCAACGATAATCC-T
1 AAATCGCAACGCGAATCCGT
* *
1034836 -AATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
1034855 AAATCACAAC
1 AAATCGCAAC
1034865 ACTGAAATTT
Statistics
Matches: 198, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
18 15 0.08
19 2 0.01
20 180 0.91
21 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:1035581 original size:24 final size:24
Alignment explanation
Indices: 1035542--1035588 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1035532 AAATTTGGTC
1035542 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1035566 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1035589 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Done.