Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_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: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:855101 original size:2 final size:2
Alignment explanation
Indices: 855094--855150 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
855084 TTTCGTAAAT
855094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
855136 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
855151 TGTAGATTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:855208 original size:2 final size:2
Alignment explanation
Indices: 855201--855240 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
855191 CTCATAATAC
855201 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
855241 AGCAATCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:857654 original size:28 final size:28
Alignment explanation
Indices: 857614--857681 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
857604 CAGAACAGTT
857614 TAAATATCATAGCTAATCTTTTTTGTAA
1 TAAATATCATAGCTAATCTTTTTTGTAA
857642 TAAATATCATAGCTAATCTTTTTTGTAA
1 TAAATATCATAGCTAATCTTTTTTGTAA
857670 TAAATATCATAG
1 TAAATATCATAG
857682 ATGCTAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.44
Consensus pattern (28 bp):
TAAATATCATAGCTAATCTTTTTTGTAA
Found at i:859532 original size:23 final size:23
Alignment explanation
Indices: 859486--859564 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
859476 CAACTAGTAT
* * * *
859486 AAATGCACCGAATTGCCACATAG
1 AAATGCACCGAAGTACCGCGTAG
*
859509 AATTGCACAC-AAGTACCGCGTAG
1 AAATGCAC-CGAAGTACCGCGTAG
*
859532 AAATGTACCGAAGTACCGCGTAG
1 AAATGCACCGAAGTACCGCGTAG
859555 AAATGCACCG
1 AAATGCACCG
859565 TAGTGCCATA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTACCGCGTAG
Found at i:862301 original size:31 final size:31
Alignment explanation
Indices: 862263--862338 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
862253 TAAAATTACC
* *
862263 ATTTTGGTCCCTAAACTTTTCCAAAGT-TTAT
1 ATTTTGGTCCCTAAAC-TTTACAAAATCTTAT
862294 ATTTTGGTCACC-AAACTTTACAAAATCTTAT
1 ATTTTGGTC-CCTAAACTTTACAAAATCTTAT
* *
862325 AATTTGGTCACTAA
1 ATTTTGGTCCCTAA
862339 CTAAATCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
30 9 0.24
31 27 0.71
32 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (31 bp):
ATTTTGGTCCCTAAACTTTACAAAATCTTAT
Found at i:864995 original size:23 final size:23
Alignment explanation
Indices: 864969--865029 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
864959 CACCATAGCT
*
864969 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
864992 CGTAGAATTGCACCAAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
865015 CGTAGAAATGCACCG
1 CGTAGAAATGCACCG
865030 TAGTTCCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:866938 original size:30 final size:31
Alignment explanation
Indices: 866881--866949 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
866871 CAATCATTCA
*
866881 TAACTTTTCCAAAATTATCAAATTGGTCCCC
1 TAACTTTTCAAAAATTATCAAATTGGTCCCC
866912 TAACTTTTCAAAAATTA-CATAA-TGGTCCCC
1 TAACTTTTCAAAAATTATCA-AATTGGTCCCC
*
866942 -AAATTTTC
1 TAACTTTTC
866950 TAAGGCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 10 0.29
31 18 0.51
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (31 bp):
TAACTTTTCAAAAATTATCAAATTGGTCCCC
Found at i:870010 original size:25 final size:26
Alignment explanation
Indices: 869973--870080 Score: 125
Period size: 25 Copynumber: 4.3 Consensus size: 26
869963 TATGGTACAG
869973 ATACCAG-TGCTAGAAATAGGTTCTA
1 ATACCAGCTGCTAGAAATAGGTTCTA
869998 ATACCAGCT-CTAGAAATAGGTTCTA
1 ATACCAGCTGCTAGAAATAGGTTCTA
* * *
870023 ATACCAG-TGATGGAAAGAGGTTCTA
1 ATACCAGCTGCTAGAAATAGGTTCTA
* * * *
870048 ATATCAAC-GCTGGAAATAGGTTATA
1 ATACCAGCTGCTAGAAATAGGTTCTA
870073 ATACCAGC
1 ATACCAGC
870081 ACCAAATTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.01
25 68 0.97
26 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (26 bp):
ATACCAGCTGCTAGAAATAGGTTCTA
Found at i:870044 original size:50 final size:50
Alignment explanation
Indices: 869973--870079 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
869963 TATGGTACAG
* * * * *
869973 ATACCAGTGCTAGAAATAGGTTCTAATACCAGCTCTAGAAATAGGTTCTA
1 ATACCAGTGATAGAAAGAGGTTCTAATACCAACGCTAGAAATAGGTTATA
* * *
870023 ATACCAGTGATGGAAAGAGGTTCTAATATCAACGCTGGAAATAGGTTATA
1 ATACCAGTGATAGAAAGAGGTTCTAATACCAACGCTAGAAATAGGTTATA
870073 ATACCAG
1 ATACCAG
870080 CACCAAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (50 bp):
ATACCAGTGATAGAAAGAGGTTCTAATACCAACGCTAGAAATAGGTTATA
Found at i:872422 original size:12 final size:12
Alignment explanation
Indices: 872405--872429 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
872395 TTAGAAATTT
872405 AAGCCTTTAGAA
1 AAGCCTTTAGAA
872417 AAGCCTTTAGAA
1 AAGCCTTTAGAA
872429 A
1 A
872430 CATTTTAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGCCTTTAGAA
Found at i:880056 original size:18 final size:18
Alignment explanation
Indices: 880033--880069 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
880023 ATCAAGGATC
880033 TCTAGGAAGATCAAAACT
1 TCTAGGAAGATCAAAACT
880051 TCTAGGAAGATCAAAACT
1 TCTAGGAAGATCAAAACT
880069 T
1 T
880070 TCTTTAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (18 bp):
TCTAGGAAGATCAAAACT
Found at i:881657 original size:10 final size:10
Alignment explanation
Indices: 881644--881724 Score: 71
Period size: 10 Copynumber: 8.1 Consensus size: 10
881634 CATGTAAATG
881644 ATAAACGAAC
1 ATAAACGAAC
881654 ATAAACGAAC
1 ATAAACGAAC
*
881664 ACAAACGAAC
1 ATAAACGAAC
*
881674 --GAAC-ATA-
1 ATAAACGA-AC
*
881681 ATAAATGAAC
1 ATAAACGAAC
881691 ATAAACGAACAC
1 ATAAACG-A-AC
881703 AATAAACGAAC
1 -ATAAACGAAC
881714 ATAAACGAAC
1 ATAAACGAAC
881724 A
1 A
881725 ACACAAACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 3 0.05
10 37 0.64
11 3 0.05
12 3 0.05
13 7 0.12
ACGTcount: A:0.60, C:0.20, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:881694 original size:37 final size:36
Alignment explanation
Indices: 881644--881717 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 36
881634 CATGTAAATG
881644 ATAAACGAACATAAACGAACACAA-ACGAACGAACATA
1 ATAAACGAACATAAACGAACACAATA--AACGAACATA
*
881681 ATAAATGAACATAAACGAACACAATAAACGAACATA
1 ATAAACGAACATAAACGAACACAATAAACGAACATA
881717 A
1 A
881718 ACGAACAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 11 0.31
37 23 0.66
38 1 0.03
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.11
Consensus pattern (36 bp):
ATAAACGAACATAAACGAACACAATAAACGAACATA
Found at i:881701 original size:23 final size:23
Alignment explanation
Indices: 881671--881724 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
881661 AACACAAACG
* *
881671 AACGAACATAATAAATGAACATA
1 AACGAACACAATAAACGAACATA
881694 AACGAACACAATAAACGAACATA
1 AACGAACACAATAAACGAACATA
881717 AACGAACA
1 AACGAACA
881725 ACACAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.11
Consensus pattern (23 bp):
AACGAACACAATAAACGAACATA
Found at i:881707 original size:13 final size:13
Alignment explanation
Indices: 881654--881714 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
881644 ATAAACGAAC
881654 ATAAACGAACACA
1 ATAAACGAACACA
*
881667 A-ACGAACGAACATA
1 ATA--AACGAACACA
*
881681 ATAAATG-A-AC-
1 ATAAACGAACACA
881691 ATAAACGAACACA
1 ATAAACGAACACA
881704 ATAAACGAACA
1 ATAAACGAACA
881715 TAAACGAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 4 0.11
13 15 0.39
14 10 0.26
15 1 0.03
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:882025 original size:14 final size:14
Alignment explanation
Indices: 882006--882041 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
881996 AATATAAATG
*
882006 AACATAAATGAAGT
1 AACATAAATAAAGT
*
882020 AACATAAATAAATT
1 AACATAAATAAAGT
882034 AACATAAA
1 AACATAAA
882042 CGAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (14 bp):
AACATAAATAAAGT
Found at i:883493 original size:38 final size:37
Alignment explanation
Indices: 883434--883536 Score: 153
Period size: 33 Copynumber: 2.9 Consensus size: 37
883424 TATTTTGTTT
883434 GGGTCGGG-TTTTTTAAGTGTGATATTCGGGTTGAGTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTTG-GTC
*
883471 GGGTCGGGTTTTTTTAAGTGTGATATTC----AGGTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTTGGTC
883504 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTT
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTT
883537 CGGGCTTAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
33 31 0.53
34 1 0.02
37 8 0.14
38 19 0.32
ACGTcount: A:0.14, C:0.08, G:0.36, T:0.43
Consensus pattern (37 bp):
GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTTGGTC
Found at i:884125 original size:17 final size:18
Alignment explanation
Indices: 884103--884149 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
884093 ATATGGAATT
*
884103 AGATTTCAATTCC-TGAC
1 AGATTTCAATTCCTTCAC
884120 AGATTTCAATTCCTTCAC
1 AGATTTCAATTCCTTCAC
*
884138 AGATTCCAATTC
1 AGATTTCAATTC
884150 TCTCATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (18 bp):
AGATTTCAATTCCTTCAC
Found at i:884528 original size:2 final size:2
Alignment explanation
Indices: 884521--884561 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
884511 TTCTAGAACC
884521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
884562 ATTGTCCATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:884680 original size:16 final size:16
Alignment explanation
Indices: 884655--884692 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
884645 TTGGAATGTT
*
884655 TCTGAGGGAATTGGAA
1 TCTGAAGGAATTGGAA
884671 TCTGAAGGAATTGGAA
1 TCTGAAGGAATTGGAA
*
884687 TTTGAA
1 TCTGAA
884693 TCTGAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (16 bp):
TCTGAAGGAATTGGAA
Found at i:885357 original size:28 final size:28
Alignment explanation
Indices: 885287--885498 Score: 185
Period size: 28 Copynumber: 7.2 Consensus size: 28
885277 CCTGACCCCA
885287 ACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGAATATCACACTTAAAAAAACCCG
* *
885315 ACCTGACTCTAATATCACACTTAAAAAAATCCG
1 A-C---C-CGAATATCACACTTAAAAAAACCCG
885348 ACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGAATATCACACTTAAAAAAACCCG
* * *
885376 ACCCGAATATCAAACTTAAAAAAAACACA
1 ACCCGAATATCACACTT-AAAAAAACCCG
** ***
885405 ACCCG-ATCCCGATTTTTTAAAAAAAAAACCCG
1 ACCCGAATATC-A-CACTT---AAAAAAACCCG
* * *
885437 ACCCGAATATCGCACTTTAAAAAACCTG
1 ACCCGAATATCACACTTAAAAAAACCCG
*
885465 ACCCGAATATCAAACTT-AAAAAACCCG
1 ACCCGAATATCACACTTAAAAAAACCCG
885492 ACCCGAA
1 ACCCGAA
885499 CTCGAAATTT
Statistics
Matches: 148, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
27 16 0.11
28 67 0.45
29 17 0.11
30 2 0.01
31 2 0.01
32 17 0.11
33 27 0.18
ACGTcount: A:0.46, C:0.29, G:0.08, T:0.17
Consensus pattern (28 bp):
ACCCGAATATCACACTTAAAAAAACCCG
Found at i:885509 original size:89 final size:89
Alignment explanation
Indices: 885337--885519 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
885327 TATCACACTT
*
885337 AAAAAAATCCGACCCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAAAC
1 AAAAAAACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTT-AAAAAAAC
*
885402 ACAACCCGATCCCGATTTTT-TAAA
65 ACAACCCGAACCCGATTTTTATAAA
* * * *
885426 AAAAAAACCCGACCCGAATATCGCACTTTAAAAAACCTGACCCGAATATCAAACTT-AAAAAACC
1 AAAAAAACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACA
* *
885490 CGACCCGAACTCGAAATTTTTATAAA
66 CAACCCGAACCCG--ATTTTTATAAA
885516 AAAA
1 AAAA
885520 TCTGACCCGA
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
87 17 0.20
89 58 0.70
90 8 0.10
ACGTcount: A:0.48, C:0.26, G:0.08, T:0.18
Consensus pattern (89 bp):
AAAAAAACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACA
CAACCCGAACCCGATTTTTATAAA
Found at i:885547 original size:31 final size:32
Alignment explanation
Indices: 885482--885561 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
885472 TATCAAACTT
* *
885482 AAAAAACCCGACCCGAACTCGAAATTTTTATA
1 AAAAAATCCGACCCGAACCCGAAATTTTTATA
* *
885514 AAAAAATCTGACCCGATCCCGAAATTTTT-TA
1 AAAAAATCCGACCCGAACCCGAAATTTTTATA
885545 AAAAAATCCGACCCGAA
1 AAAAAATCCGACCCGAA
885562 TACCAAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 17 0.40
32 25 0.60
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (32 bp):
AAAAAATCCGACCCGAACCCGAAATTTTTATA
Found at i:886046 original size:21 final size:21
Alignment explanation
Indices: 886020--886072 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
886010 GTTTCCAGAT
886020 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
886041 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
*
886062 TCGCAATGCGA
1 TCGCAACGCGA
886073 TTTACATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTGGACTA
Found at i:886111 original size:21 final size:21
Alignment explanation
Indices: 886081--886299 Score: 193
Period size: 21 Copynumber: 10.6 Consensus size: 21
886071 GATTTACATA
* *
886081 TTCGCATTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCGAAG
886102 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
886123 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCGAAG
886144 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
886163 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
886186 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
886205 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCGAAG
886226 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * * *
886245 TTCACGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
886268 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
886287 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
886300 TTATTCCAAA
Statistics
Matches: 156, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
19 46 0.29
21 94 0.60
23 16 0.10
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:886157 original size:40 final size:40
Alignment explanation
Indices: 886106--886301 Score: 347
Period size: 42 Copynumber: 4.8 Consensus size: 40
886096 TTGAAGTTCG
886106 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
886146 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
886188 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
886228 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
886270 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
886302 ATTCCAAAAT
Statistics
Matches: 150, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
40 67 0.45
41 8 0.05
42 75 0.50
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:886218 original size:82 final size:82
Alignment explanation
Indices: 886106--886301 Score: 383
Period size: 82 Copynumber: 2.4 Consensus size: 82
886096 TTGAAGTTCG
*
886106 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACGTT
886171 GCGATTTATTCCAAATT
66 GCGATTTATTCCAAATT
886188 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACGTT
886253 GCGATTTATTCCAAATT
66 GCGATTTATTCCAAATT
886270 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
886302 ATTCCAAAAT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 113 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (82 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACGTT
GCGATTTATTCCAAATT
Found at i:887101 original size:42 final size:42
Alignment explanation
Indices: 887039--887230 Score: 302
Period size: 42 Copynumber: 4.7 Consensus size: 42
887029 ATTTTGGACT
*
887039 ATCGCAA--CGAATTTGGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
887079 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
887121 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* * *
887163 ATCGCAACGTGAACTTTGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
887203 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
887231 TGCGAATATG
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 35 0.25
41 1 0.01
42 106 0.75
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
Found at i:887236 original size:21 final size:19
Alignment explanation
Indices: 887032--887230 Score: 182
Period size: 21 Copynumber: 9.7 Consensus size: 19
887022 CGTTGCGATT
*
887032 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
887051 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
887070 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
887093 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
887112 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
887135 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* *
887154 TTGAAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAAC--GAAC
* *
887177 TTTGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
**
887196 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
887217 TTGGACTATCGCAA
1 TTGGACTATCGCAA
887231 TGCGAATATG
Statistics
Matches: 147, Mismatches: 19, Indels: 26
0.77 0.10 0.14
Matches are distributed among these distances:
19 58 0.39
21 60 0.41
23 29 0.20
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:887791 original size:23 final size:23
Alignment explanation
Indices: 887759--887802 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
887749 TATAACAAAC
* *
887759 AGTAAGGAATGTTGTGGCAAATA
1 AGTAAAGAATGTTATGGCAAATA
887782 AGTAAAGAATGTTATGGCAAA
1 AGTAAAGAATGTTATGGCAAA
887803 ATAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (23 bp):
AGTAAAGAATGTTATGGCAAATA
Found at i:888744 original size:19 final size:19
Alignment explanation
Indices: 888657--888746 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 19
888647 TAAAAAACAA
* * *
888657 AAACTCTCCAACTACAAAG
1 AAACTCTTCAACTCCTAAG
*
888676 AAACTTTTCAACTCCTAAG
1 AAACTCTTCAACTCCTAAG
* * *
888695 AAACTCTTAAATTCCCAA-
1 AAACTCTTCAACTCCTAAG
*
888713 AAACTC-TCTAACTCTTAAG
1 AAACTCTTC-AACTCCTAAG
888732 AAACTCTTCAACTCC
1 AAACTCTTCAACTCC
888747 CCCTTAATAA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
17 1 0.02
18 12 0.22
19 40 0.73
20 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.27
Consensus pattern (19 bp):
AAACTCTTCAACTCCTAAG
Found at i:893151 original size:26 final size:26
Alignment explanation
Indices: 893118--893177 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
893108 GGATGACGAT
893118 GAGTGGCTAGTGGCTGAAAGACCGAC
1 GAGTGGCTAGTGGCTGAAAGACCGAC
893144 GAGTGGCTAGTGGCTGAAAGACCGAC
1 GAGTGGCTAGTGGCTGAAAGACCGAC
893170 GAGTGGCT
1 GAGTGGCT
893178 TATGTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.18, G:0.40, T:0.17
Consensus pattern (26 bp):
GAGTGGCTAGTGGCTGAAAGACCGAC
Found at i:893589 original size:21 final size:21
Alignment explanation
Indices: 893563--893609 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
893553 TTGACTTGGG
893563 GTTTCAGTCTTATGAGTTTAA
1 GTTTCAGTCTTATGAGTTTAA
*
893584 GTTTCAGTCTTATGATTTTAA
1 GTTTCAGTCTTATGAGTTTAA
893605 GTTTC
1 GTTTC
893610 TTCCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (21 bp):
GTTTCAGTCTTATGAGTTTAA
Found at i:897329 original size:87 final size:87
Alignment explanation
Indices: 897182--897359 Score: 311
Period size: 87 Copynumber: 2.0 Consensus size: 87
897172 GGATCCTAAA
* * *
897182 ACTTTTGAAGAAGCTATAAGATCTATCGATGCTAGTTTTTGGAAAAGCGCTGTTACTGATGAACT
1 ACTTTTGAAGAAGCTATAAGATCTATCGATGCTAGTTTTTGGAAAAGCACTATTAATGATGAACT
897247 AGAATCGATAATGTCTAATCAT
66 AGAATCGATAATGTCTAATCAT
* *
897269 ACTTTTGAAGAAGCTGTAAGATCTATTGATGCTAGTTTTTGGAAAAGCACTATTAATGATGAACT
1 ACTTTTGAAGAAGCTATAAGATCTATCGATGCTAGTTTTTGGAAAAGCACTATTAATGATGAACT
897334 AGAATCGATAATGTCTAATCAT
66 AGAATCGATAATGTCTAATCAT
897356 ACTT
1 ACTT
897360 GTTAATGATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (87 bp):
ACTTTTGAAGAAGCTATAAGATCTATCGATGCTAGTTTTTGGAAAAGCACTATTAATGATGAACT
AGAATCGATAATGTCTAATCAT
Found at i:897385 original size:20 final size:20
Alignment explanation
Indices: 897322--897386 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
897312 AAAGCACTAT
897322 TAATGATGAACTAGAATCGA
1 TAATGATGAACTAGAATCGA
* * * * *
897342 TAATG-TCTAA-TCATACTTGT
1 TAATGAT-GAACT-AGAATCGA
897362 TAATGATGAACTAGAATCGA
1 TAATGATGAACTAGAATCGA
897382 TAATG
1 TAATG
897387 CCAGATGGTT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
TAATGATGAACTAGAATCGA
Found at i:911447 original size:5 final size:5
Alignment explanation
Indices: 911433--911466 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
911423 GTCCGTCTGT
* *
911433 CTCGT CTCGG CTCGG CACGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
911467 TGGTCGTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.41, G:0.35, T:0.21
Consensus pattern (5 bp):
CTCGG
Found at i:915887 original size:78 final size:77
Alignment explanation
Indices: 915759--915913 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 77
915749 GGAATAAAAA
915759 ATATCAAAAGAATATAAAAAAATGAAAAATTTAAAACTTGAGAGGGTGATTAGCCCTGCCCCTTC
1 ATATCAAAAGAATATAAAAAAATGAAAAATTTAAAACTTGAGAGGGTGATTAGCCCTGCCCCTTC
915824 GGTCTATACTTG
66 GGTCTATACTTG
915836 ATATCAAAAGAATATAAAAAAAATGAAAAATTTAAAACTTGAGAGGGTGATTAGCCCTGCCCCTT
1 ATATCAAAAGAATAT-AAAAAAATGAAAAATTTAAAACTTGAGAGGGTGATTAGCCCTGCCCCTT
915901 CGGTCTATACTTG
65 CGGTCTATACTTG
915914 GGTGCAATAT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 15 0.19
78 62 0.81
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (77 bp):
ATATCAAAAGAATATAAAAAAATGAAAAATTTAAAACTTGAGAGGGTGATTAGCCCTGCCCCTTC
GGTCTATACTTG
Found at i:917071 original size:28 final size:29
Alignment explanation
Indices: 917040--917101 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
917030 GTTTAAAACA
* *
917040 TTTAGGGGGTCTCTGATATTTTAGAA-AT
1 TTTAGGGGGTCTATGATATTTTAGAAGAG
*
917068 TTTA-GGGGTTTATGATATTTTAGAAGAG
1 TTTAGGGGGTCTATGATATTTTAGAAGAG
917096 TTTAGG
1 TTTAGG
917102 AGTTCTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 19 0.66
28 9 0.31
29 1 0.03
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.44
Consensus pattern (29 bp):
TTTAGGGGGTCTATGATATTTTAGAAGAG
Found at i:917441 original size:32 final size:32
Alignment explanation
Indices: 917394--917454 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
917384 TCCCAATTCC
* *
917394 AAGTAGGAATGTGAAATTAGGTAATCGTTTCT
1 AAGTAGGAATATGAAACTAGGTAATCGTTTCT
*
917426 AAGTAGGGATATGAAACTAGGTAATCGTT
1 AAGTAGGAATATGAAACTAGGTAATCGTT
917455 CAGGTTTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (32 bp):
AAGTAGGAATATGAAACTAGGTAATCGTTTCT
Found at i:918862 original size:2 final size:2
Alignment explanation
Indices: 918855--918885 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
918845 ATTTATTTGA
918855 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918886 CAAATAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:919311 original size:48 final size:48
Alignment explanation
Indices: 919277--919418 Score: 266
Period size: 48 Copynumber: 3.0 Consensus size: 48
919267 AAGATTATTT
*
919277 ACAGGTTGAGTTAATTACAGGTCAGGTTCATAACAGGCCAGGTTGATA
1 ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACAGGCCAGGTTGATA
919325 ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACAGGCCAGGTTGATA
1 ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACAGGCCAGGTTGATA
*
919373 ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACATGCCAGGTTGA
1 ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACAGGCCAGGTTGA
919419 GTCAATTACA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (48 bp):
ACAGGTTGAGTCAATTACAGGTCAGGTTCATAACAGGCCAGGTTGATA
Found at i:919312 original size:16 final size:16
Alignment explanation
Indices: 919293--919407 Score: 94
Period size: 16 Copynumber: 7.2 Consensus size: 16
919283 TGAGTTAATT
919293 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCATA
* *
919309 ACAGGCCAGGTTGATA
1 ACAGGTCAGGTTCATA
* *
919325 ACAGGT-TGAG-TCAATT
1 ACAGGTCAG-GTTC-ATA
919341 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCATA
* *
919357 ACAGGCCAGGTTGATA
1 ACAGGTCAGGTTCATA
* *
919373 ACAGGT-TGAG-TCAATT
1 ACAGGTCAG-GTTC-ATA
919389 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCATA
919405 ACA
1 ACA
919408 TGCCAGGTTG
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
15 4 0.05
16 65 0.87
17 6 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (16 bp):
ACAGGTCAGGTTCATA
Found at i:924077 original size:346 final size:342
Alignment explanation
Indices: 923344--924365 Score: 1316
Period size: 346 Copynumber: 3.0 Consensus size: 342
923334 CTATAGTACT
* *
923344 TTATATGTTCGATAAATAACATATTTTTACATATACAAAATTAACAAAACCAAAAATCATGAAAA
1 TTATATGTTCGATAAATAACATATTTTTACATATACAAAATCAACAAAGCCAAAAATCATGAAAA
* * *
923409 GAAGTATTTACCTTACTAAAAATTGAAGTTCTTCTACTTTTAAACTTTGGTTGG-TTTGTTGTCG
66 AAAGTACTTACCTTACTAAAAATTGAAGTTCTTCTACTTTT-AACTTTGG-TGGCTTT-TTGTCA
* * *
923473 ATTACTGGATATTGACTCTAGAAGAAGAACAGATGAAAGTATGAAAAAGATTGAGGTTTTTTTAT
128 ATTACTGGGTATTGACTCTAGAAGAAGAACCGATGAAAGTGTGAAAAAGATTGAGG-TTTTTTAT
* * * *
923538 GGTTTTTTTACTGGGTATTTACTCTAAAAGAAGAATCAATTATTGGGTACTTGAGAATGAATTGA
192 GGTTTTTTTACTGGGTATTTACTCTAGAAGAAAAATCGATTAATGGGTACTTGAGAATGAATTGA
* * *
923603 AAATTGTAAAATTTAAGCTGGAGCAGGAAATTGGTAAGAATTTGTGAGAAAAA-GAACTAGGGTA
257 AAATTGTAAAATTTAATCT-GAGCAGGAAATGGGTAAGAATTTGTGA-AAAAAGGAATTAGGGTA
*
923667 AGAATCTTGAGCATATATGAAGGA
320 AGAATCTTGAGCAGA-ATGAAGGA
* * * * *
923691 TTATGTTTTCGATAAATATCATATTTTTACATATACAAAATCAATAAAGCCAAAAATCATGTAAA
1 TTATATGTTCGATAAATAACATATTTTTACATATACAAAATCAACAAAGCCAAAAATCATGAAAA
* * *
923756 TAAGTACTTACCTTACTAAAAATTAAAGTTCTTCTACTTTTAAGCTTTGGCTGGCTTTTTGTCTA
66 AAAGTACTTACCTTACTAAAAATTGAAGTTCTTCTACTTTTAA-CTTTGG-TGGCTTTTTGTCAA
*
923821 TTACTGGGTATTGACTTTAGAAGAAGAACCGATGAAAGTGTGAAAAAGATTGAGGTTTTTTATGG
129 TTACTGGGTATTGACTCTAGAAGAAGAACCGATGAAAGTGTGAAAAAGATTGAGGTTTTTTATGG
* * * * * *
923886 GTTTTTTATTGGGTATTGACTCTAGAAGAATAACCGATTACTGGGTACTTGAGAATGAATTGAAA
194 TTTTTTTACTGGGTATTTACTCTAGAAGAAAAATCGATTAATGGGTACTTGAGAATGAATTGAAA
* *
923951 ATTGTAAAATTTAATCTAGAGTAGGAAATGGGTAAGAACTTGTGAAAAAAGGAATTAGGGTAAGA
259 ATTGTAAAATTTAATCT-GAGCAGGAAATGGGTAAGAATTTGTGAAAAAAGGAATTAGGGTAAGA
*
924016 ATCTTGAGCAGGAATGCAGGA
323 ATCTTGAGCA-GAATGAAGGA
* * *
924037 TTATATGTTCGATAGATAGCATATTTTTACATATACAAAATCAACAGAGCCAAAAATCATGAAAA
1 TTATATGTTCGATAAATAACATATTTTTACATATACAAAATCAACAAAGCCAAAAATCATG-AAA
* * ** * * *
924102 AAAAATACATAGATTACTAAAAATTGAAGTGC-T-T-C---T-AC-TT--TGGCTTGTTGCCAAT
65 AAAAGTACTTACCTTACTAAAAATTGAAGTTCTTCTACTTTTAACTTTGGTGGCTTTTTGTCAAT
* * * *
924157 TATTGTGTATTGACTCCAGAAGAAGAACCGATGAAA--GTGAAAAAAATTGAGGTTTTTTATGGT
130 TACTGGGTATTGACTCTAGAAGAAGAACCGATGAAAGTGTGAAAAAGATTGAGGTTTTTTATGG-
* * *
924220 TTTTTTTACTGAGTATTTACTTTAGAAGAAAAATTGATTAATGGGTACTTGAGAATGAATTGAAA
194 TTTTTTTACTGGGTATTTACTCTAGAAGAAAAATCGATTAATGGGTACTTGAGAATGAATTGAAA
* * * *
924285 ATTGTAAAATTTAATCTGAAACAGAAAATGGGTAATAATTTGTGAGAAAAGGAATTAGGGTAAGA
259 ATTGTAAAATTTAATCTG-AGCAGGAAATGGGTAAGAATTTGTGAAAAAAGGAATTAGGGTAAGA
924350 ATCTTGAGCATGAATG
323 ATCTTGAGCA-GAATG
924366 TAGAATCGAC
Statistics
Matches: 598, Mismatches: 70, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
333 26 0.04
334 128 0.21
335 44 0.07
338 2 0.00
339 1 0.00
340 1 0.00
341 1 0.00
344 1 0.00
345 6 0.01
346 195 0.33
347 190 0.32
348 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.33
Consensus pattern (342 bp):
TTATATGTTCGATAAATAACATATTTTTACATATACAAAATCAACAAAGCCAAAAATCATGAAAA
AAAGTACTTACCTTACTAAAAATTGAAGTTCTTCTACTTTTAACTTTGGTGGCTTTTTGTCAATT
ACTGGGTATTGACTCTAGAAGAAGAACCGATGAAAGTGTGAAAAAGATTGAGGTTTTTTATGGTT
TTTTTACTGGGTATTTACTCTAGAAGAAAAATCGATTAATGGGTACTTGAGAATGAATTGAAAAT
TGTAAAATTTAATCTGAGCAGGAAATGGGTAAGAATTTGTGAAAAAAGGAATTAGGGTAAGAATC
TTGAGCAGAATGAAGGA
Found at i:929751 original size:6 final size:6
Alignment explanation
Indices: 929731--929795 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
929721 TAATAATTGA
** ** *
929731 ATTCGT ATTTAT ATTCGT ATTCGT ATTTAT ATTCGT ATTCGT ATTTGT
1 ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT
**
929779 ATTTAT ATTCGT ATTCG
1 ATTCGT ATTCGT ATTCG
929796 AGTTATTCAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (6 bp):
ATTCGT
Found at i:929754 original size:18 final size:18
Alignment explanation
Indices: 929731--929793 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
929721 TAATAATTGA
929731 ATTCGTATTTATATTCGT
1 ATTCGTATTTATATTCGT
929749 ATTCGTATTTATATTCGT
1 ATTCGTATTTATATTCGT
* **
929767 ATTCGTATTTGTATTTAT
1 ATTCGTATTTATATTCGT
929785 ATTCGTATT
1 ATTCGTATT
929794 CGAGTTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.11, T:0.57
Consensus pattern (18 bp):
ATTCGTATTTATATTCGT
Found at i:929769 original size:24 final size:24
Alignment explanation
Indices: 929742--929795 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
929732 TTCGTATTTA
929742 TATTCGTATTCGTATTTATATTCG
1 TATTCGTATTCGTATTTATATTCG
*
929766 TATTCGTATTTGTATTTATATTCG
1 TATTCGTATTCGTATTTATATTCG
929790 TATTCG
1 TATTCG
929796 AGTTATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (24 bp):
TATTCGTATTCGTATTTATATTCG
Found at i:931369 original size:2 final size:2
Alignment explanation
Indices: 931362--931419 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
931352 ACTAAAACCC
931362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
931404 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
931420 TCTTTAGCGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:934498 original size:22 final size:23
Alignment explanation
Indices: 934463--934505 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
934453 ATTTATTATT
934463 TCATTATAAGAAAA-TAAATATA
1 TCATTATAAGAAAATTAAATATA
**
934485 TCATTATATTAAAATTAAATA
1 TCATTATAAGAAAATTAAATA
934506 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (23 bp):
TCATTATAAGAAAATTAAATATA
Found at i:937606 original size:35 final size:37
Alignment explanation
Indices: 937538--937609 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
937528 TTTTAAGGGT
* *
937538 TTTTTTTTATAATTTTAGTAAAAAATTATTATTTTTAA
1 TTTTTTTTAT-ATTTTAATAAAAAATTAATATTTTTAA
*
937576 TTTTTTTTAT-TTTTAATTAAAAA-TAATATTTTTA
1 TTTTTTTTATATTTTAATAAAAAATTAATATTTTTA
937610 TTATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 10 0.32
36 11 0.35
38 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTTTTTTATATTTTAATAAAAAATTAATATTTTTAA
Found at i:940684 original size:20 final size:20
Alignment explanation
Indices: 940659--940696 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
940649 ATAAAAGATT
940659 GTTA-GGAATGTTAGAAATCA
1 GTTAGGGAA-GTTAGAAATCA
940679 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
940697 TGTTAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:945307 original size:20 final size:20
Alignment explanation
Indices: 945282--945319 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
945272 ATAAAAGGTT
945282 GTTA-GGAATGTTAGAAATCA
1 GTTAGGGAA-GTTAGAAATCA
945302 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
945320 TGTTAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:946744 original size:37 final size:37
Alignment explanation
Indices: 946672--946744 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
946662 TAGAAAATAT
* *
946672 TTATATATTTTCTTTAAAAAATTTAAATTTAAAAAAA
1 TTATATATTTTCTTTAAAAAATTAAAATATAAAAAAA
*
946709 TTATATAATTTT-TTTACAAAATTAAAAATATAAAAA
1 TTATAT-ATTTTCTTTAAAAAATT-AAAATATAAAAA
946745 GGTTTAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (37 bp):
TTATATATTTTCTTTAAAAAATTAAAATATAAAAAAA
Found at i:947099 original size:29 final size:30
Alignment explanation
Indices: 947037--947100 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
947027 CGGGAATGAC
* **
947037 ATTCCCGGCCAACCAAACGGGGGAATGTGG
1 ATTCCCGGCCAACCAAACGGGGGAATATAA
947067 ATTCCCGGCCAACCAAAC-GGGGAATATAA
1 ATTCCCGGCCAACCAAACGGGGGAATATAA
947096 ATTCC
1 ATTCC
947101 ATTCCCGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (30 bp):
ATTCCCGGCCAACCAAACGGGGGAATATAA
Found at i:948042 original size:16 final size:16
Alignment explanation
Indices: 948015--948054 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
948005 GAATGTAAAA
948015 ATATTT-TTTTATATT
1 ATATTTATTTTATATT
948030 ATATTTATTTTATATT
1 ATATTTATTTTATATT
*
948046 -TAATTATTT
1 ATATTTATTT
948055 GACCAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATTTATTTTATATT
Found at i:951448 original size:47 final size:44
Alignment explanation
Indices: 951389--951608 Score: 309
Period size: 44 Copynumber: 4.9 Consensus size: 44
951379 TAATTCAAAC
* *
951389 AATTAAATAATAAAACTATTAAGGAACAAAATAAATGAAAAGTCCAT
1 AATTAAAT-A-AAAAC-ATTAAGAAACAAAATAAATAAAAAGTCCAT
951436 AATTAAATAATAAAAACATTAAGAAA-ATAAATAAATAAAAAGTCCAT
1 AATT--A-AATAAAAACATTAAGAAACA-AAATAAATAAAAAGTCCAT
*
951483 AATTAAATAAAAACATTAAGAAATAAAATAAATAAAAAGTCCAT
1 AATTAAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCAT
* *
951527 ATTTAAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCTAT
1 AATTAAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCAT
951571 AATTAAATAAAAA-ATTAAGAAACAAAAATAAATAAAAA
1 AATTAAATAAAAACATTAAGAAAC-AAAATAAATAAAAA
951609 TAAGTCTATC
Statistics
Matches: 161, Mismatches: 6, Indels: 15
0.88 0.03 0.08
Matches are distributed among these distances:
43 10 0.06
44 104 0.65
45 2 0.01
46 1 0.01
47 34 0.21
48 5 0.03
49 2 0.01
50 3 0.02
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (44 bp):
AATTAAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCAT
Found at i:951873 original size:21 final size:21
Alignment explanation
Indices: 951847--951928 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
951837 GGACCCTGTG
* *
951847 GTGGTGGCATCTGAAATGGTT
1 GTGGTGACATCTGAAATGGCT
*
951868 GCGGTGACATC-GAAAATGGCT
1 GTGGTGACATCTG-AAATGGCT
* * *
951889 GTGATGACATCTAAAAAGGCT
1 GTGGTGACATCTGAAATGGCT
* *
951910 ATGGTGGCATCTGAAATGG
1 GTGGTGACATCTGAAATGG
951929 TAGCAAAATA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (21 bp):
GTGGTGACATCTGAAATGGCT
Found at i:952480 original size:2 final size:2
Alignment explanation
Indices: 952473--952534 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
952463 ATTGAAACTA
952473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952515 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
952535 TTCTTATCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:954033 original size:29 final size:29
Alignment explanation
Indices: 953981--954036 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
953971 ACGCTTTGTT
*
953981 AGAAAGGGTGTTAGATCGAAAATATTTGA
1 AGAAAGGGTGTTAGATAGAAAATATTTGA
*
954010 AGAAAGGGTGTCT-GATAGATAATATTT
1 AGAAAGGGTGT-TAGATAGAAAATATTT
954037 AACTGTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.30
Consensus pattern (29 bp):
AGAAAGGGTGTTAGATAGAAAATATTTGA
Found at i:954887 original size:14 final size:14
Alignment explanation
Indices: 954868--954895 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
954858 CAGGCACTAC
954868 AACGATGACACACG
1 AACGATGACACACG
954882 AACGATGACACACG
1 AACGATGACACACG
954896 CTAATTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (14 bp):
AACGATGACACACG
Found at i:956756 original size:64 final size:64
Alignment explanation
Indices: 956679--956887 Score: 208
Period size: 64 Copynumber: 3.3 Consensus size: 64
956669 CGATGCATTG
* * *
956679 GTAGTGCATCGATGCA-CTCTTTTAAAATAAAAACATCGAATGCAATTCATGCATCAATGCATAA
1 GTAGTGCATCGATGCATCCCATTGAAAAT-AAAACATCGAATGCAATTCATGCATCAATGCATAA
* * ** *
956743 GTAGTGCATCGATGCATCCCATTGATAATGAAACATCGAATGCAATTGGTGCATCGATGCATAA
1 GTAGTGCATCGATGCATCCCATTGAAAATAAAACATCGAATGCAATTCATGCATCAATGCATAA
* * * * ** * * * *
956807 GGAGTGCATCGATGCATCCCA--GCAATAATAATATATCGAATACCTTTTATGCACCGATGCATC
1 GTAGTGCATCGATGCATCCCATTG-AA-AATAAAACATCGAATGCAATTCATGCATCAATGCATA
956870 A
64 A
956871 GTAGTGCATCGATGCAT
1 GTAGTGCATCGATGCAT
956888 ACCTTCATTA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 111 0.92
65 8 0.07
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTGAAAATAAAACATCGAATGCAATTCATGCATCAATGCATAA
Found at i:957213 original size:12 final size:12
Alignment explanation
Indices: 957195--957230 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
957185 TATATATGTT
957195 CATGTGATATGA
1 CATGTGATATGA
*
957207 TATGTGATATGA
1 CATGTGATATGA
957219 CATGTGATATGA
1 CATGTGATATGA
957231 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:957252 original size:23 final size:26
Alignment explanation
Indices: 957195--957263 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
957185 TATATATGTT
**
957195 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
957219 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
957244 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
957264 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:957393 original size:15 final size:15
Alignment explanation
Indices: 957375--957407 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
957365 GAGGGTATAA
957375 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
957390 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
957405 TAG
1 TAG
957408 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:962966 original size:124 final size:122
Alignment explanation
Indices: 962726--962971 Score: 440
Period size: 124 Copynumber: 2.0 Consensus size: 122
962716 AAAATTAATT
962726 AAAGAAGGGATAAGGATATATATGAGTACAAGTGGTTGAAAAGGAGAGAACAACAAAGGCTTCCA
1 AAAGAAGGGATAAGGATATATATGAGTACAAGTGGTTGAAAAGGAGAGAACAACAAAGGCTTCCA
* *
962791 GAGTTCTCTCTTCTTCTTTTCTTTTCTTTGAGCGTGTGAACCAAAGCAAAGGTAAGA
66 GAGTTCTCTCTTCTTCTTTTCTCTTCCTTGAGCGTGTGAACCAAAGCAAAGGTAAGA
962848 AAAGAAGGGATAAGGATATATATGAGTACAAGTGGGTTGAAAAGGAGAGAACAACAAAGGCTTCC
1 AAAGAAGGGATAAGGATATATATGAGTACAAGT-GGTTGAAAAGGAGAGAACAACAAAGGCTTCC
962913 AGAGTTCTCTTCTTCTTCTTCTT-TCTTCCTTGAGCGTGTGAACCAAAGCAAAGGTAAGA
65 AGAGTTCTC-TCTTCTTCTT-TTCTCTTCCTTGAGCGTGTGAACCAAAGCAAAGGTAAGA
962972 TTTCTGATTA
Statistics
Matches: 119, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
122 33 0.28
123 40 0.34
124 44 0.37
125 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (122 bp):
AAAGAAGGGATAAGGATATATATGAGTACAAGTGGTTGAAAAGGAGAGAACAACAAAGGCTTCCA
GAGTTCTCTCTTCTTCTTTTCTCTTCCTTGAGCGTGTGAACCAAAGCAAAGGTAAGA
Found at i:963539 original size:64 final size:64
Alignment explanation
Indices: 963470--963690 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 64
963460 TTGAAGGTGT
* ***
963470 ATCGATGCATTGGTAGTGCATCGATGCA-CTTTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCATG
963533 C
64 C
* * **
963534 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
** * * ** *
963598 ATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
*
963662 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
963691 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 1 0.01
64 126 0.95
65 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:964016 original size:12 final size:12
Alignment explanation
Indices: 963998--964031 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
963988 TATATATGTT
963998 CATGTGATATGA
1 CATGTGATATGA
*
964010 TATGTGATATGA
1 CATGTGATATGA
*
964022 CATATGATAT
1 CATGTGATAT
964032 TAGAACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:964157 original size:14 final size:15
Alignment explanation
Indices: 964131--964162 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
964121 GAGGGTATAA
964131 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
964146 TAGTCC-TCGGGATG
1 TAGTCCTTCGGGATG
964160 TAG
1 TAG
964163 GGGTCCTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:967248 original size:3 final size:3
Alignment explanation
Indices: 967237--967286 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
967227 TTTTTTATCG
967237 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
967281 ATA TTA
1 TTA TTA
967287 CATTTTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:967264 original size:30 final size:30
Alignment explanation
Indices: 967230--967286 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
967220 CCGGGTTTTT
* * *
967230 TTTATCGTTATTTTATTATTATTATTATTA
1 TTTATCATTATTATATTATTAATATTATTA
*
967260 TTTATTATTATTATATTATTAATATTA
1 TTTATCATTATTATATTATTAATATTA
967287 CATTTTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTATCATTATTATATTATTAATATTATTA
Found at i:967265 original size:19 final size:18
Alignment explanation
Indices: 967241--967279 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
967231 TTATCGTTAT
967241 TTTATTATTATTATTATTA
1 TTTATTATTATTA-TATTA
967260 TTTATTATTATTATATTA
1 TTTATTATTATTATATTA
967278 TT
1 TT
967280 AATATTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTATTATTATATTA
Found at i:967339 original size:11 final size:11
Alignment explanation
Indices: 967323--967354 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
967313 CCCAATACAA
967323 CAAGGCCCAAC
1 CAAGGCCCAAC
967334 CAAGGCCCAAC
1 CAAGGCCCAAC
967345 CAAGGCCCAA
1 CAAGGCCCAA
967355 ACACGAGCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.44, G:0.19, T:0.00
Consensus pattern (11 bp):
CAAGGCCCAAC
Found at i:970853 original size:32 final size:31
Alignment explanation
Indices: 970768--970860 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
970758 ATTTTACATG
970768 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
970799 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
970830 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTT-TTCTCTTTTGTTTGTGT
970861 CATTTTGTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 44 0.72
32 17 0.28
ACGTcount: A:0.15, C:0.14, G:0.10, T:0.61
Consensus pattern (31 bp):
TACTAACTTATTTTTCTCTTTTGTTTGTGTA
Found at i:970882 original size:5 final size:5
Alignment explanation
Indices: 970872--970897 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
970862 ATTTTGTCAT
970872 TTGCA TTGCA TTGCA TTGCA TTGCA T
1 TTGCA TTGCA TTGCA TTGCA TTGCA T
970898 CATCATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTGCA
Found at i:972275 original size:26 final size:27
Alignment explanation
Indices: 972246--972303 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
972236 CTTGAAATAT
972246 TCTTTTCA-ACCTTGAAACATTCTCTC
1 TCTTTTCAGACCTTGAAACATTCTCTC
* *
972272 TC-TTTGAGACCTTGAAACATTCTTTC
1 TCTTTTCAGACCTTGAAACATTCTCTC
972298 TACTTT
1 T-CTTT
972304 GAAACACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 20 0.74
27 1 0.04
28 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.45
Consensus pattern (27 bp):
TCTTTTCAGACCTTGAAACATTCTCTC
Found at i:972283 original size:46 final size:45
Alignment explanation
Indices: 972216--972309 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 45
972206 CCAATTTTTG
*
972216 ACATTCTATCTCTTGGAGACCTTGAAATATTCTTTTCAACCTTGAA
1 ACATTCTATCTCTTGGAGACCTTGAAACATTC-TTTCAACCTTGAA
* * * *
972262 ACATTCTCTCTCTTTGAGACCTTGAAACATTCTTTCTACTTTGAA
1 ACATTCTATCTCTTGGAGACCTTGAAACATTCTTTCAACCTTGAA
972307 ACA
1 ACA
972310 CTGTATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 14 0.33
46 29 0.67
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (45 bp):
ACATTCTATCTCTTGGAGACCTTGAAACATTCTTTCAACCTTGAA
Found at i:972898 original size:12 final size:12
Alignment explanation
Indices: 972880--972940 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
972870 GACGCAGAGT
972880 GCAAAGATCAAA
1 GCAAAGATCAAA
* **
972892 CCAAAGAAAAAA
1 GCAAAGATCAAA
* *
972904 ACAAAGAGCAAA
1 GCAAAGATCAAA
* *
972916 GAAAAAATCAAA
1 GCAAAGATCAAA
*
972928 GCAAAAATCAAA
1 GCAAAGATCAAA
972940 G
1 G
972941 AAAAAGCAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.67, C:0.15, G:0.13, T:0.05
Consensus pattern (12 bp):
GCAAAGATCAAA
Found at i:972945 original size:12 final size:12
Alignment explanation
Indices: 972912--972945 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
972902 AAACAAAGAG
972912 CAAAGAAAAAAT
1 CAAAGAAAAAAT
*
972924 CAAAGCAAAAAT
1 CAAAGAAAAAAT
972936 CAAAGAAAAA
1 CAAAGAAAAA
972946 GCAAAGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.12, G:0.09, T:0.06
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:974146 original size:12 final size:12
Alignment explanation
Indices: 974129--974203 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 12
974119 GATTGAGAAA
974129 CATACATCAACT
1 CATACATCAACT
*
974141 CATACATACAAATAT
1 CATACAT-C-AA-CT
974156 ACATACATCAACT
1 -CATACATCAACT
*
974169 CATACATACATATAT
1 CATACAT-CA-A-CT
*
974184 ACATACATCAACA
1 -CATACATCAACT
974197 CATACAT
1 CATACAT
974204 GCATGTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 21 0.42
13 4 0.08
14 6 0.12
15 5 0.10
16 14 0.28
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (12 bp):
CATACATCAACT
Found at i:974147 original size:16 final size:16
Alignment explanation
Indices: 974128--974203 Score: 87
Period size: 16 Copynumber: 5.2 Consensus size: 16
974118 AGATTGAGAA
974128 ACATACATCAACTCAT
1 ACATACATCAACTCAT
974144 ACATACA--AA-T-AT
1 ACATACATCAACTCAT
974156 ACATACATCAACTCAT
1 ACATACATCAACTCAT
974172 ACATACAT--A-T-AT
1 ACATACATCAACTCAT
*
974184 ACATACATCAACACAT
1 ACATACATCAACTCAT
974200 ACAT
1 ACAT
974204 GCATGTTACA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 19 0.37
13 2 0.04
14 6 0.12
15 1 0.02
16 23 0.45
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATACATCAACTCAT
Found at i:974159 original size:28 final size:28
Alignment explanation
Indices: 974128--974203 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
974118 AGATTGAGAA
974128 ACATACATCAACTCATACATACAAATAT
1 ACATACATCAACTCATACATACAAATAT
*
974156 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATACAAATAT
*
974184 ACATACATCAACACATACAT
1 ACATACATCAACTCATACAT
974204 GCATGTTACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
ACATACATCAACTCATACATACAAATAT
Found at i:974608 original size:36 final size:36
Alignment explanation
Indices: 974568--974666 Score: 171
Period size: 36 Copynumber: 2.8 Consensus size: 36
974558 GATTTTTCTA
974568 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
*
974604 AAAACAAATTTTGTCTTGCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
**
974640 AAAACAAATTTTGTCTCATTTGAGACA
1 AAAACAAATTTTGTCTCGCTTGAGACA
974667 TTTTCCCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
Found at i:974995 original size:101 final size:98
Alignment explanation
Indices: 974789--975017 Score: 250
Period size: 101 Copynumber: 2.3 Consensus size: 98
974779 TGAGAATTTT
** * *
974789 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
974854 AAAAACAAAATCTCACCTTAGATTGTTGTTTCTTTC
66 AAAAACAAAATCTCACCTTAGA-T-TCGTTTC-TTC
* * *
974890 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC-
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
974954 ATTAAACAAAGTTGATCTCA-CTTGAGA-TCGTTTC-TC
66 A-AAAACAAA----ATCTCACCTT-AGATTCGTTTCTTC
*
974990 AAAAACAAACTTTGTCTCGCTTGAGACA
1 -AAAACAAATTTTGTCTCGCTTGAGACA
975018 ATTGCTCTAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
100 3 0.03
101 89 0.81
102 6 0.05
104 3 0.03
105 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (98 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATCTCACCTTAGATTCGTTTCTTC
Found at i:975033 original size:36 final size:34
Alignment explanation
Indices: 974990--975087 Score: 101
Period size: 36 Copynumber: 2.8 Consensus size: 34
974980 ATCGTTTCTC
974990 AAAAACAAACTTTGTCTCGCTTGAGACAAT-TGCTCT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATAT-CT-T
** *
975026 AAAAACAAATTTTGTCTCATTTGAGACTATATCTT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCTT
*
975061 -AAAGCAAATTTCGTCTCGCTTGAGACA
1 AAAAACAAATTT-GTCTCGCTTGAGACA
975088 TCATTTTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.06
34 19 0.37
35 1 0.02
36 28 0.54
37 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAAACAAATTTGTCTCGCTTGAGACAATATCTT
Found at i:975370 original size:29 final size:29
Alignment explanation
Indices: 975334--975427 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
975324 GTTTCTCTTG
975334 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
975363 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
975392 AAATATCTTTGAG-TTGTTTCTTTTG-A-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
975418 AAAAATCTTT
1 AAAAATCTTT
975428 AAAACAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
26 9 0.15
27 1 0.02
28 11 0.18
29 39 0.65
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:975759 original size:120 final size:118
Alignment explanation
Indices: 975591--975812 Score: 263
Period size: 120 Copynumber: 1.9 Consensus size: 118
975581 TTAACAAAAT
* * * *
975591 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATTAAAAAC
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCT-ATTAAAAA-
975656 TAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTTACTTAAGATGTAATC
64 -AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
** * *
975711 CATCTTTGAGTCTATTTCTTTTGAAACAAAAT-TT-TATATCTTAAAGACAATTTCTTTTGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATATCTT-AAGACAATTTCTATTAAAAA
* * *
975774 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT
64 AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCT
975813 CTCGAGACAA
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
117 23 0.26
118 11 0.13
119 12 0.14
120 37 0.43
121 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (118 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCTATTAAAAAAA
TCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
Found at i:975880 original size:40 final size:40
Alignment explanation
Indices: 975817--975896 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
975807 TTGTCTCTCG
*
975817 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
* * *
975857 AGACAATTTCTTTT-AAAACTACCCACCTTGGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTGGAGATCGTTT
975897 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
Found at i:975974 original size:31 final size:30
Alignment explanation
Indices: 975939--975999 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
975929 GTATCTCTAG
*
975939 AAATACAAA-ATCTTTGAGTTTGTTTCACTTA
1 AAATA-AAACATCTTTGAG-TCGTTTCACTTA
*
975970 AAATAAAACCATTTTTGAGTCGTTTCACTT
1 AAATAAAA-CATCTTTGAGTCGTTTCACTT
976000 GAAACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.12
31 15 0.58
32 8 0.31
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (30 bp):
AAATAAAACATCTTTGAGTCGTTTCACTTA
Found at i:976015 original size:15 final size:15
Alignment explanation
Indices: 975992--976035 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
975982 TTTTGAGTCG
*
975992 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
976007 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
976022 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
976036 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:976367 original size:35 final size:37
Alignment explanation
Indices: 976301--976380 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
976291 TGTTTCTTTG
* * *
976301 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT-
1 GAAACAAAATTAAACATCTTTGAAACTGTTTCCCTTA
976337 GAAACAAAA-TAAACATCTTTGAGAAC-GTTTCCCTTA
1 GAAACAAAATTAAACATCTTTGA-AACTGTTTCCCTTA
*
976373 AAAACAAA
1 GAAACAAA
976381 TTTTGTCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 20 0.53
36 18 0.47
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (37 bp):
GAAACAAAATTAAACATCTTTGAAACTGTTTCCCTTA
Found at i:976799 original size:43 final size:44
Alignment explanation
Indices: 976646--976934 Score: 204
Period size: 46 Copynumber: 6.7 Consensus size: 44
976636 ATTATTCCTA
* * * *
976646 AGATGACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATAACCAGACC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-AT
*** * * * * **
976692 AGAGGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCAT
*
976736 AGAT---CAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCAT
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCAT
* * *
976776 AGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATAACCAGACC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-AT
** * * * * **
976822 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCAT
*
976866 AGAT---CAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCAT
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCAT
976906 AGATAACCAG-CCGTCCTCATCACGTAGGA
1 AGATAACCAGACC-TCCTCATCACGTAGGA
976935 ACCGAGTTAT
Statistics
Matches: 192, Mismatches: 38, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
40 12 0.06
41 56 0.29
42 2 0.01
43 45 0.23
44 7 0.04
45 7 0.04
46 61 0.32
47 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (44 bp):
AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCAT
Found at i:976845 original size:46 final size:45
Alignment explanation
Indices: 976659--976948 Score: 198
Period size: 41 Copynumber: 6.7 Consensus size: 45
976649 TGACCAGCCG
* * *
976659 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAGGGCCAGAAC
1 TCCTCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAAC
* * * *
976705 TCTTCATCACGTATGAGCCGTGTCATTC-CC-CAGAT---CAGATC
1 TCCTCATCACGTAGGAGCCGTGTCA-TCACCTTAGATGGCCAGAAC
* ** *
976746 TCCTCATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC
* *
976788 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAAC
* * * *
976835 TCTTCATCACGTATGAGCCGTGTCATTC-CC-CAGAT---CAGATC
1 TCCTCATCACGTAGGAGCCGTGTCA-TCACCTTAGATGGCCAGAAC
* ** *
976876 TCCTCATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC
* * *
976918 GTCCTCATCACGTAGGAACCGAGTTATCACC
1 -TCCTCATCACGTAGGAGCCGTGTCATCACC
976949 CTTCCTAAAG
Statistics
Matches: 194, Mismatches: 30, Indels: 41
0.73 0.11 0.15
Matches are distributed among these distances:
39 4 0.02
40 8 0.04
41 56 0.29
42 2 0.01
43 51 0.26
44 7 0.04
45 6 0.03
46 55 0.28
47 5 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (45 bp):
TCCTCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC
Found at i:976884 original size:130 final size:130
Alignment explanation
Indices: 976646--977035 Score: 606
Period size: 130 Copynumber: 3.0 Consensus size: 130
976636 ATTATTCCTA
* *
976646 AGATGACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAGGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
976711 TCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
976776 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
976841 TCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
976906 AGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAAC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA-CCTT--T--AGATGGCC-AGAAC
* ** * * *
976971 TCTTCATCATGTATGAGTAGTGTCA-TCCCTC-GA-CTAGATTTCCTCATCACGTAGGAACCATG
60 TCTTCATCACGTATGAGCCGTGTCATTCCC-CAGATC-AGATCTCCTCATCACGTAGGAGCCGTG
977033 TCA
123 TCA
977036 CCTTTAGACG
Statistics
Matches: 243, Mismatches: 9, Indels: 11
0.92 0.03 0.04
Matches are distributed among these distances:
130 168 0.69
131 4 0.02
133 1 0.00
134 1 0.00
135 41 0.17
136 28 0.12
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (130 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:977247 original size:3 final size:3
Alignment explanation
Indices: 977236--977282 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
977226 TTTTTTATCG
*
977236 TTA TT- TTA TTA TTA TTA TTA TTTA TTA TTA TTA -TA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
977280 TTA
1 TTA
977283 CATTTTACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:977259 original size:27 final size:27
Alignment explanation
Indices: 977229--977282 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
977219 CCGGGTTTTT
* * *
977229 TTTATCGTTATTTTATTATTATTATTA
1 TTTATCATTATTATATTATTAATATTA
*
977256 TTTATTATTATTATATTATTAATATTA
1 TTTATCATTATTATATTATTAATATTA
977283 CATTTTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTATCATTATTATATTATTAATATTA
Found at i:977335 original size:11 final size:11
Alignment explanation
Indices: 977319--977350 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
977309 CCCAATACAA
977319 CAAGGCCCAAC
1 CAAGGCCCAAC
977330 CAAGGCCCAAC
1 CAAGGCCCAAC
977341 CAAGGCCCAA
1 CAAGGCCCAA
977351 ACACGAGCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.44, G:0.19, T:0.00
Consensus pattern (11 bp):
CAAGGCCCAAC
Found at i:980632 original size:85 final size:85
Alignment explanation
Indices: 980534--980695 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 85
980524 TACAATCACG
*
980534 ACACACGAATGTGTGTTATCTTCATTTATGACGGGGGCTTCAATAACACGCAATGTA-AGTCATA
1 ACACACAAATGTGTGTTATCTTCATTTATGACGGGGGCTTCAATAACACGCAATG-AGAGTCATA
*
980598 AATGCGTGTCATAAATTTATT
65 AATGCGCGTCATAAATTTATT
* * * * *
980619 ACACACAAATGTGTGTTATCTTCATTTATGATGGGGGCTTTAATGACGCGCAATGAGCGTCATAA
1 ACACACAAATGTGTGTTATCTTCATTTATGACGGGGGCTTCAATAACACGCAATGAGAGTCATAA
980684 ATGCGCGTCATA
66 ATGCGCGTCATA
980696 GATGAGCGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 1 0.01
85 68 0.99
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (85 bp):
ACACACAAATGTGTGTTATCTTCATTTATGACGGGGGCTTCAATAACACGCAATGAGAGTCATAA
ATGCGCGTCATAAATTTATT
Found at i:980691 original size:13 final size:13
Alignment explanation
Indices: 980670--980734 Score: 103
Period size: 13 Copynumber: 5.0 Consensus size: 13
980660 AATGACGCGC
*
980670 AATGAGCGTCATA
1 AATGCGCGTCATA
980683 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
980696 GATGAGCGTCATA
1 AATGCGCGTCATA
980709 AATGCGCGTCATA
1 AATGCGCGTCATA
980722 AATGCGCGTCATA
1 AATGCGCGTCATA
980735 GATTTATGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:981764 original size:2 final size:2
Alignment explanation
Indices: 981757--981788 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
981747 TTACTCCATG
981757 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
981789 CCTGGTATCT
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:984820 original size:23 final size:22
Alignment explanation
Indices: 984774--984820 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
984764 TAATCGCGAG
*
984774 TTTAGAAGATACGATTTTGGGC
1 TTTAGAAGATACGATTTTGAGC
984796 TTTAGCAA-ATACGATTTTTGAGC
1 TTTAG-AAGATACGA-TTTTGAGC
984819 TT
1 TT
984821 GTTTAGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (22 bp):
TTTAGAAGATACGATTTTGAGC
Found at i:985312 original size:13 final size:13
Alignment explanation
Indices: 985294--985326 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
985284 GCATAAAGCG
*
985294 AGCGCTTTCGCTT
1 AGCGCTTTCACTT
985307 AGCGCTTTCACTT
1 AGCGCTTTCACTT
985320 AGCGCTT
1 AGCGCTT
985327 AGCGTTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.36
Consensus pattern (13 bp):
AGCGCTTTCACTT
Found at i:990933 original size:2 final size:2
Alignment explanation
Indices: 990926--990961 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
990916 AACTCTATTA
990926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
990962 GATAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:991164 original size:17 final size:17
Alignment explanation
Indices: 991128--991167 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
991118 GCTCTTTTAA
*
991128 AAAATAATATATAGTTT
1 AAAATAATATATAGTAT
991145 AAAATAATATAT-GTGAT
1 AAAATAATATATAGT-AT
991162 AAAATA
1 AAAATA
991168 TAATTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
AAAATAATATATAGTAT
Found at i:991550 original size:16 final size:16
Alignment explanation
Indices: 991529--991569 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
991519 TATATAAACA
991529 TATATATTTTATAGTT
1 TATATATTTTATAGTT
*
991545 TATATACTTTATAGTT
1 TATATATTTTATAGTT
991561 TATATATTT
1 TATATATTT
991570 ATACTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (16 bp):
TATATATTTTATAGTT
Found at i:991594 original size:22 final size:22
Alignment explanation
Indices: 991547--991598 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
991537 TTATAGTTTA
* * **
991547 TATACTTTATAGTTTATATATT
1 TATACTATATAATTTATATACC
991569 TATACTATATAATTTATATACC
1 TATACTATATAATTTATATACC
991591 TATA-TATA
1 TATACTATA
991599 CTCATACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (22 bp):
TATACTATATAATTTATATACC
Found at i:991623 original size:45 final size:39
Alignment explanation
Indices: 991568--991670 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 39
991558 GTTTATATAT
991568 TTATACTATATAATTTATATACCTATATATACTCATACTTACATAG
1 TTATA-TATATAATTTATATA--TA-A-ATA-T-ATACTTACATAG
*
991614 TTATATATAT-A-TTATATATAAGTATATACTTACATAG
1 TTATATATATAATTTATATATAAATATATACTTACATAG
*
991651 TTATATATAT-ATATATATAT
1 TTATATATATAATTTATATAT
991671 TATATAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
37 23 0.43
38 8 0.15
39 2 0.04
40 1 0.02
41 2 0.04
43 7 0.13
44 1 0.02
45 5 0.09
46 5 0.09
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (39 bp):
TTATATATATAATTTATATATAAATATATACTTACATAG
Found at i:991676 original size:15 final size:15
Alignment explanation
Indices: 991615--991721 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 15
991605 CTTACATAGT
991615 TATATATATATTATA
1 TATATATATATTATA
*
991630 TATAAGTATATACTTACA
1 TAT-A-TATATA-TTATA
991648 TAGTTATATATATATATA
1 TA--TATATATAT-TATA
991666 TATATTATATAGTT-T-
1 TATA-TATATA-TTATA
991681 TATATATA-A-TATA
1 TATATATATATTATA
* *
991694 CATATATATACTTATG
1 TATATATATA-TTATA
991710 T-TATATATATTA
1 TATATATATATTA
991722 CAAGTATATT
Statistics
Matches: 74, Mismatches: 5, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
11 1 0.01
12 1 0.01
13 8 0.11
14 8 0.11
15 15 0.20
16 7 0.09
17 14 0.19
18 18 0.24
19 1 0.01
20 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (15 bp):
TATATATATATTATA
Found at i:991685 original size:45 final size:44
Alignment explanation
Indices: 991504--991686 Score: 146
Period size: 45 Copynumber: 4.2 Consensus size: 44
991494 TGAATTGATA
* * *
991504 TTATATACTTTATA-TTATATA-A-ACATATATATTTTATAG-T
1 TTATATACTTCATAGTTATATATATATATATATATTATATAGTT
* * **
991544 TTATATACTTTATAGTTTATATATTTATACTATATAATTTATATACCT
1 TTATATACTTCATAG-TTATATATATATA-TATAT-A-TTATATAGTT
* * * *
991592 ATATATAC-TCATACTTACATAGT-TATATATATATTATATA-TAA
1 TTATATACTTCATAGTTATATA-TATATATATATATTATATAGT-T
*
991635 GTATATACTTACATAGTTATATATATATATATATATTATATAGTT
1 TTATATACTT-CATAGTTATATATATATATATATATTATATAGTT
991680 TTATATA
1 TTATATA
991687 TAATATACAT
Statistics
Matches: 114, Mismatches: 15, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
40 14 0.12
42 7 0.06
43 14 0.12
44 5 0.04
45 43 0.38
46 12 0.11
47 11 0.10
48 8 0.07
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (44 bp):
TTATATACTTCATAGTTATATATATATATATATATTATATAGTT
Found at i:991719 original size:2 final size:2
Alignment explanation
Indices: 991615--991703 Score: 66
Period size: 2 Copynumber: 46.0 Consensus size: 2
991605 CTTACATAGT
*
991615 TA TA TA TA TA T- TA TA TA TA -A GTA TA TA CT- TA CA TA GT- TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA
*
991654 TA TA TA TA TA TA TA TA T- TA TA TA GT- TT TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
991694 CA TA TA TA TA
1 TA TA TA TA TA
991704 CTTATGTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
1 7 0.10
2 60 0.85
3 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:999608 original size:5 final size:5
Alignment explanation
Indices: 999589--999644 Score: 64
Period size: 5 Copynumber: 11.8 Consensus size: 5
999579 GAACCGGTTT
* * *
999589 GACCC GA-CT GACCC GACCC GACCC GA-CT GACCC GACCC GA-CT GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
999636 GACCC GACC
1 GACCC GACC
999645 GTTGACCGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 9 0.21
5 33 0.79
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:999608 original size:14 final size:14
Alignment explanation
Indices: 999603--999643 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
999593 CGACTGACCC
999603 GACCCGACCCGACT
1 GACCCGACCCGACT
999617 GACCCGACCCGACT
1 GACCCGACCCGACT
999631 GACCCGACCCGAC
1 GACCCGACCCGAC
999644 CGTTGACCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (14 bp):
GACCCGACCCGACT
Found at i:999638 original size:9 final size:9
Alignment explanation
Indices: 999588--999624 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
999578 CGAACCGGTT
999588 TGACCCGAC
1 TGACCCGAC
999597 TGACCCGACC
1 TGACCCGA-C
*
999607 CGACCCGAC
1 TGACCCGAC
999616 TGACCCGAC
1 TGACCCGAC
999625 CCGACTGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.22, C:0.49, G:0.22, T:0.08
Consensus pattern (9 bp):
TGACCCGAC
Found at i:999644 original size:19 final size:19
Alignment explanation
Indices: 999589--999629 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
999579 GAACCGGTTT
999589 GACCCGACTGACCCGACCC
1 GACCCGACTGACCCGACCC
999608 GACCCGACTGACCCGACCC
1 GACCCGACTGACCCGACCC
999627 GAC
1 GAC
999630 TGACCCGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (19 bp):
GACCCGACTGACCCGACCC
Found at i:1001231 original size:2 final size:2
Alignment explanation
Indices: 1001220--1001258 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1001210 TTCATCATAC
1001220 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1001259 ATTGTTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1008593 original size:23 final size:22
Alignment explanation
Indices: 1008546--1008618 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
1008536 TTAGTCGATT
* *
1008546 AAAAACATGTCA-AAGGATAGAG
1 AAAAACATGTCATAAAGACA-AG
1008568 AAAAACATGTCATAAAGACAACG
1 AAAAACATGTCATAAAGACAA-G
*
1008591 AAAAATATGTCATAAAGACGAAAG
1 AAAAACATGTCATAAAGAC--AAG
1008615 AAAA
1 AAAA
1008619 TGTGTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 13 0.30
23 24 0.55
24 5 0.11
25 2 0.05
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.14
Consensus pattern (22 bp):
AAAAACATGTCATAAAGACAAG
Found at i:1008595 original size:24 final size:24
Alignment explanation
Indices: 1008566--1008618 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
1008556 CAAAGGATAG
1008566 AGAAAAACATGTCATAAAGAC-AA
1 AGAAAAACATGTCATAAAGACGAA
* *
1008589 CGAAAAATATGTCATAAAGACGAA
1 AGAAAAACATGTCATAAAGACGAA
1008613 AGAAAA
1 AGAAAA
1008619 TGTGTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.13
Consensus pattern (24 bp):
AGAAAAACATGTCATAAAGACGAA
Found at i:1010298 original size:16 final size:16
Alignment explanation
Indices: 1010277--1010307 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1010267 ATAAATAAAT
1010277 GAACATAAACGAACAC
1 GAACATAAACGAACAC
1010293 GAACATAAACGAACA
1 GAACATAAACGAACA
1010308 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:1010606 original size:11 final size:11
Alignment explanation
Indices: 1010566--1010609 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1010556 AACTCGAGAC
1010566 TCAAGCTCGAT
1 TCAAGCTCGAT
* *
1010577 TGAAGCTAGAT
1 TCAAGCTCGAT
*
1010588 TCTGAGCTCGAT
1 TC-AAGCTCGAT
1010600 TCAAGCTCGA
1 TCAAGCTCGA
1010610 CATTGTCCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (11 bp):
TCAAGCTCGAT
Found at i:1013545 original size:16 final size:17
Alignment explanation
Indices: 1013518--1013549 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1013508 CACGGCTGGC
1013518 ACTCTCTCTTTTTCTCA
1 ACTCTCTCTTTTTCTCA
1013535 ACTCT-TCTTTTTCTC
1 ACTCTCTCTTTTTCTC
1013550 TTCTTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.56
Consensus pattern (17 bp):
ACTCTCTCTTTTTCTCA
Found at i:1014403 original size:20 final size:20
Alignment explanation
Indices: 1014378--1014428 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1014368 TACTCATGTG
1014378 AGTATCGATACCAAGGGTAT
1 AGTATCGATACCAAGGGTAT
1014398 AGTATCGATACCAAGGGTAT
1 AGTATCGATACCAAGGGTAT
* *
1014418 AATATCAATAC
1 AGTATCGATAC
1014429 TCCCCAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTATCGATACCAAGGGTAT
Found at i:1017194 original size:21 final size:21
Alignment explanation
Indices: 1017168--1017261 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
1017158 GTCGAGGGTT
*
1017168 TTATGTGGTCATTCGGGACTA
1 TTATGTGGTCATTCGGGACAA
1017189 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
*
1017210 ATATGTGG-CACTTCGGTG-CAAA
1 TTATGTGGTCA-TTCGG-GAC-AA
* *
1017232 CCTT-TGTAGTCCTTCGGGACAA
1 --TTATGTGGTCATTCGGGACAA
1017254 TTATGTGG
1 TTATGTGG
1017262 CACTTCAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.07
21 37 0.63
22 6 0.10
23 10 0.17
24 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Done.