Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006594.1 Hibiscus syriacus cultivar Beakdansim tig00016174_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: 98896
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:468 original size:130 final size:132
Alignment explanation
Indices: 161--510 Score: 325
Period size: 130 Copynumber: 2.6 Consensus size: 132
151 GTCGTTTAAA
* * * * * * * *
161 GGTGACACGACTCCTACGTGATGAGGAGATCTGGTC-GGTGGATGACACGGCTCATACGTGATGA
1 GGTGTCACGGCTCCTACGTGATGAGGAGGTCTAGTCAAG-GGATGACACAGCTCCTACGCGATGA
* * * * *
225 AGA-GTTCTTGGCCATCTTTAGGAAGGGTGATAACTCATTTCCTACGCGATGAGGACGACTGAAT
65 GGACG-GC-AGGCCATCTTTAGGAA--GTGATAACACATTTCCTACGCGATGAAGACGACTGAAT
*
289 ATCTATG
126 ATCTAGG
* ** * *
296 GGTGTCACGGCTCCTATGTGATGAGGAGGTCTAGTCGGGGGATGACACAGTTCCTATGCGATGAG
1 GGTGTCACGGCTCCTACGTGATGAGGAGGTCTAGTCAAGGGATGACACAGCTCCTACGCGATGAG
* * * * *
361 GACGGTAGGCCATCTTTAGGAA-TGATAACACGATTT-CTACGTGATGAAGATGGCTGATTATC-
66 GACGGCAGGCCATCTTTAGGAAGTGATAACAC-ATTTCCTACGCGATGAAGACGACTGAATATCT
423 AGG
130 AGG
* * * *
426 GGTGAT-ACGGCTGCTACGTGATGAGGAGGTCTGGTCAAGGGATGACACGGCTCCTACGTGATGA
1 GGTG-TCACGGCTCCTACGTGATGAGGAGGTCTAGTCAAGGGATGACACAGCTCCTACGCGATGA
* *
490 GGACGGCGGGCCATTTTTAGG
65 GGACGGCAGGCCATCTTTAGG
511 GATTTTGGTT
Statistics
Matches: 178, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
130 73 0.41
131 30 0.17
132 4 0.02
134 15 0.08
135 53 0.30
136 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (132 bp):
GGTGTCACGGCTCCTACGTGATGAGGAGGTCTAGTCAAGGGATGACACAGCTCCTACGCGATGAG
GACGGCAGGCCATCTTTAGGAAGTGATAACACATTTCCTACGCGATGAAGACGACTGAATATCTA
GG
Found at i:703 original size:61 final size:60
Alignment explanation
Indices: 518--908 Score: 317
Period size: 63 Copynumber: 6.2 Consensus size: 60
508 AGGGATTTTG
* * *
518 GTTTCAAGAGAAACCGACTCAAAGATGATTTTTCCAAAGAAAA-TGTCTCAAGAGAGACAAATTT
1 GTTTCAAGGGAAA-TGACTCAAAGAT--TTTTT-C-AAGAAAACTGTCTCAAGAGAGACAAACTT
** *
582 CGTTTCAAGGGAAACAATTTCAAAGATGTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACT
1 -GTTTCAAGGGAAATGA-CTCAAAGA--TTT-TTTCAAGA-AAACTGTCTCAAGAGAGACAAACT
647 T
60 T
*
648 GTTTCAAGGGAAATGGACTCAAAGATTTGTTTTAAGAAAA-TGTCTCAAGAGAGACAAACTT
1 GTTTCAAGGGAAAT-GACTCAAAGATTT-TTTCAAGAAAACTGTCTCAAGAGAGACAAACTT
* * * *
709 GTTTCAATGGAAACAGACTCAAAGA-TTTCTCAAGAAAAACTGTCTCAAGATAGACAAAACTTT
1 GTTTCAAGGGAAA-TGACTCAAAGATTTTTTCAAG-AAAACTGTCTCAAGAGAGAC-AAAC-TT
* * *
772 GTTTCAAGGGAAACTGAATCAAA-AATTTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 GTTTCAAGGGAAA-TGACTCAAAGATTTTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAACTT
* ** * * * * *
834 ATTTCAAGCTTAACA-GACCCAAAGATTTTTTTCAAAAGAAACTGTCTCGAGAGATA-AAATTT
1 GTTTCAAG-GGAA-ATGACTCAAAGA-TTTTTTCAAGA-AAACTGTCTCAAGAGAGACAAACTT
*
896 GTTTCAAGAGAAA
1 GTTTCAAGGGAAA
909 CAATTCAAAG
Statistics
Matches: 275, Mismatches: 33, Indels: 41
0.79 0.09 0.12
Matches are distributed among these distances:
59 5 0.02
60 7 0.03
61 59 0.21
62 36 0.13
63 66 0.24
64 32 0.12
65 45 0.16
66 24 0.09
67 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (60 bp):
GTTTCAAGGGAAATGACTCAAAGATTTTTTCAAGAAAACTGTCTCAAGAGAGACAAACTT
Found at i:818 original size:124 final size:124
Alignment explanation
Indices: 518--909 Score: 385
Period size: 124 Copynumber: 3.1 Consensus size: 124
508 AGGGATTTTG
* *
518 GTTTCAAGAGAAACCGACTCAAAGATGATTTTTCCAA-AGAAAATGTCTCAAGAGAGACAAATTT
1 GTTTCAAGAGAAACTGACTCAAAGA--ATTTTT-CAAGAG-AAATGTCTCAAGAGAGACAAACTT
* *
582 CGTTTCAAGGGAAACA-ATTTCAAAGATGTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
62 -GTTTCAA-GGAAACAGA-CTCAAAGA--TTT-TTTCAAGAAAAACTGTCTCAAGAGAGACAAAA
645 C-TT
121 CTTT
* * *
648 GTTTCAAGGGAAA-TGGACTCAAAGATTTGTTTTAAGA-AAATGTCTCAAGAGAGACAAACTTGT
1 GTTTCAAGAGAAACT-GACTCAAAGAATT-TTTCAAGAGAAATGTCTCAAGAGAGACAAACTTGT
* *
711 TTCAATGGAAACAGACTCAAAGA-TTTCTCAAGAAAAACTGTCTCAAGATAGACAAAACTTT
64 TTCAA-GGAAACAGACTCAAAGATTTTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTT
* * * *
772 GTTTCAAGGGAAACTGAATCAAA-AATTTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAT
1 GTTTCAAGAGAAACTGACTCAAAGAATTTTTCAAGAGAAA-TGTCTCAAGAGAGAC-AAACTTGT
** * *
836 TTCAAGCTTAACAGACCCAAAGATTTTTTTCAA-AAGAAACTGTCTC--GAGAGATAAAA-TTT
64 TTCAAG-GAAACAGACTCAAAGA-TTTTTTCAAGAA-AAACTGTCTCAAGAGAGACAAAACTTT
896 GTTTCAAGAGAAAC
1 GTTTCAAGAGAAAC
910 AATTCAAAGG
Statistics
Matches: 226, Mismatches: 22, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
122 32 0.14
123 12 0.05
124 53 0.23
125 35 0.15
126 23 0.10
127 41 0.18
128 4 0.02
129 4 0.02
130 22 0.10
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (124 bp):
GTTTCAAGAGAAACTGACTCAAAGAATTTTTCAAGAGAAATGTCTCAAGAGAGACAAACTTGTTT
CAAGGAAACAGACTCAAAGATTTTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTT
Found at i:6933 original size:30 final size:30
Alignment explanation
Indices: 6899--7123 Score: 163
Period size: 30 Copynumber: 7.4 Consensus size: 30
6889 ATACAAAAAT
* *
6899 TTAAAGGGCTAAAATAGCAAAAATGGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* *
6929 TTAAAAGACTAAAATGGCACAAGAA-A-AAAC
1 TTAAAGGACTAAAATAGCA-AA-AATAGAAAC
* ** * *
6959 TTAAAGGGCTAAAATAATAAAAAAACTGAAAT
1 TTAAAGGACTAAAATAGCAAAAATA--GAAAC
* *
6991 TTAAAGGATTAAAAATGGC-AAAATAGAAAC
1 TTAAAGGACT-AAAATAGCAAAAATAGAAAC
* * *
7021 TTAAAGGGCCAAAATAGTAAAAAATAGAAAC
1 TTAAAGGACTAAAATAG-CAAAAATAGAAAC
* * * *
7052 TTAAAGGACTAACATGGCAAAAATAGACAT
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* *
7082 TTAAAGGATTAAAATAAC-AAAATCA-AAAC
1 TTAAAGGACTAAAATAGCAAAAAT-AGAAAC
*
7111 TTAAGGGACTAAA
1 TTAAAGGACTAAA
7124 TGGAAAATAA
Statistics
Matches: 148, Mismatches: 37, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
28 2 0.01
29 27 0.18
30 70 0.47
31 26 0.18
32 18 0.12
33 5 0.03
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAGAAAC
Found at i:7076 original size:61 final size:61
Alignment explanation
Indices: 6899--7130 Score: 214
Period size: 61 Copynumber: 3.9 Consensus size: 61
6889 ATACAAAAAT
* * *
6899 TTAAAGGGCTAAAATAG-CAAAAATGGAAACTTAAAAGACTAAAATGGCACAAGAA-A-AAAC
1 TTAAAGGGCTAAAATAGTAAAAAATAGAAACTTAAAGGACTAAAATGGCA-AA-AATAGAAAC
* * *
6959 TTAAAGGGCTAAAATAATAAAAAA-ACTGAAATTTAAAGGATTAAAAATGGC-AAAATAGAAAC
1 TTAAAGGGCTAAAATAGTAAAAAATA--GAAACTTAAAGGACT-AAAATGGCAAAAATAGAAAC
* * * *
7021 TTAAAGGGCCAAAATAGTAAAAAATAGAAACTTAAAGGACTAACATGGCAAAAATAGACAT
1 TTAAAGGGCTAAAATAGTAAAAAATAGAAACTTAAAGGACTAAAATGGCAAAAATAGAAAC
** * *
7082 TTAAAGGATTAAAATA--ACAAAATCA-AAACTTAAGGGACT-AAATGG-AAAA
1 TTAAAGGGCTAAAATAGTAAAAAAT-AGAAACTTAAAGGACTAAAATGGCAAAA
7131 TAAAAATAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
57 4 0.03
58 5 0.03
59 19 0.13
60 26 0.18
61 43 0.30
62 38 0.26
63 9 0.06
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (61 bp):
TTAAAGGGCTAAAATAGTAAAAAATAGAAACTTAAAGGACTAAAATGGCAAAAATAGAAAC
Found at i:8438 original size:3 final size:3
Alignment explanation
Indices: 8430--8502 Score: 53
Period size: 3 Copynumber: 24.0 Consensus size: 3
8420 ACAAATGGTG
* * *
8430 TAA TAA TAA TTAC TAA TAA TAA TAA TAA TAC TAA TAA -AA GTAA AAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
*
8476 TAA AAA TATA TAA -AA TAAA TAA -AA TAA
1 TAA TAA TA-A TAA TAA T-AA TAA TAA TAA
8503 AAAAGTCCCG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
2 6 0.11
3 39 0.71
4 10 0.18
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:11873 original size:17 final size:17
Alignment explanation
Indices: 11842--11874 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11832 TTTTATATTA
11842 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
11859 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
11875 AATAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:12994 original size:21 final size:19
Alignment explanation
Indices: 12954--13006 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
12944 TCACTATGCA
12954 TAAAAATAAATTTAATATTTT
1 TAAAAATAAATTTAATA--TT
*
12975 TAAAAATGAATTTGAA-ATT
1 TAAAAATAAATTT-AATATT
*
12994 TAAAAATCAATTT
1 TAAAAATAAATTT
13007 CACCAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
21 13 0.45
22 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAAAATAAATTTAATATT
Found at i:14520 original size:41 final size:42
Alignment explanation
Indices: 14475--14843 Score: 307
Period size: 41 Copynumber: 9.0 Consensus size: 42
14465 ACAAATGTCG
* *
14475 CTAAAGACTCAG-ACTTTCGTGGC-TTTTGTATAAAAACGCCA
1 CTAAAGACTCAGTACTTTAGTGGCGTTTT-TATACAAACGCCA
* * *
14516 CTAAAGAATCA-TA-TTGTAATGGCGTTTTTATACAAACGCCG
1 CTAAAGACTCAGTACTT-TAGTGGCGTTTTTATACAAACGCCA
** * * *
14557 CTATAA-ACT-AGTACTTTAGTGTTGCTTTTATACAAATGCCG
1 CTA-AAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
* * *
14598 CTAAAGACTC-GTACTTTCGTGACATTTTTATACAAACGCCA
1 CTAAAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
** * *
14639 CTGTAGACTC-GTACTTTAGTGGCGTTTTTACATAAACGCCA
1 CTAAAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
* * * * *
14680 CTATAGACTC-GTACTTTAGTGACGTTTTTACACAAATGCCG
1 CTAAAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
* * * * *
14721 TTATAGACTCA-TACTTTAGTGGCATATTTATACAAACGCCG
1 CTAAAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
* * *
14762 TTATAA-ACTC-GTACTTTAGTGGTAG-TTTTATACAAACGCCG
1 CTA-AAGACTCAGTACTTTAGTGG-CGTTTTTATACAAACGCCA
*
14803 CTAAAGACTC-GTACTTTAGTGGCGTTTTAATACCAAACGCC
1 CTAAAGACTCAGTACTTTAGTGGCGTTTTTATA-CAAACGCC
14844 TCAATTGTCA
Statistics
Matches: 270, Mismatches: 43, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
40 8 0.03
41 245 0.91
42 17 0.06
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (42 bp):
CTAAAGACTCAGTACTTTAGTGGCGTTTTTATACAAACGCCA
Found at i:14668 original size:82 final size:82
Alignment explanation
Indices: 14456--14843 Score: 354
Period size: 82 Copynumber: 4.7 Consensus size: 82
14446 TTTATAGCGG
* * * * * *
14456 CATTTTTGA-ACAAATGTCGCTAAAGACTCAG-ACTTTCGTGGC-TTTTGTATAAAAACGCCACT
1 CATTTTT-ATACAAACGCCGCTATAGACTC-GTACTTTAGTGGCGTTTT-TATACAAACGCCGCT
* * * *
14518 AAAGAATCATA-TTGTAATGG
63 AAAGACTCGTACTT-TAGTGA
* * * ** * *
14538 CGTTTTTATACAAACGCCGCTATAAACTAGTACTTTAGTGTTGCTTTTATACAAATGCCGCTAAA
1 CATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAA
*
14603 GACTCGTACTTTCGTGA
66 GACTCGTACTTTAGTGA
* * * * * *
14620 CATTTTTATACAAACGCCACTGTAGACTCGTACTTTAGTGGCGTTTTTACATAAACGCCACTATA
1 CATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAA
14685 GACTCGTACTTTAGTGA
66 GACTCGTACTTTAGTGA
* * * * * * * *
14702 CGTTTTTACACAAATGCCGTTATAGACTCATACTTTAGTGGCATATTTATACAAACGCCGTTATA
1 CATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA-A
*
14767 A-ACTCGTACTTTAGTGG
65 AGACTCGTACTTTAGTGA
* * * *
14784 TAGTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTAATACCAAACGCC
1 CATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATA-CAAACGCC
14844 TCAATTGTCA
Statistics
Matches: 242, Mismatches: 58, Indels: 11
0.78 0.19 0.04
Matches are distributed among these distances:
81 2 0.01
82 226 0.93
83 14 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (82 bp):
CATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAA
GACTCGTACTTTAGTGA
Found at i:14772 original size:123 final size:122
Alignment explanation
Indices: 14465--14830 Score: 371
Period size: 123 Copynumber: 3.0 Consensus size: 122
14455 GCATTTTTGA
* * * * * * * *
14465 ACAAATGTCGCTAAAGACTCAGACTTTCGTGGC-TTTTGTATAAAAACGCCACTA-AAGAATCAT
1 ACAAATGCCGCTAAAGACTCATACTTTAGTGACATATT-TATACAAACGCCACTATAA-ACTCGT
* * * * ** * *
14528 A-TTGTAATGGCGTTTTTATACAAACGCCGCTATAAACTAGTACTTTAGTGTTGCTTTTAT
64 ACTT-TAGTGGCGTTTTTACA-AAACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTAC
* * * * *
14588 ACAAATGCCGCTAAAGACTCGTACTTTCGTGACATTTTTATACAAACGCCACTGTAGACTCGTAC
1 ACAAATGCCGCTAAAGACTCATACTTTAGTGACATATTTATACAAACGCCACTATAAACTCGTAC
*
14653 TTTAGTGGCGTTTTTACATAAACGCCACTATAGACTCGTACTTTAGTGACGTTTTTAC
66 TTTAGTGGCGTTTTTACA-AAACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTAC
* * * **
14711 ACAAATGCCGTTATAGACTCATACTTTAGTGGCATATTTATACAAACGCCGTTATAAACTCGTAC
1 ACAAATGCCGCTAAAGACTCATACTTTAGTGACATATTTATACAAACGCCACTATAAACTCGTAC
* * *
14776 TTTAGTGGTAGTTTTATAC-AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTT
66 TTTAGTGG-CGTTTT-TACAAAACGCCGCTATAGACTCGTACTTTAGTGACGTTTT
14831 AATACCAAAC
Statistics
Matches: 205, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
123 190 0.93
124 12 0.06
125 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (122 bp):
ACAAATGCCGCTAAAGACTCATACTTTAGTGACATATTTATACAAACGCCACTATAAACTCGTAC
TTTAGTGGCGTTTTTACAAAACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTAC
Found at i:27484 original size:16 final size:16
Alignment explanation
Indices: 27463--27496 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27453 CATGCGTCTT
27463 TAGTGGTCGGGAAGCA
1 TAGTGGTCGGGAAGCA
27479 TAGTGGTCGGGAAGCA
1 TAGTGGTCGGGAAGCA
27495 TA
1 TA
27497 AGCTACAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.41, T:0.21
Consensus pattern (16 bp):
TAGTGGTCGGGAAGCA
Found at i:30980 original size:26 final size:26
Alignment explanation
Indices: 30942--31021 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
30932 ACCGAAGTGC
* *
30942 TAATACACATAAGGTCATTCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
* * *
30968 TCATACACATAAGATTGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
30994 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
31020 TA
1 TA
31022 TGCACTTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:31063 original size:30 final size:30
Alignment explanation
Indices: 31022--31079 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
31012 GCCCACCATA
*
31022 TGCACTTAGTGTCATTACACACTATAGTGT
1 TGCACTAAGTGTCATTACACACTATAGTGT
*
31052 TGCACTAAGTGTCTTTACACACTATAGT
1 TGCACTAAGTGTCATTACACACTATAGT
31080 ACTAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (30 bp):
TGCACTAAGTGTCATTACACACTATAGTGT
Found at i:34621 original size:41 final size:41
Alignment explanation
Indices: 34571--34672 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
34561 AGGTCTTGTG
* * *
34571 GATGGCCCGAAGGACTTATCATCTTGCTCT-AAAGGCATACA
1 GATGACCCGAAGGACTTATCATCATGCT-TGAAAGACATACA
* * * *
34612 GATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACT
1 GATGACCCGAAGGACTT-ATCATCATGCTTGAAAGACATACA
*
34654 GATGTCCCGAAGGACTTAT
1 GATGACCCGAAGGACTTAT
34673 AAATTATGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 17 0.35
42 32 0.65
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATGCTTGAAAGACATACA
Found at i:35249 original size:216 final size:215
Alignment explanation
Indices: 34411--35304 Score: 1458
Period size: 215 Copynumber: 4.2 Consensus size: 215
34401 CCTGAAAGAC
* *
34411 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTATAAATTTTGAAATTTTGAA
1 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAA
* *
34476 AATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTCT-ATTTTTCAAATTC
66 AATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTCTCA-TTTTCAAATTC
* *
34540 ACT-TGAAATCATCCTACCCGAAGGTCTTGTGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
130 A-TGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
*
34604 GGCATACAGATGACCCGAAGGA
194 GGCTTACAGATGACCCGAAGGA
* * *
34626 TTTAAGCATCATGCTTGAAAGACTTACTGATGTCCCGAAGGACTTATAAATTATGAAATTTTGAA
1 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAA
*
34691 AATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTGTTCATTTTCAAATT
66 AATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTT-CTCATTTTCAAATT
*
34756 CATGTGAAAACATCCTACCC-AAGGT-TTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
129 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
34819 GGCTTACAGATGACCCGAAGGA
194 GGCTTACAGATGACCCGAAGGA
*
34841 TTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATACATTGTG-AATTTTGA
1 -TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGA
*
34905 AAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATGATTTTCTCATTTTCAAATTC
65 AAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTCTCATTTTCAAATTC
* * *
34970 ATTTGAAAACATCCTACCCGAAGCTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCTAAAG
130 ATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAG
35035 GCTTACAGATGACCCGAAGGA
195 GCTTACAGATGACCCGAAGGA
* * *
35056 TTTAAGCATTATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAAATTGTGAAACTTTGAA
1 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAA
* * * *
35121 AATTGCATTCATCGTTTTCAAAAATTTCATCTTCTTAAAACA-CTATTTTTTTCATTTTCAAATT
66 AATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATC-A-TTTTCTCATTTTCAAATT
35185 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
129 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
*
35250 GGCTTACAGATGACTCGAAGGA
194 GGCTTACAGATGACCCGAAGGA
35272 TTTAAGCATCATGCTCGAAAGACTTACTGATGG
1 TTTAAGCATCATGCTCGAAAGACTTACTGATGG
35305 GTTTGCTTCA
Statistics
Matches: 633, Mismatches: 36, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
213 32 0.05
214 60 0.09
215 320 0.51
216 192 0.30
217 28 0.04
218 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (215 bp):
TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAA
AATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTCTCATTTTCAAATTCA
TGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGG
CTTACAGATGACCCGAAGGA
Found at i:35401 original size:37 final size:38
Alignment explanation
Indices: 35342--35494 Score: 199
Period size: 37 Copynumber: 4.1 Consensus size: 38
35332 CTTAAGGTGG
* * *
35342 TGCTTCACTAC-TCTTCGTTGAAGGTTTAAGATTGATT
1 TGCTTCACTCCTTCTTCGGTGAAGGCTTAAGATTGATT
35379 TGCTTCACTCCTTCTT-GGTGAAGGCTTAAGATTGATT
1 TGCTTCACTCCTTCTTCGGTGAAGGCTTAAGATTGATT
*
35416 TGATTCACTCCTTCTT-GGTGAAGGCTTAAGATTGATT
1 TGCTTCACTCCTTCTTCGGTGAAGGCTTAAGATTGATT
* *
35453 TGTTTTC-TTCCTT-TTCGGTGAAGGCTTAAGATTGACTT
1 TG-CTTCACTCCTTCTTCGGTGAAGGCTTAAGATTGA-TT
35491 TGCT
1 TGCT
35495 CCATTCTCAT
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
36 2 0.02
37 92 0.88
38 11 0.10
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (38 bp):
TGCTTCACTCCTTCTTCGGTGAAGGCTTAAGATTGATT
Found at i:37532 original size:2 final size:2
Alignment explanation
Indices: 37525--37567 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
37515 ACTTTATTGT
37525 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
37567 A
1 A
37568 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:48921 original size:21 final size:22
Alignment explanation
Indices: 48872--48922 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
48862 ACAATTTATT
* *
48872 TTGCCACGACATTTCCATCCTTT
1 TTGCCACGACATCTCCAT-CTTG
*
48895 TTGCCATGACATCTCCAT-TTG
1 TTGCCACGACATCTCCATCTTG
48916 TTGCCAC
1 TTGCCAC
48923 ATCACACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
23 16 0.67
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGCCACGACATCTCCATCTTG
Found at i:49400 original size:110 final size:110
Alignment explanation
Indices: 49201--49410 Score: 271
Period size: 110 Copynumber: 1.9 Consensus size: 110
49191 ATATTACAAC
* * * * * * * *
49201 TTGTGTTATAACTTTTAATCCATGGAGATTTAGTTTTGCGTAGCCTAATGGCCATTGGTAAGCTA
1 TTGTATTATAACTTTTAATACACGGAGATTAAGTTTTGCGTAGACTAATGGCCATCGATAAGCCA
** *
49266 AAAAGACCCTAAGATTTTTTATATGTCTCTAATTCCATGAGAATA
66 AAAAGACCCTAAGATTTTCGATATGTCACTAATTCCATGAGAATA
*
49311 TTGTATTATAACTTTTAATACACGGAGATTAAGTCTTT-CTTAGACTAATGGCCATCGATAAGCC
1 TTGTATTATAACTTTTAATACACGGAGATTAAGT-TTTGCGTAGACTAATGGCCATCGATAAGCC
*
49375 AAAAATACCCTAAGCA-TTTCGATATGTCACTAATTC
65 AAAAAGACCCTAAG-ATTTTCGATATGTCACTAATTC
49411 TGTGAGGATT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
110 81 0.95
111 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (110 bp):
TTGTATTATAACTTTTAATACACGGAGATTAAGTTTTGCGTAGACTAATGGCCATCGATAAGCCA
AAAAGACCCTAAGATTTTCGATATGTCACTAATTCCATGAGAATA
Found at i:52117 original size:13 final size:14
Alignment explanation
Indices: 52092--52250 Score: 125
Period size: 15 Copynumber: 11.3 Consensus size: 14
52082 AAATATAATA
52092 TATATATATATATA-
1 TATATATATATA-AC
*
52106 TATATATAATATAAG
1 TATATAT-ATATAAC
*
52121 TTTATATATA-AAC
1 TATATATATATAAC
52134 TATATATATA-AAC
1 TATATATATATAAC
*
52147 TATATTTATATAAC
1 TATATATATATAAC
*
52161 TATATAATATTATAAG
1 TATAT-ATA-TATAAC
* *
52177 T-TATATAT-CAAT
1 TATATATATATAAC
52189 TATA-ATTATATGAAC
1 TATATA-TATAT-AAC
52204 TATATATATA-AAC
1 TATATATATATAAC
*
52217 TATATATATGTAAAC
1 TATATATATAT-AAC
*
52232 TATATATGTATAAAC
1 TATATATATAT-AAC
52247 TATA
1 TATA
52251 AAAAGTATAT
Statistics
Matches: 120, Mismatches: 13, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.03
13 41 0.34
14 22 0.18
15 46 0.38
16 7 0.06
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (14 bp):
TATATATATATAAC
Found at i:52143 original size:55 final size:57
Alignment explanation
Indices: 52084--52225 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 57
52074 ATCTGAAAAA
52084 ATATAATATATATATATATATATATAT-ATAATATAAGTTTATATATAAACTAT-A-T
1 ATATAATATATATATATATATATATATAATAATATAAG-TTATATATAAACTATAATT
* * * *
52139 ATATAA-ACTATATTTATATA-ACTATATAATATTATAAGTTATATATCAATTATAATT
1 ATATAATA-TATATATATATATA-TATATAATAATATAAGTTATATATAAACTATAATT
*
52196 ATATGAACTATATATATAAACTATATATAT
1 ATAT-AA-TATATATATATA-TATATATAT
52226 GTAAACTATA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
54 2 0.03
55 35 0.49
56 10 0.14
57 5 0.07
58 2 0.03
59 8 0.11
60 8 0.11
61 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (57 bp):
ATATAATATATATATATATATATATATAATAATATAAGTTATATATAAACTATAATT
Found at i:52184 original size:2 final size:2
Alignment explanation
Indices: 52084--52174 Score: 68
Period size: 2 Copynumber: 46.5 Consensus size: 2
52074 ATCTGAAAAA
*
52084 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
52124 AT AT AT AA ACT AT AT AT AT AA ACT AT AT TT AT AT A- ACT AT AT
1 AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT
52166 A- AT AT -T AT A
1 AT AT AT AT AT A
52175 AGTTATATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
1 6 0.08
2 62 0.87
3 3 0.04
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:52441 original size:18 final size:18
Alignment explanation
Indices: 52382--52443 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
52372 TTTTATTTAG
*
52382 AAATTTAGAGGGAAATTAGG
1 AAATTTAGA-GGAAATT-GA
* *
52402 AAATTTAGAGGGAATAGAA
1 AAATTTAGAGGAAATTG-A
*
52421 AAATTTGGAGGAAATTGA
1 AAATTTAGAGGAAATTGA
52439 AAATT
1 AAATT
52444 GAGATTTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.20
19 19 0.54
20 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AAATTTAGAGGAAATTGA
Found at i:52623 original size:10 final size:11
Alignment explanation
Indices: 52565--52669 Score: 50
Period size: 11 Copynumber: 10.2 Consensus size: 11
52555 AATTGTAGAT
52565 TATATAT-GTA
1 TATATATAGTA
*
52575 TA-ATATAAGTT
1 TATATAT-AGTA
*
52586 TATATATA-AA
1 TATATATAGTA
*
52596 CTTTATATAGTA
1 -TATATATAGTA
52608 TATATAT-GTA
1 TATATATAGTA
* *
52618 TGTATA-ACTA
1 TATATATAGTA
52628 -ATATA-AGTA
1 TATATATAGTA
*
52637 -ATCTATAG-A
1 TATATATAGTA
52646 TTATATATA-TA
1 -TATATATAGTA
*
52657 TATATATATTA
1 TATATATAGTA
52668 TA
1 TA
52670 GAAATACTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
9 16 0.22
10 22 0.31
11 29 0.40
12 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (11 bp):
TATATATAGTA
Found at i:52729 original size:7 final size:7
Alignment explanation
Indices: 52719--52792 Score: 58
Period size: 7 Copynumber: 10.6 Consensus size: 7
52709 TAGTTTATAA
52719 AAACCCT
1 AAACCCT
**
52726 AAACATT
1 AAACCCT
52733 AAACCCT
1 AAACCCT
***
52740 AAAATGT
1 AAACCCT
52747 AAACCCT
1 AAACCCT
*
52754 AAACCTT
1 AAACCCT
* *
52761 TAATCCT
1 AAACCCT
* *
52768 TAATCCT
1 AAACCCT
52775 AAACCCT
1 AAACCCT
52782 AAACCCT
1 AAACCCT
52789 AAAC
1 AAAC
52793 TATATATGTA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:52738 original size:14 final size:15
Alignment explanation
Indices: 52719--52757 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
52709 TAGTTTATAA
52719 AAACCCTAAACAT-T
1 AAACCCTAAACATGT
52733 AAACCCTAAA-ATGT
1 AAACCCTAAACATGT
52747 AAACCCTAAAC
1 AAACCCTAAAC
52758 CTTTAATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACATGT
Found at i:52844 original size:2 final size:2
Alignment explanation
Indices: 52832--52940 Score: 119
Period size: 2 Copynumber: 53.5 Consensus size: 2
52822 ATAAACCATG
* * *
52832 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TG TG 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
** * * *
52876 TA TA TA TA CG TA TA TG TA TA TA TA TA TA TA TA TA TG TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
52918 TA TA TA TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
52941 TGTTGAAACA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
2 86 0.97
3 3 0.03
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59124 original size:21 final size:21
Alignment explanation
Indices: 59098--59137 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59088 CCCCCTTTGA
*
59098 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
59119 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
59138 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:61565 original size:110 final size:110
Alignment explanation
Indices: 61372--61589 Score: 436
Period size: 110 Copynumber: 2.0 Consensus size: 110
61362 AAAGGGGGAG
61372 AAGAATAAGTGTTAAATGTTTTTACATGATAAATTGAAGAAGTGTTAAAGTAAGGGGGAGTAATT
1 AAGAATAAGTGTTAAATGTTTTTACATGATAAATTGAAGAAGTGTTAAAGTAAGGGGGAGTAATT
61437 TCAAAACTTGATTTCAAAAATCTTAAAATTACTAAAATGTTTTAA
66 TCAAAACTTGATTTCAAAAATCTTAAAATTACTAAAATGTTTTAA
61482 AAGAATAAGTGTTAAATGTTTTTACATGATAAATTGAAGAAGTGTTAAAGTAAGGGGGAGTAATT
1 AAGAATAAGTGTTAAATGTTTTTACATGATAAATTGAAGAAGTGTTAAAGTAAGGGGGAGTAATT
61547 TCAAAACTTGATTTCAAAAATCTTAAAATTACTAAAATGTTTT
66 TCAAAACTTGATTTCAAAAATCTTAAAATTACTAAAATGTTTT
61590 GTTATATGAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.35
Consensus pattern (110 bp):
AAGAATAAGTGTTAAATGTTTTTACATGATAAATTGAAGAAGTGTTAAAGTAAGGGGGAGTAATT
TCAAAACTTGATTTCAAAAATCTTAAAATTACTAAAATGTTTTAA
Found at i:62753 original size:2 final size:2
Alignment explanation
Indices: 62668--62733 Score: 69
Period size: 2 Copynumber: 32.5 Consensus size: 2
62658 TTAACTCAAC
* * * * *
62668 AT AT AT GT AT AC AT AT AT AT GT AT AT GT GT 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
*
62710 AT AT AC AT AT AT AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT A-T AT AT A
62734 AAGTAAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:62816 original size:7 final size:7
Alignment explanation
Indices: 62804--62878 Score: 51
Period size: 7 Copynumber: 10.7 Consensus size: 7
62794 AGTTTTATAA
62804 AAACCCT
1 AAACCCT
62811 AAACCCT
1 AAACCCT
** *
62818 AATTCAT
1 AAACCCT
*
62825 AACCCCT
1 AAACCCT
*
62832 AAATCCT
1 AAACCCT
**
62839 AAACTTT
1 AAACCCT
**
62846 AAACTAT
1 AAACCCT
*
62853 AAACACT
1 AAACCCT
62860 AAACCCT
1 AAACCCT
*
62867 AAACCAT
1 AAACCCT
62874 AAACC
1 AAACC
62879 ATAATATAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:63267 original size:15 final size:15
Alignment explanation
Indices: 63242--63278 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
63232 ATAAACCATG
*
63242 TATAGTATATATAACC
1 TATA-TATATATAAAC
63258 TATATATATATAAAC
1 TATATATATATAAAC
63273 TATATA
1 TATATA
63279 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:63379 original size:3 final size:3
Alignment explanation
Indices: 63367--63456 Score: 121
Period size: 3 Copynumber: 30.3 Consensus size: 3
63357 TTATATTAAA
* * *
63367 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ACT ATT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
63413 ATT ATA ATAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
63457 ATGATACATA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 3 0.04
3 71 0.93
4 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:63899 original size:18 final size:17
Alignment explanation
Indices: 63857--63900 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
63847 ATTAGAGGAA
*
63857 GGGACAAAAAATAAAGG
1 GGGACAGAAAATAAAGG
63874 GGGACAGAAAATAAAGG
1 GGGACAGAAAATAAAGG
63891 GGGATCAGAA
1 GGGA-CAGAA
63901 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.52, C:0.07, G:0.34, T:0.07
Consensus pattern (17 bp):
GGGACAGAAAATAAAGG
Found at i:65274 original size:14 final size:14
Alignment explanation
Indices: 65255--65293 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
65245 GGTTGTGCAT
*
65255 TGTATATTAATATA
1 TGTATATAAATATA
65269 TGTATATAAATATA
1 TGTATATAAATATA
65283 TGTATATAAAT
1 TGTATATAAAT
65294 GGGTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (14 bp):
TGTATATAAATATA
Found at i:66260 original size:7 final size:7
Alignment explanation
Indices: 66246--66322 Score: 68
Period size: 7 Copynumber: 11.3 Consensus size: 7
66236 TAGTTTATAA
66246 AAACCCT
1 AAACCCT
*
66253 AAATCCT
1 AAACCCT
66260 AAACCCT
1 AAACCCT
*
66267 AACCCCT
1 AAACCCT
*
66274 AACCCCT
1 AAACCCT
**
66281 AAACTTT
1 AAACCCT
*
66288 AAACCAT
1 AAACCCT
*
66295 AAACACT
1 AAACCCT
66302 AAA--CT
1 AAACCCT
*
66307 AAACCAT
1 AAACCCT
66314 AAACCCT
1 AAACCCT
66321 AA
1 AA
66323 TTTATATATT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
5 5 0.09
7 51 0.91
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:66444 original size:4 final size:4
Alignment explanation
Indices: 66435--66573 Score: 269
Period size: 4 Copynumber: 34.8 Consensus size: 4
66425 ATTTTATGAC
66435 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
66483 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
66531 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
66574 ATGCATGCAT
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 133 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:66715 original size:23 final size:23
Alignment explanation
Indices: 66683--66734 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
66673 GTATGATACA
*
66683 TATGT-TATATGCATATATTATG
1 TATGTATATATGCATATATGATG
* *
66705 TATGTATATATGTATGTATGATG
1 TATGTATATATGCATATATGATG
*
66728 CATGTAT
1 TATGTAT
66735 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
TATGTATATATGCATATATGATG
Found at i:66729 original size:34 final size:35
Alignment explanation
Indices: 66659--66736 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
66649 TATTATAAAA
*
66659 ATATATTGATGTGTGTATGATACATATGTTATATGC
1 ATATATT-ATGTATGTATGATACATATGTTATATGC
**
66695 ATATATTATGTATGTAT-ATATGTATG-TATGATGC
1 ATATATTATGTATGTATGATACATATGTTAT-ATGC
*
66729 ATGTATTA
1 ATATATTA
66737 AAATTTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 18 0.49
35 9 0.24
36 7 0.19
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (35 bp):
ATATATTATGTATGTATGATACATATGTTATATGC
Found at i:67061 original size:24 final size:24
Alignment explanation
Indices: 67034--67094 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
67024 TAGTTGGCAC
*
67034 CAAATCACCCGCCTCTAATCTCCT
1 CAAATCACCCGCCTCTAAACTCCT
67058 CAAATCACCCGCCTCTAAACTCCT
1 CAAATCACCCGCCTCTAAACTCCT
67082 CAAATCACCCGCC
1 CAAATCACCCGCC
67095 AATATTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.28, C:0.48, G:0.05, T:0.20
Consensus pattern (24 bp):
CAAATCACCCGCCTCTAAACTCCT
Found at i:68194 original size:22 final size:20
Alignment explanation
Indices: 68169--68289 Score: 118
Period size: 22 Copynumber: 5.5 Consensus size: 20
68159 TGTTTGAATA
68169 TATTAAAGTATATAAATATAAG
1 TATTAAA-TATAT-AATATAAG
*
68191 TATTAAATATAAAGTATATAAG
1 TATTAAATATATA--ATATAAG
*
68213 TACTAAAGTATATAATATAAAG
1 TATTAAA-TATATAATAT-AAG
68235 TATTAAACTATATAATATAAG
1 TATTAAA-TATATAATATAAG
68256 TATTAAATATA-AAGTACTAAAG
1 TATTAAATATATAA-TA-T-AAG
68278 TATATAAATATA
1 TAT-TAAATATA
68290 AGTATTAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.02
20 7 0.08
21 19 0.22
22 45 0.52
23 13 0.15
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
TATTAAATATATAATATAAG
Found at i:68295 original size:36 final size:35
Alignment explanation
Indices: 68172--68309 Score: 164
Period size: 35 Copynumber: 4.1 Consensus size: 35
68162 TTGAATATAT
68172 TAAAGTATATAAATATAAGTATTAAATATAAAGTA
1 TAAAGTATATAAATATAAGTATTAAATATAAAGTA
* *
68207 TATAAGTA-CTAAA-GT-A-TA-T-AATATAAAGTA
1 TA-AAGTATATAAATATAAGTATTAAATATAAAGTA
*
68237 TTAAACTATAT-AATATAAGTATTAAATATAAAGTA
1 -TAAAGTATATAAATATAAGTATTAAATATAAAGTA
*
68272 CTAAAGTATATAAATATAAGTATTAATTATAAAGTA
1 -TAAAGTATATAAATATAAGTATTAAATATAAAGTA
68308 TA
1 TA
68310 TTAATTATCA
Statistics
Matches: 86, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
30 17 0.20
31 5 0.06
32 3 0.03
33 3 0.03
34 2 0.02
35 28 0.33
36 28 0.33
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (35 bp):
TAAAGTATATAAATATAAGTATTAAATATAAAGTA
Found at i:68323 original size:73 final size:73
Alignment explanation
Indices: 68200--68339 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 73
68190 GTATTAAATA
* *
68200 TAAAGTATATAAGTACTAAAGTATATAATATAAAGTATTAAACTATATAATATAA-GTATTAAAT
1 TAAAGTATATAAATACTAAAGTATATAATATAAAGTATTAAACTATATAAT-TAATATATTAAAT
68264 ATAAAGTAC
65 ATAAAGTAC
* *
68273 TAAAGTATATAAATA-T-AAGTAT-TAATTATAAAGTATATTAATTATCATAATTAATATATTAA
1 TAAAGTATATAAATACTAAAGTATATAA-TATAAAGTAT-TAAACTAT-ATAATTAATATATTAA
68335 ATATA
63 ATATA
68340 TTTATTAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
70 3 0.05
71 16 0.27
72 10 0.17
73 30 0.51
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (73 bp):
TAAAGTATATAAATACTAAAGTATATAATATAAAGTATTAAACTATATAATTAATATATTAAATA
TAAAGTAC
Found at i:68327 original size:13 final size:13
Alignment explanation
Indices: 68309--68366 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
68299 TATAAAGTAT
68309 ATTAATTATCATA
1 ATTAATTATCATA
*
68322 ATTAATATATTA-A
1 ATTAAT-TATCATA
*
68335 ATATATTTAT--TA
1 AT-TAATTATCATA
68347 ATTTAATTATCATA
1 A-TTAATTATCATA
68361 ATTAAT
1 ATTAAT
68367 ATTTTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
12 8 0.22
13 18 0.50
14 10 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATTATCATA
Found at i:68332 original size:21 final size:21
Alignment explanation
Indices: 68306--68376 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
68296 AATTATAAAG
68306 TATATTAATTATCATAATTAA
1 TATATTAATTATCATAATTAA
* *
68327 TATATTAA--AT-ATATTTAT
1 TATATTAATTATCATAATTAA
68345 TA-ATTTAATTATCATAATTAA
1 TATA-TTAATTATCATAATTAA
*
68366 TAT-TTTATTAT
1 TATATTAATTAT
68377 AACATTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 1 0.03
18 12 0.30
19 2 0.05
20 9 0.22
21 16 0.40
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATTAATTATCATAATTAA
Found at i:71032 original size:15 final size:15
Alignment explanation
Indices: 71006--71044 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
70996 TTAAAATCAC
71006 TATTTATATTTATAAT
1 TATTT-TATTTATAAT
71022 TATTTTATTTATAAT
1 TATTTTATTTATAAT
71037 T-TTTTATT
1 TATTTTATT
71045 AAGTTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.30
15 11 0.48
16 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTATTTATAAT
Found at i:77849 original size:15 final size:15
Alignment explanation
Indices: 77829--77868 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
77819 GGTATGATGG
77829 TTTCAAGAGAAACCA
1 TTTCAAGAGAAACCA
*
77844 TTTCAAGAGAAACCG
1 TTTCAAGAGAAACCA
77859 TTTCAAGAGA
1 TTTCAAGAGA
77869 GACAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (15 bp):
TTTCAAGAGAAACCA
Found at i:77961 original size:68 final size:66
Alignment explanation
Indices: 77844--78246 Score: 236
Period size: 74 Copynumber: 5.9 Consensus size: 66
77834 AGAGAAACCA
** * *** * *
77844 TTTCAAGAGAAACCGTTTCAAGAGAGACAAAACAAGTTTTAAGGGAAACAATCTCAATG-GTTGG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGAGTTGG
77908 TG
66 -G
* * * *
77910 TTTCAAGAGAATCTGTCTCGAGAGAGAGACTAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
1 TTTCAAGAGAAACTATCTC-A-AGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGAGTT
77975 GGG
64 GGG
* *
77978 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACTATCTCAAGAGAGACG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTC-A-A-AGA-G
**
78043 AAATTTTG
62 ---TTGGG
* * * * * * * ***
78051 TTTTAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGAGAAATTGTCTCAAGGGAGAC
1 TTTCAAGAGAAACTATCTCAAGAGAGAC-AAAATTCGTTTCAAGGGAAACAATCTCAA---AGA-
**
78116 GAAATTTTG
61 G---TTGGG
* * ** * * * * **
78125 TTTCAAGAGGAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACATTTTCTAAG-TTTAT
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGAGTTGG
78189 G
66 G
* * * *
78190 TTTCAAGAGAAACTGTCTCAATG-GAGACAAGATTTGTTTCAAGGGAAACTATCTCAA
1 TTTCAAGAGAAACTATCTCAA-GAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
78247 GCGAGATAAA
Statistics
Matches: 274, Mismatches: 49, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
65 52 0.19
66 49 0.18
67 3 0.01
68 52 0.19
69 7 0.03
70 2 0.01
72 1 0.00
73 49 0.18
74 59 0.22
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (66 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGAGTTGG
G
Found at i:78070 original size:37 final size:37
Alignment explanation
Indices: 77977--78901 Score: 325
Period size: 39 Copynumber: 24.4 Consensus size: 37
77967 AAAGATTTGG
* * * *
77977 GTTTCAAGAGAAACTATCTCAAGAGAGAC-AAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTT
* *
78013 ATTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTT
* *
78050 GTTTTAAGGGAAACTGTCTCAAGGGAGACGAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTT
* * *
78087 GTTTCAAGAGAAATTGTCTCAAGGGAGACGAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTT
*
78124 GTTTCAAGAGG-AACTGTCTCAAGAGAGAC-AAAATTT
1 GTTTCAAG-GGAAACTGTCTCAAGAGAGACGAAATTTT
* * *
78160 ATTTCAAGGGAAACAT-TTTC----TA-A-G---TTTAT
1 GTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAATTT-T
*
78189 GTTTCAAGAGAAACTGTCTCAATG-GAGAC-AAGA-TTT
1 GTTTCAAGGGAAACTGTCTCAA-GAGAGACGAA-ATTTT
* * **
78225 GTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA--TTTT
* **
78264 GTTTCAAGGGAAACTATCTCAAGCA-AGATAAAATCTTTT
1 GTTTCAAGGGAAACTGTCTCAAG-AGAGACGAAA--TTTT
* * **
78303 GTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA--TTTT
* * * * * **
78342 ATTTCAA-CGAAACTATCTTAAGCGAGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
* * * * *
78380 GTTTCAAGTGAATA-TATCTTAAGTGAGA-TAGAATCTTAT
1 GTTTCAAGGGAA-ACTGTCTCAAGAGAGACGA-AAT-TT-T
* * * **
78419 GTTTAAAGGGAAACTATCTCAAGCGAGATAAAATATTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
* * **
78458 GTTTCAAGTGAAACTATCTCAAGCA-AGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAG-AGAGACGAAAT-TT-T
* * * **
78497 GTTTCGAGGGAAACTATCTCAAGTGAGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
** * * *
78536 GTTTTGAGGGAAACTATCTCAAGCGAGA-TACAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGA-AAT-TT-T
* * * * ** *
78575 GTTTCGAGGAAAACTATCTCAAGTGAGATAAAATCATAT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT--TTT
* * * *
78614 GTTTCAAGTGAATA-TATCTCAAGTGAGA-TAAAGTCTTTT
1 GTTTCAAGGGAA-ACTGTCTCAAGAGAGACGAAA---TTTT
* **
78653 GTTTCAAGGGAAACTGTCTCAAGCGAGATAAAATCTTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA--TTTT
* * * * **
78692 GTTTTAAGTGAAACTATCTCAAGTGAGAAAAAATGTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
* ** * * **
78731 TTTTTTAGGGAAACTATCTCAAGCGAGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
* * * * **
78770 GTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
* * * * *
78809 ATTTCGAGGGAAACTATCTCAAGCGAGATAC-AATCTTTT
1 GTTTCAAGGGAAACTGTCTCAA--GAGAGACGAA-ATTTT
* * * * **
78848 ATTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT-TT-T
*
78887 GTTTCAAGTGAAACT
1 GTTTCAAGGGAAACT
78902 ATCTAAAGCG
Statistics
Matches: 743, Mismatches: 96, Indels: 97
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.00
29 16 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 1 0.00
35 3 0.00
36 73 0.10
37 109 0.15
38 44 0.06
39 473 0.64
40 12 0.02
41 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (37 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTT
Found at i:78093 original size:22 final size:22
Alignment explanation
Indices: 78068--78131 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
78058 GGAAACTGTC
78068 TCAAGGGAGACGAAATTTTGTT
1 TCAAGGGAGACGAAATTTTGTT
*
78090 TC-A---AGA-GAAA--TTGTC
1 TCAAGGGAGACGAAATTTTGTT
78105 TCAAGGGAGACGAAATTTTGTT
1 TCAAGGGAGACGAAATTTTGTT
78127 TCAAG
1 TCAAG
78132 AGGAACTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
15 6 0.18
16 1 0.03
17 4 0.12
18 3 0.09
19 3 0.09
20 4 0.12
21 1 0.03
22 11 0.33
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (22 bp):
TCAAGGGAGACGAAATTTTGTT
Found at i:78119 original size:74 final size:73
Alignment explanation
Indices: 77977--78901 Score: 387
Period size: 78 Copynumber: 12.2 Consensus size: 73
77967 AAAGATTTGG
* * *
77977 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACTATCTCAAGAGAGAC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGAC
78042 GAAATTTT
66 GAAATTTT
* * * * * * * *
78050 GTTTTAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGAGAAATTGTCTCAAGGGAGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTATTTCAAGGGAAACTATCTCAAGAGAGA
78115 CGAAATTTT
65 CGAAATTTT
* *
78124 GTTTCAAGAGG-AACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAAC-ATTTTC----TA-
1 GTTTCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTA-TCTCAAGAGAG
78182 A-G---TTTAT
64 ACGAAATTT-T
* * * *
78189 GTTTCAAGAGAAACTGTCTCAATG-GAGACAAGATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 GTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGA
**
78253 TAAAATCTTTT
65 CGAAA--TTTT
* * * *
78264 GTTTCAAGGGAAACTATCTCAAGCA-AGATAAAATCTTTTGTTTCAAGGGAAACTATCTCAAGCG
1 GTTTCAAGGGAAACTGTCTCAAG-AGAGACAAAA---TTTATTTCAAGGGAAACTATCTCAAGAG
**
78328 AGATAAAATCTTTT
62 AGACGAAA--TTTT
* * * * * * * * * *
78342 ATTTCAA-CGAAACTATCTTAAGCGAGATAAAATCTTCTGTTTCAAGTGAATA-TATCTTAAGTG
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-TATTTCAAGGGAA-ACTATCTCAAGAG
*
78405 AGA-TAGAATCTTAT
62 AGACGA-AAT-TT-T
* * * * * *
78419 GTTTAAAGGGAAACTATCTCAAGCGAGATAAAATATTCTGTTTCAAGTGAAACTATCTCAAGCA-
1 GTTTCAAGGGAAACTGTCTCAAGAGAGA-CAAA-ATT-TATTTCAAGGGAAACTATCTCAAG-AG
**
78483 AGATAAAATCTTCT
62 AGACGAAAT-TT-T
* * * * * ** *
78497 GTTTCGAGGGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTTGAGGGAAACTATCTCAAGCGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-TATTTCAAGGGAAACTATCTCAAGAGA
*
78562 GA-TACAATCTTCT
63 GACGA-AAT-TT-T
* * * * * * * *
78575 GTTTCGAGGAAAACTATCTCAAGTGAGATAAAATCATATGTTTCAAGTGAATA-TATCTCAAGTG
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT--T-TATTTCAAGGGAA-ACTATCTCAAGAG
*
78639 AGA-TAAAGTCTTTT
62 AGACGAAA---TTTT
* * * * * *
78653 GTTTCAAGGGAAACTGTCTCAAGCGAGATAAAATCTTTTGTTTTAAGTGAAACTATCTCAAGTGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA---TTTATTTCAAGGGAAACTATCTCAAGAGA
**
78718 GAAAAAATGTTCT
63 GACGAAAT-TT-T
* ** * * * * * * *
78731 TTTTTTAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGAGAAACTATCTCAAGCGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-TATTTCAAGGGAAACTATCTCAAGAGA
**
78796 GATAAAATCTTCT
63 GACGAAAT-TT-T
* * * * ** * *
78809 ATTTCGAGGGAAACTATCTCAAGCGAGATACAATCTTTTATTTCGAGGGAAACTATCTCAAGCGA
1 GTTTCAAGGGAAACTGTCTCAA--GAGAGACAA-AATTTATTTCAAGGGAAACTATCTCAAGAGA
**
78874 GATAAAATCTTCT
63 GACGAAAT-TT-T
*
78887 GTTTCAAGTGAAACT
1 GTTTCAAGGGAAACT
78902 ATCTAAAGCG
Statistics
Matches: 701, Mismatches: 95, Indels: 107
0.78 0.11 0.12
Matches are distributed among these distances:
64 4 0.01
65 47 0.07
66 2 0.00
67 1 0.00
68 1 0.00
69 2 0.00
70 1 0.00
73 45 0.06
74 62 0.09
75 30 0.04
76 11 0.02
77 65 0.09
78 408 0.58
79 13 0.02
80 8 0.01
81 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (73 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGAC
GAAATTTT
Found at i:78272 original size:39 final size:39
Alignment explanation
Indices: 78222--79345 Score: 875
Period size: 39 Copynumber: 29.0 Consensus size: 39
78212 GGAGACAAGA
78222 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
*
78261 TTTGTTTCAAGGGAAACTATCTCAAGCAAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
78300 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * *
78339 TTTATTTCAA-CGAAACTATCTTAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * * *
78377 TCTGTTTCAAGTGAATA-TATCTTAAGTGAGATAGAATCT
1 TTTGTTTCAAGGGAA-ACTATCTCAAGCGAGATAAAATCT
* * *
78416 TATGTTTAAAGGGAAACTATCTCAAGCGAGATAAAATAT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * *
78455 TCTGTTTCAAGTGAAACTATCTCAAGCAAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * *
78494 TCTGTTTCGAGGGAAACTATCTCAAGTGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* ** *
78533 TCTGTTTTGAGGGAAACTATCTCAAGCGAGATACAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * * *
78572 TCTGTTTCGAGGAAAACTATCTCAAGTGAGATAAAATCA
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * *
78611 TATGTTTCAAGTGAATA-TATCTCAAGTGAGATAAAGTCT
1 TTTGTTTCAAGGGAA-ACTATCTCAAGCGAGATAAAATCT
*
78650 TTTGTTTCAAGGGAAACTGTCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * * *
78689 TTTGTTTTAAGTGAAACTATCTCAAGTGAGAAAAAATGT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
**
78728 TCTT-TTTTTAGGGAAACTATCTCAAGCGAGATAAAATCT
1 T-TTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * *
78767 TCTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * *
78806 TCTATTTCGAGGGAAACTATCTCAAGCGAGATACAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* *
78845 TTTATTTCGAGGGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * *
78884 TCTGTTTCAAGTGAAACTATCTAAAGCGAGAGTGAAA-C-
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGA-TAAAATCT
* * * * ** *
78922 --TATCTCAAGCGAGATAA-AATCTTC-TGTTTCGAGGGAAACTATCA
1 TTTGTTTCAAG-G-GA-AACTATC-TCAAG---CGAGATAAA--ATCT
*** *
78966 CAAG---CGAGAGTGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTC-A-AGGGAAACTATCTCAAGCGAGATAAAATCT
* * * *
79004 TCTGTTTCGAGGGAAACTATCACAAGCGAGACAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * * *
79043 TCTATTTCAAGGGAAACTATCTCAAGGGAGATACAA--T
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* * ** * * *
79080 TTTCTTT--A---AAACAATCTTGAGTGCA-ATGAAATGT
1 TTTGTTTCAAGGGAAACTATCTCAAGCG-AGATAAAATCT
* * * ** * * *
79114 CTTCTTTCGAGTAAAAATCATCTCAAGAGAGA-CAAATCT
1 TTTGTTTCAAGGGAAACT-ATCTCAAGCGAGATAAAATCT
* ** * * * *
79153 ATT-TTT-AAGAAAAACAATCTTAAGAGAAAT-AAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* ** * *
79189 TCTTGTTTCGAGTAAAAAC-AGTCCCAAGCGAGA-CAAATCT
1 T-TTGTTTCAAG-GGAAACTA-TCTCAAGCGAGATAAAATCT
* *
79229 TATGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
* ** * * *
79268 TCTGTTTCAAGTAAAAATTGTCTCAAGTGAGAT-AAATCT
1 TTTGTTTCAAG-GGAAACTATCTCAAGCGAGATAAAATCT
* * *
79307 TTTGTTTCGAGGGAAACTATCTCAAGTGAGA-CAAATCT
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
79345 T
1 T
79346 ATTTTAAGAA
Statistics
Matches: 888, Mismatches: 148, Indels: 99
0.78 0.13 0.09
Matches are distributed among these distances:
32 15 0.02
33 1 0.00
34 7 0.01
35 1 0.00
36 25 0.03
37 14 0.02
38 91 0.10
39 651 0.73
40 62 0.07
41 5 0.01
42 5 0.01
43 8 0.01
44 1 0.00
45 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (39 bp):
TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
Found at i:78918 original size:21 final size:21
Alignment explanation
Indices: 78893--78995 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
78883 TTCTGTTTCA
78893 AGTGAAACTATCTAAAGCGAG
1 AGTGAAACTATCTAAAGCGAG
*
78914 AGTGAAACTATCTCAAGCGAG
1 AGTGAAACTATCTAAAGCGAG
* ****
78935 A-TAAAATCT-TCTGTTTCGAG
1 AGTGAAA-CTATCTAAAGCGAG
78955 -G-GAAACTATC-ACAAGCGAG
1 AGTGAAACTATCTA-AAGCGAG
*
78974 AGTGAAACTATCTCAAGCGAG
1 AGTGAAACTATCTAAAGCGAG
78995 A
1 A
78996 TAAAATCTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.03
19 9 0.14
20 12 0.19
21 40 0.63
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (21 bp):
AGTGAAACTATCTAAAGCGAG
Found at i:78930 original size:60 final size:60
Alignment explanation
Indices: 78857--79034 Score: 322
Period size: 60 Copynumber: 3.0 Consensus size: 60
78847 TATTTCGAGG
* *
78857 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACTATCTA-AAGCGAGAGT
1 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATC-ACAAGCGAGAGT
78917 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGAGT
1 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGAGT
78977 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGA
1 GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGA
79035 CAAAATCTTC
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
59 1 0.01
60 114 0.99
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (60 bp):
GAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGAGT
Found at i:79020 original size:99 final size:98
Alignment explanation
Indices: 78774--79074 Score: 358
Period size: 99 Copynumber: 3.1 Consensus size: 98
78764 TCTTCTGTTT
78774 CGAGA-GAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGAT
1 CGAGATGAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGAT
* *
78838 ACAATCTTTTATTTCGAGGGAAACTATCTCAAG
66 AAAATCTTCTATTTCGAGGGAAACTATCTCAAG
* **** * * ***
78871 CGAGATAAAATCT-TCTGTTTCAAG-TGAAA-CTATCTAAAGCGAGAGTGAAACTATCTCAAGCG
1 CGAGATGAAA-CTATCTCAAGCGAGATAAAATCT-TCTATTTCGAG-G-GAAACTATCTCAAGCG
* *
78933 AGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAG
62 AGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAG
* *
78970 CGAGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGA
1 CGAGA-TGAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGA
* *
79035 CAAAATCTTCTATTTCAAGGGAAACTATCTCAAG
65 TAAAATCTTCTATTTCGAGGGAAACTATCTCAAG
*
79069 GGAGAT
1 CGAGAT
79075 ACAATTTTCT
Statistics
Matches: 164, Mismatches: 31, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
96 2 0.01
97 17 0.10
98 11 0.07
99 110 0.67
100 11 0.07
101 11 0.07
102 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (98 bp):
CGAGATGAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGAT
AAAATCTTCTATTTCGAGGGAAACTATCTCAAG
Found at i:79198 original size:76 final size:78
Alignment explanation
Indices: 79087--79306 Score: 198
Period size: 76 Copynumber: 2.9 Consensus size: 78
79077 AATTTTCTTT
* * * * * *
79087 AAAACAATCTTGAGTGCAATGAAAT-GTCTTCTTTCGAGTAAAAATCATCTCAAGAGAGACAAAT
1 AAAACAATCTTAAGAGAAATAAAATCTTCTTGTTTCGAGTAAAAATCATCTCAAGAGAGACAAAT
*
79151 CTAT-TTTTAAGA
66 CTATGTTTCAAGA
* *
79163 AAAACAATCTTAAGAGAAAT-AAATCTTCTTGTTTCGAGTAAAAA-CAGTCCCAAGCGAGACAAA
1 AAAACAATCTTAAGAGAAATAAAATCTTCTTGTTTCGAGTAAAAATCA-TCTCAAGAGAGACAAA
* *
79226 TCTTATGTTTCGAGG
65 TC-TATGTTTCAAGA
* * * * * * ** * *
79241 GAAACTATCTCAAGCGAGATAAAATCTTC-TGTTTCAAGTAAAAATTGTCTCAAGTGAGATAAAT
1 AAAACAATCTTAAGAGAAATAAAATCTTCTTGTTTCGAGTAAAAATCATCTCAAGAGAGACAAAT
79305 CT
66 CT
79307 TTTGTTTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
75 6 0.05
76 50 0.43
77 4 0.03
78 49 0.42
79 8 0.07
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (78 bp):
AAAACAATCTTAAGAGAAATAAAATCTTCTTGTTTCGAGTAAAAATCATCTCAAGAGAGACAAAT
CTATGTTTCAAGA
Found at i:79257 original size:38 final size:38
Alignment explanation
Indices: 79213--79347 Score: 153
Period size: 38 Copynumber: 3.5 Consensus size: 38
79203 AAAACAGTCC
79213 CAAGCGAGACAAATCTTATGTTTCGAGGGAAACTATCT
1 CAAGCGAGACAAATCTTATGTTTCGAGGGAAACTATCT
* * * ** * *
79251 CAAGCGAGATAAAATCTTCTGTTTCAAGTAAAAATTGTCT
1 CAAGCGAGA-CAAATCTTATGTTTCGAG-GGAAACTATCT
* * *
79291 CAAGTGAGATAAATCTTTTGTTTCGAGGGAAACTATCT
1 CAAGCGAGACAAATCTTATGTTTCGAGGGAAACTATCT
*
79329 CAAGTGAGACAAATCTTAT
1 CAAGCGAGACAAATCTTAT
79348 TTTAAGAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
38 33 0.42
39 30 0.38
40 15 0.19
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (38 bp):
CAAGCGAGACAAATCTTATGTTTCGAGGGAAACTATCT
Found at i:79440 original size:75 final size:75
Alignment explanation
Indices: 79293--79529 Score: 275
Period size: 75 Copynumber: 3.2 Consensus size: 75
79283 AATTGTCTCA
* ** *
79293 AGTGAGATAAATCTT-TTGTTTCGAGGGAAACTATCTCAAGTGAGAC-AAATCTTATTTTAAGAA
1 AGTGAAATAAATCTTCTTGTTTCGAGTAAAACTGTCTCAAGTGAGACAAAATC-TATTTTAAGAA
*
79356 AAATAATCTTG
65 AAACAATCTTG
* * *
79367 AGTGAAATAAATCTTCTTGTTTCGAGTAAAAAATGTCTCAAATGAGACAAAATCTGTTTTAA-AA
1 AGTGAAATAAATCTTCTTGTTTCGAGT-AAAACTGTCTCAAGTGAGACAAAATCTATTTTAAGAA
79431 AAACAATCTTG
65 AAACAATCTTG
* * * * *
79442 AGTCAAATGAAAT-GTCTTCTTTCGAGTAAAACTGTCTCAAGTGAGACAAAGTCTCTTTTAAGAA
1 AGTGAAAT-AAATCTTCTTGTTTCGAGTAAAACTGTCTCAAGTGAGACAAAATCTATTTTAAGAA
**
79506 AAACAATCTCA
65 AAACAATCTTG
*
79517 AGTGAGATAAATC
1 AGTGAAATAAATC
79530 CTCTGTATTA
Statistics
Matches: 138, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
74 48 0.35
75 58 0.42
76 27 0.20
77 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (75 bp):
AGTGAAATAAATCTTCTTGTTTCGAGTAAAACTGTCTCAAGTGAGACAAAATCTATTTTAAGAAA
AACAATCTTG
Found at i:79517 original size:264 final size:264
Alignment explanation
Indices: 78978--79567 Score: 625
Period size: 264 Copynumber: 2.2 Consensus size: 264
78968 AGCGAGAGTG
* * * * * *
78978 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCACAAGCGAGACAAAATCT
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAATTGTCTCAAGTGAGACAAAATCT
* *
79043 TCTATTTCAAGGGAAACTATCTCAAGGGAGATACAATTTTCTTTAAAACAATCTTGAGTGCAATG
66 TCTATTTCAAGGGAAACTATCTCAAGGGAGACACAATTTTCTTTAAAACAATCTTGAGTGAAATG
*
79108 AAATGTCTTCTTTCGAGTAAAAATCATCTCAAGAGAGACAAATCTATTTTTAAGAAAAACAATCT
131 AAATGTCTTCTTTCGAGTAAAAATCATCTCAAGAGAGACAAATCTAGTTTTAAGAAAAACAATCT
* * * *
79173 TAAGAGAAATAAATCTTCTTGTTTCGAGTAAAAACAGTCCCAAGCGAGACAAATCTTATGTTTCG
196 TAAGACAAATAAATCGTCTTCTTTCGAGTAAAAACAGTCCCAAGCGAGACAAATCTTATGTTTCA
**
79238 AGGG
261 AGAA
* *
79242 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTAAAAATTGTCTCAAGTGAGA-TAAATC
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGT-GAAATTGTCTCAAGTGAGACAAAATC
* * * * *
79306 TTTTGTTTCGAGGGAAACTATCTCAAGTGAGACA-AATCTTAT-TTTAAGAAAAATAATCTTGAG
65 TTCTATTTCAAGGGAAACTATCTCAAGGGAGACACAAT-TT-TCTTT----AAAACAATCTTGAG
* * *
79369 TGAAAT-AAATCTTCTTGTTTCGAGTAAAAAAT-GTCTCAA-ATGAGACAAAATCT-GTTTTAA-
124 TGAAATGAAAT-GTCTTCTTTCGAGT-AAAAATCATCTCAAGA-GAGAC-AAATCTAGTTTTAAG
* * * * *
79429 AAAAACAATCTTGAGTCAAATGAAAT-GTCTTCTTTCGAGT-AAAACTGTCTCAAGTGAGACAAA
185 AAAAACAATCTTAAGACAAAT-AAATCGTCTTCTTTCGAGTAAAAACAGTCCCAAGCGAGACAAA
*
79492 GTC-TCT-TTT-AAGAA
249 -TCTTATGTTTCAAGAA
* * * * *
79506 AAACAATCTCAAGTGAGAT-AAATCCTCTGTATT-AAATGAGATTGTCTCAAGTGAGACAAAAT
1 AAACTATCTCAAGCGAGATAAAATCTTCTGT-TTCAAGTGAAATTGTCTCAAGTGAGACAAAAT
79568 TTATATTGGA
Statistics
Matches: 273, Mismatches: 38, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
262 17 0.06
263 20 0.07
264 96 0.35
265 18 0.07
266 22 0.08
267 37 0.14
268 51 0.19
269 12 0.04
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (264 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAATTGTCTCAAGTGAGACAAAATCT
TCTATTTCAAGGGAAACTATCTCAAGGGAGACACAATTTTCTTTAAAACAATCTTGAGTGAAATG
AAATGTCTTCTTTCGAGTAAAAATCATCTCAAGAGAGACAAATCTAGTTTTAAGAAAAACAATCT
TAAGACAAATAAATCGTCTTCTTTCGAGTAAAAACAGTCCCAAGCGAGACAAATCTTATGTTTCA
AGAA
Found at i:81638 original size:5 final size:5
Alignment explanation
Indices: 81628--81691 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
81618 AACGGTCAAC
* * *
81628 GGTCG GGTCG GGTCA GGTCAAC GGTCG GGTCG GGTC- GGTTG GGTCG GGTC-
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
*
81678 GGTTG GGTCG GGTC
1 GGTCG GGTCG GGTC
81692 AGACCGGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 6 0.12
5 38 0.79
7 4 0.08
ACGTcount: A:0.05, C:0.19, G:0.53, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:81649 original size:22 final size:22
Alignment explanation
Indices: 81621--81663 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
81611 AAAGGTCAAC
81621 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGTCA
81643 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
81664 GGTTGGGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCA
Found at i:81671 original size:14 final size:14
Alignment explanation
Indices: 81649--81691 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
81639 GTCAGGTCAA
*
81649 CGGTCGGGTCGGGT
1 CGGTTGGGTCGGGT
81663 CGGTTGGGTCGGGT
1 CGGTTGGGTCGGGT
81677 CGGTTGGGTCGGGT
1 CGGTTGGGTCGGGT
81691 C
1 C
81692 AGACCGGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.00, C:0.19, G:0.56, T:0.26
Consensus pattern (14 bp):
CGGTTGGGTCGGGT
Found at i:95732 original size:46 final size:46
Alignment explanation
Indices: 95664--95760 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
95654 GTTGGTGCAG
*
95664 GGGCATAGTGGGCGACAACATGGAGT-TGCTTGGTTAGTGGAGGCAA
1 GGGCATAGTGGGCGACAACATGG-GTCTGCTCGGTTAGTGGAGGCAA
* *
95710 GGGCATAGTGGGCGACATCATGGGTCTGCTCGGTTAGTGGAGGCAT
1 GGGCATAGTGGGCGACAACATGGGTCTGCTCGGTTAGTGGAGGCAA
95756 GGGCA
1 GGGCA
95761 CAAGATGGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 2 0.04
46 45 0.96
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (46 bp):
GGGCATAGTGGGCGACAACATGGGTCTGCTCGGTTAGTGGAGGCAA
Done.