Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_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: 2478687
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:739627 original size:22 final size:22
Alignment explanation
Indices: 739600--739641 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
739590 ATATGAAAGT
*
739600 TGTCCCTAAGGACCTATGAATA
1 TGTCCCGAAGGACCTATGAATA
739622 TGTCCCGAAGGACCTATGAA
1 TGTCCCGAAGGACCTATGAA
739642 ACCCTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGAATA
Found at i:744116 original size:23 final size:23
Alignment explanation
Indices: 744063--744126 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
744053 ACATCTTATA
* *
744063 TGGCACTTCGGTGTATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
** * *
744086 CAGAACTTAGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
744109 TGGCACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
744127 ATACTAGGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:750424 original size:35 final size:36
Alignment explanation
Indices: 750378--750448 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
750368 CTGTTCAAAG
750378 ATGGTATCGATACT-TTCCTT-AAGGTATCGGTACCC
1 ATGGTATCGATACTATT-CTTCAAGGTATCGGTACCC
* *
750413 ATGGTATCGATACTATTTTTCAGGGTATCGGTACCC
1 ATGGTATCGATACTATTCTTCAAGGTATCGGTACCC
750449 CTTAAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (36 bp):
ATGGTATCGATACTATTCTTCAAGGTATCGGTACCC
Found at i:756889 original size:36 final size:36
Alignment explanation
Indices: 756798--757063 Score: 166
Period size: 39 Copynumber: 7.1 Consensus size: 36
756788 CATTTAAACA
* * ** *
756798 TTTCTAAAA-TATATTTTATATATTTTCTAAAACGT
1 TTTCAAAAACTATATATTATATATTTTAAAAAATGT
756833 TTTC-AAAA-T-TATATTATATATATTTAAAAAATGT
1 TTTCAAAAACTATATATTATATAT-TTTAAAAAATGT
756867 TTTCAAAAAACTATATATTATATATTTTTCAAAAAATGT
1 TTTC-AAAAACTATATATTATATA-TTTT-AAAAAATGT
**** *
756906 TTTCAAAAACTATATATTATATATTTTTTTCAATTTTTTT
1 TTTCAAAAACTATATATTATATA---TTTT-AAAAAATGT
* ** *
756946 TTTCAAAAATTATATATTATATATATGTTTTCAAGATGT
1 TTTCAAAAACTATATA-T-TATATAT-TTTAAAAAATGT
* * *
756985 TTTCAAAATCTATATTATATATATATATATT-CAAAATAT
1 TTTCAAAAACTATA-TAT-TATATAT-T-TTAAAAAATGT
* * *
757024 TTTC-AAAACTATATAATATATATTTTCAAATATTGT
1 TTTCAAAAACTATATATTATATATTTT-AAAAAATGT
757060 TTTC
1 TTTC
757064 CAAACCATAT
Statistics
Matches: 187, Mismatches: 28, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
33 11 0.06
34 20 0.11
35 5 0.03
36 19 0.10
37 3 0.02
38 41 0.22
39 49 0.26
40 32 0.17
41 1 0.01
42 6 0.03
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (36 bp):
TTTCAAAAACTATATATTATATATTTTAAAAAATGT
Found at i:756901 original size:38 final size:37
Alignment explanation
Indices: 756798--757132 Score: 222
Period size: 38 Copynumber: 8.9 Consensus size: 37
756788 CATTTAAACA
* * * *
756798 TTTCTAAAA-TATATTTTATATA-TTTTCTAAAACGT
1 TTTCAAAAACTATATATTATATATTTTTCAAAAATGT
* *
756833 TTTC-AAAA-T-TATATTATATATATTTAAAAAATGT
1 TTTCAAAAACTATATATTATATATTTTTCAAAAATGT
756867 TTTCAAAAAACTATATATTATATATTTTTCAAAAAATGT
1 TTTC-AAAAACTATATATTATATATTTTTC-AAAAATGT
*** *
756906 TTTCAAAAACTATATATTATATATTTTTTTCAATTTTTTT
1 TTTCAAAAACTATATATTATATA--TTTTTCAA-AAATGT
* *
756946 TTTCAAAAATTATATATTATATATATGTTTTC-AAGATGT
1 TTTCAAAAACTATATA-T-TATATAT-TTTTCAAAAATGT
* * *
756985 TTTCAAAATCTATATTATATATATATATATTC-AAAATAT
1 TTTCAAAAACTATA-TAT-TATATAT-TTTTCAAAAATGT
* *
757024 TTTC-AAAACTATATAATATATA-TTTTCAAATATTGT
1 TTTCAAAAACTATATATTATATATTTTTCAAA-AATGT
* * * * *
757060 TTTC-CAAACCATATAATATGTATATTTTCGAAAATCGATT
1 TTTCAAAAACTATATATTATATAT-TTTTCAAAAAT-G--T
* * *
757100 TTTAAAAAAAGTATATATTATATGTTTTTCAAA
1 TTT-CAAAAACTATATATTATATATTTTTCAAA
757133 CCGTTTTCTA
Statistics
Matches: 238, Mismatches: 40, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
33 10 0.04
34 22 0.09
35 6 0.03
36 32 0.13
37 5 0.02
38 50 0.21
39 50 0.21
40 31 0.13
41 13 0.05
42 19 0.08
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTCAAAAACTATATATTATATATTTTTCAAAAATGT
Found at i:759663 original size:5 final size:5
Alignment explanation
Indices: 759653--760041 Score: 418
Period size: 5 Copynumber: 77.8 Consensus size: 5
759643 GATGTTTGTC
759653 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
759703 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
759753 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* * * * * * * * * *
759803 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* * * * * * * * * *
759853 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* * * * * * * * * *
759903 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGATA TGCTA TGCTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* * ** * * *
759953 TGCTA TGCTA TGTTA TGTTA TGTTA TGTTA TACTA TGCTA TGCTA TGCTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* * *
760003 TGATA TGCTA TGCTA TGTTA TGTTA TGTTA TGTTA TGTT
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTT
760042 GATATTCAGA
Statistics
Matches: 374, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 374 1.00
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.50
Consensus pattern (5 bp):
TGTTA
Found at i:766728 original size:31 final size:33
Alignment explanation
Indices: 766693--766753 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
766683 ATAATTAAAA
766693 TAAAAAAACAACA-AATAA-AAAA-TAAAAACTG
1 TAAAAAAACAACATAA-AATAAAACTAAAAACTG
766724 TAAAAAAACAACATAAAATAAAACTAAAAA
1 TAAAAAAACAACATAAAATAAAACTAAAAA
766754 TAAAATAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 15 0.56
32 6 0.22
33 6 0.22
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.13
Consensus pattern (33 bp):
TAAAAAAACAACATAAAATAAAACTAAAAACTG
Found at i:768391 original size:20 final size:20
Alignment explanation
Indices: 768354--768391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
768344 TGAGTGATGC
**
768354 ATTGCCCGAAGGTTTTATGG
1 ATTGCCCGAAGGACTTATGG
768374 ATTGCCCGAAGGACTTAT
1 ATTGCCCGAAGGACTTAT
768392 CATCTTGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
ATTGCCCGAAGGACTTATGG
Found at i:768480 original size:42 final size:40
Alignment explanation
Indices: 768368--768480 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 40
768358 CCCGAAGGTT
*
768368 TTATGGATTGCCCGAAGGACTTATCATCTTGCTCCAAAGAC
1 TTAT-GATTGCCCGAAGGACTTATCATCATGCTCCAAAGAC
* * * * * *
768409 TTATAAATGACCTGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTATGATTG-CCCGAAGGACTT-ATCATCATGCTCCAAAGAC
768451 TTACTGATTGCCCGAAGGACTTACTCATCA
1 TTA-TGATTGCCCGAAGGACTTA-TCATCA
768481 AGAAACCCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
40 3 0.05
41 15 0.27
42 34 0.61
43 4 0.07
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (40 bp):
TTATGATTGCCCGAAGGACTTATCATCATGCTCCAAAGAC
Found at i:768734 original size:42 final size:42
Alignment explanation
Indices: 768655--768734 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
768645 ATGGATGGCA
* *
768655 CGAAAGACTTATAGATGACCCGAATGATTTAGGCATCATGCT
1 CGAAAGACTTATAGATGACCCGAATGACTTACGCATCATGCT
*
768697 CGAAAGACTTACT-GAT-AGCCCGAATGACTTACTCATCA
1 CGAAAGACTTA-TAGATGA-CCCGAATGACTTACGCATCA
768735 AGAAACCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.03
42 31 0.94
43 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
CGAAAGACTTATAGATGACCCGAATGACTTACGCATCATGCT
Found at i:768883 original size:255 final size:254
Alignment explanation
Indices: 768403--768921 Score: 858
Period size: 254 Copynumber: 2.0 Consensus size: 254
768393 ATCTTGCTCC
* *
768403 AAAGACTTATAAATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATTGCCCGAAG
1 AAAGACTTATAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCGAAG
* * *
768468 GACTTACTCATCAAGAAACCCTTGAAAATCAAGTTTAGTTTCTTAGTTGTCAATGAACCCCTAAA
66 GACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAA
* *
768533 ATTAGGCTTAGCTTCCTTTTTTAAAAACTCTTTGGAGATAATCATTAAGAAACCCCTGAAAATTA
131 ATTAGGCTTAGCTTCCTTTTTTAAAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCA
* *
768598 GGCTTAGTTTCTATATCTCATTTGAAATCATCCTGCCCGAAGGTCTTATGGATGGCACG
196 GGCTTAGTTTCTAAAACTCATTTGAAATCATCCTGCCCGAAGGTCTTATGGATGGCACG
* * * *
768657 AAAGACTTATAGATGACCCGAATGATTTAGGCATCATGCTCGAAAGACTTACTGATAGCCCGAAT
1 AAAGACTTATAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCGAAG
*
768722 GACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCTCTAAA
66 GACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAA
*
768787 ATTAGGCTTAGCTTCCTTTTTTTAAAAACTCTTTGGAGATAATTATCAAGAAACCCCTGAAAATC
131 ATTAGGCTTAGCTTCC-TTTTTTAAAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATC
* * *
768852 AGTCTTAGTTTCTAAAACTCATTTGAAATCATTCTGCCCGAAGGTCTTATGGATGGCCCG
195 AGGCTTAGTTTCTAAAACTCATTTGAAATCATCCTGCCCGAAGGTCTTATGGATGGCACG
*
768912 AAGGACTTAT
1 AAAGACTTAT
768922 CATCTTGCTC
Statistics
Matches: 245, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
254 136 0.56
255 109 0.44
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (254 bp):
AAAGACTTATAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCGAAG
GACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAA
ATTAGGCTTAGCTTCCTTTTTTAAAAACTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCA
GGCTTAGTTTCTAAAACTCATTTGAAATCATCCTGCCCGAAGGTCTTATGGATGGCACG
Found at i:768999 original size:42 final size:42
Alignment explanation
Indices: 768953--769045 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
768943 AGATGACCCA
* *
768953 AAGGATTTAAGCATCATGCTCAAAAGACTTCCTGATAGCCCG
1 AAGGATTTAAGCATCACGCTCAAAAGACTTACTGATAGCCCG
* * ** *
768995 AAGGACTTACGCATCACGCTTGAAAGACTTACTGATGGCCCG
1 AAGGATTTAAGCATCACGCTCAAAAGACTTACTGATAGCCCG
*
769037 AAGAATTTA
1 AAGGATTTA
769046 CTCATTAAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
AAGGATTTAAGCATCACGCTCAAAAGACTTACTGATAGCCCG
Found at i:769297 original size:98 final size:98
Alignment explanation
Indices: 769047--769376 Score: 423
Period size: 98 Copynumber: 3.4 Consensus size: 98
769037 AAGAATTTAC
* * * * *
769047 TCATTAAGAAACCCTTCAAAATCAAGCTTAGTTTCTTAATTGTCAAGGAACCCCTAAAACTTAGG
1 TCATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* * **
769112 CTTAGCTTCCTTTTAAAATCTCATTGAAAATAA
66 CTTAACTTCCTTTTAAAAACTCATTGAAAATCT
* * * **
769145 TCA-TAA-AAAACCCTGAAAATCAGGATTAGTTTCTTAGTTGCCAAAAAACCCCTAAAAATTAGG
1 TCATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
*
769208 CTTAACATCCTTTTAAAAACTCATTGAAAATCT
66 CTTAACTTCCTTTTAAAAACTCATTGAAAATCT
* * * *
769241 TCATCAAGAAACCCCTGAAAATCATGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAAAATTAAG
1 TCATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* * *
769306 CTTAGA-TTCCTTTAAAAAATTAATTGAAAATCT
66 CTTA-ACTTCCTTTTAAAAACTCATTGAAAATCT
*
769339 TCATTAAGAAACCCCTGAAAATCAGGCATAGTTTCTTA
1 TCATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTA
769377 AAATCTTTTG
Statistics
Matches: 198, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
96 78 0.39
97 5 0.03
98 114 0.58
99 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (98 bp):
TCATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
CTTAACTTCCTTTTAAAAACTCATTGAAAATCT
Found at i:769482 original size:39 final size:39
Alignment explanation
Indices: 769375--769494 Score: 145
Period size: 38 Copynumber: 3.1 Consensus size: 39
769365 CATAGTTTCT
*
769375 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGG
1 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGA
* * * *
769414 T-AAATCTTCTGTTTCGAGTGAAACCATCTCGAGCGAGA
1 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGA
* * * *
769452 TAAAATATTTTGTTTTGAGGGAAACTATCTCAAGCCAGA
1 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGA
769491 -AAAA
1 TAAAA
769495 CAATCTTGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 37 0.54
39 31 0.46
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (39 bp):
TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGA
Found at i:770765 original size:17 final size:16
Alignment explanation
Indices: 770737--770799 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
770727 TATTTCTTTG
770737 TTTTTCTTTCTTTCTT
1 TTTTTCTTTCTTTCTT
770753 TTTTTCTTCTCTTTGCTT
1 TTTTTCTT-TCTTT-CTT
*
770771 TTTCTT-TTT-TTTCTC
1 TTT-TTCTTTCTTTCTT
770786 TTTTTCTTTTCTTT
1 TTTTTC-TTTCTTT
770800 TATCCTCGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
14 2 0.05
15 5 0.12
16 14 0.35
17 9 0.22
18 8 0.20
19 2 0.05
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTCTTTCTT
Found at i:770776 original size:11 final size:10
Alignment explanation
Indices: 770729--770800 Score: 55
Period size: 11 Copynumber: 7.2 Consensus size: 10
770719 TTGTCCTCTA
*
770729 TTTCTTTGTT
1 TTTCTTTCTT
770739 TTTCTTTCTT
1 TTTCTTTCTT
770749 TCTT-TTT-TT
1 T-TTCTTTCTT
770758 CTTCTCTTTGCTT
1 -TT-TCTTT-CTT
770771 TTTCTTT-TT
1 TTTCTTTCTT
770780 TTTC--TCTT
1 TTTCTTTCTT
770788 TTTCTTTTCTT
1 TTTC-TTTCTT
770799 TT
1 TT
770801 ATCCTCGCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 19
0.72 0.01 0.27
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
9 9 0.18
10 15 0.29
11 16 0.31
12 2 0.04
13 2 0.04
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:770778 original size:22 final size:20
Alignment explanation
Indices: 770729--770800 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 20
770719 TTGTCCTCTA
770729 TTTCTTTGTTTT-TCTTTCTT
1 TTTCTTT-TTTTCTCTTTCTT
770749 TCTT-TTTTTCTTCTCTTTGCTT
1 T-TTCTTTTT-TTCTCTTT-CTT
*
770771 TTTCTTTTTTTTCTCTTTTTCT
1 TTTC-TTTTTTTCTCTTTCT-T
770793 TTTCTTTT
1 TTTCTTTT
770801 ATCCTCGCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 14 0.32
22 17 0.39
23 5 0.11
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTTTCTCTTTCTT
Found at i:770790 original size:33 final size:31
Alignment explanation
Indices: 770731--770799 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 31
770721 GTCCTCTATT
*
770731 TCTTTGTTTTTCTTTCTTTCTTTTTTTCTTC
1 TCTTTGTTTTTCTTTCTTTCTCTTTTTCTTC
* *
770762 TCTTTGCTTTTTCTTTTTTTTCTCTTTTTCTTT
1 TCTTTG-TTTTTC-TTTCTTTCTCTTTTTCTTC
770795 TCTTT
1 TCTTT
770800 TATCCTCGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 6 0.18
32 6 0.18
33 21 0.64
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (31 bp):
TCTTTGTTTTTCTTTCTTTCTCTTTTTCTTC
Found at i:772501 original size:149 final size:149
Alignment explanation
Indices: 772209--772491 Score: 408
Period size: 149 Copynumber: 1.9 Consensus size: 149
772199 CTAATTTATC
* * ** **
772209 TCCTACTTTCAGATATCTTTCGAACTGGTTTGTGATCTTCAACTGTTGGCTTTGGCGTTGAATCG
1 TCCTACTTTCAGAAATCTTTCGAACTGGTTCGTGATCTTCAACTGTTGGCTTCAGCGTCAAATCG
* * *
772274 TCTCGAGTCCAACTTGTTACCTCAGCAGGTAAATGTCTGGATCTTTTCCTTGGTAGATAGACTCC
66 TCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGATCGTCTCCTTGGTAGATAGACTCC
772339 CTCTAGCTCCTACTTCATT
131 CTCTAGCTCCTACTTCATT
* * * *
772358 TCCTACTTTCATAAATCTTTTGAGCTGGTTCGTGATCTTCAACTGTTGGCTTCAGCGTCAAATTG
1 TCCTACTTTCAGAAATCTTTCGAACTGGTTCGTGATCTTCAACTGTTGGCTTCAGCGTCAAATCG
*
772423 TCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGCA-CGTCTCCTTGGTA-AGTAGGCT
66 TCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGG-ATCGTCTCCTTGGTAGA-TAGACT
772486 CCCTCT
129 CCCTCT
772492 TGACGCTACT
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
148 1 0.01
149 116 0.98
150 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (149 bp):
TCCTACTTTCAGAAATCTTTCGAACTGGTTCGTGATCTTCAACTGTTGGCTTCAGCGTCAAATCG
TCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGATCGTCTCCTTGGTAGATAGACTCC
CTCTAGCTCCTACTTCATT
Found at i:774607 original size:29 final size:32
Alignment explanation
Indices: 774575--774646 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 32
774565 ATTAAAACAT
774575 AATAAAAATAATAAAAA-CAAC--A-AATAAAA
1 AATAAAAATAATAAAAACCAACATAGAAT-AAA
*
774604 AATAAAAATAGTAAAAACCAACATAGAATAAA
1 AATAAAAATAATAAAAACCAACATAGAATAAA
774636 AATAAAAATAA
1 AATAAAAATAA
774647 AATATGAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.43
30 4 0.11
32 14 0.38
33 3 0.08
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (32 bp):
AATAAAAATAATAAAAACCAACATAGAATAAA
Found at i:774832 original size:22 final size:22
Alignment explanation
Indices: 774807--774893 Score: 54
Period size: 22 Copynumber: 3.7 Consensus size: 22
774797 AGTTAGTAAA
774807 TAAATCAGAAATAAATAGTGAC
1 TAAATCAGAAATAAATAGTGAC
*
774829 TAAAATGCAAAAAATAAAATAACAGT-AGC
1 T-AAAT-C-AGAAAT-AAAT---AGTGA-C
774858 TAAATCAGAAACT-AATAGTGAC
1 TAAATCAGAAA-TAAATAGTGAC
*
774880 TAAATTA-AAATAAA
1 TAAATCAGAAATAAA
774894 ACAAAACAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 23
0.66 0.04 0.30
Matches are distributed among these distances:
20 1 0.02
21 5 0.10
22 11 0.22
23 5 0.10
24 1 0.02
25 8 0.16
26 8 0.16
27 2 0.04
28 5 0.10
29 5 0.10
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (22 bp):
TAAATCAGAAATAAATAGTGAC
Found at i:774862 original size:51 final size:51
Alignment explanation
Indices: 774765--774883 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
774755 AAATAAAATA
* * *
774765 AAATAAA-AATGACTAAAATTCAAGAAAATAAAAGTTAGTAAATAAATCAG
1 AAATAAATAGTGACTAAAATGCAAGAAAATAAAAGTCAGTAAATAAATCAG
**
774815 AAATAAATAGTGACTAAAATGCAA-AAAATAAAA-TAACAGTAGCTAAATCAG
1 AAATAAATAGTGACTAAAATGCAAGAAAATAAAAGT--CAGTAAATAAATCAG
774866 AAACT-AATAGTGACTAAA
1 AAA-TAAATAGTGACTAAA
774884 TTAAAATAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 1 0.02
50 16 0.27
51 42 0.70
52 1 0.02
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (51 bp):
AAATAAATAGTGACTAAAATGCAAGAAAATAAAAGTCAGTAAATAAATCAG
Found at i:776908 original size:19 final size:20
Alignment explanation
Indices: 776876--776916 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
776866 AGATAAACAA
*
776876 AAACAACGGTAAAAAACCAT
1 AAACAACGGAAAAAAACCAT
776896 AAACAAC-GAAAAAAACCAT
1 AAACAACGGAAAAAAACCAT
776915 AA
1 AA
776917 GATACCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (20 bp):
AAACAACGGAAAAAAACCAT
Found at i:776955 original size:23 final size:23
Alignment explanation
Indices: 776924--776993 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
776914 TAAGATACCA
*
776924 AAAGTCAGAGAAAAACATGTCAC
1 AAAGGCAGAGAAAAACATGTCAC
* *
776947 AAAGGCAGAGATAAAA-ATATCAT
1 AAAGGCAGAGA-AAAACATGTCAC
776970 AAAGGCAGAG---AACATGTCAC
1 AAAGGCAGAGAAAAACATGTCAC
776990 AAAG
1 AAAG
776994 ACATAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
23 25 0.62
24 4 0.10
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.13
Consensus pattern (23 bp):
AAAGGCAGAGAAAAACATGTCAC
Found at i:780197 original size:17 final size:17
Alignment explanation
Indices: 780166--780198 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
780156 TAATATTTTA
780166 ATATATAAAATTAAATT
1 ATATATAAAATTAAATT
780183 ATATA-AAAATATAAAT
1 ATATATAAAAT-TAAAT
780199 GATAAATATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATATAAAATTAAATT
Found at i:785905 original size:21 final size:21
Alignment explanation
Indices: 785879--785920 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
785869 CTTTTCTGAG
785879 TTAGATTTATCACACACCGGA
1 TTAGATTTATCACACACCGGA
785900 TTAGATTTATCACACACCGGA
1 TTAGATTTATCACACACCGGA
785921 ATCGAAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
TTAGATTTATCACACACCGGA
Found at i:786186 original size:12 final size:12
Alignment explanation
Indices: 786168--786197 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
786158 TGTTCTTTAC
786168 ATGATGGTGATG
1 ATGATGGTGATG
*
786180 GTGATGGTGATG
1 ATGATGGTGATG
786192 ATGATG
1 ATGATG
786198 CTCCGGATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (12 bp):
ATGATGGTGATG
Found at i:788839 original size:6 final size:6
Alignment explanation
Indices: 788828--788854 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
788818 AACCCATACA
788828 TGCCAG TGCCAG TGCCAG TGCCAG TGC
1 TGCCAG TGCCAG TGCCAG TGCCAG TGC
788855 TATTGGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (6 bp):
TGCCAG
Found at i:796694 original size:26 final size:26
Alignment explanation
Indices: 796662--796722 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
796652 CCGGTTGGGT
796662 TCGGGTCGGATAAAATTTTAATTTGG
1 TCGGGTCGGATAAAATTTTAATTTGG
* *
796688 TCGGGTCGGGTGAAATTTTAATTTGG
1 TCGGGTCGGATAAAATTTTAATTTGG
*
796714 TCAGGTCGG
1 TCGGGTCGG
796723 GTCACAGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (26 bp):
TCGGGTCGGATAAAATTTTAATTTGG
Found at i:796757 original size:34 final size:34
Alignment explanation
Indices: 796714--796793 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
796704 TTTAATTTGG
*
796714 TCAGGTCGGGTCACAGGTGGGGGACCCCTTGTTC
1 TCAGGTCGGGTCACAGGTGGAGGACCCCTTGTTC
* *
796748 TCAGGTCGGGTCACGGGTGGAGGACCCTTTGTTC
1 TCAGGTCGGGTCACAGGTGGAGGACCCCTTGTTC
* *
796782 TCGGGTCCGGTC
1 TCAGGTCGGGTC
796794 GGGTGGACCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.25
Consensus pattern (34 bp):
TCAGGTCGGGTCACAGGTGGAGGACCCCTTGTTC
Found at i:797215 original size:21 final size:21
Alignment explanation
Indices: 797191--797230 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
797181 TCAAATAAAT
*
797191 GCTTCATTGCATCAATGAAAG
1 GCTTCATTGCAACAATGAAAG
**
797212 GCTTTGTTGCAACAATGAA
1 GCTTCATTGCAACAATGAA
797231 GTCAGTCCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
GCTTCATTGCAACAATGAAAG
Found at i:800642 original size:22 final size:23
Alignment explanation
Indices: 800610--800654 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
800600 TGAACGTTAC
800610 ATTTATATAGCT-ATTAAAAAAT
1 ATTTATATAGCTAATTAAAAAAT
* *
800632 ATTTATTTAGCTAATTAATAAAT
1 ATTTATATAGCTAATTAAAAAAT
800655 TGTTCAACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTTATATAGCTAATTAAAAAAT
Found at i:803943 original size:54 final size:56
Alignment explanation
Indices: 803841--804004 Score: 188
Period size: 54 Copynumber: 3.0 Consensus size: 56
803831 GGTGGCCTTG
* * * * * * *
803841 GCAAGCCTGATACTCTATTTTGAACCTCCATGTCGGACACTTGCACCAATGTCTTA
1 GCAAACCTGATACTCTGTCTTGAACCTCCCTATCAGAAACTTGCACCAATGTCTTA
* *
803897 GCAAACCTGATACTCTGTCTTG-A-CTCTCTATCAGAAACTTGCACCAATGTCTTG
1 GCAAACCTGATACTCTGTCTTGAACCTCCCTATCAGAAACTTGCACCAATGTCTTA
* * * * *
803951 GCAAGCCTGATACTTTGTCTTGAACCTCCCTGTCGGACACTTGCACCAATGTCT
1 GCAAACCTGATACTCTGTCTTGAACCTCCCTATCAGAAACTTGCACCAATGTCT
804005 CAGACTCAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
54 45 0.49
55 2 0.02
56 44 0.48
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (56 bp):
GCAAACCTGATACTCTGTCTTGAACCTCCCTATCAGAAACTTGCACCAATGTCTTA
Found at i:808008 original size:54 final size:56
Alignment explanation
Indices: 807877--808044 Score: 214
Period size: 56 Copynumber: 3.0 Consensus size: 56
807867 GTCTGGTGGC
* * * * * *
807877 CTTGGCAAGCCCGATACTCTATCTTGATCCTCCTTGTCAGACACTTGCACCAATGT
1 CTTGGCAAACCCAATACTCTGTCTTAAACCTCCCTGTCAGACACTTGCACCAATGT
* * * **
807933 CTTGGCAAGCCCGATACTCTGTCTT-GA-CTCCCTGTGGGACACTTGCACCAATGT
1 CTTGGCAAACCCAATACTCTGTCTTAAACCTCCCTGTCAGACACTTGCACCAATGT
*
807987 CTTGGCAAACCCAATATTCTGTCTTAAACCTCCCTGTCAGACACTTGCACCAATGT
1 CTTGGCAAACCCAATACTCTGTCTTAAACCTCCCTGTCAGACACTTGCACCAATGT
808043 CT
1 CT
808045 CGGACCCAAG
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
54 46 0.47
55 1 0.01
56 51 0.52
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (56 bp):
CTTGGCAAACCCAATACTCTGTCTTAAACCTCCCTGTCAGACACTTGCACCAATGT
Found at i:808808 original size:17 final size:17
Alignment explanation
Indices: 808786--808835 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
808776 AACAATGGTC
808786 CAAATCAATCCTTTTCG
1 CAAATCAATCCTTTTCG
808803 CAAATCAATCCTTTTCG
1 CAAATCAATCCTTTTCG
*
808820 CAAATCACTCCTTTTC
1 CAAATCAATCCTTTTC
808836 CTCACCGTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.28, C:0.32, G:0.04, T:0.36
Consensus pattern (17 bp):
CAAATCAATCCTTTTCG
Found at i:813792 original size:12 final size:12
Alignment explanation
Indices: 813775--813805 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
813765 CTGGAGAGAG
813775 CCGCCATAAGAC
1 CCGCCATAAGAC
813787 CCGCCATAAGAC
1 CCGCCATAAGAC
813799 CCGCCAT
1 CCGCCAT
813806 GGTCTTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.45, G:0.16, T:0.10
Consensus pattern (12 bp):
CCGCCATAAGAC
Found at i:822214 original size:41 final size:41
Alignment explanation
Indices: 822159--822359 Score: 282
Period size: 41 Copynumber: 4.9 Consensus size: 41
822149 ATTTATTCCT
* *
822159 CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
* *
822200 CAAACGCCGCAATAGTGTTAGTCAATAATGGCATTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
* *
822241 AAAACACCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
**
822282 CAAACGCCATAATAGTGTTAATCAATAGTGGCATTTTTTA-A
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCA-TTTTTAGA
*
822323 CAAACGCCAG-AATAGTG-TAATCAATAGTGGCGTTTTT
1 CAAACGCC-GCAATAGTGTTAATCAATAGTGGCATTTTT
822360 TTTTTGTATA
Statistics
Matches: 144, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
39 5 0.03
40 14 0.10
41 119 0.83
42 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (41 bp):
CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
Found at i:823148 original size:41 final size:43
Alignment explanation
Indices: 823055--823153 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 43
823045 AATATTTATA
* * * *
823055 CCTTAGTGGTGTTTTTTGATACAAACGCCGTAATAGAGTTGTT
1 CCTTAGTGGCGTTTTTTGATACAAACGCCATAATAGAATAGTT
* *
823098 -ATTAGGTGGCGTTTTTT-A-ATAAACGCCATAATAGAATAGTT
1 CCTTA-GTGGCGTTTTTTGATACAAACGCCATAATAGAATAGTT
*
823139 CCTTAGTGGCATTTT
1 CCTTAGTGGCGTTTT
823154 CGTAAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
41 28 0.61
42 7 0.15
43 11 0.24
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (43 bp):
CCTTAGTGGCGTTTTTTGATACAAACGCCATAATAGAATAGTT
Found at i:823441 original size:18 final size:18
Alignment explanation
Indices: 823408--823461 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
823398 GTTCCTAACA
*
823408 TTCTCTACCAGCGCAACC
1 TTCTCCACCAGCGCAACC
* * *
823426 TTCTCCAGCAGTGCAAGC
1 TTCTCCACCAGCGCAACC
823444 TTCTCCACCAGCGCAACC
1 TTCTCCACCAGCGCAACC
823462 ACCACCAGCG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (18 bp):
TTCTCCACCAGCGCAACC
Found at i:832447 original size:43 final size:43
Alignment explanation
Indices: 832386--832755 Score: 325
Period size: 43 Copynumber: 8.7 Consensus size: 43
832376 TGTTTTTAGC
* *
832386 AAAAATGCCGCAAAACATCAATACCTATTGCGGCGTTTATGAG
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * * *
832429 AAAAACGCCGCAAAACATCAAAACCTACTGCGGCATTTATG-G
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * *
832471 GAAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAG
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * * *
832514 AAAAACGCTGCAAAACATCAAAACCTACTGCGGCGTTTGTGTG
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * * * *
832557 -AAAACGCCGTAAAACAGCAACACCTACTACGGCGTTTGTGAG
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * * *
832599 AAAAACGCCCCTAAACATC-ATAACCTATTACGGCGTTTGTCTA-
1 AAAAACGCCGCAAAACATCAAT-ACCTATTGCGGCGTTTGT-GAG
** * * * ** * **
832642 AAAAACATCGCTAAATATCAACACCTATTGCGGTATTTTTCTG
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * * * * *
832685 AAAAACGCCGCTAAATATCAACACCTATTGCGACGTTTGTTAC
1 AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
* * *
832728 ATAAACGCCGCTAAATATCAATACCTAT
1 AAAAACGCCGCAAAACATCAATACCTAT
832756 GCGTTTTTTA
Statistics
Matches: 274, Mismatches: 47, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
42 76 0.28
43 196 0.72
44 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCAAAACATCAATACCTATTGCGGCGTTTGTGAG
Found at i:832633 original size:85 final size:85
Alignment explanation
Indices: 832387--832638 Score: 360
Period size: 85 Copynumber: 3.0 Consensus size: 85
832377 GTTTTTAGCA
* *
832387 AAAATGCCGCAAAACATCAATACCTATTGCGGCGTTTATGAGAAAAACGCCGCAAAACATCAAAA
1 AAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAGAAAAACGCCGCAAAACATCAAAA
* *
832452 CCTACTGCGGCATTTATGGG
66 CCTACTGCGGCGTTTGTGGG
*
832472 AAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAGAAAAACGCTGCAAAACATCAAAA
1 AAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAGAAAAACGCCGCAAAACATCAAAA
*
832537 CCTACTGCGGCGTTTGTGTG
66 CCTACTGCGGCGTTTGTGGG
* * * * * * * *
832557 AAAACGCCGTAAAACAGCAACACCTACTACGGCGTTTGTGAGAAAAACGCCCCTAAACATCATAA
1 AAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAGAAAAACGCCGCAAAACATCAAAA
* *
832622 CCTATTACGGCGTTTGT
66 CCTACTGCGGCGTTTGT
832639 CTAAAAAACA
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 150 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (85 bp):
AAAACGCCGCAAAACATCAATACCTACTGCGGCGTTTATGAGAAAAACGCCGCAAAACATCAAAA
CCTACTGCGGCGTTTGTGGG
Found at i:837887 original size:22 final size:22
Alignment explanation
Indices: 837846--837913 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
837836 CTCGTATAAA
837846 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
837869 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
837891 TGCACCAAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
837913 T
1 T
837914 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 32 0.73
23 12 0.27
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:838172 original size:30 final size:30
Alignment explanation
Indices: 838127--838185 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
838117 ATCGCGTAGT
* *
838127 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
838157 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
838186 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:838638 original size:67 final size:67
Alignment explanation
Indices: 838528--838702 Score: 210
Period size: 67 Copynumber: 2.6 Consensus size: 67
838518 TTTTTCTCAT
* * *
838528 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCTAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCAT-TACG
*
838593 ATGA-
63 ATAAG
* * *
838597 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTA
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCATTACGATA
838662 AG
66 AG
* *
838664 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
838703 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
66 11 0.12
67 55 0.59
68 16 0.17
69 12 0.13
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCATTACGATA
AG
Found at i:844778 original size:22 final size:22
Alignment explanation
Indices: 844737--844804 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
844727 CTCGTATAAA
844737 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
844760 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
844782 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
844804 T
1 T
844805 ATGCCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:845063 original size:30 final size:30
Alignment explanation
Indices: 845018--845076 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
845008 ATCGCGTAGT
* *
845018 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
845048 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
845077 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:845532 original size:66 final size:66
Alignment explanation
Indices: 845416--845587 Score: 206
Period size: 66 Copynumber: 2.6 Consensus size: 66
845406 TTTTTCTCAT
* * *
845416 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTCTAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCAT-TACG
845480 ATGA
63 ATGA
* * *
845484 -GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCATTACGATG
845548 A
66 A
* *
845549 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
845588 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
65 19 0.21
66 46 0.50
67 27 0.29
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCAATCTGGAAATTCATTACGATG
A
Found at i:849632 original size:37 final size:37
Alignment explanation
Indices: 849583--849759 Score: 142
Period size: 37 Copynumber: 5.0 Consensus size: 37
849573 GTTTTTTTTG
* *
849583 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
849620 TGTTTCAAGAGAAACATAT-TC-A-A-AG-----ATTGG
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT-T
*
849650 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
849686 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * *
849723 TG-TTCTAAAAGAAATTATCTCAAGGGAGACGAAATTT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATTT
849760 GTTCAAAGAT
Statistics
Matches: 114, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
29 5 0.04
30 16 0.14
31 1 0.01
32 1 0.01
33 2 0.02
34 2 0.02
36 38 0.33
37 46 0.40
38 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:849697 original size:36 final size:36
Alignment explanation
Indices: 849650--849762 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 36
849640 CAAAGATTGG
849650 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
849686 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
** * * * *
849723 TG-TTCTAAAAGAAATTATCTCAAGGGAGACGAAATT
1 TGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAATT
849759 TGTT
1 TGTT
849763 CAAAGATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
36 41 0.60
37 27 0.40
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:850447 original size:106 final size:106
Alignment explanation
Indices: 850259--850627 Score: 531
Period size: 106 Copynumber: 3.5 Consensus size: 106
850249 GTATTACTCC
* * * * * *
850259 GAGTCCAATATCCTCCATCGTGAAGTTGAAATTGTCTCTGGAACTGGGGAAATTGTTTGTTGATA
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGACA
* *
850324 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 GTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * * * *
850366 GAGTCCAATATTCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGACATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAG
*
850431 TCAGTCGCCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTT
66 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * * * *
850472 AAGTCTAATATCCTTCACTGTGAAGTTGAAATTGTCTCTGAAATTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAG
* *
850537 TCAGTCGCCCCTTCTCTGTGAAGTTGAGCTTTTGTTGTCTT
66 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
*
850578 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
850628 GCCCCTTCGT
Statistics
Matches: 230, Mismatches: 32, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
106 197 0.86
107 33 0.14
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (106 bp):
GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAG
TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:854601 original size:19 final size:19
Alignment explanation
Indices: 854577--854617 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
854567 GTTAAATAAG
*
854577 AAATAATAAA-TAAATATTA
1 AAATAAAAAATTAAAT-TTA
854596 AAATAAAAAATTAAATTTA
1 AAATAAAAAATTAAATTTA
854615 AAA
1 AAA
854618 ACGAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATAAAAAATTAAATTTA
Found at i:856033 original size:39 final size:38
Alignment explanation
Indices: 855980--856055 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
855970 GGCCTACAAA
*
855980 AAATAAAAATATAATA-ATATAATAATAAATAAAATAAAT
1 AAATAAAAATATAATACA-ATAAAAATAAA-AAAATAAAT
*
856019 AAATAAATAA-ATAATACAATAAAAATAAAAATATAAA
1 AAATAAA-AATATAATACAATAAAAATAAAAAAATAAA
856056 ACCCGGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 7 0.21
39 23 0.70
40 3 0.09
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (38 bp):
AAATAAAAATATAATACAATAAAAATAAAAAAATAAAT
Found at i:856991 original size:157 final size:158
Alignment explanation
Indices: 856677--857021 Score: 446
Period size: 157 Copynumber: 2.2 Consensus size: 158
856667 TGTGGTATAT
** **
856677 GAGCATGTGGTTCAAATTTGGTAAAAAAAATGACTTAAAATAAATCACAAATTGAAGGAATAAGG
1 GAGCATGTGACTCAAATTTGGTAAAAAAAATGACTTAAAATAAATCACAAATTGAAAAAATAAGG
* * **
856742 AGATTATAAATAATTGAAGGACTAAACTGAAAAATAAAAAAATGTTATCGAAAAGAGTTATTGAA
66 AGATTATAAATAATTAAAGGACTAAACTGAAAAATAAAAAAATGTTATCAAAAAGAGAAATTGAA
* * *
856807 AGTACACATGTATTCTAGTATGGTTTAG
131 AGTACAAATGTATTATAGTATGATTTAG
* * * *
856835 GAGCATGTGACTCATATTTGGTAAAAAGAA-GACTTAAAATAAATGACGAATTGAAAAAATAAGG
1 GAGCATGTGACTCAAATTTGGTAAAAAAAATGACTTAAAATAAATCACAAATTGAAAAAATAAGG
* * *
856899 AGATTGTGAAA-AATTAAAGGGCTAAATTGAAAAATAAAAAAATTGTTATCAAAAAGAGAAATTG
66 AGATTAT-AAATAATTAAAGGACTAAACTGAAAAATAAAAAAA-TGTTATCAAAAAGAGAAATTG
856963 AAAGTACAAATGTATTATA-TATGATTTAG
129 AAAGTACAAATGTATTATAGTATGATTTAG
* * *
856992 GAGAATAT-AGTTCAAATTTGGTAAAAAAAA
1 GAGCATGTGA-CTCAAATTTGGTAAAAAAAA
857022 ATGAACTTCA
Statistics
Matches: 161, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
156 1 0.01
157 96 0.60
158 64 0.40
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (158 bp):
GAGCATGTGACTCAAATTTGGTAAAAAAAATGACTTAAAATAAATCACAAATTGAAAAAATAAGG
AGATTATAAATAATTAAAGGACTAAACTGAAAAATAAAAAAATGTTATCAAAAAGAGAAATTGAA
AGTACAAATGTATTATAGTATGATTTAG
Found at i:857823 original size:30 final size:30
Alignment explanation
Indices: 857778--857856 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
857768 TTTAAATGTC
* *
857778 TTCGTGTTAGTTTATTTATTTTTGAAGGTA
1 TTCGTGTTCGTTTATTTAATTTTGAAGGTA
* * *
857808 TTCTTGTTCGTTTATTTAATTTTGGAGGTG
1 TTCGTGTTCGTTTATTTAATTTTGAAGGTA
857838 TTCGTGTTCGTTTATTTAA
1 TTCGTGTTCGTTTATTTAA
857857 CGTTCGTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.57
Consensus pattern (30 bp):
TTCGTGTTCGTTTATTTAATTTTGAAGGTA
Found at i:860006 original size:128 final size:128
Alignment explanation
Indices: 859813--860070 Score: 507
Period size: 128 Copynumber: 2.0 Consensus size: 128
859803 TCTTGAATTT
859813 AAGTAATTATGTCAGTTGGGTGTGCATTATAAATGATTTTTTTTTTGTTCGGCAAAATAAAAAAA
1 AAGTAATTATGTCAGTTGGGTGTGCATTATAAATGATTTTTTTTTTGTTCGGCAAAATAAAAAAA
859878 AATTATTGTGGAAACCTAATTTAAGAGTCTTATTAAAAAAAATCCCTAAATCTAAGTGGATGA
66 AATTATTGTGGAAACCTAATTTAAGAGTCTTATTAAAAAAAATCCCTAAATCTAAGTGGATGA
*
859941 AAGTAATTATGTCAGTTGGGTGTGCATTATAAATGATTTTTTTTTTGTTCGGCAAAATTAAAAAA
1 AAGTAATTATGTCAGTTGGGTGTGCATTATAAATGATTTTTTTTTTGTTCGGCAAAATAAAAAAA
860006 AATTATTGTGGAAACCTAATTTAAGAGTCTTATTAAAAAAAATCCCTAAATCTAAGTGGATGA
66 AATTATTGTGGAAACCTAATTTAAGAGTCTTATTAAAAAAAATCCCTAAATCTAAGTGGATGA
860069 AA
1 AA
860071 ATAGTACTCT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (128 bp):
AAGTAATTATGTCAGTTGGGTGTGCATTATAAATGATTTTTTTTTTGTTCGGCAAAATAAAAAAA
AATTATTGTGGAAACCTAATTTAAGAGTCTTATTAAAAAAAATCCCTAAATCTAAGTGGATGA
Found at i:861627 original size:3 final size:3
Alignment explanation
Indices: 861619--861689 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
861609 TTTACTTAAT
** * * *
861619 TTA TTA TTA TTA AAA TTA TTA GTA TTA TTA TAA ATA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
861666 TTA -TA TATA TTA TTA ATA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
861690 AATTAAATAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:862980 original size:2 final size:2
Alignment explanation
Indices: 862968--863002 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
862958 TTATTATTTT
* *
862968 TA TA TA AA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
863003 TGGTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:865758 original size:9 final size:9
Alignment explanation
Indices: 865744--865783 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
865734 AGGGCTGGAA
*
865744 ACCGGTTTG
1 ACCGGTCTG
865753 ACCGGTCTG
1 ACCGGTCTG
*
865762 AACCGGTTTG
1 -ACCGGTCTG
865772 ACCGGTCTG
1 ACCGGTCTG
865781 ACC
1 ACC
865784 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:865767 original size:19 final size:19
Alignment explanation
Indices: 865743--865781 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
865733 GAGGGCTGGA
865743 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
865762 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
865781 A
1 A
865782 CCCGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:872329 original size:17 final size:17
Alignment explanation
Indices: 872307--872345 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
872297 CCGACCCGAC
872307 TGACCCAACCCAACCGT
1 TGACCCAACCCAACCGT
* **
872324 TGACCCGACCTGACCGT
1 TGACCCAACCCAACCGT
872341 TGACC
1 TGACC
872346 GTTGACTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.44, G:0.18, T:0.15
Consensus pattern (17 bp):
TGACCCAACCCAACCGT
Found at i:872549 original size:61 final size:61
Alignment explanation
Indices: 872454--872577 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
872444 CGACGTCCTG
872454 AATCCGTTTCCGAAGTCCGTTTTGTCAAATTTGAACCCGAAGGCCTCCAAATTGACGGTCA
1 AATCCGTTTCCGAAGTCCGTTTTGTCAAATTTGAACCCGAAGGCCTCCAAATTGACGGTCA
872515 AATCCGTTTCCGAAGTCCGTTTTGTCAAATTTGAACCCGAAGGCCTCCAAATTGACGGTCA
1 AATCCGTTTCCGAAGTCCGTTTTGTCAAATTTGAACCCGAAGGCCTCCAAATTGACGGTCA
872576 AA
1 AA
872578 GTGGTTGACT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (61 bp):
AATCCGTTTCCGAAGTCCGTTTTGTCAAATTTGAACCCGAAGGCCTCCAAATTGACGGTCA
Found at i:874819 original size:11 final size:11
Alignment explanation
Indices: 874790--874819 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
874780 ATATATTATT
874790 ATTTAAAAATA
1 ATTTAAAAATA
874801 ATTGTAAAAATA
1 ATT-TAAAAATA
874813 ATTTAAA
1 ATTTAAA
874820 TAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
ATTTAAAAATA
Found at i:876458 original size:22 final size:23
Alignment explanation
Indices: 876419--876478 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
876409 AGGTTTTTTT
*
876419 ATAAATATTATAATATTTT-AAAAA
1 ATAAAT-TT-TAAAATTTTAAAAAA
876443 ATAAATTTTAAAATTTTAAAAAA
1 ATAAATTTTAAAATTTTAAAAAA
*
876466 ATAAATTTCAAAA
1 ATAAATTTTAAAA
876479 GCATCAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 8 0.24
23 19 0.58
24 6 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAATTTTAAAATTTTAAAAAA
Found at i:880134 original size:2 final size:2
Alignment explanation
Indices: 880127--880151 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
880117 CAAGAAGTTG
880127 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
880152 TGGGAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:882044 original size:43 final size:43
Alignment explanation
Indices: 881997--882134 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
881987 ATGATATTAG
881997 TTATATGAAAAAGGTTTAAATTTCAGATAGACAAATTGTGTTA
1 TTATATGAAAAAGGTTTAAATTTCAGATAGACAAATTGTGTTA
* *
882040 TTATATGAAAAAGGTTTAAATTTCAGATGGACAGAATT-TG-TG
1 TTATATGAAAAAGGTTTAAATTTCAGATAGACA-AATTGTGTTA
*
882082 TTATATG-AAAAGGCTTAAATTTCAGATAGACAAATTGTGTTA
1 TTATATGAAAAAGGTTTAAATTTCAGATAGACAAATTGTGTTA
882124 TTATATGAAAA
1 TTATATGAAAA
882135 GGCACAAGGA
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
40 4 0.05
41 25 0.29
42 16 0.19
43 37 0.43
44 4 0.05
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.36
Consensus pattern (43 bp):
TTATATGAAAAAGGTTTAAATTTCAGATAGACAAATTGTGTTA
Found at i:884511 original size:2 final size:2
Alignment explanation
Indices: 884504--884612 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
884494 ACAAATTACG
884504 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
884546 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
884588 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
884613 TACTAACGTT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:885253 original size:29 final size:29
Alignment explanation
Indices: 885145--885245 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
885135 AACAGTGGTC
885145 GTCGCCATGCACTCCCAGCGACCTCCTAG
1 GTCGCCATGCACTCCCAGCGACCTCCTAG
885174 GTCGCCATGCACTCCCAGCGACCTCCTAG
1 GTCGCCATGCACTCCCAGCGACCTCCTAG
* * ****
885203 GTCGCCATGCACGCCCGGCGACCAAGGAG
1 GTCGCCATGCACTCCCAGCGACCTCCTAG
885232 GTCGCCATGCACTC
1 GTCGCCATGCACTC
885246 GCGGCGACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.18, C:0.43, G:0.25, T:0.15
Consensus pattern (29 bp):
GTCGCCATGCACTCCCAGCGACCTCCTAG
Found at i:885501 original size:29 final size:29
Alignment explanation
Indices: 885468--885526 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
885458 CATGCATGAA
885468 TCCTTGGTCGCCCCAAGTGCATGGCGACC
1 TCCTTGGTCGCCCCAAGTGCATGGCGACC
****
885497 TCCTTGGTCGCCGGGCGTGCATGGCGACC
1 TCCTTGGTCGCCCCAAGTGCATGGCGACC
885526 T
1 T
885527 AGGAGGTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.10, C:0.36, G:0.32, T:0.22
Consensus pattern (29 bp):
TCCTTGGTCGCCCCAAGTGCATGGCGACC
Found at i:885534 original size:29 final size:29
Alignment explanation
Indices: 885483--885556 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
885473 GGTCGCCCCA
* **
885483 AGTGCATGGCGACCTCCTTGGTCGCCGGG
1 AGTGCATGGCGACCTACGAGGTCGCCGGG
* * *
885512 CGTGCATGGCGACCTAGGAGGTCGCTGGG
1 AGTGCATGGCGACCTACGAGGTCGCCGGG
885541 AGTGCATGGCGACCTA
1 AGTGCATGGCGACCTA
885557 TGGTTGGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.39, T:0.19
Consensus pattern (29 bp):
AGTGCATGGCGACCTACGAGGTCGCCGGG
Found at i:885620 original size:24 final size:24
Alignment explanation
Indices: 885588--885636 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
885578 ATGCACAGAA
885588 GCAAGCCACGTCGTAGGTCGCCCG
1 GCAAGCCACGTCGTAGGTCGCCCG
885612 GCAAGCCACGTCGTAGGTCGCCCG
1 GCAAGCCACGTCGTAGGTCGCCCG
885636 G
1 G
885637 AAGGCATGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (24 bp):
GCAAGCCACGTCGTAGGTCGCCCG
Found at i:892833 original size:16 final size:16
Alignment explanation
Indices: 892809--892841 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
892799 TCAGCCTGCC
*
892809 ATAAGCTTTTGGTTCT
1 ATAAACTTTTGGTTCT
892825 ATAAACTTTTGGTTCT
1 ATAAACTTTTGGTTCT
892841 A
1 A
892842 AACTTGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (16 bp):
ATAAACTTTTGGTTCT
Found at i:892845 original size:14 final size:15
Alignment explanation
Indices: 892808--892846 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
892798 ATCAGCCTGC
*
892808 CATAAGCTTTTGGTT
1 CATAAACTTTTGGTT
892823 CTATAAACTTTTGGTT
1 C-ATAAACTTTTGGTT
892839 C-TAAACTT
1 CATAAACTT
892847 GGAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 14 0.64
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (15 bp):
CATAAACTTTTGGTT
Found at i:894141 original size:5 final size:6
Alignment explanation
Indices: 894106--894138 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
894096 TTGCCAAAAT
*
894106 GACCAC GACAAC GACCAC GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
894139 CGAGACGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.33, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:894644 original size:6 final size:6
Alignment explanation
Indices: 894628--894661 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
894618 TCTCGTCTCG
894628 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCG
894662 ATCGCATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:895845 original size:20 final size:20
Alignment explanation
Indices: 895808--895846 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
895798 ATATTATAGG
*
895808 TTTTATTTTATTTAATAAAT
1 TTTTATTTTATTCAATAAAT
895828 TTTTA-TTTATTCAGATAAA
1 TTTTATTTTATTCA-ATAAA
895847 AATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTTTATTCAATAAAT
Found at i:899826 original size:186 final size:186
Alignment explanation
Indices: 899591--899982 Score: 671
Period size: 186 Copynumber: 2.1 Consensus size: 186
899581 TTTTCTAATT
* * *
899591 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAACAGTTTAGAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
* *
899655 ATTATAAAATAAAATTTTTATATACATTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
* * *
899720 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAG-CCTATATGTTA
131 TTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGAGCTGAGTCC-ATATGTTA
899776 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
*
899841 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
899906 TTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGAGCTGAGTCCATATGTTA
131 TTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGAGCTGAGTCCATATGTTA
*
899962 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
899983 AGTTTCGATT
Statistics
Matches: 195, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
185 7 0.04
186 186 0.95
187 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
TTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGAGCTGAGTCCATATGTTA
Found at i:903488 original size:24 final size:26
Alignment explanation
Indices: 903421--903488 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 26
903411 TTGATTTAGT
* *
903421 AAAATATCAATAAATTTAAGTATTTA
1 AAAATATTAATTAATTTAAGTATTTA
*
903447 AAATTATTTATATT--TTTAA-TA-TTA
1 AAAATA-TTA-ATTAATTTAAGTATTTA
903471 AAAATATTAATTAATTTA
1 AAAATATTAATTAATTTA
903489 TAATTTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 12 0.35
25 2 0.06
26 10 0.29
27 2 0.06
28 2 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
AAAATATTAATTAATTTAAGTATTTA
Found at i:905467 original size:20 final size:20
Alignment explanation
Indices: 905393--905466 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
905383 AAATAACCAA
905393 CAAATTCGCAACACGAACTC
1 CAAATTCGCAACACGAACTC
*
905413 CAATTTCGCAACACGAACT-
1 CAAATTCGCAACACGAACTC
*
905432 CAAATTTCGCAACAC-AATTTC
1 CAAA-TTCGCAACACGAA-CTC
905453 CAAATTCGCAACAC
1 CAAATTCGCAACAC
905467 ATAATTTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.10
20 39 0.81
21 4 0.08
ACGTcount: A:0.39, C:0.32, G:0.08, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACACGAACTC
Found at i:905478 original size:21 final size:22
Alignment explanation
Indices: 905432--905491 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
905422 AACACGAACT
905432 CAAATTTCGCAACAC--AATTTC
1 CAAA-TTCGCAACACATAATTTC
905453 CAAATTCGCAACACATAATTT-
1 CAAATTCGCAACACATAATTTC
* *
905474 GAAATTCGTAACACATAA
1 CAAATTCGCAACACATAA
905492 GTCAAATTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.29
21 20 0.57
22 5 0.14
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (22 bp):
CAAATTCGCAACACATAATTTC
Found at i:905500 original size:20 final size:21
Alignment explanation
Indices: 905453--905504 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
905443 ACACAATTTC
* *
905453 CAAATTCGCAACACATAATTT
1 CAAATTCGTAACACATAATGT
*
905474 GAAATTCGTAACACATAA-GT
1 CAAATTCGTAACACATAATGT
905494 CAAATTCGTAA
1 CAAATTCGTAA
905505 TTCGATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (21 bp):
CAAATTCGTAACACATAATGT
Found at i:905595 original size:21 final size:21
Alignment explanation
Indices: 905571--905611 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
905561 TCGCAACGTG
* *
905571 AATTTGGAGTTCACAACACAA
1 AATTTGAAATTCACAACACAA
*
905592 AATTTGAAATTCGCAACACA
1 AATTTGAAATTCACAACACA
905612 GAAGTCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (21 bp):
AATTTGAAATTCACAACACAA
Found at i:905671 original size:20 final size:20
Alignment explanation
Indices: 905642--905758 Score: 127
Period size: 20 Copynumber: 5.8 Consensus size: 20
905632 ATTTTGACAA
*
905642 TTTCGTAACACGAATTTCTT
1 TTTCGCAACACGAATTTCTT
905662 TTTCGCAACAC-AATTT-TT
1 TTTCGCAACACGAATTTCTT
905680 AATTTCGCAACACG-ATTT-TT
1 --TTTCGCAACACGAATTTCTT
905700 GAATTT-GCAACACGAATTTCTT
1 ---TTTCGCAACACGAATTTCTT
* *
905722 TTTCGCAACTCGATTTTCTT
1 TTTCGCAACACGAATTTCTT
905742 TTTCGCAACACGAATTT
1 TTTCGCAACACGAATTT
905759 TTTGGGTATA
Statistics
Matches: 85, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
18 2 0.02
19 8 0.09
20 64 0.75
21 9 0.11
22 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCTT
Found at i:905694 original size:40 final size:41
Alignment explanation
Indices: 905517--905760 Score: 146
Period size: 40 Copynumber: 6.0 Consensus size: 41
905507 CGATTTTGAC
* **
905517 AATTTCGCAACACGAATTTCTTTTTCGCAACAC-AGTTTCC
1 AATTTCGCAACACGAATTTCTTTTTCGCAACACGAATTTTT
* ** **** * * * *
905557 AAATTCGCAACGTGAATTTGGAGTTCACAACACAAAATTTG
1 AATTTCGCAACACGAATTTCTTTTTCGCAACACGAATTTTT
* * *** * *
905598 AAATTCGCAACACAGAA-GTCAAATTCGCAACTCG-ATTTTGAC
1 AATTTCGCAACAC-GAATTTCTTTTTCGCAACACGAATTTT--T
*
905640 AATTTCGTAACACGAATTTCTTTTTCGCAACAC-AATTTTT
1 AATTTCGCAACACGAATTTCTTTTTCGCAACACGAATTTTT
905680 AATTTCGCAACACG-ATTT-TTGAATTT-GCAACACGAATTTCTT
1 AATTTCGCAACACGAATTTCTT---TTTCGCAACACGAATTT-TT
* *
905722 --TTTCGCAACTCGATTTTCTTTTTCGCAACACGAATTTTT
1 AATTTCGCAACACGAATTTCTTTTTCGCAACACGAATTTTT
905761 TGGGTATATA
Statistics
Matches: 156, Mismatches: 34, Indels: 29
0.71 0.16 0.13
Matches are distributed among these distances:
38 2 0.01
39 9 0.06
40 73 0.47
41 38 0.24
42 34 0.22
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (41 bp):
AATTTCGCAACACGAATTTCTTTTTCGCAACACGAATTTTT
Found at i:905711 original size:123 final size:123
Alignment explanation
Indices: 905392--905712 Score: 374
Period size: 123 Copynumber: 2.6 Consensus size: 123
905382 AAAATAACCA
* * * ** * * * * *
905392 ACAAATTCGCAACACGAACTCCAATTTCGCAACACGAA-CTCAAATTTCGCAACACAATTTCCAA
1 ACAATTTCGCAACACGAATTTCTTTTTCGCAACAC-AATTTCCAATTTCGCAACACGATTTTCGA
* * * * *
905456 ATTCGCAACACATAATTTGAAATTCGTAACACATAAGTCAAATTCGTAATTCGATTTTG
65 ATTCGCAACACAAAATTTGAAATTCGCAACACAGAAGTCAAATTCGCAACTCGATTTTG
* * ** * * *
905515 ACAATTTCGCAACACGAATTTCTTTTTCGCAACACAGTTTCCAAATTCGCAACGTGAATTTGGAG
1 ACAATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTCCAATTTCGCAACACGATTTTCGAA
*
905580 TTCACAACACAAAATTTGAAATTCGCAACACAGAAGTCAAATTCGCAACTCGATTTTG
66 TTCGCAACACAAAATTTGAAATTCGCAACACAGAAGTCAAATTCGCAACTCGATTTTG
* ** *
905638 ACAATTTCGTAACACGAATTTCTTTTTCGCAACACAATTTTTAATTTCGCAACACGATTTTTGAA
1 ACAATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTCCAATTTCGCAACACGATTTTCGAA
*
905703 TTTGCAACAC
66 TTCGCAACAC
905713 GAATTTCTTT
Statistics
Matches: 162, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
122 1 0.01
123 161 0.99
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (123 bp):
ACAATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTCCAATTTCGCAACACGATTTTCGAA
TTCGCAACACAAAATTTGAAATTCGCAACACAGAAGTCAAATTCGCAACTCGATTTTG
Found at i:905738 original size:60 final size:62
Alignment explanation
Indices: 905510--905760 Score: 183
Period size: 60 Copynumber: 4.1 Consensus size: 62
905500 CGTAATTCGA
* * * * **
905510 TTTTGACAATTTCGCAACACGAATTTCTTTTTCGCAACACAGTTTCCAAATTCGCAACGTGA-
1 TTTTGA-AATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTTCTATTTCGCAACACGAT
* * * * * **** ** * * *
905572 ATTTG-GAGTTCACAACACAAAATTTGAAATTCGCAACACAGA-AGTCAAATTCGCAACTCGA-
1 TTTTGAAATTTCGCAACAC-GAATTTCTTTTTCGCAACACA-ATTTTCTATTTCGCAACACGAT
*
905633 TTTTGACAATTTCGTAACACGAATTTCTTTTTCGCAACACAATTTT-TAATTTCGCAACACGAT
1 TTTTGA-AATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTTCT-ATTTCGCAACACGAT
* * *
905696 TTTTG-AATTT-GCAACACGAATTTCTTTTTCGCAACTCGATTTTCTTTTTCGCAACACGAAT
1 TTTTGAAATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTTCTATTTCGCAACACG-AT
905757 TTTT
1 TTTT
905761 TGGGTATATA
Statistics
Matches: 146, Mismatches: 34, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
60 52 0.36
61 47 0.32
62 33 0.23
63 14 0.10
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (62 bp):
TTTTGAAATTTCGCAACACGAATTTCTTTTTCGCAACACAATTTTCTATTTCGCAACACGAT
Found at i:906718 original size:24 final size:24
Alignment explanation
Indices: 906665--906718 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
906655 GTATTCGAAA
906665 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
906689 TCTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
906713 TTTGAT
1 TTTGAT
906719 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:911710 original size:17 final size:18
Alignment explanation
Indices: 911676--911710 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
911666 TTTCATAACA
911676 ACAATAATTTGATCAAAAC
1 ACAATAATTTGA-CAAAAC
911695 ACAATAATTTGA-AAAA
1 ACAATAATTTGACAAAA
911711 TAACATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (18 bp):
ACAATAATTTGACAAAAC
Found at i:918609 original size:20 final size:20
Alignment explanation
Indices: 918584--918645 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
918574 GATTCGCAAC
918584 TCAAATTCGCAACTCGAAAA
1 TCAAATTCGCAACTCGAAAA
* * *
918604 TCAAATTTGCAACGCGGAAA
1 TCAAATTCGCAACTCGAAAA
**
918624 TTGAATTCGCAACAT-GAAAA
1 TCAAATTCGCAAC-TCGAAAA
918644 TC
1 TC
918646 GCAACTCGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
TCAAATTCGCAACTCGAAAA
Found at i:918783 original size:14 final size:14
Alignment explanation
Indices: 918764--918794 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
918754 ATTGAAAAAT
918764 CGATTTTCGAGTTG
1 CGATTTTCGAGTTG
*
918778 CGATTTTCGTGTTG
1 CGATTTTCGAGTTG
918792 CGA
1 CGA
918795 ATTCAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.29, T:0.42
Consensus pattern (14 bp):
CGATTTTCGAGTTG
Found at i:918809 original size:20 final size:20
Alignment explanation
Indices: 918780--918817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
918770 TCGAGTTGCG
918780 ATTTTCGTGTTGCGAATTCA
1 ATTTTCGTGTTGCGAATTCA
* *
918800 ATTTTTGTGTTGTGAATT
1 ATTTTCGTGTTGCGAATT
918818 TGAATATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.53
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTCA
Found at i:920982 original size:20 final size:20
Alignment explanation
Indices: 920922--920989 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
920912 TAAATTGTGT
*
920922 ATCGATGCATGGTAG--TGC
1 ATCGATGCATTGTAGAATGC
*
920940 ATCGATGCACCTGTTAAAGAATGC
1 ATCGATGCA-TTG-T--AGAATGC
920964 ATCGATGCATTGTAGAATGC
1 ATCGATGCATTGTAGAATGC
*
920984 ACCGAT
1 ATCGAT
920990 ACACTTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.22
19 1 0.03
20 13 0.32
22 3 0.08
23 2 0.05
24 12 0.30
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (20 bp):
ATCGATGCATTGTAGAATGC
Found at i:921077 original size:2 final size:2
Alignment explanation
Indices: 921070--921147 Score: 140
Period size: 2 Copynumber: 39.5 Consensus size: 2
921060 ATACTGATAG
*
921070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA T- 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
921111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
921148 GATTGTGTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:922811 original size:21 final size:21
Alignment explanation
Indices: 922787--922926 Score: 74
Period size: 21 Copynumber: 6.7 Consensus size: 21
922777 TCGACATAGT
*
922787 ATGGAATGTGGATCCTGAACG
1 ATGGAAGGTGGATCCTGAACG
* *
922808 ATGGGAGGTGGATCCTGAATG
1 ATGGAAGGTGGATCCTGAACG
** *
922829 ATGGGAAGG-GCCTCTTGAACG
1 AT-GGAAGGTGGATCCTGAACG
* ** * *
922850 ATGAGACGG-GTCTCTTGAACT
1 ATG-GAAGGTGGATCCTGAACG
* *
922871 AT-GAGAGGTGAATCCTGAACA
1 ATGGA-AGGTGGATCCTGAACG
*
922892 ATGTG-AGGTGGATCCTGAACA
1 ATG-GAAGGTGGATCCTGAACG
922913 ATGGTAA-GTGGATC
1 ATGG-AAGGTGGATC
922927 AGACTTCTTC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 81 0.86
22 6 0.06
23 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (21 bp):
ATGGAAGGTGGATCCTGAACG
Found at i:923237 original size:21 final size:21
Alignment explanation
Indices: 923213--923260 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
923203 TCTCACGTAG
923213 AGCACCGACCTCATC-ACATAA
1 AGCACCGACCTCA-CAACATAA
* * *
923234 AGCAGCTATCTCACAACATAA
1 AGCACCGACCTCACAACATAA
923255 AGCACC
1 AGCACC
923261 ATTGTCATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (21 bp):
AGCACCGACCTCACAACATAA
Found at i:923293 original size:21 final size:21
Alignment explanation
Indices: 923269--923314 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
923259 CCATTGTCAT
923269 CACGTAAA-ACAACTACCTCAC
1 CACGTAAAGAC-ACTACCTCAC
* *
923290 CACGTAAAGACCCTACCTCAT
1 CACGTAAAGACACTACCTCAC
923311 CACG
1 CACG
923315 CCATGCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.37, C:0.39, G:0.09, T:0.15
Consensus pattern (21 bp):
CACGTAAAGACACTACCTCAC
Found at i:923352 original size:21 final size:21
Alignment explanation
Indices: 923328--923395 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
923318 TGCATCATTT
*
923328 TCATCACGTAAATCACCAACC
1 TCATCACGTAAAACACCAACC
* *
923349 TCATCACGTAAAGCACTAACC
1 TCATCACGTAAAACACCAACC
923370 TCATCACGTAAAACACCTAA-C
1 TCATCACGTAAAACACC-AACC
923391 TCATC
1 TCATC
923396 TCGTGGAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 40 0.95
22 2 0.05
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (21 bp):
TCATCACGTAAAACACCAACC
Found at i:923593 original size:42 final size:42
Alignment explanation
Indices: 923495--923639 Score: 197
Period size: 42 Copynumber: 3.5 Consensus size: 42
923485 GTGATGGAAT
*
923495 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTTGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATTGGCTCGATG
* * *
923534 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATCGGCTCGATC
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATTGGCTCGATG
* * *
923576 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATTGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATTGGCTCGATG
*
923618 AGGTGATGGATCTCAGTGTCGA
1 AGGTGATGGATCTCGGTGTCGA
923640 ACTGAAGAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.37
41 1 0.01
42 57 0.62
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAGGTGTAGAATTGGCTCGATG
Found at i:923640 original size:42 final size:42
Alignment explanation
Indices: 923495--923660 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 42
923485 GTGATGGAAT
* * * *
923495 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTTGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* * * *
923534 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATCGGCTCGATC
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* *
923576 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATTGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* * * *
923618 AGGTGATGGATCTCAGTGTCGAACTGAAGAATCAACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
923660 A
1 A
923661 AAAAGTGGGG
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.31
41 1 0.01
42 74 0.68
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
Found at i:925180 original size:15 final size:15
Alignment explanation
Indices: 925162--925194 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
925152 CTTGAAACTT
*
925162 AAATTCGCAACATGA
1 AAATTCGCAACACGA
925177 AAA-TCGCAACACGA
1 AAATTCGCAACACGA
925191 AAAT
1 AAAT
925195 GAAATTCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.81
15 3 0.19
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.15
Consensus pattern (15 bp):
AAATTCGCAACACGA
Found at i:925213 original size:19 final size:20
Alignment explanation
Indices: 925173--925212 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
925163 AATTCGCAAC
925173 ATGAAAATCGCAACACGAAA
1 ATGAAAATCGCAACACGAAA
* *
925193 ATGAAATTCGTAACACGAAA
1 ATGAAAATCGCAACACGAAA
925213 TTCGCAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (20 bp):
ATGAAAATCGCAACACGAAA
Found at i:925275 original size:20 final size:20
Alignment explanation
Indices: 925234--925275 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
925224 AAAACTAAAA
* *
925234 TCGCGTTGCGAATTTCATTT
1 TCGCGTTGCGAATTTAAGTT
925254 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGAATTTAAGTT
925274 TC
1 TC
925276 AAAAACTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAAGTT
Found at i:925651 original size:22 final size:22
Alignment explanation
Indices: 925616--925662 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
925606 ATGGAGGGGG
* *
925616 GTCGCTGGATATGGAGACGGAT
1 GTCGCCGGAGATGGAGACGGAT
*
925638 GTCGCCGGAGATGGGGACGGAT
1 GTCGCCGGAGATGGAGACGGAT
925660 GTC
1 GTC
925663 ACCGTAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.45, T:0.19
Consensus pattern (22 bp):
GTCGCCGGAGATGGAGACGGAT
Found at i:925842 original size:19 final size:20
Alignment explanation
Indices: 925797--925843 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
925787 TGAAAACTGA
**
925797 GTTGCGAAAATAAAATTCGC
1 GTTGCGAAAATAAAACGCGC
925817 GTTGCGAAAAT-AAACGCGC
1 GTTGCGAAAATAAAACGCGC
*
925836 TTTGCGAA
1 GTTGCGAA
925844 TTATAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (20 bp):
GTTGCGAAAATAAAACGCGC
Found at i:925934 original size:22 final size:22
Alignment explanation
Indices: 925908--925969 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
925898 TACGAAAAAG
*
925908 AAATTCGTGTTGCGAAATTGTC
1 AAATTCGAGTTGCGAAATTGTC
*
925930 AAATTCGAGTTGCG-AATT-TG
1 AAATTCGAGTTGCGAAATTGTC
* *
925950 AAA-TCGCGTTGCGAATTTGT
1 AAATTCGAGTTGCGAAATTGT
925970 TGGTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 5 0.15
22 13 0.38
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (22 bp):
AAATTCGAGTTGCGAAATTGTC
Found at i:931336 original size:47 final size:48
Alignment explanation
Indices: 931279--931371 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 48
931269 TAGCTGTACA
931279 ACTCTTTATTTAAACTTAGGATAGAGTTTATCCTAATCTAAACTAACC
1 ACTCTTTATTTAAACTTAGGATAGAGTTTATCCTAATCTAAACTAACC
* *
931327 ACTC-TTATTTAAACTTAGGATAGAGTTTATCTTTATCTAAACTAA
1 ACTCTTTATTTAAACTTAGGATAGAGTTTATCCTAATCTAAACTAA
931372 TTTACAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 39 0.91
48 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (48 bp):
ACTCTTTATTTAAACTTAGGATAGAGTTTATCCTAATCTAAACTAACC
Found at i:931805 original size:20 final size:19
Alignment explanation
Indices: 931782--931819 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
931772 TCATGTACAA
931782 TAAATAATATTATTATATTT
1 TAAATAATATTATT-TATTT
931802 TAAATAATATTATTTATT
1 TAAATAATATTATTTATT
931820 AAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATAATATTATTTATTT
Found at i:931812 original size:17 final size:17
Alignment explanation
Indices: 931782--931827 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
931772 TCATGTACAA
931782 TAAATAATATTATTATATTT
1 TAAATAATATTATT-TA--T
931802 TAAATAATATTATTTAT
1 TAAATAATATTATTTAT
931819 TAAA-AATAT
1 TAAATAATAT
931828 AATAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 2 0.08
20 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATAATATTATTTAT
Found at i:931856 original size:22 final size:24
Alignment explanation
Indices: 931807--931856 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
931797 TATTTTAAAT
*
931807 AATATTATTTATTAAAAATATAAT
1 AATATTATTTATTAAAAATATAAG
*
931831 AATATTATTT-TT-AAAATATTAG
1 AATATTATTTATTAAAAATATAAG
931853 AATA
1 AATA
931857 ATTAATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.50
23 2 0.08
24 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATATTATTTATTAAAAATATAAG
Found at i:931883 original size:15 final size:15
Alignment explanation
Indices: 931863--931901 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
931853 AATAATTAAT
931863 TCAATATTATTTATG
1 TCAATATTATTTATG
931878 TCAATATTA-TTATG
1 TCAATATTATTTATG
**
931892 AAAATATTAT
1 TCAATATTAT
931902 ATCTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (15 bp):
TCAATATTATTTATG
Found at i:931980 original size:33 final size:35
Alignment explanation
Indices: 931907--931980 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 35
931897 ATTATATCTA
931907 TAATT-TTATAAATAAAAATATTACGATTATTATAT
1 TAATTATTATAAATAAAAATATTACGA-TATTATAT
* *
931942 T--TTATTA-AAATAAAATTATTATGA-ATTATAT
1 TAATTATTATAAATAAAAATATTACGATATTATAT
931973 TAATTATT
1 TAATTATT
931981 TATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
31 8 0.24
33 22 0.65
34 3 0.09
35 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (35 bp):
TAATTATTATAAATAAAAATATTACGATATTATAT
Found at i:932006 original size:43 final size:42
Alignment explanation
Indices: 931959--932039 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
931949 AAATAAAATT
*
931959 ATTATGAATTATATTAATTATTTATTAAAAATAAGAATAACAA
1 ATTATGAAGTATATTAATTATTTATT-AAAATAAGAATAACAA
* *
932002 ATTATTAAGTATATTAATTATTTATTAAAATAATAATA
1 ATTATGAAGTATATTAATTATTTATTAAAATAAGAATA
932040 TTATTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 11 0.31
43 24 0.69
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (42 bp):
ATTATGAAGTATATTAATTATTTATTAAAATAAGAATAACAA
Found at i:932237 original size:34 final size:33
Alignment explanation
Indices: 932194--932296 Score: 95
Period size: 37 Copynumber: 3.0 Consensus size: 33
932184 ATGTTATATG
*
932194 TTATTAAAATAAAAATATAATATCAATAATATAA
1 TTATAAAAATAAAAATATAATAT-AATAATATAA
* * *
932228 TTATAAAAAT-AAAATATTATATTATATTAT-A
1 TTATAAAAATAAAAATATAATATAATAATATAA
932259 TTATTAAAATTATCAATAAATATAATATAATAAT-TAA
1 TTA-TAAAA--AT-AA-AAATATAATATAATAATATAA
932296 T
1 T
932297 ATTGTTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.07
32 11 0.20
33 11 0.20
34 11 0.20
36 2 0.04
37 16 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (33 bp):
TTATAAAAATAAAAATATAATATAATAATATAA
Found at i:932256 original size:26 final size:28
Alignment explanation
Indices: 932202--932288 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
932192 TGTTATTAAA
*
932202 ATAAAAATATAATATCAATAATATAATT
1 ATAAAAATAAAATATCAATAATATAATT
* *
932230 ATAAAAATAAAATAT-TATATTAT-ATT
1 ATAAAAATAAAATATCAATAATATAATT
** *
932256 ATATTATTAAAATTATCAATAAATATAA-T
1 ATAAAAATAAAA-TATCAAT-AATATAATT
932285 ATAA
1 ATAA
932289 TAATTAATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
26 12 0.26
27 9 0.20
28 16 0.35
29 8 0.17
30 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
ATAAAAATAAAATATCAATAATATAATT
Found at i:932268 original size:31 final size:32
Alignment explanation
Indices: 932178--932268 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 32
932168 ATTAATAATT
* *
932178 TATTATATGT-TATATGTTATTAAAATAAAAA
1 TATTATATCTATATATATTATTAAAATAAAAA
* * *
932209 TATAATATCAATAATATAATTATAAAAAT-AAAA
1 TATTATATCTAT-ATAT-ATTATTAAAATAAAAA
932242 TATTATAT-TATATTATATTATTAAAAT
1 TATTATATCTATA-TATATTATTAAAAT
932269 TATCAATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
31 18 0.38
32 6 0.12
33 15 0.31
34 9 0.19
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (32 bp):
TATTATATCTATATATATTATTAAAATAAAAA
Found at i:934002 original size:29 final size:29
Alignment explanation
Indices: 933965--934069 Score: 140
Period size: 29 Copynumber: 3.6 Consensus size: 29
933955 CCCCAACGCA
* *
933965 TAGGTCGTCATGCCCTCTGGGCGACCTTG
1 TAGGTCGTCATGCACTCCGGGCGACCTTG
* *
933994 TAGGCCGTCATGCACTCCGGGAGACCTTG
1 TAGGTCGTCATGCACTCCGGGCGACCTTG
*
934023 TAGGTCGCCATGCACTCCGGGCGACC-TG
1 TAGGTCGTCATGCACTCCGGGCGACCTTG
*
934051 CTAGGTCGCCATGCACTCC
1 -TAGGTCGTCATGCACTCC
934070 CTCATGCTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 2 0.03
29 66 0.97
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.22
Consensus pattern (29 bp):
TAGGTCGTCATGCACTCCGGGCGACCTTG
Found at i:934579 original size:21 final size:21
Alignment explanation
Indices: 934554--934597 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
934544 AATTTAGTTA
934554 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
934575 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
934596 AT
1 AT
934598 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:934607 original size:28 final size:28
Alignment explanation
Indices: 934574--934627 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
934564 TAGTATAAAT
*
934574 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTATTAGTTTAAGTTATATTA
934602 TATTAGTTTATTAGTTTAAGTTATAT
1 TATTAGTTTATTAGTTTAAGTTATAT
934628 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAGTTTATTAGTTTAAGTTATATTA
Found at i:937440 original size:49 final size:49
Alignment explanation
Indices: 937324--937498 Score: 214
Period size: 49 Copynumber: 3.6 Consensus size: 49
937314 TTTAATTTAG
* **
937324 TAATGATTTGATAATCATGATT--TAATAATGATTTTA-TATTTAAAATT
1 TAATGATTTGATAATAATGATTAGTAATAATGAAATTATTA-TTAAAATT
* * * *
937371 ATAATAATTAT-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 -TAATGATT-TGATAATAATGATTAGTAATAATGAAATTATTATTAAAATT
*
937421 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAAAATT
1 TAATGATTTGATAATAATGATTAGTAATAATGAAATTATTATTAAAATT
937470 TAATGATTTGATAATAATGATTTAGTAAT
1 TAATGATTTGATAATAATGA-TTAGTAAT
937499 TATTAGTAAT
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
48 17 0.15
49 64 0.58
50 27 0.25
51 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (49 bp):
TAATGATTTGATAATAATGATTAGTAATAATGAAATTATTATTAAAATT
Found at i:937728 original size:12 final size:11
Alignment explanation
Indices: 937706--938144 Score: 105
Period size: 11 Copynumber: 36.3 Consensus size: 11
937696 TAACCATAAA
937706 AATGATTTAAT
1 AATGATTTAAT
937717 AATGATTT--T
1 AATGATTTAAT
937726 AAT-ATTTAAT
1 AATGATTTAAT
937736 GATTTGATGATTTAAT
1 -A----ATGATTTAAT
937752 AATGATTT--T
1 AATGATTTAAT
937761 AAT-ATTTAAT
1 AATGATTTAAT
*
937771 AATTTGATGATTTAGT
1 -A----ATGATTTAAT
937787 AATGATTTAAT
1 AATGATTTAAT
937798 AATGATTT--T
1 AATGATTTAAT
937807 AAT-ATTTAAT
1 AATGATTTAAT
*
937817 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
937833 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
937847 AATGATTCAAT
1 AATGATTTAAT
* *
937858 AGTGATTTTTAT
1 AATGA-TTTAAT
* * * *
937870 AATTAATGATTT
1 AATGATTTA-AT
* *
937882 GATGATTTAGT
1 AATGATTTAAT
937893 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
937907 AATTATTTAAT
1 AATGATTTAAT
937918 AATGATTT--T
1 AATGATTTAAT
937927 AAT-ATTTAAT
1 AATGATTTAAT
*
937937 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
937953 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
937967 AATCATTATAAT
1 AATGATT-TAAT
937979 AATGATTTAGTAAT
1 AATGA-TT--TAAT
* *
937993 AATAATGATAAT
1 AATGAT-TTAAT
938005 AATGATTTAAT
1 AATGATTTAAT
938016 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
938030 AATGATTTATT
1 AATGATTTAAT
* *
938041 ATTAATATT--T
1 AATGAT-TTAAT
938051 AATGATTTGATACT
1 AATGATTT-A-A-T
*
938065 AATGATTTACT
1 AATGATTTAAT
938076 AATGATTACTAAT
1 AATGATT--TAAT
938089 AATGAAATTATAAT
1 AATG--ATT-TAAT
*
938103 CATGATTTTATAAT
1 AATGA--TT-TAAT
938117 AATGATTTAATACT
1 AATGATTT-A-A-T
938131 AATGATTTAAT
1 AATGATTTAAT
938142 AAT
1 AAT
938145 TATTACTAAT
Statistics
Matches: 322, Mismatches: 42, Indels: 128
0.65 0.09 0.26
Matches are distributed among these distances:
8 16 0.05
9 18 0.06
10 9 0.03
11 97 0.30
12 46 0.14
13 21 0.07
14 75 0.23
15 15 0.05
16 25 0.08
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.47
Consensus pattern (11 bp):
AATGATTTAAT
Found at i:937734 original size:19 final size:19
Alignment explanation
Indices: 937710--937816 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 19
937700 CATAAAAATG
937710 ATTTAATAATGATTTTAAT
1 ATTTAATAATGATTTTAAT
*
937729 A-TT--TAATGA-TTTGAT
1 ATTTAATAATGATTTTAAT
937744 GATTTAATAATGATTTTAAT
1 -ATTTAATAATGATTTTAAT
937764 ATTTAATAATTTGATGATTTAGTAAT
1 ATTTAAT-A----ATGATTT--TAAT
937790 GATTTAATAATGATTTTAAT
1 -ATTTAATAATGATTTTAAT
937810 ATTTAAT
1 ATTTAAT
937817 GATTTGATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 26
0.72 0.02 0.26
Matches are distributed among these distances:
15 5 0.07
16 7 0.10
17 2 0.03
18 2 0.03
19 21 0.29
20 10 0.14
22 7 0.10
24 7 0.10
26 5 0.07
27 7 0.10
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTAATAATGATTTTAAT
Done.