Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_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: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:522239 original size:21 final size:22
Alignment explanation
Indices: 522215--522257 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
522205 TAGCTTTCGA
*
522215 ATTT-AGTCACTATTTTTATTC
1 ATTTAAGTCACTATTTTGATTC
*
522236 ATTTAAGTCACTGTTTTGATTC
1 ATTTAAGTCACTATTTTGATTC
522258 TGCTTCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (22 bp):
ATTTAAGTCACTATTTTGATTC
Found at i:523471 original size:11 final size:11
Alignment explanation
Indices: 523455--523484 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
523445 CTCTAAAACA
*
523455 TTTCAAAATCT
1 TTTCAAAACCT
523466 TTTCAAAACCT
1 TTTCAAAACCT
523477 TTTCAAAA
1 TTTCAAAA
523485 GAAATCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTCAAAACCT
Found at i:523695 original size:10 final size:11
Alignment explanation
Indices: 523665--523696 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
523655 TTCAATTCTT
523665 TTATTATTTT-
1 TTATTATTTTA
523675 TTATTATTTTA
1 TTATTATTTTA
523686 TT-TTATTTTA
1 TTATTATTTTA
523696 T
1 T
523697 ATCGTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 19 0.90
11 2 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:526491 original size:8 final size:8
Alignment explanation
Indices: 526469--526515 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
526459 ACACAAAAGG
526469 AAAGTAAAA
1 AAAG-AAAA
*
526478 ACAGAAAA
1 AAAGAAAA
526486 AAAGAAAA
1 AAAGAAAA
*
526494 ATAG-AAA
1 AAAGAAAA
526501 AAAGAAAA
1 AAAGAAAA
526509 AAAGAAA
1 AAAGAAA
526516 GAGAAAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.18
8 24 0.73
9 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (8 bp):
AAAGAAAA
Found at i:526493 original size:7 final size:7
Alignment explanation
Indices: 526469--526556 Score: 56
Period size: 7 Copynumber: 12.1 Consensus size: 7
526459 ACACAAAAGG
526469 AAAGTAAA
1 AAAG-AAA
526477 AACAGAAAA
1 AA-AG-AAA
526486 AAAGAAA
1 AAAGAAA
526493 AATAGAAA
1 AA-AGAAA
526501 AAAGAAA
1 AAAGAAA
526508 AAA-AGAA
1 AAAGA-AA
*
526515 AGAGAAA
1 AAAGAAA
*
526522 ACAGAAGA
1 AAAGAA-A
*
526530 AAA-AGA
1 AAAGAAA
*
526536 TAA-AAA
1 AAAGAAA
526542 AAAGAAA
1 AAAGAAA
*
526549 GAAGAAA
1 AAAGAAA
526556 A
1 A
526557 TAGACAGATC
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
6 8 0.12
7 34 0.53
8 15 0.23
9 7 0.11
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:526501 original size:15 final size:15
Alignment explanation
Indices: 526469--526556 Score: 70
Period size: 15 Copynumber: 5.5 Consensus size: 15
526459 ACACAAAAGG
*
526469 AAAGTAAAAACAGAAAA
1 AAAG-AAAAAAAG-AAA
*
526486 AAAGAAAAATAGAAA
1 AAAGAAAAAAAGAAA
526501 AAAGAAAAAAAG-AA
1 AAAGAAAAAAAGAAA
*
526515 AGAGAAAACAGAAGAAA
1 AAAGAAAA-A-AAGAAA
*
526532 AAGATAAAAAAAAGAAA
1 AA-A-GAAAAAAAGAAA
*
526549 GAAGAAAA
1 AAAGAAAA
526557 TAGACAGATC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.15
15 19 0.32
16 11 0.19
17 14 0.24
18 2 0.03
19 4 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:526527 original size:13 final size:12
Alignment explanation
Indices: 526480--526556 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 12
526470 AAGTAAAAAC
526480 AGAAAAAAAGAA
1 AGAAAAAAAGAA
*
526492 A-AATAGAAA-AA
1 AGAA-AAAAAGAA
526503 AGAAAAAAAGAA
1 AGAAAAAAAGAA
*
526515 AGAGAAAACAG-A
1 AGA-AAAAAAGAA
*
526527 AG--AAAAAGAT
1 AGAAAAAAAGAA
526537 A-AAAAAAAGAA
1 AGAAAAAAAGAA
526548 AGAAGAAAA
1 AGAA-AAAA
526557 TAGACAGATC
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
9 5 0.10
10 1 0.02
11 17 0.34
12 17 0.34
13 10 0.20
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:526551 original size:21 final size:20
Alignment explanation
Indices: 526482--526547 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
526472 GTAAAAACAG
*
526482 AAAAA-AAG-AAAA-ATAGA
1 AAAAAGAAGAAAAAGATAAA
526499 AAAAAGAA-AAAAAGA-AAGA
1 AAAAAGAAGAAAAAGATAA-A
526518 GAAAACAGAAGAAAAAGATAAA
1 -AAAA-AGAAGAAAAAGATAAA
526540 AAAAAGAA
1 AAAAAGAA
526548 AGAAGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.12
18 7 0.17
19 2 0.05
20 8 0.20
21 8 0.20
22 8 0.20
23 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAGAAGAAAAAGATAAA
Found at i:528545 original size:55 final size:54
Alignment explanation
Indices: 528474--528735 Score: 319
Period size: 54 Copynumber: 4.8 Consensus size: 54
528464 ATTTTTTATT
* *
528474 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGATGATTTTCAAGTG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGA-TTTCAAATG
* * * *
528529 AGTTTTTAAAGAAACTAAGCCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATG
* *
528583 AGTTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATG
* * * * * *
528637 TGTTTTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTGAAATG
1 AG--TTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATG-ATTTCAAATG
* ** *
528694 TG-TTTTAAAGAAACTAAGTCTGATTTTTGGAAGTTTCTTGAT
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGAT
528736 TTTTCTCAAA
Statistics
Matches: 182, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
54 94 0.52
55 41 0.23
56 37 0.20
57 10 0.05
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (54 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATG
Found at i:528611 original size:54 final size:54
Alignment explanation
Indices: 528474--528844 Score: 318
Period size: 54 Copynumber: 6.8 Consensus size: 54
528464 ATTTTTTATT
* * * * *
528474 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGATGATTTTCAAGTG
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGA-TTTCAAATA
* * *
528529 AGTTTTTAAAGAAACTAAGCCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * *
528583 AGTTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATG
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * * * * * *
528637 TGTTTTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTGAAATG
1 AG--TTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATG-ATTTCAAATA
* ** **
528694 TGTTTT-AAAGAAACTAAGTCTGATTTTTGGAAGTTTCTTGATTTTTCTCAAATTA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATT-TCAAA-TA
* * * * ** *
528749 ACG--TTCAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA
1 A-GTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAAT-A
* * * * **
528803 A-TTTTCAAATAAATTAAGCCTGGTTTTCAGGGGTTTCTTGAT
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGAT
528845 TTTTTTTTTG
Statistics
Matches: 269, Mismatches: 37, Indels: 21
0.82 0.11 0.06
Matches are distributed among these distances:
53 4 0.01
54 138 0.51
55 79 0.29
56 38 0.14
57 10 0.04
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (54 bp):
AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
Found at i:528714 original size:110 final size:108
Alignment explanation
Indices: 528477--528735 Score: 340
Period size: 110 Copynumber: 2.4 Consensus size: 108
528467 TTTTATTAGT
*
528477 TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGAA
* *
528542 ACTAAGCCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATAAG
66 ACTAAGCCTGATTTTCAGAAGTTTCTTGACGATTTCAAATAAG
* **
528585 TTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGA-TTTCAAATGTGTTTTTTTAAA
1 TTTT-AAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTC-AA-GTGAGTTTTTAAA
* * * * **
528649 GAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTGAAATGTG
63 GAAACTAAGCCTGATTTTCAGAAGTTTCTTGACG-ATTTCAAATAAG
** *
528696 TTTTAAAGAAACTAAGTCTGATTTTTGGAAGTTTCTTGAT
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGAT
528736 TTTTCTCAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
108 8 0.06
109 38 0.29
110 73 0.56
111 12 0.09
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (108 bp):
TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGAA
ACTAAGCCTGATTTTCAGAAGTTTCTTGACGATTTCAAATAAG
Found at i:528799 original size:165 final size:164
Alignment explanation
Indices: 528476--528801 Score: 395
Period size: 165 Copynumber: 2.0 Consensus size: 164
528466 TTTTTATTAG
* *
528476 TTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGA
1 TTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGACGATTTTCAAATGAGTTTTTAAAGA
* * * *
528541 AACTAAGCCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATAAGTTTTCAACGAAACTAAGTCTG
66 AACTAAGCCTGATTTTCAGAAGTTTCTTGATGATTTCAAATAAG-TTTCAAAGAAACTAAGCCTA
528606 ATTTTCAGAAGTTTCATGATGATTTCAAATGTGTT
130 ATTTTCAGAAGTTTCATGATGATTTCAAATGTGTT
* * * * * *
528641 TTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTGAAATGTG-TTTTAAAGA
1 TTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGACGATTTTCAAATGAGTTTTTAAAGA
* ** ** *
528705 AACTAAGTCTGATTTTTGGAAGTTTCTTGATTTTTCTCAAATTAACG-TTCAAAGAAATTAAGCC
66 AACTAAGCCTGATTTTCAGAAGTTTCTTGATGATT-TCAAA-TAA-GTTTCAAAGAAACTAAGCC
* ** * *
528769 TAATTTTTAGGGGTTTCTTGATGTTTTCAAATG
128 TAATTTTCAGAAGTTTCATGATGATTTCAAATG
528802 AATTTTCAAA
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
164 38 0.28
165 93 0.69
166 3 0.02
167 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (164 bp):
TTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCATGACGATTTTCAAATGAGTTTTTAAAGA
AACTAAGCCTGATTTTCAGAAGTTTCTTGATGATTTCAAATAAGTTTCAAAGAAACTAAGCCTAA
TTTTCAGAAGTTTCATGATGATTTCAAATGTGTT
Found at i:534413 original size:50 final size:49
Alignment explanation
Indices: 534241--534425 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
534231 ATATGTACAT
* * *
534241 ACTTACACCGGTGTAAGTATGTGTTAAGTGCAACAATGTTTTATTTTATTC
1 ACTTACA-CAGTGTAAGTATGTGTTAAGTGCTAC-ATTTTTTATTTTATTC
* * * * *
534292 A-TTTCACTAGTGTAAGTATCTATTAAGTACTACACTTTTTA-TTTATTC
1 ACTTACAC-AGTGTAAGTATGTGTTAAGTGCTACATTTTTTATTTTATTC
*
534340 ACTTACAC-GTG-AA-TATGTGTTAAGTGCTACATTTTTTAATTTTAATC
1 ACTTACACAGTGTAAGTATGTGTTAAGTGCTACATTTTTT-ATTTTATTC
* **
534387 ACTTGCACAGTGTAAGTATGTGTTAAGTTATACATTTTT
1 ACTTACACAGTGTAAGTATGTGTTAAGTGCTACATTTTT
534426 GTAGTATGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
45 20 0.18
46 3 0.03
47 16 0.15
48 11 0.10
49 14 0.13
50 45 0.41
51 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (49 bp):
ACTTACACAGTGTAAGTATGTGTTAAGTGCTACATTTTTTATTTTATTC
Found at i:534890 original size:18 final size:18
Alignment explanation
Indices: 534864--534911 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
534854 CAATTTTTCC
* *
534864 ACCTTATCATCATCATCT
1 ACCTCATCATCATAATCT
**
534882 ACCTCATCATGTTAATCT
1 ACCTCATCATCATAATCT
*
534900 ACCTCACCATCA
1 ACCTCATCATCA
534912 ATATTCACAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.02, T:0.33
Consensus pattern (18 bp):
ACCTCATCATCATAATCT
Found at i:544747 original size:40 final size:39
Alignment explanation
Indices: 544670--544774 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
544660 TACAACTTAG
* * *
544670 AATGTTGGGGCATTTT-AAGGCTCATATCAACAAGAAAT
1 AATGTTGGAGCATTTTGAAGGCCCATACCAACAAGAAAT
** *
544708 AAATGTTGGAGCATTTTGAAGGCCCATACCAGTATGAAAT
1 -AATGTTGGAGCATTTTGAAGGCCCATACCAACAAGAAAT
* *
544748 AATGTTGGTGCATTGTGAAGGCCCATA
1 AATGTTGGAGCATTTTGAAGGCCCATA
544775 TCATCTTGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 40 0.70
40 17 0.30
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (39 bp):
AATGTTGGAGCATTTTGAAGGCCCATACCAACAAGAAAT
Found at i:545870 original size:62 final size:62
Alignment explanation
Indices: 545773--545928 Score: 215
Period size: 62 Copynumber: 2.5 Consensus size: 62
545763 TCAATCTTTG
* * *
545773 CAATCTTTGACTTCCTCGTGAAGAGAAGTCAACCTTTTTTATTCAGGACTCCCCTA-TAGAGT
1 CAATCCTTGACTTCCTCGTAAAGAGAAGTCAACCTTTTTTATTCAGGA-TCCCATAGTAGAGT
* * ** *
545835 CAATCCTTGACTTCTTTGTAAAGAGAAGTCAACCTTTTTTATTCCTGATTCCATAGTAGAGT
1 CAATCCTTGACTTCCTCGTAAAGAGAAGTCAACCTTTTTTATTCAGGATCCCATAGTAGAGT
*
545897 CAATCCTTGAATTCCTCGTAAAGAGAAGTCAA
1 CAATCCTTGACTTCCTCGTAAAGAGAAGTCAA
545929 TTTTTCTGCT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 5 0.06
62 77 0.94
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (62 bp):
CAATCCTTGACTTCCTCGTAAAGAGAAGTCAACCTTTTTTATTCAGGATCCCATAGTAGAGT
Found at i:546230 original size:137 final size:136
Alignment explanation
Indices: 545981--546364 Score: 522
Period size: 137 Copynumber: 2.8 Consensus size: 136
545971 AAAAAATGCT
* ** * *
545981 TAGATGTCCTCATCACGAAGGAACAATGTCATCCACTAACCAGATCTCCTTATCACGTAGGAGTC
1 TAGATGTCCTCATCACGAAGGAATAATGTCATCCACCGACCAGATCTTCTCATCACGTAGGAGT-
* * * *
546046 GCATCATCCTTATATAGCCAGAATTCCTCATTGCATAGGAACCGTGTTATCTCCATTATCCCTAA
65 GTATCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCATTATCCCTAA
546111 AGATGGC
130 AGATGGC
*
546118 TAGATGTCCTCATCACGAAGGAATAATGTCATCCACCGACCAGATCTTCTCATCACGTAAGAGCT
1 TAGATGTCCTCATCACGAAGGAATAATGTCATCCACCGACCAGATCTTCTCATCACGTAGGAG-T
* *
546183 GTTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACTGTGTTATCTCCATTATCCCTAA
65 GTATCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCATTATCCCTAA
546248 AGATGGC
130 AGATGGC
* * * * * *
546255 AAAATGTCCTCATCACGAAGGAATGATGTCATCTATCGACCAGATC-TCTTCATCACGTAGGATT
1 TAGATGTCCTCATCACGAAGGAATAATGTCATCCACCGACCAGATCTTC-TCATCACGTAGGA-G
* * *
546319 TGTGTCATCTTTAGATAGCCA-AATTCCTCATCGCGTA-GAATCGTGT
64 TGTATCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGT
546365 AACAACCCAG
Statistics
Matches: 221, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 7 0.03
136 18 0.08
137 195 0.88
138 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (136 bp):
TAGATGTCCTCATCACGAAGGAATAATGTCATCCACCGACCAGATCTTCTCATCACGTAGGAGTG
TATCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCATTATCCCTAAA
GATGGC
Found at i:547193 original size:29 final size:29
Alignment explanation
Indices: 547118--547193 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
547108 CCGTTGACCA
* *
547118 GGTGACATTTTAGTAATTATTTCGAAACT
1 GGTGATATTTTAGTAATTAATTCGAAACT
* * *
547147 GGTGATATATTGGGAATTAATTCGGAAA-T
1 GGTGATATTTTAGTAATTAATTC-GAAACT
* *
547176 GGTGCTATTTTTGTAATT
1 GGTGATATTTTAGTAATT
547194 TTTTAAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 33 0.89
30 4 0.11
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTAATTCGAAACT
Found at i:547228 original size:26 final size:25
Alignment explanation
Indices: 547180--547227 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
547170 GGAAATGGTG
*
547180 CTATTTTTGTAATTTTTTAAAAATT
1 CTATTTTCGTAATTTTTTAAAAATT
547205 CTATTTTCGTAATTTTTTAAAAA
1 CTATTTTCGTAATTTTTTAAAAA
547228 AATGACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
CTATTTTCGTAATTTTTTAAAAATT
Found at i:547288 original size:29 final size:30
Alignment explanation
Indices: 547246--547302 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
547236 TTTAATAAAT
*
547246 ATTTTGAAAATGGTGCTATATTGGTAATAA
1 ATTTTGAAAATGGTGCTATATTCGTAATAA
*
547276 ATTTT-AAAATGGTGCTATTTTCGTAAT
1 ATTTTGAAAATGGTGCTATATTCGTAAT
547303 TTTGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (30 bp):
ATTTTGAAAATGGTGCTATATTCGTAATAA
Found at i:554461 original size:29 final size:29
Alignment explanation
Indices: 554406--554461 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
554396 CCGTTGACCG
* * * *
554406 GGTGACATTTTAGTAATTATTTTGAAACT
1 GGTGACATATTAGGAATTAATTCGAAACT
*
554435 GGTGACATATTGGGAATTAATTCGAAA
1 GGTGACATATTAGGAATTAATTCGAAA
554462 AGGGTACTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (29 bp):
GGTGACATATTAGGAATTAATTCGAAACT
Found at i:558298 original size:17 final size:16
Alignment explanation
Indices: 558268--558310 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
558258 AACGCAGATC
558268 AAATT-TTTTATCTTTTA
1 AAATTATTTTATC--TTA
558285 AAATTATTTT-TCTTA
1 AAATTATTTTATCTTA
558300 AAATTATTTTA
1 AAATTATTTTA
558311 AAATGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.54
17 7 0.29
18 4 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTATTTTATCTTA
Found at i:559512 original size:20 final size:21
Alignment explanation
Indices: 559489--559540 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
559479 TTTTTAATAT
*
559489 AATAATTATATAA-TTAAAAA
1 AATAATTATAAAATTTAAAAA
*
559509 AATAATTTTAAAATTTTAAAAA
1 AATAATTATAAAA-TTTAAAAA
559531 AATATATTAT
1 AATA-ATTAT
559541 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATTATAAAATTTAAAAA
Found at i:560057 original size:92 final size:90
Alignment explanation
Indices: 559867--560037 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 90
559857 ATATTAATTT
* * * *
559867 TAAAAATGATATTATAAAAGAAATTATATATCAAACATATTTTTTTAAATTAATATAAAAGTACC
1 TAAAAATGATATTATAAAAAAAATTATATATCAAACATA-TATTGTAAA-TAATATAAAAATACC
* * *
559932 TTAGTTTAAAAAAATAAATATAAATTT
64 TTAATTTAAAAAAATAAATATAAAATG
559959 TAAAAATGATATTATTAAAATAAAATTATATATCAAACATA-ATTGTAAA-AA-ATAAAAATACC
1 TAAAAATGATATTA-TAAAA-AAAATTATATATCAAACATATATTGTAAATAATATAAAAATACC
*
560021 TTAATTTATAAAAATAA
64 TTAATTTAAAAAAATAA
560038 TTTTTAAAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
89 25 0.35
90 2 0.03
92 20 0.28
93 5 0.07
94 19 0.27
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.36
Consensus pattern (90 bp):
TAAAAATGATATTATAAAAAAAATTATATATCAAACATATATTGTAAATAATATAAAAATACCTT
AATTTAAAAAAATAAATATAAAATG
Found at i:561862 original size:17 final size:18
Alignment explanation
Indices: 561840--561880 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
561830 TTTTCACCCC
*
561840 ATTTTTTATAT-ATTATT
1 ATTTTTTATATAAATATT
561857 ATTTTTTATATAAATATT
1 ATTTTTTATATAAATATT
561875 ATTTTT
1 ATTTTT
561881 ATTTCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTATATAAATATT
Found at i:565318 original size:46 final size:46
Alignment explanation
Indices: 565246--565345 Score: 182
Period size: 46 Copynumber: 2.2 Consensus size: 46
565236 GGCATGAGGT
* *
565246 TAGGATTTTCTATAAACAAAGTATATGGGTAGAAATCTTGTTTGGG
1 TAGGATTTTCTATAAACAAAGCATATGGGTAGAAATCCTGTTTGGG
565292 TAGGATTTTCTATAAACAAAGCATATGGGTAGAAATCCTGTTTGGG
1 TAGGATTTTCTATAAACAAAGCATATGGGTAGAAATCCTGTTTGGG
565338 TAGGATTT
1 TAGGATTT
565346 ACTAAAGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (46 bp):
TAGGATTTTCTATAAACAAAGCATATGGGTAGAAATCCTGTTTGGG
Found at i:573434 original size:45 final size:43
Alignment explanation
Indices: 573351--573434 Score: 114
Period size: 45 Copynumber: 1.9 Consensus size: 43
573341 TAAATAAATA
*
573351 AAAGGGGTTCAAGATGAAAACCCATAAAGGGAGTCTTGAAACT
1 AAAGGGGTTCAAGATGAAAACCCATAAAGGGAGGCTTGAAACT
* * *
573394 AAAGGAGGTCTCAAGTTGAAAACCCGTAAAGGGCGGCTTGA
1 AAAGG-GGT-TCAAGATGAAAACCCATAAAGGGAGGCTTGA
573435 GAATTGCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 5 0.14
44 3 0.09
45 27 0.77
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (43 bp):
AAAGGGGTTCAAGATGAAAACCCATAAAGGGAGGCTTGAAACT
Found at i:574752 original size:134 final size:134
Alignment explanation
Indices: 574564--575022 Score: 577
Period size: 134 Copynumber: 3.4 Consensus size: 134
574554 CTTGAATACA
* ** * * * *
574564 AGTGGAACAAGTCTGCCTAAATTCAATCTTCCCTAAGTG-ACAGTGGAATGAATCAACTTCCCCA
1 AGTGAAACAAGTCTGCCTTGATTCAATCTTCCCTGAG-GAACAATGGAATGAATCAACATCCCTA
*
574628 GATCTGATTTTCCCTCAAAAAGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATATTCCCCGA
65 GATCTGATTTTCCCTCAAAAAGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATATTCCCTGA
574693 GTAAC
130 GTAAC
*
574698 AGTGAAACAAGTCTGCCTTGATTCCATCTTCCCTGAGGAACAATGGAATGAATCAACATCCCTAG
1 AGTGAAACAAGTCTGCCTTGATTCAATCTTCCCTGAGGAACAATGGAATGAATCAACATCCCTAG
* * *
574763 ATCTGATTTTCCCTCAAGAAGAAGCGGAACATACCCCTCTCTTT-AAAGATTTGATATTCCCTGA
66 ATCTGATTTTCCCTCAAAAAGAAGCGGAACAAATCCCTCTCTTTCAAA-ATTTGATATTCCCTGA
574827 GTAAC
130 GTAAC
* * * * *
574832 AATGGAACAAGTCTGCCATGATTCAAT-TATCCCTGAGGAACAGTGGAATGAATCAACATCCATA
1 AGTGAAACAAGTCTGCCTTGATTCAATCT-TCCCTGAGGAACAATGGAATGAATCAACATCCCTA
* * * * *
574896 GAT-TCGCTTTTCCCTC-AAGAGAAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCT
65 GATCT-GATTTTCCCTCAAAAAG-AAGCGGAACAAATCCCTCTCTTTCAAAATTTGATATTCCCT
* *
574959 TATTAAC
128 GAGTAAC
* * * * *
574966 AGTAAAACAAGGCTGCCTTGATTCAATCTTCCCTGAAGAACAACGAAATGAATCAAC
1 AGTGAAACAAGTCTGCCTTGATTCAATCTTCCCTGAGGAACAATGGAATGAATCAAC
575023 GTTTCTCGAT
Statistics
Matches: 282, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
133 9 0.03
134 270 0.96
135 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (134 bp):
AGTGAAACAAGTCTGCCTTGATTCAATCTTCCCTGAGGAACAATGGAATGAATCAACATCCCTAG
ATCTGATTTTCCCTCAAAAAGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATATTCCCTGAG
TAAC
Found at i:579970 original size:20 final size:20
Alignment explanation
Indices: 579923--579974 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
579913 TATTTGTTCA
579923 AAATTATA-AATTTTAAAAT
1 AAATTATATAATTTTAAAAT
* *
579942 -ATTTTTATAATTTTAAAAT
1 AAATTATATAATTTTAAAAT
579961 AAATTATAT-ATTTT
1 AAATTATATAATTTT
579975 CATATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTATATAATTTTAAAAT
Found at i:582356 original size:22 final size:23
Alignment explanation
Indices: 582321--582364 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
582311 ATAGAATATT
*
582321 TTTTTAAATGGATATA-AATAAAA
1 TTTTAAAATGGATA-ACAATAAAA
582344 TTTTAAAAT-GATAACAATAAA
1 TTTTAAAATGGATAACAATAAA
582365 TAAAATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
TTTTAAAATGGATAACAATAAAA
Found at i:583899 original size:36 final size:36
Alignment explanation
Indices: 583853--583921 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
583843 CTTGAATATC
* * * *
583853 ATTTATTTAAATTATTTAATATTTATTTTTTGTGTT
1 ATTTATTTAAATAATTGAAAATTCATTTTTTGTGTT
*
583889 ATTTTTTTAAATAATTGAAAATTCATTTTTTGT
1 ATTTATTTAAATAATTGAAAATTCATTTTTTGT
583922 CATTTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (36 bp):
ATTTATTTAAATAATTGAAAATTCATTTTTTGTGTT
Found at i:586375 original size:31 final size:32
Alignment explanation
Indices: 586333--586413 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 32
586323 TCAATACCAA
* * *
586333 CTTAGAACCTACCCAAGGAA-TACCTTGAGGC
1 CTTAGAGCCTACCCAAGGAAGCACCTCGAGGC
* * * *
586364 CTTAGAGCCTACCTAATGAAGCATCTCGGGGC
1 CTTAGAGCCTACCCAAGGAAGCACCTCGAGGC
*
586396 CTAAGAGCCTACCCAAGG
1 CTTAGAGCCTACCCAAGG
586414 GTCACCTTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 17 0.44
32 22 0.56
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (32 bp):
CTTAGAGCCTACCCAAGGAAGCACCTCGAGGC
Found at i:587311 original size:26 final size:27
Alignment explanation
Indices: 587281--587352 Score: 110
Period size: 26 Copynumber: 2.7 Consensus size: 27
587271 TTAAGGTCAT
* *
587281 GAAGGTATTTAAGTCATTTCAGTGCTC
1 GAAGGTATTTTAGTCATTTCAGAGCTC
587308 -AAGGTATTTTAGTCATTTCAGAGCTC
1 GAAGGTATTTTAGTCATTTCAGAGCTC
*
587334 GAGGGTATTTTAGTCATTT
1 GAAGGTATTTTAGTCATTT
587353 TCTTTGATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 24 0.59
27 17 0.41
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (27 bp):
GAAGGTATTTTAGTCATTTCAGAGCTC
Found at i:588574 original size:13 final size:14
Alignment explanation
Indices: 588550--588579 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
588540 TTTAGTAATT
588550 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
588564 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
588577 TTA
1 TTA
588580 CTCCTCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:590915 original size:21 final size:20
Alignment explanation
Indices: 590891--590929 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
590881 ATTCCCCTGT
*
590891 GGGGGGAATCGGTTCCCTCAA
1 GGGGGG-ATCGATTCCCTCAA
590912 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
590930 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAA
Found at i:594667 original size:15 final size:15
Alignment explanation
Indices: 594629--594668 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
594619 TCTTTGAAAG
*
594629 TAAATTTTGCAAATC
1 TAAATTTTTCAAATC
594644 TAAATTTTTCAAATC
1 TAAATTTTTCAAATC
594659 TAAATTTTTC
1 TAAATTTTTC
594669 TTTTCAAACT
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:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTTTTCAAATC
Found at i:602050 original size:18 final size:19
Alignment explanation
Indices: 602014--602051 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
602004 AGAAATTGAT
* *
602014 AAAAGTTAATTTTATTAAA
1 AAAAATTAATTTGATTAAA
602033 AAAAATTAATTTGA-TAAA
1 AAAAATTAATTTGATTAAA
602051 A
1 A
602052 TTATAAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAAATTAATTTGATTAAA
Found at i:616123 original size:220 final size:220
Alignment explanation
Indices: 615741--616180 Score: 736
Period size: 220 Copynumber: 2.0 Consensus size: 220
615731 TGATTTTGAC
* * *
615741 TTAGTGGAATGTACTTATAAATGTCCTAGTTGCTTCGTTGAACTATTTTGGAACTGGTTTGTAAT
1 TTAGTGGAATGTACTTATAAATGTCATAGTTGCTTCGTTGAACTATTTTGAAACTGATTTGTAAT
* * *
615806 GGCTAAACTAAATTGCTTTACAATATTTCACTATAGATAGTATTATCTAGTACTATTATTGTTAT
66 GGCTAAACTAAACTGCTTTACAATATTTCACTATAGATAGTATTACCTAGTAATATTATTGTTAT
** * *
615871 AAATGGATGTATTTTATATCAAAATTCATTTTAAATATTATGTGTTAGTTTTATATAAATTAATA
131 AAATGGACATATTTTATATCAAAATCCATTTTAAATATTATGTGTTAGTTTTATATAAACTAATA
615936 TTTTATAATAATGTTTATGATTTAG
196 TTTTATAATAATGTTTATGATTTAG
*
615961 TTAGTGGCATGTACTTATAAATGTCATAGTTGCTTCGTTGAACTATTTTGAAACTGATTTGTAAT
1 TTAGTGGAATGTACTTATAAATGTCATAGTTGCTTCGTTGAACTATTTTGAAACTGATTTGTAAT
* * *
616026 GGCTAAACTAAACTGCTTTACTATATTTCACTATGGATAGTATTACCTAGTAATATTATTTTTAT
66 GGCTAAACTAAACTGCTTTACAATATTTCACTATAGATAGTATTACCTAGTAATATTATTGTTAT
* *
616091 ATATGGACATATTTTATATCAAGATCCATTTTAAATATTATGTGTTAGTTTTATATAAACTAATA
131 AAATGGACATATTTTATATCAAAATCCATTTTAAATATTATGTGTTAGTTTTATATAAACTAATA
616156 TTTTATAATAATGTTTATGATTTAG
196 TTTTATAATAATGTTTATGATTTAG
616181 AAAATTAAAA
Statistics
Matches: 204, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
220 204 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (220 bp):
TTAGTGGAATGTACTTATAAATGTCATAGTTGCTTCGTTGAACTATTTTGAAACTGATTTGTAAT
GGCTAAACTAAACTGCTTTACAATATTTCACTATAGATAGTATTACCTAGTAATATTATTGTTAT
AAATGGACATATTTTATATCAAAATCCATTTTAAATATTATGTGTTAGTTTTATATAAACTAATA
TTTTATAATAATGTTTATGATTTAG
Found at i:630525 original size:327 final size:328
Alignment explanation
Indices: 629919--630560 Score: 1103
Period size: 327 Copynumber: 1.9 Consensus size: 328
629909 GAAGCCACAA
629919 ACTGCTTGTTATGTTATTAATCGAGTAATTATTAGGCCTATTTTGAAGAAAACTCCATATGAACT
1 ACTGCTTGTTATGTTATTAATCGAGTAATTATTAGGCCTATTTTGAAGAAAACTCCATATGAACT
629984 TTTTAAAAATAAAAGCCTAACATTAGTTATTTTCATCTTTGGATGTAAATGTTTTGTTTTTAAAC
66 TTTTAAAAATAAAAGCCTAACATTAGTTATTTTCATCTTTGGATGTAAA----TTG-TTTT----
630049 AGCGGTAAAGACAATCTTGGCAAATTTGATGCTAAAAGTGATGAAGGAATTTTTTTGGGTGATTC
122 A---GTAAAGACAATCTTGGCAAATTTGATGCTAAAAGTGATGAAGGAATTTTTTTGGGTGATTC
630114 CTTAAGTTCTAAAGCTTATCGAGTATTTAATAAAAGAACTTTAGTTATAAAAGAGTCTATACATG
184 CTTAAGTTCTAAAGCTTATCGAGTATTTAATAAAAGAACTTTAGTTATAAAAGAGTCTATACATG
630179 TTGTTTTCGATGATAATCTCCTTCCGAGGAAGGAGTCTTGC-TTGAATGATGATGATGTAGGTAT
249 TTGTTTTCGATGATAATCTCCTTCCGAGGAAGGAGTCTTGCTTTGAATGATGATGATGTAGGTAT
630243 TATAAATACAATGAC
314 TATAAATACAATGAC
630258 ACTGCTTGTTATGTTATTAATCGAGTAATTATTAGGCCTATTTTGAAGAAAACTCCATATGAACT
1 ACTGCTTGTTATGTTATTAATCGAGTAATTATTAGGCCTATTTTGAAGAAAACTCCATATGAACT
630323 TTTTAAAAATTAAAAGCCTAACATTAGTTATTTTCATCATTTTGGATGTAAA-TG-TTT-GTAAA
66 TTTTAAAAA-TAAAAGCCTAACATTAGTTATTTTCATC--TTTGGATGTAAATTGTTTTAGTAAA
*
630385 GACAATCTTGGCAAATTTGATGCTAACAGTGATGAAGGAATTTTTTTGGGTGATTCCTTAAGTTC
128 GACAATCTTGGCAAATTTGATGCTAAAAGTGATGAAGGAATTTTTTTGGGTGATTCCTTAAGTTC
*
630450 TAAAGCTTATCGAGTATTTAATAAAAGAACTTTAGTTATAGAAGAGTCTATACATGTTGTTTTCG
193 TAAAGCTTATCGAGTATTTAATAAAAGAACTTTAGTTATAAAAGAGTCTATACATGTTGTTTTCG
630515 ATGATAATCTCCTTCCGAGGAAGGAGTCTTGCTTTGAATGATGATG
258 ATGATAATCTCCTTCCGAGGAAGGAGTCTTGCTTTGAATGATGATG
630561 TAGGTATTAA
Statistics
Matches: 297, Mismatches: 2, Indels: 19
0.93 0.01 0.06
Matches are distributed among these distances:
327 165 0.56
328 13 0.04
335 3 0.01
337 2 0.01
339 74 0.25
340 28 0.09
342 12 0.04
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (328 bp):
ACTGCTTGTTATGTTATTAATCGAGTAATTATTAGGCCTATTTTGAAGAAAACTCCATATGAACT
TTTTAAAAATAAAAGCCTAACATTAGTTATTTTCATCTTTGGATGTAAATTGTTTTAGTAAAGAC
AATCTTGGCAAATTTGATGCTAAAAGTGATGAAGGAATTTTTTTGGGTGATTCCTTAAGTTCTAA
AGCTTATCGAGTATTTAATAAAAGAACTTTAGTTATAAAAGAGTCTATACATGTTGTTTTCGATG
ATAATCTCCTTCCGAGGAAGGAGTCTTGCTTTGAATGATGATGATGTAGGTATTATAAATACAAT
GAC
Found at i:632618 original size:21 final size:21
Alignment explanation
Indices: 632561--632621 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
632551 TTGGTGCAGA
*
632561 GGGAATAGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-TGAAG
* * *
632583 GGGAACCAACT-CCCCCTGTAG
1 GGGAATCGA-TACCCCCTGAAG
632604 GGGAATCGATACCCCCTG
1 GGGAATCGATACCCCCTG
632622 GAGGTTCTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.58
22 11 0.35
23 1 0.03
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.16
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGAAG
Found at i:633023 original size:10 final size:10
Alignment explanation
Indices: 632995--633025 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
632985 TTTTCAAAGA
*
632995 TTTTGAAAAT
1 TTTTGAAATT
633005 TTTTGAAATT
1 TTTTGAAATT
633015 TTTTGAAATT
1 TTTTGAAATT
633025 T
1 T
633026 AATAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (10 bp):
TTTTGAAATT
Found at i:650898 original size:27 final size:28
Alignment explanation
Indices: 650868--650922 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
650858 TCTTGTTTGG
* * *
650868 ATAATGATGGTT-TTTTTATTATTAAGA
1 ATAATAATGGTTCTATTTATTATAAAGA
*
650895 ATAATAATTGTTCTATTTATTATAAAGA
1 ATAATAATGGTTCTATTTATTATAAAGA
650923 CATGTTCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (28 bp):
ATAATAATGGTTCTATTTATTATAAAGA
Found at i:656027 original size:10 final size:10
Alignment explanation
Indices: 655985--656030 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
655975 AGGTTTGTAC
*
655985 TTTAGGATAT
1 TTTAGTATAT
*
655995 TTTAGAATCAT
1 TTTAGTAT-AT
656006 TTTAGATATAT
1 TTTAG-TATAT
656017 TTTAGTATAT
1 TTTAGTATAT
656027 TTTA
1 TTTA
656031 CATCATTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 16 0.50
11 14 0.44
12 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (10 bp):
TTTAGTATAT
Found at i:665677 original size:21 final size:22
Alignment explanation
Indices: 665637--665677 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
665627 CTGCCCCTAA
* *
665637 CTTAAAGCCTTAAATTATAAAT
1 CTTAAAGCCCTAAATCATAAAT
665659 CTTAAA-CCCTAAATCATAA
1 CTTAAAGCCCTAAATCATAA
665678 TACTATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (22 bp):
CTTAAAGCCCTAAATCATAAAT
Found at i:671238 original size:3 final size:3
Alignment explanation
Indices: 671230--671272 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
671220 GACCTGTTTG
**
671230 TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TA
671273 TCAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:671268 original size:20 final size:19
Alignment explanation
Indices: 671243--671284 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
671233 TAATAATTTT
671243 AATAATAATAAT-AATAAATA
1 AATAATAAT-ATCAATAAA-A
671263 AATAATAATATCAATAAAA
1 AATAATAATATCAATAAAA
671282 AAT
1 AAT
671285 GGTAAAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAATAATATCAATAAAA
Found at i:672234 original size:223 final size:225
Alignment explanation
Indices: 671612--672350 Score: 1088
Period size: 223 Copynumber: 3.3 Consensus size: 225
671602 ATAGAGTCAT
* * *
671612 GCAAAAGGTCGAACAAGCTCTT-TTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
671676 ATTATGAACTTTCTC-GGAAAAGTTGATCCATCGAGTGATGAATTCAAACTAAA-GTTGAACAA-
66 ATTATGAACTTTCTCTGG-AAAGTTGATCCATCGAGTGATGGATTTAAGCAAAAGGTTGAACAAG
* * * * * *
671738 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAACGATTTCTTCTCATTATGAAC--TCTACC
130 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CT
* * * **
671801 GGCAATGTTGATCCATCAAATGAT-GATTCAA
194 GGAAAAGTTGATCCATCAAGTGATGGATTTGA
* **
671832 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
671897 ATTATGAAC--TATCTGAAAAGTTGATCCATCGAGTGATAGATTTAAGCAAAAGGTTGAACAAGC
66 ATTATGAACTTTCTCTGGAAAGTTGATCCATCGAGTGATGGATTTAAGCAAAAGGTTGAACAAGC
671960 TCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
672024 AAAAGTTGATCCATCAAGTGATGGATTTGA
196 AAAAGTTGATCCATCAAGTGATGGATTTGA
*
672054 GCAAAAGGTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
672119 ATTATGAACTTTCTCTGGAAAGCTGATCCATC-AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 ATTATGAACTTTCTCTGGAAAGTTGATCCATCGAGTGATGGATTTAAGCAAAAGGTTGAACAAGC
672183 TCTTCTCATTATGAACTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * *
672247 AAAAGCTAATCCATCGAGTGATGGATTTGA
196 AAAAGTTGATCCATCAAGTGATGGATTTGA
* *
672277 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
672342 ATTATGAAC
66 ATTATGAAC
672351 CCTTCTGGAA
Statistics
Matches: 470, Mismatches: 39, Indels: 17
0.89 0.07 0.03
Matches are distributed among these distances:
219 33 0.07
220 66 0.14
221 84 0.18
222 78 0.17
223 186 0.40
224 23 0.05
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (225 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAGTTGATCCATCGAGTGATGGATTTAAGCAAAAGGTTGAACAAGC
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGTTGATCCATCAAGTGATGGATTTGA
Found at i:672331 original size:24 final size:23
Alignment explanation
Indices: 672296--672340 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
672286 TGAACAAGCT
*
672296 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
672320 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAGTTCTTCT
672341 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:672361 original size:112 final size:113
Alignment explanation
Indices: 671612--672350 Score: 1074
Period size: 110 Copynumber: 6.7 Consensus size: 113
671602 ATAGAGTCAT
* * *
671612 GCAAAAGGTCGAACAAGCTCTT-TTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
671676 ATTATGAACTTTCTC-GGAAAAGTTGATCCATCGAGTGATGAATTCAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
* * * * * * *
671723 ACTAAA-GTTGAACAA-TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAACGATTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
671786 ATTATGAAC--TCTACCGGCAATGTTGATCCATCAAATGAT-GATTCAA
66 ATTATGAACTTTCT-CTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
* **
671832 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
671897 ATTATGAAC--TATCT-GAAAAGTTGATCCATCGAGTGATAGATTTAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
671942 GCAAAAGGTTGAACAAGCTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
672006 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
*
672054 GCAAAAGGTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
672119 ATTATGAACTTTCTCTGG-AAAGCTGATCCATC-AGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
672165 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-TCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
672229 ATTATGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
* *
672277 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
672342 ATTATGAAC
66 ATTATGAAC
672351 CCTTCTGGAA
Statistics
Matches: 575, Mismatches: 40, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
108 3 0.01
109 77 0.13
110 162 0.28
111 126 0.22
112 121 0.21
113 86 0.15
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTAA
Found at i:673157 original size:22 final size:21
Alignment explanation
Indices: 673093--673162 Score: 97
Period size: 20 Copynumber: 3.3 Consensus size: 21
673083 AATAAAGCTT
*
673093 TCATCTTCGAAAGAGAATCTA
1 TCATCTTTGAAAGAGAATCTA
* *
673114 TCATCTTT-AAAAAGAATTTA
1 TCATCTTTGAAAGAGAATCTA
673134 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAA-AGAGAATCTA
673156 TCATCTT
1 TCATCTT
673163 GAAGAGTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 18 0.43
21 9 0.21
22 15 0.36
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
TCATCTTTGAAAGAGAATCTA
Found at i:678056 original size:10 final size:10
Alignment explanation
Indices: 678038--678087 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
678028 CTTGATTCAA
*
678038 TTTTCCTTTT
1 TTTTTCTTTT
678048 TTTTTCTTTTT
1 TTTTTC-TTTT
678059 TTTTTCTTTT
1 TTTTTCTTTT
* *
678069 TTTTCCTTCT
1 TTTTTCTTTT
*
678079 TCTTTCTTT
1 TTTTTCTTT
678088 ATGGATGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:678058 original size:11 final size:11
Alignment explanation
Indices: 678038--678072 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
678028 CTTGATTCAA
*
678038 TTTTCCTTTTT
1 TTTTCTTTTTT
678049 TTTTCTTTTTT
1 TTTTCTTTTTT
678060 TTTTCTTTTTT
1 TTTTCTTTTTT
678071 TT
1 TT
678073 CCTTCTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:678368 original size:2 final size:2
Alignment explanation
Indices: 678361--678424 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
678351 GACAACAATG
678361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
678402 AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
678425 TTAAAAGGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:682329 original size:118 final size:115
Alignment explanation
Indices: 682190--682423 Score: 310
Period size: 118 Copynumber: 2.0 Consensus size: 115
682180 TAAATTTATT
* * *
682190 AATTTATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACTTCTAGG
1 AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
* *
682254 TGCCTTAAGA-TAGCTCTTTCTTCGATATTAAAAATAAATAAATAATTAAAAC
66 TGCCTTAAGACTA-CCCTTTCTT-AATATTAAAAATAAATAAAT-ATTAAAAC
**
682306 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATA-AATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
* ** *
682371 GTTGTTTTAAGACTACCCTTTCTTAATATTGAAAATAAATAAATATTAAAAC
64 GGTGCCTTAAGACTACCCTTTCTTAATATTAAAAATAAATAAATATTAAAAC
682423 A
1 A
682424 TGATTAAAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
116 9 0.09
117 16 0.16
118 53 0.51
119 23 0.22
120 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (115 bp):
AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
TGCCTTAAGACTACCCTTTCTTAATATTAAAAATAAATAAATATTAAAAC
Found at i:682483 original size:17 final size:18
Alignment explanation
Indices: 682448--682484 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
682438 TAAAAGTAAT
682448 TAAATAAGATTTAATAAA
1 TAAATAAGATTTAATAAA
682466 TAAATAA-ATATT-ATAAA
1 TAAATAAGAT-TTAATAAA
682483 TA
1 TA
682485 TATATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAATAAGATTTAATAAA
Found at i:683820 original size:13 final size:13
Alignment explanation
Indices: 683802--683836 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
683792 TTTAGGATTT
683802 TAGTTGGGCCATC
1 TAGTTGGGCCATC
683815 TAGTTGGGCCATC
1 TAGTTGGGCCATC
683828 TAGTTGGGC
1 TAGTTGGGC
683837 TTCCAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.20, G:0.34, T:0.31
Consensus pattern (13 bp):
TAGTTGGGCCATC
Found at i:683884 original size:3 final size:3
Alignment explanation
Indices: 683876--683938 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
683866 AGCCTGTTTG
** *
683876 TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAA -AA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
683921 TAA T-A TCAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA
683939 AAATGGGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 4 0.08
3 41 0.82
4 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:685647 original size:9 final size:10
Alignment explanation
Indices: 685631--685668 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
685621 TATATTATTA
685631 ATAAAAATAT
1 ATAAAAATAT
685641 A-AAAAATAT
1 ATAAAAATAT
*
685650 ATTTAAAATAT
1 A-TAAAAATAT
685661 ATAAAAAT
1 ATAAAAAT
685669 TTAAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 9 0.38
10 7 0.29
11 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:696299 original size:23 final size:23
Alignment explanation
Indices: 696268--696325 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
696258 TTAGCCTTCA
*
696268 TTTAACGTTCGTGAACATGTTCG
1 TTTAGCGTTCGTGAACATGTTCG
* *
696291 TTTAGCGTTCGCGAACATGTTTG
1 TTTAGCGTTCGTGAACATGTTCG
*
696314 TTTAGCATTCGT
1 TTTAGCGTTCGT
696326 ATAACGTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.41
Consensus pattern (23 bp):
TTTAGCGTTCGTGAACATGTTCG
Found at i:696331 original size:57 final size:57
Alignment explanation
Indices: 696240--696369 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
696230 TAGTTTAAAT
* * * * * *
696240 GTTCACGAACGTGTTCGTTTAGCCTTCATTTAACGTTCGTGAACATGTTCGTTTAGC
1 GTTCGCGAACATGTTCGTTTAGCATTCATATAACGTTCGTGAACAGGTTCGTTTAAC
* * * * *
696297 GTTCGCGAACATGTTTGTTTAGCATTCGTATAACGTTCTTGGACAGGTTTGTTTAAC
1 GTTCGCGAACATGTTCGTTTAGCATTCATATAACGTTCGTGAACAGGTTCGTTTAAC
696354 GTTCGCGAACATGTTC
1 GTTCGCGAACATGTTC
696370 AAAAATGTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (57 bp):
GTTCGCGAACATGTTCGTTTAGCATTCATATAACGTTCGTGAACAGGTTCGTTTAAC
Found at i:696513 original size:26 final size:27
Alignment explanation
Indices: 696483--696541 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
696473 CAATATTTAG
*
696483 AAACATCCATAAACATTTC-CATATTA
1 AAACATCCATAAACATATCACATATTA
* * *
696509 AAACATCTATCAACATATCACATTTTA
1 AAACATCCATAAACATATCACATATTA
696536 AAACAT
1 AAACAT
696542 ACTTGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (27 bp):
AAACATCCATAAACATATCACATATTA
Found at i:696827 original size:20 final size:20
Alignment explanation
Indices: 696798--696835 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
696788 AAACAAATTG
* *
696798 AAAGATAAAATCATATTGAC
1 AAAGAAAAAATCAAATTGAC
696818 AAAGAAAAAATCAAATTG
1 AAAGAAAAAATCAAATTG
696836 GTGCACGAAA
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:0.61, C:0.08, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGAAAAAATCAAATTGAC
Found at i:696971 original size:20 final size:19
Alignment explanation
Indices: 696934--696979 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
696924 AAACAATCAA
* *
696934 ATTAAATAATATATCAAAT
1 ATTAAATAATAGAACAAAT
696953 ATTAAATAAATAGAACAAAT
1 ATTAAAT-AATAGAACAAAT
696973 ACTTAAA
1 A-TTAAA
696980 AATTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 11 0.48
21 5 0.22
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTAAATAATAGAACAAAT
Found at i:698455 original size:13 final size:13
Alignment explanation
Indices: 698437--698462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
698427 AAGCTCAAAC
698437 TCCATGGAGCTGA
1 TCCATGGAGCTGA
698450 TCCATGGAGCTGA
1 TCCATGGAGCTGA
698463 CTGATAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TCCATGGAGCTGA
Found at i:699480 original size:30 final size:32
Alignment explanation
Indices: 699425--699485 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
699415 ATTTATCTAA
* *
699425 GTGTCTAATGTTACAAATGTTATTAT-TTTAG
1 GTGTCTAATATTACAAATATTATTATATTTAG
699456 GTGTCTAATATTA-AAATATTATTATATTTA
1 GTGTCTAATATTACAAATATTATTATATTTA
699486 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (32 bp):
GTGTCTAATATTACAAATATTATTATATTTAG
Found at i:711079 original size:18 final size:18
Alignment explanation
Indices: 711058--711092 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
711048 AAAAATTATT
711058 TTTTTGA-GAAATCTTGTG
1 TTTTTGATGAAAT-TTGTG
711076 TTTTTGATGAAATTTGT
1 TTTTTGATGAAATTTGT
711093 TGTAGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.54
Consensus pattern (18 bp):
TTTTTGATGAAATTTGTG
Found at i:715816 original size:18 final size:18
Alignment explanation
Indices: 715775--715817 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
715765 AACTCCAACA
*
715775 TTCTTCTTTTTCTCCGTC
1 TTCTTCTTTGTCTCCGTC
*
715793 TCCTTCTTTGTCT-CGTCC
1 TTCTTCTTTGTCTCCGT-C
715811 TTCTTCT
1 TTCTTCT
715818 CGAGGTGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.35, G:0.07, T:0.58
Consensus pattern (18 bp):
TTCTTCTTTGTCTCCGTC
Found at i:722340 original size:15 final size:15
Alignment explanation
Indices: 722317--722354 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
722307 TTAGTTGTTG
*
722317 GTTCATCAGGAACAA
1 GTTCTTCAGGAACAA
722332 GTTCTTCAGGAACAA
1 GTTCTTCAGGAACAA
722347 GTTCTTCA
1 GTTCTTCA
722355 ATGACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (15 bp):
GTTCTTCAGGAACAA
Found at i:725439 original size:54 final size:54
Alignment explanation
Indices: 725373--725492 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
725363 TTTATTAAGA
*
725373 TGCACACATAGTGCCTATATAGTCGTTCATCAACACATGATGAATTCCT-TGAGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACACATGATGAATT-CTGTGAGT
* * *
725427 TGTACACATAGTGCCTGTACAGTTGTTCATCAACACATGATGAATTCTGTGAGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACACATGATGAATTCTGTGAGT
725481 TGCACACATAGT
1 TGCACACATAGT
725493 TCTACAGAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.03
54 58 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACAGTCGTTCATCAACACATGATGAATTCTGTGAGT
Found at i:728624 original size:54 final size:54
Alignment explanation
Indices: 728509--728900 Score: 425
Period size: 54 Copynumber: 7.3 Consensus size: 54
728499 TTTATTAAGA
* * * * * * * *
728509 TGCACACGTAGTGCCTATATGGTCGTTCATCAATATATGATGAA-TT--AGAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
* * *
728560 TGCACACATAGTGCTTGTACGGTTGTTTATCAACACATGATGAATTTCGTGAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
* *
728614 TGCACACATAGTTCCTCCTGTACGATTGTTCATCAACACATGATGAATTCCGTGAGT
1 TGCACACATAG-T--GCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
* * * * **
728671 TACACACATAATGCCTGTACGGTTGTTCATCAACATATGATGAATACCGTGAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
* * * * *
728725 TGCACACATAGTTCTTGTATGATTGTTCATCAACATATAATGAA-TTCTGTGAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTC-GTGAGT
* * *
728779 TGTACACATAGTGCCTATACGATTGTTCATCAACACATGATGAA-TTCTGTAAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTC-GTGAGT
* * *
728833 TGCACACATAGTGCCTGTATGGTTGTTCATCAACACATAATGAATTTCGTGAGT
1 TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
*
728887 TGCACATATAGTGC
1 TGCACACATAGTGC
728901 ATGCGATACA
Statistics
Matches: 289, Mismatches: 44, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
51 36 0.12
52 2 0.01
53 1 0.00
54 199 0.69
55 4 0.01
56 1 0.00
57 46 0.16
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGATTGTTCATCAACACATGATGAATTTCGTGAGT
Found at i:728818 original size:162 final size:162
Alignment explanation
Indices: 728533--728900 Score: 476
Period size: 162 Copynumber: 2.3 Consensus size: 162
728523 CTATATGGTC
* * *
728533 GTTCATCAATATATGATGAAT--TAGAGTTGCACACATAGTGCTTGTACGGTTGTTTATCAACAC
1 GTTCATCAACATATGATGAATCGT-GAGTTGCACACATAGTGCTTGTACGATTGTTCATCAACAC
* * *
728596 ATGATGAATTTCGTGAGTTGCACACATAGTTCCTCCTGTACGATTGTTCATCAACACATGATGAA
65 ATAATGAATTTCGTGAGTTGCACACATAGTT-CGCCTATACGATTGTTCATCAACACATGATGAA
*
728661 TTCCGTGAGTTACACACATAATGCCTGTACGGTT
129 TTCCGTAAGTTACACACATAATGCCTGTACGGTT
* *
728695 GTTCATCAACATATGATGAATACCGTGAGTTGCACACATAGTTCTTGTATGATTGTTCATCAACA
1 GTTCATCAACATATGATGAAT--CGTGAGTTGCACACATAGTGCTTGTACGATTGTTCATCAACA
* *
728760 TATAATGAA-TTCTGTGAGTTGTACACATAG-T-GCCTATACGATTGTTCATCAACACATGATGA
64 CATAATGAATTTC-GTGAGTTGCACACATAGTTCGCCTATACGATTGTTCATCAACACATGATGA
* * * *
728822 ATTCTGTAAGTTGCACACATAGTGCCTGTATGGTT
128 ATTCCGTAAGTTACACACATAATGCCTGTACGGTT
* * *
728857 GTTCATCAACACATAATGAATTTCGTGAGTTGCACATATAGTGC
1 GTTCATCAACATATGATGAA--TCGTGAGTTGCACACATAGTGC
728901 ATGCGATACA
Statistics
Matches: 180, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
162 116 0.64
164 5 0.03
165 58 0.32
166 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (162 bp):
GTTCATCAACATATGATGAATCGTGAGTTGCACACATAGTGCTTGTACGATTGTTCATCAACACA
TAATGAATTTCGTGAGTTGCACACATAGTTCGCCTATACGATTGTTCATCAACACATGATGAATT
CCGTAAGTTACACACATAATGCCTGTACGGTT
Found at i:729274 original size:22 final size:20
Alignment explanation
Indices: 729232--729276 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
729222 AGACTCAATA
*
729232 GTATTGATACCCATACCATG
1 GTATTGATACCAATACCATG
*
729252 GTATTGATACTTCAATACTATG
1 GTATTGATAC--CAATACCATG
729274 GTA
1 GTA
729277 CCGATACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
GTATTGATACCAATACCATG
Found at i:732586 original size:24 final size:24
Alignment explanation
Indices: 732553--732599 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
732543 TTTGCTAATT
*
732553 TTTTACTTATTTTTATT-TTATTTA
1 TTTTAATTA-TTTTATTATTATTTA
732577 TTTTAATTATTTTATTATTATTT
1 TTTTAATTATTTTATTATTATTT
732600 GCATTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTAATTATTTTATTATTATTTA
Found at i:733373 original size:38 final size:38
Alignment explanation
Indices: 733331--733445 Score: 140
Period size: 38 Copynumber: 3.3 Consensus size: 38
733321 TCATATCATT
733331 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
1 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
* * *
733369 TTTGAATA-TT--AA-T--AGGATAATTATAT-TTT--
1 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
733398 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
1 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
733436 TTTGAATATT
1 TTTGAATATT
733446 AGTAGGATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
29 8 0.13
30 2 0.03
31 3 0.05
32 12 0.19
33 1 0.02
34 1 0.02
35 12 0.19
36 3 0.05
37 2 0.03
38 18 0.29
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (38 bp):
TTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAA
Found at i:733402 original size:29 final size:29
Alignment explanation
Indices: 733369--733474 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
733359 ATCTCTTTAA
733369 TTTGAATATTAATAGGATAATTATATTTT
1 TTTGAATATTAATAGGATAATTATATTTT
* * *
733398 TTTGAATATTTCAAATTAAAAGATATTTATCTCTTT
1 TTTGAATA-TT--AA-T--AGGATAATTATAT-TTT
* *
733434 AATTTGAATATTAGTAGGATAATTATATTCT
1 --TTTGAATATTAATAGGATAATTATATTTT
733465 TTTGAATATT
1 TTTGAATATT
733475 TCAAATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
29 18 0.30
30 2 0.03
31 2 0.03
32 12 0.20
33 1 0.02
34 1 0.02
35 11 0.18
36 3 0.05
37 2 0.03
38 8 0.13
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (29 bp):
TTTGAATATTAATAGGATAATTATATTTT
Found at i:733412 original size:67 final size:67
Alignment explanation
Indices: 733330--733563 Score: 337
Period size: 67 Copynumber: 3.5 Consensus size: 67
733320 TTCATATCAT
733330 TTTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAATTTGAATATTAATAGGATAATTATAT
1 TTTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAATTTGAATATTAATAGGATAATTATAT
*
733395 TT
66 TC
*
733397 TTTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAATTTGAATATTAGTAGGATAATTATAT
1 TTTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAATTTGAATATTAATAGGATAATTATAT
733462 TC
66 TC
* * *
733464 TTTTGAATATTTCAAATTAAAAGATATTATTTATCTCTTTAAATTTTAATATTAAAAGG-TAAAT
1 TTTTGAATATTTCAAATTAAAAG--A-TATTTATCTCTTT-AATTTGAATATTAATAGGATAATT
733528 ATA-TC
62 ATATTC
* * * *
733533 TTTTAAATGTTTCAAACTAAAATATATTTAT
1 TTTTGAATATTTCAAATTAAAAGATATTTAT
733564 TATCTATTTA
Statistics
Matches: 153, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
66 7 0.05
67 89 0.58
69 22 0.14
70 20 0.13
71 15 0.10
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (67 bp):
TTTTGAATATTTCAAATTAAAAGATATTTATCTCTTTAATTTGAATATTAATAGGATAATTATAT
TC
Found at i:733518 original size:35 final size:34
Alignment explanation
Indices: 733354--733600 Score: 117
Period size: 35 Copynumber: 7.1 Consensus size: 34
733344 AATTAAAAGA
*
733354 TATTTATCTCTTT-AATTTGAATATTAATAGGATAAT
1 TATTTATCT-TTTAAATTTGAATATTAA-AAGAT-AT
*
733390 TATATT-T-TTTTGAATATTTCAA-ATTAAAAG--A-
1 TAT-TTATCTTTT-AA-ATTTGAATATTAAAAGATAT
* *
733421 TATTTATCTCTTT-AATTTGAATATTAGTAGGATAAT
1 TATTTATCT-TTTAAATTTGAATATTA-AAAGAT-AT
* *
733457 TATAT-TCTTTTGAATATTTCAA-ATTAAAAGATAT
1 TATTTATCTTTT-AA-ATTTGAATATTAAAAGATAT
* *
733491 TATTTATCTCTTTAAATTTTAATATTAAAAGGTA-
1 TATTTATCT-TTTAAATTTGAATATTAAAAGATAT
* * * * *
733525 AATATATCTTTTAAATGTTTCAA-ACTAAAATATAT
1 TATTTATCTTTTAAA--TTTGAATATTAAAAGATAT
733560 T-TATTATCTATTTAAATTTGAATA-TAGAAAGATAT
1 TAT-TTATCT-TTTAAATTTGAATATTA-AAAGATAT
733595 ATATTT
1 -TATTT
733601 TGAATAAATC
Statistics
Matches: 161, Mismatches: 22, Indels: 56
0.67 0.09 0.23
Matches are distributed among these distances:
30 8 0.05
31 9 0.06
32 4 0.02
33 9 0.06
34 41 0.25
35 44 0.27
36 31 0.19
37 15 0.09
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (34 bp):
TATTTATCTTTTAAATTTGAATATTAAAAGATAT
Found at i:735901 original size:28 final size:28
Alignment explanation
Indices: 735868--735926 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
735858 AGTATGATCA
735868 TCCAAAATGGTTAAAAAATATTGATGGC
1 TCCAAAATGGTTAAAAAATATTGATGGC
735896 TCCAAAATGGTTAAAAAATATTGATGGC
1 TCCAAAATGGTTAAAAAATATTGATGGC
735924 TCC
1 TCC
735927 TATTTGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (28 bp):
TCCAAAATGGTTAAAAAATATTGATGGC
Found at i:737833 original size:78 final size:78
Alignment explanation
Indices: 737679--737826 Score: 185
Period size: 77 Copynumber: 1.9 Consensus size: 78
737669 ATATAGTAAG
* *
737679 AAACATTAAAAGAATGTAATTTTGATTACAACTCTTTTAATCGATATTTAATTCAGGATAATTTA
1 AAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATCGATATTTAATTCA-GATAATTAA
737744 ATAAGAGTTTAAAT
65 ATAAGAGTTTAAAT
* * * * *
737758 AAACATT-AAAGATTGTAATTTAGATTATAAGTC-TTTAATGGATATTTAATTTTA-ATTAATTA
1 AAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATCGATATTTAA-TTCAGA-TAATTA
737820 AATAAGA
64 AATAAGA
737827 TTTTTAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 1 0.02
77 27 0.45
78 25 0.42
79 7 0.12
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (78 bp):
AAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATCGATATTTAATTCAGATAATTAAA
TAAGAGTTTAAAT
Found at i:740882 original size:267 final size:267
Alignment explanation
Indices: 740407--740940 Score: 1068
Period size: 267 Copynumber: 2.0 Consensus size: 267
740397 CATCCTGAAA
740407 CAAGTAAAAGGGGATGCAAATTTGAAGTACAAGCTTAACCAAAGCATCAAGTAACAATGGAAAGG
1 CAAGTAAAAGGGGATGCAAATTTGAAGTACAAGCTTAACCAAAGCATCAAGTAACAATGGAAAGG
740472 CTTACAACTTAATTATACAGAAAGCATTTTAGGGCTATAACTGGTACCTCCTGGCTGCTTGAAGC
66 CTTACAACTTAATTATACAGAAAGCATTTTAGGGCTATAACTGGTACCTCCTGGCTGCTTGAAGC
740537 ATTAGAATTAGTAGTTTCAGAAGACATCTTCTCAACTAAAAAGTTATTTTTACATCTTTTCTTAT
131 ATTAGAATTAGTAGTTTCAGAAGACATCTTCTCAACTAAAAAGTTATTTTTACATCTTTTCTTAT
740602 TTGGATGAAAATGATAGAACAGTATAAGAAAACCCAATTTTTTCGTCCAGTAAAAAATGGAAACT
196 TTGGATGAAAATGATAGAACAGTATAAGAAAACCCAATTTTTTCGTCCAGTAAAAAATGGAAACT
740667 GAAAAGT
261 GAAAAGT
740674 CAAGTAAAAGGGGATGCAAATTTGAAGTACAAGCTTAACCAAAGCATCAAGTAACAATGGAAAGG
1 CAAGTAAAAGGGGATGCAAATTTGAAGTACAAGCTTAACCAAAGCATCAAGTAACAATGGAAAGG
740739 CTTACAACTTAATTATACAGAAAGCATTTTAGGGCTATAACTGGTACCTCCTGGCTGCTTGAAGC
66 CTTACAACTTAATTATACAGAAAGCATTTTAGGGCTATAACTGGTACCTCCTGGCTGCTTGAAGC
740804 ATTAGAATTAGTAGTTTCAGAAGACATCTTCTCAACTAAAAAGTTATTTTTACATCTTTTCTTAT
131 ATTAGAATTAGTAGTTTCAGAAGACATCTTCTCAACTAAAAAGTTATTTTTACATCTTTTCTTAT
740869 TTGGATGAAAATGATAGAACAGTATAAGAAAACCCAATTTTTTCGTCCAGTAAAAAATGGAAACT
196 TTGGATGAAAATGATAGAACAGTATAAGAAAACCCAATTTTTTCGTCCAGTAAAAAATGGAAACT
740934 GAAAAGT
261 GAAAAGT
740941 TAAATAACAA
Statistics
Matches: 267, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 267 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (267 bp):
CAAGTAAAAGGGGATGCAAATTTGAAGTACAAGCTTAACCAAAGCATCAAGTAACAATGGAAAGG
CTTACAACTTAATTATACAGAAAGCATTTTAGGGCTATAACTGGTACCTCCTGGCTGCTTGAAGC
ATTAGAATTAGTAGTTTCAGAAGACATCTTCTCAACTAAAAAGTTATTTTTACATCTTTTCTTAT
TTGGATGAAAATGATAGAACAGTATAAGAAAACCCAATTTTTTCGTCCAGTAAAAAATGGAAACT
GAAAAGT
Found at i:744712 original size:19 final size:18
Alignment explanation
Indices: 744671--744713 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
744661 ATAATATTTT
* *
744671 ATATATCTTAATTTAAAT
1 ATATATCTCAATTTAAAA
*
744689 TTATATCTCAAGTTTAAAA
1 ATATATCTCAA-TTTAAAA
744708 ATATAT
1 ATATAT
744714 ATTTATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATATCTCAATTTAAAA
Found at i:744768 original size:21 final size:20
Alignment explanation
Indices: 744701--744762 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
744691 ATATCTCAAG
744701 TTTAAAAATATATATTTATTA
1 TTTAAAAATATAT-TTTATTA
* *
744722 TTTATTAAATAT-TTTAAATTTA
1 TTTA-AAAATATATTT-TA-TTA
744744 TTTAAAAATATATTTTATT
1 TTTAAAAATATATTTTATT
744763 CCTTTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
20 4 0.12
21 13 0.39
22 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAAATATATTTTATTA
Found at i:749699 original size:63 final size:63
Alignment explanation
Indices: 749599--749743 Score: 190
Period size: 63 Copynumber: 2.3 Consensus size: 63
749589 ACTTAAGTTA
* * *
749599 ATAATATAAAATATA--TTTTAAGTTAATAAAAGAATAATATATATATAT-ATATGATGTTATG
1 ATAATA-AAAATATATTTTTTAAGTTAATAAAAGAATAATACATATATATAATATGAAGTTAAG
* *
749660 ATAATAAAAATATATTTTTTAGGTTTAATAAAAGGATAATACATATATATAATATGAAGTTAAG
1 ATAATAAAAATATATTTTTTAAG-TTAATAAAAGAATAATACATATATATAATATGAAGTTAAG
*
749724 AT-ATACAAATATATTTTTTA
1 ATAATAAAAATATATTTTTTA
749744 TATTAATGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
60 8 0.11
61 6 0.08
62 6 0.08
63 41 0.55
64 13 0.18
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (63 bp):
ATAATAAAAATATATTTTTTAAGTTAATAAAAGAATAATACATATATATAATATGAAGTTAAG
Found at i:749767 original size:29 final size:29
Alignment explanation
Indices: 749730--749827 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
749720 TAAGATATAC
* *
749730 AAATATATTTTTTATATTAATGAAATATA
1 AAATATATTTTTAATATTAATGAAAAATA
*
749759 AAATATATTTTTAAAATTAA-GATAAAAATA
1 AAATATATTTTTAATATTAATG--AAAAATA
**
749789 AAATATATTTTTAAATAAAAAT-AAAAATA
1 AAATATATTTTT-AATATTAATGAAAAATA
749818 AAATATATTT
1 AAATATATTT
749828 AATAAGTTGG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.02
29 35 0.59
30 18 0.31
31 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
AAATATATTTTTAATATTAATGAAAAATA
Found at i:753730 original size:24 final size:24
Alignment explanation
Indices: 753703--753788 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
753693 TCTGATTTGA
* *
753703 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
753727 ATTCTAATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
*
753750 A-T-TG--AT-ATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
753769 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
753789 TTGAATATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 3 0.06
19 10 0.21
20 1 0.02
21 3 0.06
22 1 0.02
23 10 0.21
24 20 0.42
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:756845 original size:27 final size:27
Alignment explanation
Indices: 756807--756892 Score: 145
Period size: 27 Copynumber: 3.2 Consensus size: 27
756797 ATGAAGATCT
* *
756807 TGATGCTGTGGACTTTCAAGTTCAAAG
1 TGATGCTATGGAGTTTCAAGTTCAAAG
*
756834 TGATGGTATGGAGTTTCAAGTTCAAAG
1 TGATGCTATGGAGTTTCAAGTTCAAAG
756861 TGATGCTATGGAGTTTCAAGTTCAAAG
1 TGATGCTATGGAGTTTCAAGTTCAAAG
756888 TGATG
1 TGATG
756893 ATGGCGGTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (27 bp):
TGATGCTATGGAGTTTCAAGTTCAAAG
Found at i:757693 original size:45 final size:41
Alignment explanation
Indices: 757641--757736 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 41
757631 TAATATTTTA
** *
757641 AAATAATATATAATATATAATTATTTATTATATTTTAAATAATT
1 AAATAATATAT--TATATAACAATGT-TTATATTTTAAATAATT
* *
757685 AAATTAATATATTTTATAACAATGTTTATATTTTTAATAATT
1 AAA-TAATATATTATATAACAATGTTTATATTTTAAATAATT
757727 AAATAATATA
1 AAATAATATA
757737 CTTTAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 7 0.15
42 19 0.41
43 9 0.20
44 3 0.07
45 8 0.17
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (41 bp):
AAATAATATATTATATAACAATGTTTATATTTTAAATAATT
Found at i:758531 original size:20 final size:20
Alignment explanation
Indices: 758508--758554 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
758498 GTTTCCAAAT
758508 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
758528 TCGCAACGTGAATTTGTAAA
1 TCGCAACGCGAATATGTAAA
758548 TCGCAAC
1 TCGCAAC
758555 ATAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:758747 original size:21 final size:22
Alignment explanation
Indices: 758721--758777 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
758711 TCACTCTTTA
* *
758721 CGACGACATCCGTCCCCAT-TT
1 CGACGAAATCCGTCCCCATCTC
758742 CGACGAAATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
758764 CGACGAAATCCGTC
1 CGACGAAATCCGTC
758778 TATCTCCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:760772 original size:21 final size:20
Alignment explanation
Indices: 760747--760804 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
760737 ATCCTTTAGC
760747 AAAAGGATCGATCCCTTTGA
1 AAAAGGATCGATCCCTTTGA
* * * *
760767 CTAAAGGATTGTTCCCCTTGA
1 -AAAAGGATCGATCCCTTTGA
760788 AAAAGGATCGATCCCTT
1 AAAAGGATCGATCCCTT
760805 GGATTCCAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (20 bp):
AAAAGGATCGATCCCTTTGA
Found at i:771900 original size:11 final size:11
Alignment explanation
Indices: 771884--771910 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
771874 CTAATATACA
771884 CAAATTATGTG
1 CAAATTATGTG
771895 CAAATTATGTG
1 CAAATTATGTG
771906 CAAAT
1 CAAAT
771911 ATACACAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (11 bp):
CAAATTATGTG
Found at i:776198 original size:23 final size:21
Alignment explanation
Indices: 776170--776222 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
776160 TTAAATTAAA
776170 AATATAATATCA-TATATTATAAT
1 AATATAATATCAGTATA-TAT--T
*
776193 AATATAA-CTCAGTATATATT
1 AATATAATATCAGTATATATT
776213 AATATAATAT
1 AATATAATAT
776223 TTAAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
22 6 0.23
23 11 0.42
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATAATATCAGTATATATT
Found at i:783994 original size:6 final size:6
Alignment explanation
Indices: 783979--784040 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
783969 TTGACTTTTG
* * * *
783979 GTCAAA GTCAAC GTCAAA GTCAAA GTC-AA CTC-TA GTCAAA GTTAACA
1 GTCAAA GTCAAA GTCAAA GTCAAA GTCAAA GTCAAA GTCAAA GTCAA-A
784026 GTC--A GTCAAA GTCAA
1 GTCAAA GTCAAA GTCAA
784041 TGAGTTGATT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.09
5 7 0.16
6 30 0.68
7 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (6 bp):
GTCAAA
Found at i:784074 original size:13 final size:13
Alignment explanation
Indices: 784056--784081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
784046 TGATTGTGTC
784056 TGAGTTGACTCAG
1 TGAGTTGACTCAG
784069 TGAGTTGACTCAG
1 TGAGTTGACTCAG
784082 CTTGACCCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
TGAGTTGACTCAG
Found at i:785282 original size:608 final size:610
Alignment explanation
Indices: 784128--785346 Score: 2293
Period size: 608 Copynumber: 2.0 Consensus size: 610
784118 TGAATCTCAC
784128 GCGCACTGTCGGCGCGTGCGGCGGTGATAAGGGTCGCTTTAGCGGGACGATCACTCCGGTTGCTA
1 GCGCACTGTCGGCGCGTGCGGCGGTGATAAGGGTCGCTTTAGCGGGACGATCACTCCGGTTGCTA
784193 CCTCGACTTCAAACAACGTAAACCCATAAAAAATAAGCAAAACGAGCAAAAATTAACCAGAAATC
66 CCTCGACTTCAAACAACGTAAACCCATAAAAAATAAGCAAAACGAGCAAAAATTAACCAGAAATC
784258 AACCTGATCTTACCCACGCTGACGAAAAAGAGAACGGCGACCACGATACTACCCAATGGTAAGGT
131 AACCTGATCTTACCCACGCTGACGAAAAAGAGAACGGCGACCACGATACTACCCAATGGTAAGGT
* *
784323 TTCGAACGGGAGGCGATGGGAAGTCCAACCACGCCGACGGTGAAGCGAACGGAAGTTGATGGTAG
196 TTCGAACGGGAGGCGATAGGAAGTCCAACCACACCGACGGTGAAGCGAACGGAAGTTGATGGTAG
*
784388 TCAGAAATTACGGTTAATCAAGGTGACGAGGGTTGGGGACGATGAAGCTTTAGTGAGCTTCCTAC
261 TCAGAAATTACGGTTAATCAAGGTGACGAGGGTTGGGGACGACGAAGCTTTAGTGAGCTTCCTAC
*
784453 GGCGAACGATGTCGTTGTTCGATGCGGAAAGGCTTGGTTTTTAGTTGTTGACCGACAACGAGTTG
326 GGCGAACGATGTCGTTGTTCGATGCGGAAAGACTTGGTTTTTAGTTGTTGACCGACAACGAGTTG
*
784518 AATGGAGGCGGTGACGGATGACGGGGTGACTAGCCTTTAAAACAATAAAACAAATTTTAAATTAA
391 AATGGAGGCGGTGACGGACGACGGGGTGACTAGCCTTTAAAACAATAAAACAAATTTTAAATTAA
784583 AAATTTCAATAGCAGTACCCTAGTCGTTTAGGCTAGGGCATGGGTGACCTTTTCCCCGAGGGACG
456 AAATTTCAATAGCAGTACCCTAGTCGTTTAGGCTAGGGCATGGGTGACCTTTTCCCCGAGGGACG
784648 ACCCTTCTTTAATTTTTTATCTATCGACAGAAAATTTGGGGTGTTATAATCAC-AACTAATC-AA
521 ACCCTTCTTTAATTTTTTATCTATCGACAGAAAATTTGGGGTGTTAT-ATCACAAACTAATCAAA
*
784711 TCATTAGTCGTCT-TGATTAAAACGA
585 TCATTAGTCGTCTCTAATTAAAACGA
784736 GCGCACTGTCGGCGCGTGCGGCGGTGATAAGGGTCGCTTTAGCGGGACGATCACTCCGGTTGCTA
1 GCGCACTGTCGGCGCGTGCGGCGGTGATAAGGGTCGCTTTAGCGGGACGATCACTCCGGTTGCTA
*
784801 CCTCGACTTCAAACAACGTGAACCCATAAAAAATAAGCAAAACGAGCAAAAATTAACCAGAAATC
66 CCTCGACTTCAAACAACGTAAACCCATAAAAAATAAGCAAAACGAGCAAAAATTAACCAGAAATC
*
784866 AACCTGATCTTACCCACGCTGACGAAAAAGAGAATGGCGACCACGATACTACCCAATGGTAAGGT
131 AACCTGATCTTACCCACGCTGACGAAAAAGAGAACGGCGACCACGATACTACCCAATGGTAAGGT
784931 TTCGAACGGGAGGCGATAGGAAGTCCAACCACACCGACGGTGAAGCGAACGGAAGTTGATGGTAG
196 TTCGAACGGGAGGCGATAGGAAGTCCAACCACACCGACGGTGAAGCGAACGGAAGTTGATGGTAG
784996 TCAGAAATTACGGTTAATCAAGGTGACGAGGGTTGGGGACGACGAAGCTTTAGTGAGCTTCCTAC
261 TCAGAAATTACGGTTAATCAAGGTGACGAGGGTTGGGGACGACGAAGCTTTAGTGAGCTTCCTAC
* * *
785061 GGCGAACGATGTCGTTGTTCGATGCGGAGAGACTTGGTTTTTGGTTGTTGATCGACAACGAGTTG
326 GGCGAACGATGTCGTTGTTCGATGCGGAAAGACTTGGTTTTTAGTTGTTGACCGACAACGAGTTG
785126 AATGGAGGCGGTGACGGACGAC-GGGTGACTAGCCTTTAAAACAATAAAACAAATTTTAAATTAA
391 AATGGAGGCGGTGACGGACGACGGGGTGACTAGCCTTTAAAACAATAAAACAAATTTTAAATTAA
785190 AAATTTCAATAGCAGTACCCTAGTCGTTTAGGCTAGGGCATGGGTGACCTTTTCCCCGAGGGACA
456 AAATTTCAATAGCAGTACCCTAGTCGTTTAGGCTAGGGCATGGGTGACCTTTTCCCCGAGGGAC-
785255 GACCCTTCTTTAATTTTTTATCTATCGACAGAAAATTTGGGGTGTTATATCACAAACTAATCAAA
520 GACCCTTCTTTAATTTTTTATCTATCGACAGAAAATTTGGGGTGTTATATCACAAACTAATCAAA
785320 TCATTAGTCGTCTCTAATTAAAACGA
585 TCATTAGTCGTCTCTAATTAAAACGA
785346 G
1 G
785347 TGCCAATCCC
Statistics
Matches: 596, Mismatches: 11, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
607 111 0.19
608 458 0.77
609 15 0.03
610 12 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (610 bp):
GCGCACTGTCGGCGCGTGCGGCGGTGATAAGGGTCGCTTTAGCGGGACGATCACTCCGGTTGCTA
CCTCGACTTCAAACAACGTAAACCCATAAAAAATAAGCAAAACGAGCAAAAATTAACCAGAAATC
AACCTGATCTTACCCACGCTGACGAAAAAGAGAACGGCGACCACGATACTACCCAATGGTAAGGT
TTCGAACGGGAGGCGATAGGAAGTCCAACCACACCGACGGTGAAGCGAACGGAAGTTGATGGTAG
TCAGAAATTACGGTTAATCAAGGTGACGAGGGTTGGGGACGACGAAGCTTTAGTGAGCTTCCTAC
GGCGAACGATGTCGTTGTTCGATGCGGAAAGACTTGGTTTTTAGTTGTTGACCGACAACGAGTTG
AATGGAGGCGGTGACGGACGACGGGGTGACTAGCCTTTAAAACAATAAAACAAATTTTAAATTAA
AAATTTCAATAGCAGTACCCTAGTCGTTTAGGCTAGGGCATGGGTGACCTTTTCCCCGAGGGACG
ACCCTTCTTTAATTTTTTATCTATCGACAGAAAATTTGGGGTGTTATATCACAAACTAATCAAAT
CATTAGTCGTCTCTAATTAAAACGA
Found at i:788324 original size:77 final size:78
Alignment explanation
Indices: 788172--788329 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 78
788162 TAGAAAAAAT
***
788172 AATATTTTAGGTAGCGTCCAATATTAACATTTTTTATAGAAAAAATAATATTTTAAGTAACGCTT
1 AATATTTTAGGTAGCGTCCAATATTAACATTTCCGATA-AAAAAATAATATTTTAAGTAACGCTT
788237 TACCAGAAATGTTA
65 TACCAGAAATGTTA
* * * * * **
788251 AATATTTTAGGTATCGTCCAATATTAATATTTCCGGT-AAAAAATAATGTTTTAGGTAGTGCTTT
1 AATATTTTAGGTAGCGTCCAATATTAACATTTCCGATAAAAAAATAATATTTTAAGTAACGCTTT
788315 ACC-GAAAATGTTA
66 ACCAG-AAATGTTA
788328 AA
1 AA
788330 AAAATATTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 1 0.01
77 36 0.53
79 31 0.46
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (78 bp):
AATATTTTAGGTAGCGTCCAATATTAACATTTCCGATAAAAAAATAATATTTTAAGTAACGCTTT
ACCAGAAATGTTA
Found at i:790291 original size:25 final size:26
Alignment explanation
Indices: 790246--790296 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
790236 AAATATTAAG
*
790246 ACTTAATGCTTAAAATTAATTAAAAA
1 ACTTAATGCTTAAAATGAATTAAAAA
*
790272 ACTTAATTC-TAAAATGAATTAAAAA
1 ACTTAATGCTTAAAATGAATTAAAAA
790297 TGTTAGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (26 bp):
ACTTAATGCTTAAAATGAATTAAAAA
Found at i:794623 original size:3 final size:3
Alignment explanation
Indices: 794610--794640 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
794600 GGTCCACAAA
*
794610 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
794641 TTATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:796902 original size:15 final size:16
Alignment explanation
Indices: 796872--796902 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
796862 CCAAACTTTA
796872 TCTTAAAAATGTTTTT
1 TCTTAAAAATGTTTTT
*
796888 TCTTAAAATTGTTTT
1 TCTTAAAAATGTTTT
796903 AAAAGATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TCTTAAAAATGTTTTT
Found at i:798453 original size:14 final size:14
Alignment explanation
Indices: 798428--798470 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
798418 GATCAACATT
798428 TTTGCATC--TGCA
1 TTTGCATCATTGCA
798440 TTTGCATCATTGCA
1 TTTGCATCATTGCA
798454 TTTGCATCATTGCA
1 TTTGCATCATTGCA
798468 TTT
1 TTT
798471 ATTTAAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.28
14 21 0.72
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (14 bp):
TTTGCATCATTGCA
Found at i:799247 original size:25 final size:25
Alignment explanation
Indices: 799219--799266 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
799209 TCAGTTTTTT
799219 TTTTCAGTTATTGTTTTTGGATCAG
1 TTTTCAGTTATTGTTTTTGGATCAG
* *
799244 TTTTCGGTTATTTTTTTTGGATC
1 TTTTCAGTTATTGTTTTTGGATC
799267 GGATTGGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.19, T:0.60
Consensus pattern (25 bp):
TTTTCAGTTATTGTTTTTGGATCAG
Found at i:802319 original size:16 final size:16
Alignment explanation
Indices: 802298--802348 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
802288 GCCAAGAAAT
802298 CATACATCAACACATA
1 CATACATCAACACATA
* *
802314 CATACACCAACATATA
1 CATACATCAACACATA
802330 C--AC-T-AACACATA
1 CATACATCAACACATA
802342 CATACAT
1 CATACAT
802349 GACACATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.29
14 4 0.14
15 1 0.04
16 15 0.54
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (16 bp):
CATACATCAACACATA
Found at i:802810 original size:36 final size:37
Alignment explanation
Indices: 802726--802854 Score: 147
Period size: 36 Copynumber: 3.5 Consensus size: 37
802716 AATTTTGAAA
* *
802726 TTCT-TAAAAACAAATTTTTGTCTTGCTTGAGACAATT
1 TTCTCTAAAAACAAA-TTTTGTCTCGTTTGAGACAATT
*
802763 TTCTCTAAAAACAAATTTTGTCTCGTTTGAGATAA-T
1 TTCTCTAAAAACAAATTTTGTCTCGTTTGAGACAATT
* *
802799 TTCTCTCAAAACAAATTTTGTCTC-TCTTGAGACATTTT
1 TTCTCTAAAAACAAATTTTGTCTCGT-TTGAGACA-ATT
*
802837 TTCTTTAAAACACAAATT
1 TTCTCTAAAA-ACAAATT
802855 CTGAAGTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
35 1 0.01
36 31 0.39
37 21 0.27
38 19 0.24
39 7 0.09
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (37 bp):
TTCTCTAAAAACAAATTTTGTCTCGTTTGAGACAATT
Found at i:802959 original size:66 final size:65
Alignment explanation
Indices: 802884--803061 Score: 189
Period size: 66 Copynumber: 2.7 Consensus size: 65
802874 AACAAAATTT
* * * *
802884 ATAATCTTTGAGTCTGTTTCACTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCGTGAAAC
1 ATAACCTTTGAGTCTGTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTAAAAC
802949 A
65 A
* * * *
802950 CTAACCTTTGAGAT-TGTTTCCTTTGAAACAAATTTTGTATCTCTTGATACAGTTTCTCTTAAAA
1 ATAACCTTTGAG-TCTGTTTCC-TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTAAAA
803014 CA
64 CA
* * * **
803016 ATCATCTTTGAGTC-GTTTCCCTTAAAATGAATTTTGTCTCTCTTGA
1 ATAACCTTTGAGTCTGTTT-CCTTGAAACAAATTTTGTCTCTCTTGA
803062 AACATCATCT
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
65 27 0.29
66 65 0.70
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (65 bp):
ATAACCTTTGAGTCTGTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTAAAACA
Found at i:803560 original size:3 final size:3
Alignment explanation
Indices: 803552--803618 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
803542 GTTTATAAAA
803552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
803600 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
803619 TACTTATAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:807163 original size:2 final size:2
Alignment explanation
Indices: 807156--807186 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
807146 TCACAATAAC
807156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
807187 GAAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:809822 original size:17 final size:18
Alignment explanation
Indices: 809790--809826 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
809780 AAGGTTAGGG
809790 TAGAAAGGAATAGAAGAAA
1 TAGAAAGG-ATAGAAGAAA
809809 TAGAAAGG-TAGAAGAAA
1 TAGAAAGGATAGAAGAAA
809826 T
1 T
809827 GATTTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (18 bp):
TAGAAAGGATAGAAGAAA
Found at i:811750 original size:24 final size:25
Alignment explanation
Indices: 811706--811754 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
811696 AACTATAGAT
*
811706 ATAATATATATATATATATATGAAA
1 ATAATATATATATATACATATGAAA
811731 ATAACTATAT-TATA-ACATATGAAA
1 ATAA-TATATATATATACATATGAAA
811755 TAAACATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
ATAATATATATATATACATATGAAA
Found at i:815634 original size:2 final size:2
Alignment explanation
Indices: 815627--815652 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
815617 AATGCAAATA
815627 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
815653 TAATTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:815989 original size:3 final size:3
Alignment explanation
Indices: 815981--816036 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
815971 ACCGTTTAAC
815981 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
816029 TCT TCT TC
1 TCT TCT TC
816037 AGTAATACGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:819566 original size:360 final size:360
Alignment explanation
Indices: 818900--819629 Score: 1185
Period size: 360 Copynumber: 2.0 Consensus size: 360
818890 TATTTCGCAA
* * * * *
818900 TCTCAAGTTCAATATCTTGTATCCTAGTAATAAGAATATTCAATGTAAAAAGTTGTCTCATAGTA
1 TCTC-AGTTCAAGATCCTGTATCCTAGTAATAAAAATATTCAATGCAAAAAATTGTCTCATAGTA
*
818965 TCACGTTCACCAATGACTAGATTTCTATTGGGAATATTCTCATCAATTTTAGTATATTTCACAAA
65 TCACGTTCACCAATGACTAGATTTCTATTGGGAATATTCTCATCAATTTTAGAATATTTCACAAA
* *
819030 TAAAAGTGCAAAAGTTAGCTCCACTCCAACTTGTACAATATGCCAAAATTTTTTACCTATATCTT
130 TAAAAGTGCAAAAGTTAGCTCCACTCCAAATTGTACAATATGCCAAAATATTTTACCTATATCTT
819095 CAATCTTAATTGAGAGCATTTGAGAATAATGAACATCAATTCTGCAGACGATATTGTGAATGTCT
195 CAATCTTAATTGAGAGCATTTGAGAATAATGAACATCAATTCTGCAGACGATATTGTGAATGTCT
* ** *
819160 TGAATATGCATTTGATGAAGTAAAATTAATCTAGGACTTACATTCCTCAATTGATAATGGTCCAC
260 TGAATATGCATTTGATAAAACAAAATTAATCTAGGACTTACATTCCTCAATTGATAATGATCCAC
* *
819225 CCTCCATCATGTATCATAATAAGTGGCGGTTCTTTT
325 CCTCCATCATGCATCATAATAAGTGGCGGTTCTCTT
*
819261 TCTCAGTTCAAGATCCTGTATCCTAGTAATAAAAAATATTCAATGCAAAAAATTGTCTCATAGTC
1 TCTCAGTTCAAGATCCTGTATCCTAGTAAT-AAAAATATTCAATGCAAAAAATTGTCTCATAGTA
* * *
819326 TCACGTTCACGAATGACTAGATTTCTATTGTGAATATTCTCATCAATTTTAGAATATTTTACAAA
65 TCACGTTCACCAATGACTAGATTTCTATTGGGAATATTCTCATCAATTTTAGAATATTTCACAAA
* *
819391 TATAAGTGCAAAAGTTAGCTCCACTCCAAATTGTACAATATGGC-AAATATTTTACCTATATCTT
130 TAAAAGTGCAAAAGTTAGCTCCACTCCAAATTGTACAATATGCCAAAATATTTTACCTATATCTT
*
819455 CAATCTTAATTGAGAGCATTTGAGAATAATGAACATCAA-TCTTGCAGATGATATTGTGAATGTC
195 CAATCTTAATTGAGAGCATTTGAGAATAATGAACATCAATTC-TGCAGACGATATTGTGAATGTC
* * *
819519 TTGAATATGCATTTGCTAAAACAAAATTAATGTGGGACTTACATTCCTCAATTGATAATGATCCA
259 TTGAATATGCATTTGATAAAACAAAATTAATCTAGGACTTACATTCCTCAATTGATAATGATCCA
*
819584 CCCTCCATCATGCATCATAATAAGTGTCGGTTCTCTT
324 CCCTCCATCATGCATCATAATAAGTGGCGGTTCTCTT
*
819621 TCTTAGTTC
1 TCTCAGTTC
819630 TTCTGAAATC
Statistics
Matches: 341, Mismatches: 26, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
359 2 0.01
360 203 0.60
361 136 0.40
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (360 bp):
TCTCAGTTCAAGATCCTGTATCCTAGTAATAAAAATATTCAATGCAAAAAATTGTCTCATAGTAT
CACGTTCACCAATGACTAGATTTCTATTGGGAATATTCTCATCAATTTTAGAATATTTCACAAAT
AAAAGTGCAAAAGTTAGCTCCACTCCAAATTGTACAATATGCCAAAATATTTTACCTATATCTTC
AATCTTAATTGAGAGCATTTGAGAATAATGAACATCAATTCTGCAGACGATATTGTGAATGTCTT
GAATATGCATTTGATAAAACAAAATTAATCTAGGACTTACATTCCTCAATTGATAATGATCCACC
CTCCATCATGCATCATAATAAGTGGCGGTTCTCTT
Found at i:821454 original size:54 final size:54
Alignment explanation
Indices: 821185--821455 Score: 391
Period size: 54 Copynumber: 5.0 Consensus size: 54
821175 CTATGTGTAC
* * * *
821185 TACAT-CACTATGTGTGCAACCTATGGAATTAATCATGAGTTGATGAACAACCA
1 TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
* * **
821238 AACAGGCACTATGTGTGCAACCCACATAATTCATCATGAGTTGATGAACAACCG
1 TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
* *
821292 TACAGGCACTATGTGTGCAACCCATGGAATTCATCATGAGTTGATGAACAACCG
1 TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
* * *
821346 AACATGCACTATATGTGCAACCCACGGAATTCATTATGAGTTGATGAACAACCG
1 TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
* * *
821400 TACATGCACTATGTGTGCAACCCACAGAATTCATCATGTGCTGATGAACAACCG
1 TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
821454 TA
1 TA
821456 TAGACACTAC
Statistics
Matches: 194, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
53 3 0.02
54 191 0.98
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (54 bp):
TACATGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAACAACCG
Found at i:824491 original size:45 final size:45
Alignment explanation
Indices: 824280--824492 Score: 268
Period size: 45 Copynumber: 4.7 Consensus size: 45
824270 ACATATTTGT
* *
824280 TGTTAATAATGCACCCATATACATTTCAACTATAGTATAC-TTTC
1 TGTTGATAATGCACCCATATACATTTCAACTCTAGTATACTTTTC
* ** *
824324 ATGTTGATAATGTACATATATACATCTCAAC-CATAGTATACTTTTC
1 -TGTTGATAATGCACCCATATACATTTCAACTC-TAGTATACTTTTC
* * *
824370 TGTTGATAATGTACCCATATACATTTCAACTCTAGCATAGTTTTC
1 TGTTGATAATGCACCCATATACATTTCAACTCTAGTATACTTTTC
* *
824415 TGTTGATAATGCTCCCATATGCATTTCAACTCTAGTATACTTTTC
1 TGTTGATAATGCACCCATATACATTTCAACTCTAGTATACTTTTC
* * *
824460 TGTTGATAATGAACCCATATGCATCTCAACTCT
1 TGTTGATAATGCACCCATATACATTTCAACTCT
824493 GGCATCATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
45 141 0.97
46 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATACATTTCAACTCTAGTATACTTTTC
Found at i:824514 original size:90 final size:89
Alignment explanation
Indices: 824280--824529 Score: 243
Period size: 90 Copynumber: 2.8 Consensus size: 89
824270 ACATATTTGT
* * * * * * *** * **
824280 TGTTAATAATGCACCCATATACATTTCAACTATAGTATACTTTCATGTTGATAATGTACATATAT
1 TGTTGATAATGAACCCATATACATCTCAACTCTAGCATAGTTTC-TGCCAATAATGCACCCATAT
* *
824345 ACATCTCAAC-CATAGTATACTTTTC
65 GCATTTCAACTC-TAGTATACTTTTC
* * *** *
824370 TGTTGATAATGTACCCATATACATTTCAACTCTAGCATAGTTTTCTGTTGATAATGCTCCCATAT
1 TGTTGATAATGAACCCATATACATCTCAACTCTAGCATAG-TTTCTGCCAATAATGCACCCATAT
824435 GCATTTCAACTCTAGTATACTTTTC
65 GCATTTCAACTCTAGTATACTTTTC
* *
824460 TGTTGATAATGAACCCATATGCATCTCAACTCTGGCATCA-TTTCATGCCAATAATGCACCCATA
1 TGTTGATAATGAACCCATATACATCTCAACTCTAGCAT-AGTTTC-TGCCAATAATGCACCCATA
824524 TGCATT
64 TGCATT
824530 ATTCTGTTAT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
89 4 0.03
90 127 0.93
91 6 0.04
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (89 bp):
TGTTGATAATGAACCCATATACATCTCAACTCTAGCATAGTTTCTGCCAATAATGCACCCATATG
CATTTCAACTCTAGTATACTTTTC
Found at i:824514 original size:135 final size:134
Alignment explanation
Indices: 824263--824529 Score: 308
Period size: 135 Copynumber: 2.0 Consensus size: 134
824253 ATGCATTTTA
824263 AACTCTAACATATTTGTTGTTAATAATGCACCCATATACATTTCAACTATAGTATACTTTCATGT
1 AACTCTAACATATTTGTTGTTAATAATGCACCCATATACATTTCAACTATAGTATACTTTCATGT
* * * * *** *
824328 TGATAATGTACATATATACATCTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACA
66 TGATAATGAACACATATACATCTCAACCATAGCATACATTTCTGCCAATAATGCACCCATATACA
824393 TTTC
131 TTTC
* * * * *
824397 AACTCTAGCATAGTTT-TCTGTTGATAATGCTCCCATATGCATTTCAACTCTAGTATACTTTTC-
1 AACTCTAACATA-TTTGT-TGTTAATAATGCACCCATATACATTTCAACTATAGTATAC-TTTCA
* * *
824460 TGTTGATAATGAACCCATATGCATCTCAACTC-TGGCAT-CATTTCATGCCAATAATGCACCCAT
63 TGTTGATAATGAACACATATACATCTCAAC-CATAGCATACATTTC-TGCCAATAATGCACCCAT
*
824523 ATGCATT
126 ATACATT
824530 ATTCTGTTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
134 17 0.15
135 89 0.80
136 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (134 bp):
AACTCTAACATATTTGTTGTTAATAATGCACCCATATACATTTCAACTATAGTATACTTTCATGT
TGATAATGAACACATATACATCTCAACCATAGCATACATTTCTGCCAATAATGCACCCATATACA
TTTC
Found at i:825004 original size:20 final size:20
Alignment explanation
Indices: 824979--825032 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
824969 TGGCCTTTCA
*
824979 GTATCGATACCCCTACCATT
1 GTATCGATACCCCTACCATG
* *
824999 GTATCGATACTACTCTACTATG
1 GTATCGATAC--CCCTACCATG
825021 GTATCGATACCC
1 GTATCGATACCC
825033 TCTTCCAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:825131 original size:3 final size:3
Alignment explanation
Indices: 825123--825195 Score: 92
Period size: 3 Copynumber: 24.0 Consensus size: 3
825113 TTTCATATAG
* *
825123 TTA TTA TTA TTA TTA TTA TGA TTA TTA TTT TTA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
825169 TTA ATA TTA TTA CTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
825196 ATAAAATAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:826785 original size:21 final size:21
Alignment explanation
Indices: 826759--826801 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
826749 TTTTAAATAA
826759 AAATAAATAT-TTTACTTTTAT
1 AAATAAATATATTT-CTTTTAT
*
826780 AAATAAATCTATTTCTTTTAT
1 AAATAAATATATTTCTTTTAT
826801 A
1 A
826802 TATATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATAAATATATTTCTTTTAT
Found at i:832344 original size:13 final size:12
Alignment explanation
Indices: 832310--832367 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
832300 CTATACTCAT
832310 AAAAAGAAAA-A
1 AAAAAGAAAAGA
*
832321 AAAAGAAAAAAGA
1 AAAA-AGAAAAGA
832334 AAAAAGGAAAAGGA
1 AAAAA-GAAAA-GA
832348 AAAAAG-AAA-A
1 AAAAAGAAAAGA
832358 AAAAAGAAAA
1 AAAAAGAAAA
832368 ATTGAATCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 7 0.17
11 7 0.17
12 9 0.22
13 10 0.25
14 7 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:832350 original size:31 final size:31
Alignment explanation
Indices: 832310--832368 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
832300 CTATACTCAT
832310 AAAAAGAAAAAA-AAAGAAAAAAGAAAAAAGG
1 AAAAAGAAAAAAGAAA-AAAAAAGAAAAAAGG
*
832341 AAAAGGAAAAAAGAAAAAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAAAAAAAGAAAAA
832369 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (31 bp):
AAAAAGAAAAAAGAAAAAAAAAGAAAAAAGG
Done.