Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold273
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: 1282806
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 9
Found at i:764063 original size:11 final size:10
Alignment explanation
Indices: 764023--764078 Score: 67
Period size: 11 Copynumber: 5.2 Consensus size: 10
764013 TAATTACAAA
764023 ATTTACTATT
1 ATTTACTATT
*
764033 ATGTTATTAATT
1 AT-TTACT-ATT
764045 ATTTACTATT
1 ATTTACTATT
764055 ATATTACTAATT
1 AT-TTACT-ATT
764067 ATTTACTATT
1 ATTTACTATT
764077 AT
1 AT
764079 GTTATTACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 12 0.30
11 18 0.45
12 10 0.25
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTACTATT
Found at i:764142 original size:22 final size:22
Alignment explanation
Indices: 764114--764171 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
764104 GATTCACTAT
764114 TATGTTATTTATAAATGGCTAA
1 TATGTTATTTATAAATGGCTAA
* * *
764136 TATGTTATTCT-TCATTTGCTAA
1 TATGTTATT-TATAAATGGCTAA
*
764158 TATGTTATTCATAA
1 TATGTTATTTATAA
764172 TTAAGCACTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (22 bp):
TATGTTATTTATAAATGGCTAA
Found at i:764221 original size:22 final size:21
Alignment explanation
Indices: 764195--764261 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
764185 TATCATTCTG
764195 TACTAATATATTAATTATTTAC
1 TACT-ATATATTAATTATTTAC
* * *
764217 TACTATGTTATTAATTATATAA
1 TACTAT-ATATTAATTATTTAC
764239 TACTATATTATTAATCT-TTTAC
1 TACTATA-TATTAAT-TATTTAC
764261 T
1 T
764262 GCGATTGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.52
Consensus pattern (21 bp):
TACTATATATTAATTATTTAC
Found at i:764311 original size:20 final size:20
Alignment explanation
Indices: 764278--764315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
764268 GTATTGATAA
* *
764278 TTTACTAATTATTTAATTTT
1 TTTACAAATAATTTAATTTT
764298 TTTACAAATAATTTAATT
1 TTTACAAATAATTTAATT
764316 AACAAAATTT
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:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTACAAATAATTTAATTTT
Found at i:764658 original size:3 final size:3
Alignment explanation
Indices: 764650--764688 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
764640 GATCTATTGT
*
764650 ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
764689 GACATACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:765019 original size:22 final size:21
Alignment explanation
Indices: 764979--765019 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
764969 TTTTATGTAG
* *
764979 ATATTTAATTGATTTAATTAC
1 ATATTTAATTGAGTAAATTAC
765000 ATATTTAAGTTGAGTAAATT
1 ATATTTAA-TTGAGTAAATT
765020 TCTTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (21 bp):
ATATTTAATTGAGTAAATTAC
Found at i:765640 original size:23 final size:22
Alignment explanation
Indices: 765587--765651 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
765577 TAATTATATT
765587 AATAATTAATTATTGTAA-AAAAA
1 AATAA-TAATT-TTGTAATAAAAA
*
765610 ATTAAATAATTTTAGTAATAAAAA
1 AAT-AATAATTTT-GTAATAAAAA
*
765634 AATAATATTTTTTGTAAT
1 AATAATA-ATTTTGTAAT
765652 CAAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.06
23 20 0.57
24 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
AATAATAATTTTGTAATAAAAA
Found at i:765682 original size:17 final size:17
Alignment explanation
Indices: 765660--765696 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
765650 ATCAAATATT
*
765660 AATTTTTTTAAATATAA
1 AATTTTTTTAAATAAAA
*
765677 AATTTTTTTGAATAAAA
1 AATTTTTTTAAATAAAA
765694 AAT
1 AAT
765697 ATGATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
AATTTTTTTAAATAAAA
Found at i:766347 original size:13 final size:13
Alignment explanation
Indices: 766329--766368 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
766319 TTAATAATAA
766329 AATAATTTATTTT
1 AATAATTTATTTT
766342 AATAATTTATTTT
1 AATAATTTATTTT
766355 AATAA--TATTTT
1 AATAATTTATTTT
766366 AAT
1 AAT
766369 TGAATTGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 9 0.33
13 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:766417 original size:14 final size:14
Alignment explanation
Indices: 766400--766428 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
766390 TCTTAACTTT
766400 AACTTTCAAACTCA
1 AACTTTCAAACTCA
766414 AACTTTCAAACTCA
1 AACTTTCAAACTCA
766428 A
1 A
766429 GTTTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTTTCAAACTCA
Found at i:766484 original size:7 final size:7
Alignment explanation
Indices: 766451--766497 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
766441 TTAATTTATT
766451 TTAT-TA
1 TTATATA
766457 TTATATA
1 TTATATA
*
766464 ATATATA
1 TTATATA
*
766471 TTA-ATT
1 TTATATA
*
766477 TTATATT
1 TTATATA
766484 TTATATA
1 TTATATA
766491 TTATATA
1 TTATATA
766498 ATTTTTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:766503 original size:25 final size:26
Alignment explanation
Indices: 766442--766505 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
766432 TAACTCAATT
*
766442 TAATTTATTTTATTATTATATAATATA
1 TAATTT-TTATATTATTATATAATATA
* *
766469 TATTAATTTTATATT-TTATATATTATA
1 TA--ATTTTTATATTATTATATAATATA
766496 TAATTTTTAT
1 TAATTTTTAT
766506 CATATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 7 0.23
27 15 0.48
28 6 0.19
29 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TAATTTTTATATTATTATATAATATA
Found at i:766620 original size:16 final size:16
Alignment explanation
Indices: 766600--766641 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
766590 ATTAAAATAA
766600 TAAAAAT-TAAATTTT
1 TAAAAATATAAATTTT
*
766615 TAAAAATATATATTTT
1 TAAAAATATAAATTTT
766631 T-AAAATATAAA
1 TAAAAATATAAA
766642 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAAATATAAATTTT
Found at i:773216 original size:123 final size:123
Alignment explanation
Indices: 772962--773325 Score: 523
Period size: 125 Copynumber: 3.0 Consensus size: 123
772952 TTTGATATTT
* * * * *
772962 ATATTATATTCTGTCACATAATTTATCCCAAAATATTAATATCATTAAAAACATAGTAGTTTAA-
1 ATATAATATTCTGTTATATAATTTATCTCAAAATATTAATATCATTAAAAACATAATAGTTTAAC
*
773026 TTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAATTAATATTATATGTCACA
66 TTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAATTAATATTATATCTCACA
* * * *
773084 ATATTATATTCTGTTATATAATTTATCTCAAAATATTAATATCGTTAAAAATATAATAATTTAAC
1 ATATAATATTCTGTTATATAATTTATCTCAAAATATTAATATCATTAAAAACATAATAGTTTAAC
*
773149 TTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAACTAATATTATATCTCACA
66 TTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAATTAATATTATATCTCACA
* * * * *
773207 TTATAATATTATATTCTATATAATTTACCTTAAAATATTAATATCATTAAAAACATAATAGTTTA
1 ATATAATATTCT-GT-TATATAATTTATCTCAAAATATTAATATCATTAAAAACATAATAGTTTA
* * * *
773272 ACTTTTTTTAATCATTAATATTATGTTATATATTATTAAAAATTAATATTATAT
64 ACTTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAATTAATATTATAT
773326 ATTATGTATT
Statistics
Matches: 216, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
122 57 0.26
123 65 0.30
124 1 0.00
125 93 0.43
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (123 bp):
ATATAATATTCTGTTATATAATTTATCTCAAAATATTAATATCATTAAAAACATAATAGTTTAAC
TTTTTTTAATCATTAATATTATGTCATATGTTACTGAAAATTAATATTATATCTCACA
Found at i:776861 original size:20 final size:19
Alignment explanation
Indices: 776836--776886 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
776826 ATGAAGTTAG
*
776836 ATTTAAATAAT-AATTTCATA
1 ATTTAAATAATCAAATTC--A
776856 ATTTAAATTAATCAAATTCA
1 ATTTAAA-TAATCAAATTCA
776876 ATTTAAATAAT
1 ATTTAAATAAT
776887 TTTTTAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 4 0.14
22 5 0.18
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAAATAATCAAATTCA
Found at i:777082 original size:36 final size:34
Alignment explanation
Indices: 777033--777109 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 34
777023 TAATAAAATA
*
777033 TATAAATATTAATATAAAATTAATT-TTTAATATATT
1 TATAAATAATAATATAAAA--AATTATTTAATAT-TT
*
777069 TATAAATAATAATATATAAAATTATTTAATATTT
1 TATAAATAATAATATAAAAAATTATTTAATATTT
777103 TA-AAATA
1 TATAAATA
777110 TTTATACTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 5 0.13
34 8 0.21
35 8 0.21
36 17 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
TATAAATAATAATATAAAAAATTATTTAATATTT
Found at i:783253 original size:48 final size:48
Alignment explanation
Indices: 783154--783263 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
783144 GTGTATATAT
* * *
783154 AATAAATAATTAAATTATATTTATGTTAAATAATATTTAAATATTAAA
1 AATAAATAATTAAATTATATTTATATTAAATAATAATTAAATATAAAA
* *
783202 AATAAATTATTAAAATTATATTTCTATTAAA-AATGAATT-AATA-AAATA
1 AATAAATAATT-AAATTATATTTATATTAAATAAT-AATTAAATATAAA-A
783250 AATAAATAA-TAAAT
1 AATAAATAATTAAAT
783264 AATTTGAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
46 4 0.08
47 3 0.06
48 26 0.49
49 20 0.38
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (48 bp):
AATAAATAATTAAATTATATTTATATTAAATAATAATTAAATATAAAA
Found at i:788061 original size:22 final size:22
Alignment explanation
Indices: 788036--788090 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
788026 AATATGAGTT
788036 AATAAAAAAATTTTTGATGATC
1 AATAAAAAAATTTTTGATGATC
788058 AATAAAAAAATTTTTGATGATC
1 AATAAAAAAATTTTTGATGATC
788080 AATAAAAAAAT
1 AATAAAAAAAT
788091 GACACCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (22 bp):
AATAAAAAAATTTTTGATGATC
Found at i:788466 original size:121 final size:120
Alignment explanation
Indices: 788252--788709 Score: 423
Period size: 121 Copynumber: 3.9 Consensus size: 120
788242 GTAAACGCGT
* * * * * *** *
788252 ATAATGTGTTTTTGCATTGTTTAAGTGATTGAAAGAAAGTAGATAGTTTTCTTGATTTAAGAATC
1 ATAATGTGCTTTTGCATTATTCAAGTGATCGAAA-AAGGTAGCCGGTTTTCTTGTTTTAAGAATC
* * *
788317 GATATTGATATCTCAATTTAAAACTCAATTATCTTTAGTAAAGGAAAAAAAAAAGC
65 GATATTGATACCTTAATTTAAAACTCAATCATCTTTAGTAAAGGAAAAAAAAAAGC
* * * *
788373 ATAATGTGCTTTTGCATTATTCAAATGACCGAACAAAGTTAGCCGGTTTTCTTGGTTTAAGAATC
1 ATAATGTGCTTTTGCATTATTCAAGTGATCGAA-AAAGGTAGCCGGTTTTCTTGTTTTAAGAATC
*
788438 GATATTGATACCTTAATTTAAAACTCAATCATC-TT--T-AAGG-AAAAAAAAA-T
65 GATATTGATACCTTAATTTAAAACTCAATCATCTTTAGTAAAGGAAAAAAAAAAGC
* * * * * * *
788488 ATAATGTGATTTTTCCTTATTTAAGTGATCATAAAAAGGTAACCAGTTTTCTTGCTTTTAAGAAT
1 ATAATGTGCTTTTGCATTATTCAAGTGATC-GAAAAAGGTAGCCGGTTTTCTTG-TTTTAAGAAT
* * * * * *
788553 TGAGATTGATA-CTTAATTTCAAACTCTATCATCTTTAG-AAA--AGAAAATAAAGC
64 CGATATTGATACCTTAATTTAAAACTCAATCATCTTTAGTAAAGGAAAAAAAAAAGC
* * ** * *
788606 ATAATATGCTTTTGCATTATTCAAGTGATAGAAAGAAGGTAGTTGGTTTTTTTTTTTTTAAGAAT
1 ATAATGTGCTTTTGCATTATTCAAGTGATCGAAA-AAGGTAGCCGG-TTTTCTTGTTTTAAGAAT
* * * * *
788671 TGAAATCGATACCTTAATTTAAAACTCAATAATCATTAG
64 CGATATTGATACCTTAATTTAAAACTCAATCATCTTTAG
788710 GAAATAAAAG
Statistics
Matches: 272, Mismatches: 53, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
115 61 0.22
116 31 0.11
117 14 0.05
118 53 0.19
119 29 0.11
120 2 0.01
121 81 0.30
122 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (120 bp):
ATAATGTGCTTTTGCATTATTCAAGTGATCGAAAAAGGTAGCCGGTTTTCTTGTTTTAAGAATCG
ATATTGATACCTTAATTTAAAACTCAATCATCTTTAGTAAAGGAAAAAAAAAAGC
Found at i:790820 original size:23 final size:22
Alignment explanation
Indices: 790779--790836 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
790769 ATACACATAT
*
790779 ATAAAAAATA-AAT-TATTAAC
1 ATAAAAAATATAATATATTAAA
*
790799 ATAAAAATATATAATATTTTAAA
1 ATAAAAA-ATATAATATATTAAA
*
790822 ATATAAAA-ATAATAT
1 ATAAAAAATATAATAT
790837 CAACGAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.22
21 10 0.31
22 4 0.12
23 11 0.34
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAAAAATATAATATATTAAA
Found at i:791566 original size:11 final size:12
Alignment explanation
Indices: 791550--791590 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
791540 ATAAAAAAAA
791550 TTTCTCTTT-TT
1 TTTCTCTTTCTT
791561 TTTCTCTTTCTT
1 TTTCTCTTTCTT
791573 TTT-T-TTTCTT
1 TTTCTCTTTCTT
791583 CTTTCTCT
1 -TTTCTCT
791591 CCTCATGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.23
11 13 0.50
12 6 0.23
13 1 0.04
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTCTTTCTT
Found at i:791576 original size:17 final size:18
Alignment explanation
Indices: 791550--791590 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
791540 ATAAAAAAAA
791550 TTTCTCTTTTTTTTC-TC
1 TTTCTCTTTTTTTTCTTC
791567 TTTCT-TTTTTTTTCTTC
1 TTTCTCTTTTTTTTCTTC
791584 TTTCTCT
1 TTTCTCT
791591 CCTCATGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.41
17 12 0.55
18 1 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCTCTTTTTTTTCTTC
Found at i:791674 original size:2 final size:2
Alignment explanation
Indices: 791667--791691 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
791657 TGTAATCCAT
791667 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
791692 GCTACATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:792982 original size:33 final size:33
Alignment explanation
Indices: 792937--793028 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
792927 ATACACGTAC
792937 ATAT-AAAAATATACATAAAATA-AAT-TATTAAT
1 ATATAAAAAATATACA-AAAATATAATAT-TTAAT
*
792969 ATATAAAAAATATACAAAAATATAATATTTTAT
1 ATATAAAAAATATACAAAAATATAATATTTAAT
* *
793002 ATACAAAAAATA-ACACAAATATGAATA
1 ATATAAAAAATATACAAAAATAT-AATA
793029 CATAAATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
32 19 0.36
33 33 0.62
34 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (33 bp):
ATATAAAAAATATACAAAAATATAATATTTAAT
Found at i:798070 original size:20 final size:20
Alignment explanation
Indices: 798023--798097 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
798013 AAAAAGACAT
*
798023 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
798042 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
798063 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
798083 AATGCATCGATACAT
1 AATGTATCGATACAT
798098 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:798092 original size:40 final size:39
Alignment explanation
Indices: 798020--798097 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
798010 GGTAAAAAGA
* * *
798020 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
798059 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
798098 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:807764 original size:13 final size:13
Alignment explanation
Indices: 807746--807770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807736 AGTATATTGT
807746 AAATATATGAAAG
1 AAATATATGAAAG
807759 AAATATATGAAA
1 AAATATATGAAA
807771 CAAAAACCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATATATGAAAG
Found at i:807953 original size:29 final size:30
Alignment explanation
Indices: 807921--807986 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
807911 TAATTAAGTA
*
807921 TTTATATTTTTA-TTATATTTAAATAAATT
1 TTTATATTTTGATTTATATTTAAATAAATT
* *
807950 TTTATCTTTTGATTTATGTTTAAATAAATT
1 TTTATATTTTGATTTATATTTAAATAAATT
807980 TTTATAT
1 TTTATAT
807987 GAAATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTATATTTTGATTTATATTTAAATAAATT
Found at i:808873 original size:22 final size:22
Alignment explanation
Indices: 808848--808892 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
808838 AAAAATGAAT
808848 ATTAAATACATAAAGAACTATC
1 ATTAAATACATAAAGAACTATC
* *
808870 ATTAGATACATAGAGAACTATC
1 ATTAAATACATAAAGAACTATC
808892 A
1 A
808893 ATGATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (22 bp):
ATTAAATACATAAAGAACTATC
Found at i:810119 original size:12 final size:12
Alignment explanation
Indices: 810093--810144 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
810083 TTCCCTAGTT
* *
810093 TTTGTTCTTTCC
1 TTTGTTTTTTTC
810105 TTTGTTTTTTTC
1 TTTGTTTTTTTC
* *
810117 TTTCTTTTTTGTT
1 TTTGTTTTTT-TC
*
810130 TTTGTTTTTCTC
1 TTTGTTTTTTTC
810142 TTT
1 TTT
810145 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
12 23 0.72
13 9 0.28
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (12 bp):
TTTGTTTTTTTC
Found at i:810127 original size:19 final size:19
Alignment explanation
Indices: 810090--810150 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
810080 TGTTTCCCTA
810090 GTTTTTGTTCTTTC-C-TTT
1 GTTTTTGTT-TTTCTCTTTT
*
810108 GTTTTT-TTCTTTCTTTTTT
1 GTTTTTGTT-TTTCTCTTTT
810127 GTTTTTGTTTTTCTCTTTT
1 GTTTTTGTTTTTCTCTTTT
*
810146 CTTTT
1 GTTTT
810151 GAGTTACTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.19
18 6 0.16
19 22 0.59
20 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (19 bp):
GTTTTTGTTTTTCTCTTTT
Found at i:810236 original size:11 final size:12
Alignment explanation
Indices: 810220--810256 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
810210 TATTTTCAAG
810220 TTTACATTTT-A
1 TTTACATTTTGA
810231 TTTACATTTTGA
1 TTTACATTTTGA
810243 TTTAGCA-TTTGA
1 TTTA-CATTTTGA
810255 TT
1 TT
810257 ATTCATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.42
12 12 0.50
13 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (12 bp):
TTTACATTTTGA
Found at i:810880 original size:2 final size:2
Alignment explanation
Indices: 810875--810899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
810865 TCTTTTTTGG
810875 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
810900 AATAATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:814784 original size:25 final size:24
Alignment explanation
Indices: 814756--814805 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
814746 ATTATGTATT
814756 TAAATTTTATATTTAAAAT-TAAAAA
1 TAAATTTTA-A-TTAAAATGTAAAAA
*
814781 TAAATTTTAATTATAATGTAAAAA
1 TAAATTTTAATTAAAATGTAAAAA
814805 T
1 T
814806 TTATTACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 8 0.35
25 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAAATTTTAATTAAAATGTAAAAA
Found at i:815096 original size:21 final size:20
Alignment explanation
Indices: 815070--815124 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
815060 TACTTTAAAT
*
815070 ATATAAAAAATAAAAAGCATG
1 ATATAAAAAATAAAAA-CATA
*
815091 ATATAAAAATATTAAAACATA
1 ATATAAAAA-ATAAAAACATA
815112 ATAT-AAAAATAAA
1 ATATAAAAAATAAA
815125 TATGATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 16 0.53
22 6 0.20
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (20 bp):
ATATAAAAAATAAAAACATA
Found at i:815166 original size:24 final size:25
Alignment explanation
Indices: 815120--815181 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
815110 TAATATAAAA
*
815120 ATAAATATGATATGAATATAATAACAT
1 ATAAATAT-ATATG-ATAAAATAACAT
**
815147 ATAAATATATATG-TAAAATATTAT
1 ATAAATATATATGATAAAATAACAT
*
815171 ATAAATTTATA
1 ATAAATATATA
815182 ATACTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 18 0.58
26 5 0.16
27 8 0.26
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAAATATATATGATAAAATAACAT
Found at i:815411 original size:18 final size:20
Alignment explanation
Indices: 815368--815412 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
815358 TTATGTAGTT
*
815368 AATTTTATATTATTAATATA
1 AATTTTATATTATTAAAATA
815388 AA-TTTA-ATTA-TAAAATA
1 AATTTTATATTATTAAAATA
815405 AATTTTAT
1 AATTTTAT
815413 TAAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 4 0.18
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTATATTATTAAAATA
Found at i:815421 original size:17 final size:17
Alignment explanation
Indices: 815377--815422 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
815367 TAATTTTATA
815377 TTATT-AAT-ATAAATT
1 TTATTAAATAATAAATT
*
815392 TAATTATAA-AATAAATT
1 TTATTA-AATAATAAATT
815409 TTATTAAATAATAA
1 TTATTAAATAATAA
815423 TTATGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
16 2 0.08
17 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATTAAATAATAAATT
Found at i:816076 original size:14 final size:14
Alignment explanation
Indices: 816054--816083 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
816044 TGTAGTTAAT
*
816054 TATATATATATATG
1 TATAGATATATATG
816068 TATAGATATATATG
1 TATAGATATATATG
816082 TA
1 TA
816084 AATTAATACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
TATAGATATATATG
Found at i:816524 original size:2 final size:2
Alignment explanation
Indices: 816519--816549 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
816509 ATATTAGTAA
*
816519 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
816550 AATTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:816526 original size:16 final size:15
Alignment explanation
Indices: 816507--816552 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
816497 TCCATTTTAG
816507 ATATATTAGTAAATAT
1 ATATATTA-TAAATAT
*
816523 ATATATTTATATATAT
1 ATATA-TTATAAATAT
816539 ATATATATATAAAT
1 ATATAT-TATAAAT
816553 TAAAATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 22 0.85
17 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATATTATAAATAT
Found at i:817053 original size:15 final size:15
Alignment explanation
Indices: 817030--817068 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
817020 AAATAAATAT
817030 TATTAATAATAAAAA
1 TATTAATAATAAAAA
* *
817045 TATTTATAATAATAA
1 TATTAATAATAAAAA
*
817060 TAATAATAA
1 TATTAATAA
817069 AGTAAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATTAATAATAAAAA
Found at i:817054 original size:18 final size:18
Alignment explanation
Indices: 817024--817064 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
817014 TAAAGTAAAT
817024 AAATATTATTAATAATAA
1 AAATATTATTAATAATAA
817042 AAATATT-TATAATAATAA
1 AAATATTAT-TAATAATAA
*
817060 TAATA
1 AAATA
817065 ATAAAGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATTATTAATAATAA
Found at i:817391 original size:17 final size:17
Alignment explanation
Indices: 817365--817429 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
817355 ATAATAAATT
817365 AAAAA-AATATAATACA
1 AAAAATAATATAATACA
* * *
817381 AAAAATTATATTATATA
1 AAAAATAATATAATACA
817398 AAAAATAATATTAATACA
1 AAAAATAATA-TAATACA
817416 ATATAAA-AATATAA
1 A-A-AAATAATATAA
817430 ATATATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.13
17 17 0.44
18 9 0.23
19 5 0.13
20 3 0.08
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATAATATAATACA
Found at i:817435 original size:16 final size:16
Alignment explanation
Indices: 817416--817489 Score: 50
Period size: 16 Copynumber: 4.9 Consensus size: 16
817406 TATTAATACA
817416 ATATAAAAATATAAAT
1 ATATAAAAATATAAAT
* *
817432 ATATTAAAATTTAAAT
1 ATATAAAAATATAAAT
* **
817448 A-ACATAAAATATTTAT
1 ATATA-AAAATATAAAT
*
817464 ATATTAAAAT-T---T
1 ATATAAAAATATAAAT
817476 ATATAAAAATATAA
1 ATATAAAAATATAA
817490 TTTATAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
12 10 0.23
13 1 0.02
15 2 0.05
16 29 0.67
17 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATATAAAT
Found at i:817466 original size:32 final size:32
Alignment explanation
Indices: 817421--817481 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
817411 ATACAATATA
817421 AAAATATAAATATATTAAAATTTAAATAACAT
1 AAAATATAAATATATTAAAATTTAAATAACAT
** *
817453 AAAATATTTATATATTAAAATTTATATAA
1 AAAATATAAATATATTAAAATTTAAATAA
817482 AAATATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAAATATAAATATATTAAAATTTAAATAACAT
Found at i:817649 original size:26 final size:28
Alignment explanation
Indices: 817611--817683 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 28
817601 AAATTTAATT
817611 ATAA-ATATATAAAAATATTAA-TATAA
1 ATAATATATATAAAAATATTAATTATAA
* * *
817637 A-AATATATTTAAAATTTTTAATTATAA
1 ATAATATATATAAAAATATTAATTATAA
*
817664 ATAATAAATATAAATAATAT
1 ATAATATATATAAA-AATAT
817684 AAACAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
25 2 0.06
26 15 0.42
27 6 0.17
28 10 0.28
29 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATAATATATATAAAAATATTAATTATAA
Found at i:827805 original size:92 final size:93
Alignment explanation
Indices: 827597--827810 Score: 249
Period size: 92 Copynumber: 2.3 Consensus size: 93
827587 TTTATAGGGC
** * * * * * *
827597 GTATCGATACATTC-TGTATTGTATTGATACATTTTCATGTGTATTGATACAAATAAGGGTTTTA
1 GTATCGATACATTCACATAATGTATCGATACATTTGCATGTGTATCGATAAAAATAAGGATTTTA
** *
827661 GGATTTGTTTAGCTATAGACAACAAAAT
66 ACATTTGTGTAGCTATAGACAACAAAAT
*
827689 GTATCGATATATTCACATAATGTATCGATACATTTGCACT-TGTATCGATAAAAATAAGGATTTT
1 GTATCGATACATTCACATAATGTATCGATACATTTGCA-TGTGTATCGATAAAAATAAGGATTTT
*
827753 AACATTTG-GTAGCTATTG-CTAACAAAAT
65 AACATTTGTGTAGCTATAGAC-AACAAAAT
827781 GTATCGATACATTCACA-AGATGTATCGATA
1 GTATCGATACATTCACATA-ATGTATCGATA
827811 TAATCAATCC
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
91 2 0.02
92 56 0.54
93 45 0.43
94 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (93 bp):
GTATCGATACATTCACATAATGTATCGATACATTTGCATGTGTATCGATAAAAATAAGGATTTTA
ACATTTGTGTAGCTATAGACAACAAAAT
Found at i:835449 original size:21 final size:21
Alignment explanation
Indices: 835385--835456 Score: 105
Period size: 20 Copynumber: 3.5 Consensus size: 21
835375 CCACTGTTTA
835385 TATCGATACATGA-GACAATG
1 TATCGATACATGAGGACAATG
*
835405 TATCGATAAATG-GGACAATG
1 TATCGATACATGAGGACAATG
835425 TATCGATACATGAGGA-AATTG
1 TATCGATACATGAGGACAA-TG
835446 TATCGATACAT
1 TATCGATACAT
835457 TGCTTGTAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (21 bp):
TATCGATACATGAGGACAATG
Found at i:841647 original size:13 final size:13
Alignment explanation
Indices: 841629--841653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
841619 CATTCCTTGT
841629 ATCGATACATTGC
1 ATCGATACATTGC
841642 ATCGATACATTG
1 ATCGATACATTG
841654 GGTACTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:843538 original size:22 final size:22
Alignment explanation
Indices: 843513--843571 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
843503 TTATTTGACA
843513 AAGGAGGAGAAATTCTTTGATT
1 AAGGAGGAGAAATTCTTTGATT
* **
843535 AAGGGGGAG-AATT-TTTTTTT
1 AAGGAGGAGAAATTCTTTGATT
843555 AA-GAGGAGAAATTCTTT
1 AAGGAGGAGAAATTCTTT
843572 AATTGAGCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 11 0.35
21 7 0.23
22 8 0.26
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (22 bp):
AAGGAGGAGAAATTCTTTGATT
Found at i:844143 original size:13 final size:13
Alignment explanation
Indices: 844125--844151 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
844115 ACATACTGCT
844125 TTGTATCGATACA
1 TTGTATCGATACA
844138 TTGTATCGATACA
1 TTGTATCGATACA
844151 T
1 T
844152 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:844148 original size:33 final size:32
Alignment explanation
Indices: 844106--844170 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
844096 CACTCCCAGA
*
844106 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACT-CATTGTATCGATACAT
*
844139 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCGATACAT
844171 GAGATTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:850447 original size:20 final size:21
Alignment explanation
Indices: 850401--850451 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
850391 AGGTTCAAGG
**
850401 TTTTTGTGTGTTTTGATATTT
1 TTTTTGTGTGTTTTGATACCT
*
850422 TATTTTGTG-GTTTTGGTACCT
1 T-TTTTGTGTGTTTTGATACCT
850443 TTTTTGTGT
1 TTTTTGTGT
850452 TTCTAGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.08, C:0.04, G:0.22, T:0.67
Consensus pattern (21 bp):
TTTTTGTGTGTTTTGATACCT
Found at i:853473 original size:68 final size:68
Alignment explanation
Indices: 853391--853778 Score: 312
Period size: 68 Copynumber: 5.7 Consensus size: 68
853381 GTCAATCAGG
* * * * * * *
853391 CGATCAGACTTTTGAGGTCTTAGCTTGAAGAAAGTGATTTGGTGCCACTAGATGCTATGCCAATG
1 CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAATA
*
853456 CGA
66 TGA
* * * * * * * **
853459 TGATCAAACCTTTGAA-GTTTTGGCTTGATGGAA-TGACTTGATGCCATTAGATGCTGCGTTAAT
1 CGATCAGACCTTT-AAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAAT
*
853522 ATGT
65 ATGA
** * * * * * * * ** *
853526 TAATTAGACCTTTGAGGCCTTGGCTTGATTGAAGTGACTTAGTGCCACTAGATGTTACGCTAATA
1 CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAATA
*
853591 TGG
66 TGA
* * * * * *
853594 CGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTGGTGTCATTAGATGTTGTGCCAATA
1 CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAATA
*
853659 TGG
66 TGA
* * * * ** *
853662 CGATTAGACATTTAAGGTTTTGGCTTGATGGAAGTGACTTGGCACCACTAGATGCTGTGCCAATG
1 CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAATA
853727 TGA
66 TGA
* * * *
853730 CGTTTAGACCTTTAAGGTCTTAGCTTGATGGAAGTGATTTGATGCCACT
1 CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACT
853779 GTTGTGTTAA
Statistics
Matches: 247, Mismatches: 70, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
66 1 0.00
67 48 0.19
68 197 0.80
69 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (68 bp):
CGATCAGACCTTTAAGGTCTTAGCTTGATGGAAGTGACTTGGTGCCACTAGATGCTGTGCCAATA
TGA
Found at i:853696 original size:136 final size:136
Alignment explanation
Indices: 853435--853776 Score: 344
Period size: 136 Copynumber: 2.5 Consensus size: 136
853425 TGATTTGGTG
* ** * * * * *
853435 CCACTAGATGCTATGCCAATGCGATGATCAAACCTTTGAAGTTTTGGCTTGAT-GGAATGACTTG
1 CCACTAGATGCTACGCCAATATGACGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTG
** ** * * *
853499 ATGCCATTAGATGCTGCGTTAATATGTTAATTAGACCTTTGAGGCCTTGGCTTGATTGAAGTGAC
66 ATGCCATTAGATGCTGCGCCAATATGGCAATTAGACATTTAAGGCCTTGGCTTGATGGAAGTGAC
**
853564 TTAGTG
131 TTAGCA
* * *
853570 CCACTAGATGTTACGCTAATATGGCGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTG
1 CCACTAGATGCTACGCCAATATGACGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTG
* * * * * **
853635 GTGTCATTAGATGTTGTGCCAATATGGCGATTAGACATTTAAGGTTTTGGCTTGATGGAAGTGAC
66 ATGCCATTAGATGCTGCGCCAATATGGCAATTAGACATTTAAGGCCTTGGCTTGATGGAAGTGAC
*
853700 TTGGCA
131 TTAGCA
** * * * * * * *
853706 CCACTAGATGCTGTGCCAATGTGACGTTTAGACCTTTAAGGTCTTAGCTTGATGGAAGTGATTTG
1 CCACTAGATGCTACGCCAATATGACGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTG
853771 ATGCCA
66 ATGCCA
853777 CTGTTGTGTT
Statistics
Matches: 164, Mismatches: 42, Indels: 1
0.79 0.20 0.00
Matches are distributed among these distances:
135 43 0.26
136 121 0.74
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (136 bp):
CCACTAGATGCTACGCCAATATGACGATCAAACCTTTAAAGTCTTAGCTTGATGGGAGTGACTTG
ATGCCATTAGATGCTGCGCCAATATGGCAATTAGACATTTAAGGCCTTGGCTTGATGGAAGTGAC
TTAGCA
Found at i:856952 original size:6 final size:7
Alignment explanation
Indices: 856937--856962 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
856927 ATAATTTCTA
856937 TTTAATT
1 TTTAATT
856944 TTTAATT
1 TTTAATT
856951 TTTAATT
1 TTTAATT
856958 TTTAA
1 TTTAA
856963 GAAAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:858015 original size:11 final size:11
Alignment explanation
Indices: 857984--858026 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
857974 TTTGCCTTAA
857984 TTTTTCTTTTT
1 TTTTTCTTTTT
*
857995 TCTCTCTCTTTTT
1 T-T-TTTCTTTTT
858008 TTTTTCTTTTT
1 TTTTTCTTTTT
858019 TTTTTCTT
1 TTTTTCTT
858027 CACTTGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 17 0.61
12 2 0.07
13 9 0.32
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:860695 original size:21 final size:21
Alignment explanation
Indices: 860670--860710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
860660 GGCAGGCACA
860670 TTTTCAAGATT-GCTTTTATCT
1 TTTTCAAG-TTAGCTTTTATCT
*
860691 TTTTCATGTTAGCTTTTATC
1 TTTTCAAGTTAGCTTTTATC
860711 CCCTAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTCAAGTTAGCTTTTATCT
Found at i:865171 original size:22 final size:22
Alignment explanation
Indices: 865144--865187 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
865134 TATTGATTTG
865144 AATA-TTAATAAATTTAAATATA
1 AATATTTAA-AAATTTAAATATA
*
865166 AATATTTAAATATTTAAATATA
1 AATATTTAAAAATTTAAATATA
865188 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATTTAAAAATTTAAATATA
Found at i:865190 original size:10 final size:8
Alignment explanation
Indices: 865155--865186 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
865145 ATATTAATAA
865155 ATTTAAAT
1 ATTTAAAT
865163 A--TAAAT
1 ATTTAAAT
865169 ATTTAAAT
1 ATTTAAAT
865177 ATTTAAAT
1 ATTTAAAT
865185 AT
1 AT
865187 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:865206 original size:22 final size:21
Alignment explanation
Indices: 865180--865237 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
865170 TTTAAATATT
865180 TAAATATATTTTTAT-TTTAA
1 TAAATATATTTTTATATTTAA
865200 TTCAAATA-ATTTTATATATTTAA
1 -T-AAATATATTTT-TATATTTAA
865223 TAAATATTATTTTTA
1 TAAATA-TATTTTTA
865238 AATAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
21 11 0.34
22 11 0.34
23 10 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAATATATTTTTATATTTAA
Found at i:865223 original size:23 final size:22
Alignment explanation
Indices: 865181--865237 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
865171 TTAAATATTT
865181 AAATATATTTTTATTTTAATTC
1 AAATATATTTTTATTTTAATTC
865203 AAATA-ATTTTATATATTTAA-T-
1 AAATATATTTT-TAT-TTTAATTC
865224 AAATATTATTTTTA
1 AAATA-TATTTTTA
865238 AATAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 10 0.32
22 11 0.35
23 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATATTTTTATTTTAATTC
Found at i:868163 original size:86 final size:86
Alignment explanation
Indices: 868018--868191 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
868008 TAGGCTTTAC
868018 GTATATTTTAGGATATATTTCAGTTTATTTTACTCATACATATAGTGATATTTTGATCTAGCTCA
1 GTATATTTTAGGATATATTTCAGTTTATTTTACTCATACATATAGTGATATTTTGATCTAGCTCA
868083 CCAAATGGCGATGAGAACTTT
66 CCAAATGGCGATGAGAACTTT
868104 GTATATTTTAGGATATATTTCAGTTTATTTTACTCATACATATAGTGATATTTTGATCTAGCTCA
1 GTATATTTTAGGATATATTTCAGTTTATTTTACTCATACATATAGTGATATTTTGATCTAGCTCA
868169 CCAAATGGCGATGAGAACTTT
66 CCAAATGGCGATGAGAACTTT
868190 GT
1 GT
868192 GGAGAACAAG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42
Consensus pattern (86 bp):
GTATATTTTAGGATATATTTCAGTTTATTTTACTCATACATATAGTGATATTTTGATCTAGCTCA
CCAAATGGCGATGAGAACTTT
Found at i:870661 original size:30 final size:30
Alignment explanation
Indices: 870625--870688 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
870615 TTTTTTGTTG
*
870625 CTTCTTTAGGTCATTTACTATCCTCATATA
1 CTTCTTTAGGTCATTTACCATCCTCATATA
870655 CTTCTTTAGGTCATTTACCATCCTCATATA
1 CTTCTTTAGGTCATTTACCATCCTCATATA
870685 CTTC
1 CTTC
870689 CTGCTATGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (30 bp):
CTTCTTTAGGTCATTTACCATCCTCATATA
Found at i:873676 original size:2 final size:2
Alignment explanation
Indices: 873669--873700 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
873659 ATGTTCAGCA
873669 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
873701 CCTCATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:874541 original size:2 final size:2
Alignment explanation
Indices: 874534--874576 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
874524 TTCAAAGTAC
874534 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
874576 C
1 C
874577 GTGTGTGCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:876110 original size:6 final size:7
Alignment explanation
Indices: 876093--876118 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
876083 ATGTCTGCCA
876093 TTTTTCC
1 TTTTTCC
876100 TTTTTCC
1 TTTTTCC
876107 TTTTTCC
1 TTTTTCC
876114 TTTTT
1 TTTTT
876119 AAGCATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCC
Found at i:877941 original size:24 final size:23
Alignment explanation
Indices: 877913--877959 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
877903 TTATTTTAAT
877913 TTTAA-TTATATAAAAATAAAAATA
1 TTTAATTTA-ATAAAAA-AAAAATA
*
877937 TTTAATTTAATAATAAAAAAATA
1 TTTAATTTAATAAAAAAAAAATA
877960 AAATATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 11 0.52
25 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTAATTTAATAAAAAAAAAATA
Found at i:877941 original size:30 final size:29
Alignment explanation
Indices: 877907--877979 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
877897 TTTTATTTAT
*
877907 TTTAATTTTAATTATATAAAAATAAAAATA
1 TTTAATTTTAATTATAAAAAAAT-AAAATA
*
877937 TTTAA-TTTAATAATAAAAAAATAAAATA
1 TTTAATTTTAATTATAAAAAAATAAAATA
*
877965 --TACTTTTAATTATAA
1 TTTAATTTTAATTATAA
877980 TATAAAGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 10 0.26
28 6 0.16
29 15 0.39
30 5 0.13
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTAATTTTAATTATAAAAAAATAAAATA
Found at i:878233 original size:19 final size:21
Alignment explanation
Indices: 878206--878255 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
878196 AGACTTAATA
*
878206 ATTTGTATA-TTAT-TATCAT
1 ATTTATATATTTATCTATCAT
878225 ATTTATATATTTTATCGTATCAT
1 ATTTATATA-TTTATC-TATCAT
878248 ATTTATAT
1 ATTTATAT
878256 TTAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
21 4 0.15
23 14 0.54
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTATATATTTATCTATCAT
Found at i:878369 original size:24 final size:24
Alignment explanation
Indices: 878265--878385 Score: 97
Period size: 24 Copynumber: 4.9 Consensus size: 24
878255 TTTAAAATAT
878265 TTTATATTTATATAAATT-TTAAGA
1 TTTATATTTATATAAATTATTAA-A
* *
878289 TATATATTTATATCATATTA-TAAA
1 TTTATATTTATAT-AAATTATTAAA
**
878313 TTTAATATTTTATATATTTTATGTAAA
1 TTT-ATA-TTTATATAAATTAT-TAAA
*
878340 TATA-ATTATATATAAATTATTAAA
1 TTTATATT-TATATAAATTATTAAA
*
878364 TTTA-ATTATATGTAAATTATTA
1 TTTATATT-TATATAAATTATTA
878386 GATCTTGGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
24 41 0.51
25 26 0.32
26 8 0.10
27 6 0.07
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTATATTTATATAAATTATTAAA
Found at i:880061 original size:16 final size:16
Alignment explanation
Indices: 880024--880054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
880014 AGTTATTTTG
880024 GGTTTGAGTCATTTCA
1 GGTTTGAGTCATTTCA
*
880040 GGTTTGATTCATTTC
1 GGTTTGAGTCATTTC
880055 GAGTTTGGGT
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:0.16, C:0.13, G:0.23, T:0.48
Consensus pattern (16 bp):
GGTTTGAGTCATTTCA
Found at i:884866 original size:17 final size:18
Alignment explanation
Indices: 884844--884877 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
884834 CTTGACAGCC
884844 TTTGTT-CATGCATTTTT
1 TTTGTTCCATGCATTTTT
884861 TTTGTTCCATGCATTTT
1 TTTGTTCCATGCATTTT
884878 CAGTGCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (18 bp):
TTTGTTCCATGCATTTTT
Found at i:897936 original size:23 final size:24
Alignment explanation
Indices: 897904--897957 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
897894 TCCCTTGTAA
897904 AAAAAAAAAAAAG-AGAAAAA-AAC
1 AAAAAAAAAAAAGTA-AAAAATAAC
*
897927 AAAAACAAAAAAGTAAAAAATAAC
1 AAAAAAAAAAAAGTAAAAAATAAC
897951 AAAAAAA
1 AAAAAAA
897958 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAAAGTAAAAAATAAC
Found at i:897944 original size:19 final size:19
Alignment explanation
Indices: 897900--897966 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
897890 GGCATCCCTT
*
897900 GTAAAAAAAAA-AAAAAGA
1 GTAAAAAAAAACAAAAAAA
* *
897918 GAAAAAAACAAAAACAAAAAA
1 GTAAAAAA-AAACA-AAAAAA
*
897939 GTAAAAAATAACAAAAAAA
1 GTAAAAAAAAACAAAAAAA
897958 GTAAAAAAA
1 GTAAAAAAA
897967 TAATGAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 7 0.17
19 17 0.43
20 4 0.10
21 12 0.30
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.06
Consensus pattern (19 bp):
GTAAAAAAAAACAAAAAAA
Found at i:898019 original size:25 final size:23
Alignment explanation
Indices: 897974--898020 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
897964 AAATAATGAA
* *
897974 ATGAAAATGAAAAGGGGATCTAG
1 ATGAAAATGAAAAGAGCATCTAG
897997 ATGAAAACTTGAAAAGAGCATCTA
1 ATGAAAA--TGAAAAGAGCATCTA
898021 AGCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (23 bp):
ATGAAAATGAAAAGAGCATCTAG
Found at i:898979 original size:14 final size:14
Alignment explanation
Indices: 898957--899026 Score: 104
Period size: 14 Copynumber: 5.0 Consensus size: 14
898947 ATTAGACTTC
*
898957 ACATTATGCATTCA
1 ACATCATGCATTCA
898971 ACATCATGCATTCA
1 ACATCATGCATTCA
*
898985 ACATCATGCATTCC
1 ACATCATGCATTCA
* *
898999 ACATCATACATTCC
1 ACATCATGCATTCA
899013 ACATCATGCATTCA
1 ACATCATGCATTCA
899027 CATTACCATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 51 1.00
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.30
Consensus pattern (14 bp):
ACATCATGCATTCA
Found at i:899749 original size:34 final size:34
Alignment explanation
Indices: 899705--899859 Score: 154
Period size: 34 Copynumber: 4.6 Consensus size: 34
899695 TGGTGGCATC
* * *
899705 TTTTTCAAAGCTCACACAAGTCAGTGACATCTTT
1 TTTTTCAAAGCCCACACAAGTTAGTGGCATCTTT
* * *
899739 TTTTTTAAAGCCCACACAAGTTGGTGGCATCATT
1 TTTTTCAAAGCCCACACAAGTTAGTGGCATCTTT
*
899773 TTTTTCAAAGCCCATACAAGTTAGTGGCATC-TT
1 TTTTTCAAAGCCCACACAAGTTAGTGGCATCTTT
* * * * *
899806 TTTTTCCAAGCCTATACAAGTTGGTAG-AGTC-TT
1 TTTTTCAAAGCCCACACAAGTTAGTGGCA-TCTTT
* *
899839 TTTCTGAAAGCCCACACAAGT
1 TTTTTCAAAGCCCACACAAGT
899860 CAATGGTAAC
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
32 1 0.01
33 45 0.44
34 56 0.55
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (34 bp):
TTTTTCAAAGCCCACACAAGTTAGTGGCATCTTT
Found at i:899756 original size:65 final size:66
Alignment explanation
Indices: 899681--899861 Score: 179
Period size: 68 Copynumber: 2.7 Consensus size: 66
899671 ACCTCTTCTT
* * *
899681 AAGCCTACACATGCTGGTGGCATC-TTTTTCAAAGCTCACACAAGTCAGTGACATCTTTTTTTTT
1 AAGCCCACACAAGCTGGTGGCATCTTTTTTCAAAGCCCACACAAGTCAGTGACATCTTTTTTTTT
899745 A
66 A
* * * *
899746 AAGCCCACACAAGTTGGTGGCATCATTTTTTTCAAAGCCCATACAAGTTAGTGGCATC-TTTTTT
1 AAGCCCACACAAGCTGGTGGCATC--TTTTTTCAAAGCCCACACAAGTCAGTGACATCTTTTTTT
**
899810 TCC
64 TTA
* * * * *
899813 AAGCCTATACAAGTTGGTAG-AGTCTTTTTCTGAAAGCCCACACAAGTCA
1 AAGCCCACACAAGCTGGTGGCA-TCTTTTT-TCAAAGCCCACACAAGTCA
899862 ATGGTAACCT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
65 26 0.27
66 17 0.18
67 26 0.27
68 27 0.28
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (66 bp):
AAGCCCACACAAGCTGGTGGCATCTTTTTTCAAAGCCCACACAAGTCAGTGACATCTTTTTTTTT
A
Found at i:899808 original size:33 final size:33
Alignment explanation
Indices: 899610--899902 Score: 165
Period size: 32 Copynumber: 9.0 Consensus size: 33
899600 ATGGAGCAAC
* * *
899610 TTTTTT-AAAGCCCACACTAGTTAGTGGTAACCT
1 TTTTTTCAAAGCCCACACAAGTTAGTGG-CATCT
* * * *
899643 CTTTTT--AAGCCCACACAAGTTGGAGGCGACCT
1 TTTTTTCAAAGCCCACACAAGTTAGTGGC-ATCT
* * * * * *
899675 CTTCTT--AAGCCTACACATGCTGGTGGCATC-
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCATCT
* * *
899705 -TTTTTCAAAGCTCACACAAGTCAGTGACATCTT
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCATC-T
* *
899738 TTTTTTTAAAGCCCACACAAGTTGGTGGCATCAT
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCATC-T
*
899772 TTTTTTCAAAGCCCATACAAGTTAGTGGCATCT
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCATCT
* * * * *
899805 TTTTTTCCAAGCCTATACAAGTTGGTAG-AGTCT
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCA-TCT
* * * * * *
899838 TTTTCTGAAAGCCCACACAAGTCAATGGTAAC-
1 TTTTTTCAAAGCCCACACAAGTTAGTGGCATCT
* * *
899870 -CTTTTCAAAAGCCCATACAAGTTGGTGGCATCT
1 TTTTTTC-AAAGCCCACACAAGTTAGTGGCATCT
899903 CCTTTTAAGT
Statistics
Matches: 199, Mismatches: 51, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
29 4 0.02
31 22 0.11
32 63 0.32
33 53 0.27
34 57 0.29
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (33 bp):
TTTTTTCAAAGCCCACACAAGTTAGTGGCATCT
Found at i:899907 original size:34 final size:33
Alignment explanation
Indices: 899695--899908 Score: 118
Period size: 34 Copynumber: 6.5 Consensus size: 33
899685 CTACACATGC
* *
899695 TGGTGGCATCT--TTTTCAAAGCTCACACAAGT
1 TGGTGGCATCTCCTTTTCAAAGCCCATACAAGT
** * ** * *
899726 CAGTGACATCTTTTTTTTTAAAGCCCACACAAGT
1 TGGTGGCATC-TCCTTTTCAAAGCCCATACAAGT
**
899760 TGGTGGCATCATTTTTTTCAAAGCCCATACAAGT
1 TGGTGGCATC-TCCTTTTCAAAGCCCATACAAGT
* ** * *
899794 TAGTGGCATCTTTTTTTCCAAGCCTATACAAGT
1 TGGTGGCATCTCCTTTTCAAAGCCCATACAAGT
* *
899827 TGGTAG-AGTCT--TTTTCTGAAAGCCCACACAAGT
1 TGGTGGCA-TCTCCTTTTC--AAAGCCCATACAAGT
*** **
899860 CAATGG--TAACCTTTTCAAAAGCCCATACAAGT
1 TGGTGGCATCTCCTTTTC-AAAGCCCATACAAGT
899892 TGGTGGCATCTCCTTTT
1 TGGTGGCATCTCCTTTT
899909 AAGTCTAATG
Statistics
Matches: 141, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
31 13 0.09
32 19 0.13
33 47 0.33
34 62 0.44
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (33 bp):
TGGTGGCATCTCCTTTTCAAAGCCCATACAAGT
Found at i:900043 original size:52 final size:53
Alignment explanation
Indices: 899982--900431 Score: 348
Period size: 52 Copynumber: 8.6 Consensus size: 53
899972 CTAATGTCGC
* ** *
899982 TGGCTTTGAATCAGCACATTAACATTCTTCTAATCTTTAAGTCCAATATC-CT
1 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCCAATATCACT
* * * * ** *
900034 TGGCCTTGAATCAGCACATTGGCA-CCTTTATCATTTTTAAATCTGATATCTC-
1 TGGCCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCCAATATCACT
* * * * * *
900086 TGGCTTTGAATCAGCACATTGGCACTT-TTATTACCTTTAAGTCCGATATC-GT
1 TGGCCTTGAATCAGCACATTGGCA-TTCTTCTCATCTTTAAGTCCAATATCACT
* * * * * * *
900138 TGGCCTTGAATCAGCATATTAGCA-CCTCTATCATTTTTAAGCCCAATGTCACT
1 TGGCCTTGAATCAGCACATTGGCATTCT-TCTCATCTTTAAGTCCAATATCACT
* * * * * *
900191 T-GCCTTGAATCAGTACATTGGCA-CCATTATCATGTTTAAGTCTAATATC-GT
1 TGGCCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCCAATATCACT
* *
900242 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGCCCAATGTCAC-
1 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCCAATATCACT
* * * * * * *
900294 TAGCCTTAAATCAGCACATTGGCATCCTTATCATGTTTAAGTCCAATGTCGC-
1 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCCAATATCACT
* * * * * *
900346 TGGCATTGAATCAGCATATTAGCATTCTTCTCATCTTCAAGTCCAATGTCGC-
1 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCCAATATCACT
* * *
900398 TAGCCTTGAATCAGCTCATTGGCACTCTTCTCAT
1 TGGCCTTGAATCAGCACATTGGCATTCTTCTCAT
900432 TCTTATCATC
Statistics
Matches: 319, Mismatches: 67, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
51 4 0.01
52 310 0.97
53 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (53 bp):
TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCCAATATCACT
Found at i:900251 original size:156 final size:155
Alignment explanation
Indices: 899990--900423 Score: 426
Period size: 156 Copynumber: 2.8 Consensus size: 155
899980 GCTGGCTTTG
* * * * * *
899990 AATCAGCACATTAACATTCTTCTAATCTTTAAGTCCAATATCCTTGGCCTTGAATCAGCACATTG
1 AATCAGCACATTAGCATCCTTATCATGTTTAAGTCCAATGTCCTT-GCCTTGAATCAGCACATTG
* * * * *
900055 GCACCTTTATCATTTTTAAATCTGATATC-TCTGGCTTTGAATCAGCACATTGGCACTT-TTATT
65 GCACC-TTATCATCTTTAAGTCTAATATCGT-TGGCCTTGAATCAGCACATTGGCACTTCTTATC
* * ** * *
900118 ACCTTTAAGTCCGATATCGTTGGCCTTG
128 ACCTTTAAGCCCAATATCACTAGCCTTA
* * * *
900146 AATCAGCATATTAGCA-CCTCTATCATTTTTAAGCCCAATGTCACTTGCCTTGAATCAGTACATT
1 AATCAGCACATTAGCATCCT-TATCATGTTTAAGTCCAATGTC-CTTGCCTTGAATCAGCACATT
* *
900210 GGCACCATTATCATGTTTAAGTCTAATATCGTTGGCCTTGAATCAGCACATTGGCA-TTCTTCTC
64 GGCACC-TTATCATCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCACATTGGCACTTCTTATC
* *
900274 ATCTTTAAGCCCAATGTCACTAGCCTTA
128 ACCTTTAAGCCCAATATCACTAGCCTTA
* * * * *
900302 AATCAGCACATTGGCATCCTTATCATGTTTAAGTCCAATGTCGCTGGCATTGAATCAGCATATTA
1 AATCAGCACATTAGCATCCTTATCATGTTTAAGTCCAATGTC-CTTGCCTTGAATCAGCACATTG
* * * * * * * *
900367 GCATTCTTCTCATCTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCTCATTGGCACT
65 GCA-CCTTATCATCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCACATTGGCACT
900424 CTTCTCATTC
Statistics
Matches: 228, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
155 4 0.02
156 215 0.94
157 9 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (155 bp):
AATCAGCACATTAGCATCCTTATCATGTTTAAGTCCAATGTCCTTGCCTTGAATCAGCACATTGG
CACCTTATCATCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCACATTGGCACTTCTTATCACC
TTTAAGCCCAATATCACTAGCCTTA
Found at i:900371 original size:104 final size:103
Alignment explanation
Indices: 900017--900431 Score: 438
Period size: 104 Copynumber: 4.0 Consensus size: 103
900007 TCTTCTAATC
* * * * * * ** **
900017 TTTAAGTCCAATATCCTTGGCCTTGAATCAGCACATTGGCA-CCTTTATCATTTTTAAATCTGAT
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCATTC-TTCTCATCTTTAAGCCCAAT
* * * * * * **
900081 ATCTCTGGCTTTGAATCAGCACATTGGCACTTTTATTACC
65 GTCACTAGCCTTGAATCAGCACATTGGCAC-CTTATCATG
* * * *
900121 TTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTAGCA-CCTCTATCATTTTTAAGCCCAAT
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCATTCT-TCTCATCTTTAAGCCCAAT
* *
900185 GTCACTTGCCTTGAATCAGTACATTGGCACCATTATCATG
65 GTCACTAGCCTTGAATCAGCACATTGGCACC-TTATCATG
* * *
900225 TTTAAGTCTAATATCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCATTCTTCTCATCTTTAAGCCCAATG
*
900290 TCACTAGCCTTAAATCAGCACATTGGCATCCTTATCATG
66 TCACTAGCCTTGAATCAGCACATTGGCA-CCTTATCATG
* * * * *
900329 TTTAAGTCCAATGTCGCTGGCATTGAATCAGCATATTAGCATTCTTCTCATCTTCAAGTCCAATG
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCATTCTTCTCATCTTTAAGCCCAATG
* * *
900394 TCGCTAGCCTTGAATCAGCTCATTGGCACTCTTCTCAT
66 TCACTAGCCTTGAATCAGCACATTGGCAC-CTTATCAT
900432 TCTTATCATC
Statistics
Matches: 267, Mismatches: 39, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
103 2 0.01
104 261 0.98
105 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (103 bp):
TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCATTCTTCTCATCTTTAAGCCCAATG
TCACTAGCCTTGAATCAGCACATTGGCACCTTATCATG
Found at i:901116 original size:21 final size:20
Alignment explanation
Indices: 901090--901139 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
901080 TTTTACAATT
901090 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGTAAA
* * *
901111 TGTATCAATACATAAGTGAA
1 TGTATCGATACAAAAGTAAA
901131 TGTATCGAT
1 TGTATCGAT
901140 GCATGCCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:901134 original size:20 final size:21
Alignment explanation
Indices: 901090--901136 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
901080 TTTTACAATT
*
901090 TGTATCGATACAAACAGTAAA
1 TGTATCAATACAAACAGTAAA
* *
901111 TGTATCAATACATA-AGTGAA
1 TGTATCAATACAAACAGTAAA
901131 TGTATC
1 TGTATC
901137 GATGCATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCAATACAAACAGTAAA
Found at i:902181 original size:17 final size:17
Alignment explanation
Indices: 902159--902191 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
902149 CTTGATAGCC
902159 TTTGTTCATGCATTTTT
1 TTTGTTCATGCATTTTT
902176 TTTGTTCATGCATTTT
1 TTTGTTCATGCATTTT
902192 CTGTGCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (17 bp):
TTTGTTCATGCATTTTT
Found at i:911226 original size:21 final size:22
Alignment explanation
Indices: 911202--911256 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
911192 AATCAAAGTT
911202 TATCAAAATTATAAT-AAAAAC
1 TATCAAAATTATAATAAAAAAC
* *
911223 TATCAAAATCA-CATAAAAAAC
1 TATCAAAATTATAATAAAAAAC
911244 TATTC-AAATTATA
1 TA-TCAAAATTATA
911257 TCAAATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (22 bp):
TATCAAAATTATAATAAAAAAC
Found at i:911323 original size:22 final size:23
Alignment explanation
Indices: 911276--911329 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
911266 TCAAAGTTGC
*
911276 TATATTATATCAAAAGTATTATTA
1 TATATTATAT-AAAACTATTATTA
911300 TATATTATAT-AAACTA-TATGTA
1 TATATTATATAAAACTATTAT-TA
911322 TATATTAT
1 TATATTAT
911330 TACTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 15 0.54
24 10 0.36
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
TATATTATATAAAACTATTATTA
Found at i:912551 original size:32 final size:29
Alignment explanation
Indices: 912515--912583 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
912505 ATATTATTAT
912515 AATTAATTTTAATAAATAATAATAATTAAAAA
1 AATTAATTTT-AT-AA-AATAATAATTAAAAA
** *
912547 AATTAAAATTATAAAATAATAATTAAAAC
1 AATTAATTTTATAAAATAATAATTAAAAA
*
912576 ATTTAATT
1 AATTAATT
912584 ATAGTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 19 0.61
30 2 0.06
31 2 0.06
32 8 0.26
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
AATTAATTTTATAAAATAATAATTAAAAA
Found at i:913377 original size:16 final size:17
Alignment explanation
Indices: 913344--913382 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
913334 TAAAAATTTT
*
913344 AAATATATATAAATATA
1 AAATATATATAAACATA
*
913361 AAATATATAT-CACATA
1 AAATATATATAAACATA
913377 AAATAT
1 AAATAT
913383 CCATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATATAAACATA
Found at i:914251 original size:14 final size:12
Alignment explanation
Indices: 914230--914260 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
914220 AATATAAAAA
914230 ATAAAAATATAAT
1 ATAAAAA-ATAAT
914243 ATAAAAAATAAT
1 ATAAAAAATAAT
914255 ATAAAA
1 ATAAAA
914261 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAAAAATAAT
Found at i:914257 original size:17 final size:17
Alignment explanation
Indices: 914212--914267 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
914202 ACAATATGAT
914212 ATAATTATAATATAAAAA
1 ATAA-TATAATATAAAAA
914230 ATAAAAATATAATATAAAAA
1 AT---AATATAATATAAAAA
*
914250 ATAATATAAAATAAAAA
1 ATAATATAATATAAAAA
914267 A
1 A
914268 ATTATAAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 15 0.44
18 2 0.06
20 15 0.44
21 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATAATATAAAAA
Found at i:914318 original size:7 final size:7
Alignment explanation
Indices: 914307--914359 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
914297 AATTTATATG
914307 ATATAAA
1 ATATAAA
*
914314 TTATAAAA
1 ATAT-AAA
914322 ATATAAA
1 ATATAAA
914329 ATATAAA
1 ATATAAA
914336 ATAT-AA
1 ATATAAA
* *
914342 TTATAAT
1 ATATAAA
914349 ATAATAAA
1 AT-ATAAA
914357 ATA
1 ATA
914360 AATAAAAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 5 0.14
7 20 0.54
8 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
ATATAAA
Found at i:914325 original size:15 final size:15
Alignment explanation
Indices: 914307--914347 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
914297 AATTTATATG
914307 ATATAAATTATAAAA
1 ATATAAATTATAAAA
*
914322 ATATAAAATAT-AAA
1 ATATAAATTATAAAA
914336 ATAT-AATTATAA
1 ATATAAATTATAA
914348 TATAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAAATTATAAAA
Found at i:917491 original size:21 final size:21
Alignment explanation
Indices: 917465--917506 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
917455 TAAAAACTTA
* *
917465 TATTTACGTATGATATATTTT
1 TATTTACATATAATATATTTT
*
917486 TATTTATATATAATATATTTT
1 TATTTACATATAATATATTTT
917507 ATCTAAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TATTTACATATAATATATTTT
Found at i:917673 original size:18 final size:18
Alignment explanation
Indices: 917637--917782 Score: 58
Period size: 18 Copynumber: 8.3 Consensus size: 18
917627 GAATTAGATA
*
917637 ATTTTTATATTTATATTAT
1 ATTTATATATTT-TATTAT
917656 ATTTATATATTTTA-T-T
1 ATTTATATATTTTATTAT
*
917672 ATTTATA-ATTATA-TAT
1 ATTTATATATTTTATTAT
* * *
917688 AATTTTTAATATATTAATA-
1 -ATTTAT-ATATTTTATTAT
* * **
917707 ATTCATAAATAAT-TTAT
1 ATTTATATATTTTATTAT
* **
917724 ATTATATAAATTTTAAGAT
1 ATT-TATATATTTTATTAT
*
917743 A-TCATATATTTTTATTAT
1 ATTTATATA-TTTTATTAT
917761 ATTTATATTATTTT-TTAT
1 ATTTATA-TATTTTATTAT
917779 -TTTA
1 ATTTA
917783 AATTATATTA
Statistics
Matches: 96, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
15 6 0.06
16 11 0.11
17 22 0.23
18 27 0.28
19 26 0.27
20 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:917763 original size:11 final size:11
Alignment explanation
Indices: 917747--917779 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
917737 TAAGATATCA
917747 TATATTTTTAT
1 TATATTTTTAT
*
917758 TATATTTATAT
1 TATATTTTTAT
917769 TAT-TTTTTAT
1 TATATTTTTAT
917779 T
1 T
917780 TTAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:917767 original size:17 final size:17
Alignment explanation
Indices: 917747--917788 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
917737 TAAGATATCA
917747 TATATT-TTTATTATATT
1 TATATTATTTATTAT-TT
*
917764 TATATTATTTTTTATTT
1 TATATTATTTATTATTT
*
917781 TAAATTAT
1 TATATTAT
917789 ATTAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTATTTATTATTT
Found at i:918640 original size:15 final size:15
Alignment explanation
Indices: 918622--918655 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
918612 TTGACAGGAG
* *
918622 GTTTGTTTTTGTTTT
1 GTTTGGTTTTGTTCT
918637 GTTTGGTTTTGTTCT
1 GTTTGGTTTTGTTCT
918652 GTTT
1 GTTT
918656 TGAGTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.74
Consensus pattern (15 bp):
GTTTGGTTTTGTTCT
Found at i:926752 original size:2 final size:2
Alignment explanation
Indices: 926745--926782 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
926735 TATTTGAGTG
926745 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
926783 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:926848 original size:3 final size:3
Alignment explanation
Indices: 926842--926877 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
926832 AATATGGATG
*
926842 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
926878 ATTAACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:927478 original size:21 final size:22
Alignment explanation
Indices: 927454--927510 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
927444 ATTTTAAAAA
927454 ATTTTAATAGCATTTGATAT-G
1 ATTTTAATAGCATTTGATATGG
* * *
927475 ATTTTGATAGCCTTTTATATGG
1 ATTTTAATAGCATTTGATATGG
927497 A-TTTAATAGTCATT
1 ATTTTAATAG-CATT
927511 ATTATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTTTAATAGCATTTGATATGG
Found at i:927573 original size:29 final size:30
Alignment explanation
Indices: 927512--927577 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
927502 ATAGTCATTA
927512 TTATAATTTTGAAAACTTTTAATATAAGTT
1 TTATAATTTTGAAAACTTTTAATATAAGTT
* * *
927542 TTATAATTTT-AATAA-TTTTGATTTAATTT
1 TTATAATTTTGAA-AACTTTTAATATAAGTT
927571 TTATAAT
1 TTATAAT
927578 AATCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (30 bp):
TTATAATTTTGAAAACTTTTAATATAAGTT
Found at i:927722 original size:21 final size:21
Alignment explanation
Indices: 927698--927791 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
927688 GATTGTAACT
*
927698 TTTAATATAATTTTG-TTAGCC
1 TTTAATATAATTTTGATAAG-C
**
927719 TTTAATCCAATTTTGATAAGC
1 TTTAATATAATTTTGATAAGC
*
927740 TTTAATTTAATTTT-AGTAA--
1 TTTAATATAATTTTGA-TAAGC
* *
927759 TTTGATATAATTTAGATAA-C
1 TTTAATATAATTTTGATAAGC
*
927779 TTTTGATATAATT
1 -TTTAATATAATT
927792 ATAGTAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.23
20 2 0.03
21 41 0.68
22 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTAATATAATTTTGATAAGC
Found at i:927791 original size:40 final size:39
Alignment explanation
Indices: 927747--927834 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 39
927737 AGCTTTAATT
927747 TAATTTTAGTAA-TTTGATATAATTTAGATAACTTTTGATA
1 TAATTTTAGTAATTTTG-TATAATTTA-ATAACTTTTGATA
* * *
927787 TAATTATAGTAATTTTTGTGTAATTTAATAAGTTTTGATA
1 TAATTTTAGTAA-TTTTGTATAATTTAATAACTTTTGATA
927827 TAATTTTA
1 TAATTTTA
927835 ATAAACGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 30 0.71
41 8 0.19
42 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (39 bp):
TAATTTTAGTAATTTTGTATAATTTAATAACTTTTGATA
Found at i:927836 original size:21 final size:21
Alignment explanation
Indices: 927727--927838 Score: 90
Period size: 21 Copynumber: 5.5 Consensus size: 21
927717 CCTTTAATCC
* * * *
927727 AATTTTGATAAGCTTTAATTT
1 AATTTTAATAAGTTTTGATAT
*
927748 AATTTTAGTAA--TTTGATAT
1 AATTTTAATAAGTTTTGATAT
*
927767 AA-TTTAGATAACTTTTGATAT
1 AATTTTA-ATAAGTTTTGATAT
* * * *
927788 AATTATAGTAATTTTTG-TGT
1 AATTTTAATAAGTTTTGATAT
927808 AA-TTTAATAAGTTTTGATAT
1 AATTTTAATAAGTTTTGATAT
927828 AATTTTAATAA
1 AATTTTAATAA
927839 ACGTAAATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
18 4 0.06
19 22 0.31
20 8 0.11
21 35 0.49
22 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
AATTTTAATAAGTTTTGATAT
Found at i:927986 original size:11 final size:11
Alignment explanation
Indices: 927952--928007 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
927942 TTTGATGGCC
**
927952 TTTAATATGGT
1 TTTAATATAAT
*
927963 TTTAAT-TACT
1 TTTAATATAAT
927973 TTTAATATAAT
1 TTTAATATAAT
* *
927984 TTTGATA-ATT
1 TTTAATATAAT
927994 TTTAATATAAT
1 TTTAATATAAT
928005 TTT
1 TTT
928008 CGTAACATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
10 16 0.44
11 20 0.56
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TTTAATATAAT
Found at i:927986 original size:21 final size:21
Alignment explanation
Indices: 927934--928085 Score: 96
Period size: 21 Copynumber: 7.2 Consensus size: 21
927924 AGTAATCTTG
** *
927934 AATATAATTTTGATGGCCTTT
1 AATATAATTTTGATAACTTTT
** * *
927955 AATATGGTTTTAATTACTTTT
1 AATATAATTTTGATAACTTTT
*
927976 AATATAATTTTGATAATTTTT
1 AATATAATTTTGATAACTTTT
*
927997 AATATAATTTTCG-TAACATTT
1 AATATAATTTT-GATAACTTTT
* **
928018 AATATAACTTCCATGAACTTTT
1 AATATAATTTTGAT-AACTTTT
* *
928040 -ATATGATTTT-ATTAACATTT
1 AATATAATTTTGA-TAACTTTT
*
928060 GATATAATTTT-ATAATCTTTAT
1 AATATAATTTTGATAA-CTTT-T
928082 AATA
1 AATA
928086 ATTTTAGTAA
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
20 10 0.10
21 79 0.79
22 11 0.11
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
AATATAATTTTGATAACTTTT
Found at i:928019 original size:42 final size:41
Alignment explanation
Indices: 927912--928129 Score: 144
Period size: 42 Copynumber: 5.3 Consensus size: 41
927902 TTGATAGCCT
* * ***
927912 TTTACATAA-TTTAGTAATC-TTGAATATAATTTTGATGGCC
1 TTTATATAATTTTAGTAA-CATTTAATATAATTTTGATAATC
** * * * *
927952 TTTAATATGGTTTTAATTACTTTTAATATAATTTTGATAATT
1 TTT-ATATAATTTTAGTAACATTTAATATAATTTTGATAATC
* * **
927994 TTTAATATAATTTTCGTAACATTTAATATAACTTCCATGAA-C
1 TTT-ATATAATTTTAGTAACATTTAATATAATTTTGAT-AATC
* * *
928036 TTTTATATGATTTTATTAACATTTGATATAATTTT-ATAATC
1 -TTTATATAATTTTAGTAACATTTAATATAATTTTGATAATC
**
928077 TTTATAATAATTTTAGTAATC-TTGGATATAATTTTGATAATC
1 TTTAT-ATAATTTTAGTAA-CATTTAATATAATTTTGATAATC
928119 TTTA-A-AATTTT
1 TTTATATAATTTT
928130 TTGGTAACAT
Statistics
Matches: 140, Mismatches: 29, Indels: 19
0.74 0.15 0.10
Matches are distributed among these distances:
39 6 0.04
40 11 0.08
41 31 0.22
42 87 0.62
43 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTATATAATTTTAGTAACATTTAATATAATTTTGATAATC
Found at i:928098 original size:21 final size:20
Alignment explanation
Indices: 928037--928122 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 20
928027 TCCATGAACT
* *
928037 TTTATATGATTTTATTAA-C
1 TTTATATAATTTTAGTAATC
928056 ATTTGATATAATTTTA-TAATC
1 -TTT-ATATAATTTTAGTAATC
928077 TTTATAATAATTTTAGTAATC
1 TTTAT-ATAATTTTAGTAATC
*
928098 TTGGATATAATTTT-GATAATC
1 TT-TATATAATTTTAG-TAATC
928119 TTTA
1 TTTA
928123 AAATTTTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.04
20 20 0.35
21 33 0.58
22 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTATATAATTTTAGTAATC
Found at i:928199 original size:29 final size:29
Alignment explanation
Indices: 928167--928222 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
928157 TTTCTATATG
*
928167 ATTTTAATAGTAT-TTAATAGAATTTTGTC
1 ATTTTAATAAT-TGTTAATAGAATTTTGTC
*
928196 ATTTTAATAATTGTTAATATAATTTTG
1 ATTTTAATAATTGTTAATAGAATTTTG
928223 ATAATTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (29 bp):
ATTTTAATAATTGTTAATAGAATTTTGTC
Found at i:928269 original size:20 final size:21
Alignment explanation
Indices: 928223--928269 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
928213 TATAATTTTG
*
928223 ATAATTTGCTTAAGTTTTGAT
1 ATAATTTGCTTAAGTTTTAAT
928244 AT-ATTTGC-T-AGTCTTTAAT
1 ATAATTTGCTTAAGT-TTTAAT
928263 ATAATTT
1 ATAATTT
928270 ATATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 8 0.35
20 10 0.43
21 2 0.09
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (21 bp):
ATAATTTGCTTAAGTTTTAAT
Found at i:928303 original size:21 final size:21
Alignment explanation
Indices: 928289--928453 Score: 101
Period size: 21 Copynumber: 8.0 Consensus size: 21
928279 TTTTTCTAAT
928289 ATTTGATATAATTTTAATAAC
1 ATTTGATATAATTTTAATAAC
*
928310 ATTTGATATAATTTTAGTAAC
1 ATTTGATATAATTTTAATAAC
* *
928331 -TTT-ATATATAATTTCATAAC
1 ATTTGATATA-ATTTTAATAAC
* *
928351 -TTTTATATAATTTTGGATAA-
1 ATTTGATATAATTTT-AATAAC
* * * *
928371 TTTTAATATGATTTTGATAA-
1 ATTTGATATAATTTTAATAAC
** *
928391 ATCAG-TAACAATTTTAATAAC
1 ATTTGAT-ATAATTTTAATAAC
* *
928412 ATTTGACAAAATTTTAATAAC
1 ATTTGATATAATTTTAATAAC
* *
928433 ATTT-ATAATAAATTTGATAAC
1 ATTTGAT-ATAATTTTAATAAC
928454 TAACGCTGAC
Statistics
Matches: 113, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
19 6 0.05
20 35 0.31
21 72 0.64
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
ATTTGATATAATTTTAATAAC
Found at i:929969 original size:23 final size:23
Alignment explanation
Indices: 929943--929986 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
929933 AAACTTTCTA
929943 TTATTTGACGACTATATTTTTTT
1 TTATTTGACGACTATATTTTTTT
*
929966 TTATTTGACTACTATATTTTT
1 TTATTTGACGACTATATTTTT
929987 CTGGAAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (23 bp):
TTATTTGACGACTATATTTTTTT
Found at i:930531 original size:31 final size:32
Alignment explanation
Indices: 930488--930548 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
930478 AACCATCCTT
** *
930488 ATTTGTGATTTTATTTTATTTTTTATTTTTGA
1 ATTTGTGATTTTATAATATTTGTTATTTTTGA
930520 ATTTGT-ATTTTATAATATTTGTTATTTTT
1 ATTTGTGATTTTATAATATTTGTTATTTTT
930549 TATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.70
Consensus pattern (32 bp):
ATTTGTGATTTTATAATATTTGTTATTTTTGA
Found at i:930541 original size:16 final size:16
Alignment explanation
Indices: 930520--930574 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
930510 TTATTTTTGA
930520 ATTTGTATTTTATAAT
1 ATTTGTATTTTATAAT
930536 ATTTGTTATTTTTTATAAT
1 ATTTG-TA--TTTTATAAT
*
930555 ATTT-TATATTTATTAT
1 ATTTGTAT-TTTATAAT
930571 ATTT
1 ATTT
930575 TTTTTCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 1 0.03
16 16 0.47
17 4 0.12
19 13 0.38
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
ATTTGTATTTTATAAT
Found at i:930549 original size:19 final size:19
Alignment explanation
Indices: 930527--930571 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
930517 TGAATTTGTA
930527 TTTTATAATATTTGT-TATT
1 TTTTATAATATTT-TATATT
930546 TTTTATAATATTTTATATT
1 TTTTATAATATTTTATATT
*
930565 TATTATA
1 TTTTATA
930572 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATATTTTATATT
Found at i:931194 original size:26 final size:27
Alignment explanation
Indices: 931142--931194 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
931132 TATAGAATTT
* * **
931142 TAAATTTTAAATATTTCATTTTTTATA
1 TAAAATTTAAATATTTCATATCATATA
931169 TAAAATTTAAA-ATTTCATATCATATA
1 TAAAATTTAAATATTTCATATCATATA
931195 ATACGTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAAATTTAAATATTTCATATCATATA
Done.