Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 27 of 216
Found at i:7703291 original size:60 final size:60
Alignment explanation
Indices: 7703215--7703336 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
7703205 ATACTAAACT
* * * * * *
7703215 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
7703275 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
7703335 AA
1 AA
7703337 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:7703364 original size:8 final size:8
Alignment explanation
Indices: 7703351--7703510 Score: 53
Period size: 8 Copynumber: 19.4 Consensus size: 8
7703341 CATACAAAAA
7703351 ATTACAAT
1 ATTACAAT
7703359 ATTACAAT
1 ATTACAAT
* * *
7703367 ATATCCCGAC
1 AT-T-ACAAT
7703377 ATTACAAT
1 ATTACAAT
*
7703385 ATTCATACAAA
1 A-T--TACAAT
7703396 ATTACAAT
1 ATTACAAT
7703404 ATTACAAT
1 ATTACAAT
7703412 ATT-C-AT
1 ATTACAAT
** * *
7703418 ACAAAAAA
1 ATTACAAT
*
7703426 ATTGCAAT
1 ATTACAAT
*
7703434 ATTCATACAAA
1 A-T--TACAAT
*
7703445 ATTATAAT
1 ATTACAAT
7703453 ATTACAAT
1 ATTACAAT
7703461 ATT-C-AT
1 ATTACAAT
* *
7703467 A--AAAAA
1 ATTACAAT
7703473 ATTACAAT
1 ATTACAAT
*
7703481 ATTCATACAAA
1 A-T--TACAAT
7703492 ATTACAAT
1 ATTACAAT
7703500 ATTACAAT
1 ATTACAAT
7703508 ATT
1 ATT
7703511 CATACAAAAA
Statistics
Matches: 107, Mismatches: 28, Indels: 34
0.63 0.17 0.20
Matches are distributed among these distances:
6 8 0.07
7 2 0.02
8 68 0.64
9 5 0.05
10 7 0.07
11 17 0.16
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (8 bp):
ATTACAAT
Found at i:7703441 original size:96 final size:96
Alignment explanation
Indices: 7703324--7703600 Score: 423
Period size: 96 Copynumber: 2.9 Consensus size: 96
7703314 AATTAATTAT
* * * *** *
7703324 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATCCCGACATTACAATAT
1 AAAAAAATTGCAATATTCATAC--AAAATTATAATATTACAATATTCATCAAAAAATTACAATAT
7703387 TCATACAAAATTACAATATTACAATATTCATAC
64 TCATACAAAATTACAATATTACAATATTCATAC
*
7703420 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAAAAAAATTACAATATTC
1 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATCAAAAAATTACAATATTC
7703485 ATACAAAATTACAATATTACAATATTCATAC
66 ATACAAAATTACAATATTACAATATTCATAC
*
7703516 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAAATTACAATAT
1 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCAT-C-AAAAAATTACAATAT
7703581 TCATACAAAATTACAATATT
64 TCATACAAAATTACAATATT
7703601 CATACAAAAA
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
94 19 0.11
95 1 0.01
96 112 0.67
98 35 0.21
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (96 bp):
AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATCAAAAAATTACAATATTC
ATACAAAATTACAATATTACAATATTCATAC
Found at i:7703454 original size:49 final size:49
Alignment explanation
Indices: 7703324--7703734 Score: 417
Period size: 49 Copynumber: 8.6 Consensus size: 49
7703314 AATTAATTAT
*
7703324 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** *
7703372 -CCGACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
7703420 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCAT--
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
7703467 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
7703516 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
7703565 AAAAAAATTACAATATTCATAC------A-AA-ATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
** * **
7703606 -AAAAAATTACAATATTCATAC-AAATTACTAAT-CCAAAACTATAAATAC
1 AAAAAAATTACAATATTCATACAAAATTAC-AATATTACAA-TATTCATAC
** * * *
7703654 AAATTTAATTATAA-ATTAATTACAATATTCATACAATATTACAATATTCATAC
1 AAA-AAAATTACAATATTCA-TACAA-AAT--TACAATATTACAATATTCATAC
* *
7703707 AAAAAAGTTAAAATATTCATACAAAATT
1 AAAAAAATTACAATATTCATACAAAATT
7703735 CTAATCTAAA
Statistics
Matches: 301, Mismatches: 38, Indels: 47
0.78 0.10 0.12
Matches are distributed among these distances:
40 21 0.07
41 16 0.05
42 2 0.01
43 1 0.00
45 21 0.07
46 1 0.00
47 68 0.23
48 8 0.03
49 114 0.38
50 10 0.03
51 3 0.01
52 13 0.04
53 17 0.06
54 6 0.02
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:7703557 original size:145 final size:137
Alignment explanation
Indices: 7703322--7703633 Score: 416
Period size: 145 Copynumber: 2.2 Consensus size: 137
7703312 CAAATTAATT
* *** *
7703322 ATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCCCGACATTACAATAT
1 ATAAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATATCAAAAAATTACAATAT
* * *
7703387 TCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAA
64 TCATACAAAACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAA
7703452 TATTACAATATTC
129 TATT-C-ATA--C
*
7703465 ATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAAT
1 ATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATA-T-AT-C-AAAAAATTACAAT
*
7703530 ATTCATACAAAACTATAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTAC
62 ATTCATACAAAACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTAC
7703595 AATATTCATAC
127 AATATTCATAC
7703606 ---AAAAAATTACAATATTCATAC-AAATTAC
1 ATAAAAAAATTACAATATTCATACAAAATTAC
7703634 TAATCCAAAA
Statistics
Matches: 155, Mismatches: 10, Indels: 14
0.87 0.06 0.08
Matches are distributed among these distances:
137 7 0.05
138 21 0.14
141 21 0.14
142 1 0.01
143 28 0.18
144 2 0.01
145 75 0.48
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (137 bp):
ATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATATCAAAAAATTACAATATTC
ATACAAAACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAATA
TTCATAC
Found at i:7703698 original size:101 final size:101
Alignment explanation
Indices: 7703570--7703751 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 101
7703560 CATACAAAAA
*
7703570 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAA-TTACAATATTCATAC-AAATTA
1 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATT-
7703633 CTAATCCAAAACTATAAATACAAATTTAATTATAAATT
65 CTAAT-CAAAACTATAAATACAAATTTAATTATAAATT
*
7703671 AATTACAATATTCATACAATATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
1 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
*
7703736 TAATCTAAACTATAAA
66 TAATCAAAACTATAAA
7703752 CACTAAATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
101 52 0.68
102 19 0.25
103 5 0.07
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (101 bp):
AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
TAATCAAAACTATAAATACAAATTTAATTATAAATT
Found at i:7703818 original size:12 final size:12
Alignment explanation
Indices: 7703801--7703826 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7703791 AAAAATTCAC
7703801 AATATCTTCTAA
1 AATATCTTCTAA
7703813 AATATCTTCTAA
1 AATATCTTCTAA
7703825 AA
1 AA
7703827 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:7703910 original size:3 final size:3
Alignment explanation
Indices: 7703902--7703945 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
7703892 TTTTCTTTCT
* *
7703902 TTC TTC TTC TTC -TC CTC TTC TTC TTC TTC TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7703946 CCTTTCTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:7703920 original size:14 final size:14
Alignment explanation
Indices: 7703903--7703957 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
7703893 TTTCTTTCTT
7703903 TCTTCTTCTTCTCC
1 TCTTCTTCTTCTCC
*
7703917 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTCC
7703931 TCCTTCTCTTCTTCTCC
1 T-C-T-TCTTCTTCTCC
7703948 T-TTCTCTCTT
1 TCTTCT-TCTT
7703958 TTTTTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.09
14 19 0.54
15 1 0.03
16 1 0.03
17 11 0.31
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (14 bp):
TCTTCTTCTTCTCC
Found at i:7703922 original size:17 final size:17
Alignment explanation
Indices: 7703902--7703957 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
7703892 TTTTCTTTCT
7703902 TTCTTCTTCTTCTCCTC
1 TTCTTCTTCTTCTCCTC
7703919 TTCTTCTTCTTCT-C-C
1 TTCTTCTTCTTCTCCTC
7703934 TTC-TCTTCTTCTCCT-
1 TTCTTCTTCTTCTCCTC
7703949 TTCTCTCTT
1 TTCT-TCTT
7703958 TTTTTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.26
15 8 0.23
16 1 0.03
17 17 0.49
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (17 bp):
TTCTTCTTCTTCTCCTC
Found at i:7711792 original size:17 final size:17
Alignment explanation
Indices: 7711772--7711817 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
7711762 ATATTTTTTT
7711772 TAATTAATAATTTAAAA
1 TAATTAATAATTTAAAA
*
7711789 TAA-TAATAATTTATAA
1 TAATTAATAATTTAAAA
7711805 -AATTAAATAATTT
1 TAATT-AATAATTT
7711818 GTCTTCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTAATAATTTAAAA
Found at i:7714159 original size:12 final size:11
Alignment explanation
Indices: 7714131--7714165 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
7714121 TTTTGAATAA
7714131 AATATTTTTTT
1 AATATTTTTTT
7714142 -ATATTTTTTT
1 AATATTTTTTT
7714152 AATAATTTTTTT
1 AAT-ATTTTTTT
7714164 AA
1 AA
7714166 AAAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 2 0.09
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:7714246 original size:27 final size:27
Alignment explanation
Indices: 7714216--7714277 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
7714206 CCTATCAGGT
7714216 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
7714243 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
7714270 AGGCGCCA
1 AGGCGCCA
7714278 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:7714665 original size:19 final size:19
Alignment explanation
Indices: 7714643--7714680 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7714633 AATTTAATTT
*
7714643 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
7714662 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
7714681 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:7714810 original size:27 final size:27
Alignment explanation
Indices: 7714779--7714850 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
7714769 TACCGACATT
* *
7714779 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAAAATTA
7714806 CAATATTCATACAAAATTACAAAATTA
1 CAATATTCATACAAAATTACAAAATTA
*
7714833 CAATATTCATATAAAATT
1 CAATATTCATACAAAATT
7714851 GCAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAAAATTA
Found at i:7714876 original size:7 final size:7
Alignment explanation
Indices: 7714864--7714895 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
7714854 ATATTTTTTG
7714864 TTATTAA
1 TTATTAA
7714871 TTATTAA
1 TTATTAA
7714878 TTATTAA
1 TTATTAA
7714885 TTATTAA
1 TTATTAA
7714892 TTAT
1 TTAT
7714896 CTATATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATTAA
Found at i:7714930 original size:22 final size:24
Alignment explanation
Indices: 7714897--7715068 Score: 139
Period size: 27 Copynumber: 7.1 Consensus size: 24
7714887 ATTAATTATC
*
7714897 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
7714921 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
**
7714945 TATAATTTTGTATGAATATTACAAT
1 TAT-ATTTTGTATGAATATTGTAAT
7714970 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
7714994 TATAATTTTGTATGAATATTGTAATGT
1 TAT-ATTTTGTATGAATATTGTAA--T
*
7715021 CGGTATATATTG--T-AATATTGTAA-
1 ---TATATTTTGTATGAATATTGTAAT
7715044 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
7715066 TAT
1 TAT
7715069 TTTATAATTA
Statistics
Matches: 121, Mismatches: 7, Indels: 41
0.72 0.04 0.24
Matches are distributed among these distances:
18 4 0.03
19 1 0.01
20 2 0.02
21 10 0.08
22 32 0.26
23 4 0.03
24 8 0.07
25 6 0.05
26 12 0.10
27 34 0.28
29 5 0.04
30 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:7714958 original size:49 final size:49
Alignment explanation
Indices: 7714900--7715071 Score: 226
Period size: 49 Copynumber: 3.6 Consensus size: 49
7714890 AATTATCTAT
*
7714900 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
**
7714949 ATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* ** *
7714998 ATTTTGTATGAATATTGTAA--TGTCGGTAT--ATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
7715043 ATTTTTTGTATGAATATTGTAATTATTTT
1 A--TTTTGTATGAATATTGTAATTTTTTT
7715072 ATAATTAATT
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
45 16 0.15
47 25 0.24
49 65 0.61
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:7714964 original size:19 final size:19
Alignment explanation
Indices: 7714940--7714991 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 19
7714930 TGAATATTGT
7714940 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
*
7714959 AATATTACAATTTTTTTGTATG
1 AATATTATAA---TTTTGTATG
*
7714981 AATATTGTAAT
1 AATATTATAAT
7714992 ATTATAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 10 0.37
22 17 0.63
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:7715136 original size:19 final size:19
Alignment explanation
Indices: 7715114--7715151 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7715104 TATAAATTTA
*
7715114 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
7715133 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
7715152 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:7715398 original size:27 final size:28
Alignment explanation
Indices: 7715360--7715435 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
7715350 CCGGCCCGGC
*
7715360 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
7715387 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
7715414 CCATTGGCGCCTCCCAG-ATAGG
1 CCATTGGCGCCTCCCAGAATAGG
7715436 TGCCAATACT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:7732782 original size:3 final size:3
Alignment explanation
Indices: 7732774--7732809 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7732764 TCAAAGCAAT
7732774 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7732810 AGGAAATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7733871 original size:48 final size:48
Alignment explanation
Indices: 7733800--7733894 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
7733790 TTCTTTGCTT
* *
7733800 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAATCAACCTAACTCGCAATGATAAAGGATTCAACAGC
*
7733848 AAAAACGCCTAAATCAACCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAATCAACCTAACTCGCAATGATAAAGGATTCAACAG
7733895 AATTCTCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAATCAACCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:7734140 original size:19 final size:19
Alignment explanation
Indices: 7734116--7734152 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7734106 AAAGTTGTAT
7734116 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
7734135 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
7734153 TTACATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.22
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:7739394 original size:10 final size:10
Alignment explanation
Indices: 7739369--7739409 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
7739359 GATTTCTACG
*
7739369 TATATCATATA
1 TATATCACA-A
7739380 TATATCACAA
1 TATATCACAA
*
7739390 TATATCACAC
1 TATATCACAA
7739400 TATATCACAA
1 TATATCACAA
7739410 GACTTGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (10 bp):
TATATCACAA
Found at i:7739860 original size:26 final size:26
Alignment explanation
Indices: 7739829--7739900 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
7739819 ATGAATTTTC
7739829 TCAAAATTTTATTGAGGGTAAAA-TCG
1 TCAAAATTTTATTGAGGGTAAAACT-G
* *
7739855 TCAAAATTTGATTGGGGGTAAAACTG
1 TCAAAATTTTATTGAGGGTAAAACTG
*
7739881 TCAAAATTTTACT-AGGGTAA
1 TCAAAATTTTATTGAGGGTAA
7739901 TATTGGGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 6 0.15
26 33 0.82
27 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTATTGAGGGTAAAACTG
Found at i:7747069 original size:12 final size:12
Alignment explanation
Indices: 7747052--7747098 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
7747042 GATAGAAACT
*
7747052 AAAGAGAAGGAA
1 AAAGAGAAAGAA
7747064 AAAGAGAAAGAA
1 AAAGAGAAAGAA
7747076 AAAG-GAAAGAA
1 AAAGAGAAAGAA
7747087 AGAATGAGAAAG
1 A-AA-GAGAAAG
7747099 GAGAAACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 1 0.03
14 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (12 bp):
AAAGAGAAAGAA
Found at i:7748403 original size:13 final size:13
Alignment explanation
Indices: 7748385--7748414 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7748375 TAAATGATAC
*
7748385 TTTGATGATATGA
1 TTTGATGATATAA
7748398 TTTGATGATATAA
1 TTTGATGATATAA
7748411 TTTG
1 TTTG
7748415 TGGTACCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (13 bp):
TTTGATGATATAA
Found at i:7755874 original size:20 final size:19
Alignment explanation
Indices: 7755849--7755895 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
7755839 AAGCAATATT
7755849 TTTTTTAAACTTTTAATGTA
1 TTTTTTAAA-TTTTAATGTA
* *
7755869 TTTTTTGAAATTTTTATTTA
1 TTTTTT-AAATTTTAATGTA
7755889 TTTTTTA
1 TTTTTTA
7755896 TTTCTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTTAAATTTTAATGTA
Found at i:7762507 original size:4 final size:4
Alignment explanation
Indices: 7762498--7762527 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7762488 TATGTCATCT
7762498 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
7762528 ATTGTTGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:7763106 original size:14 final size:14
Alignment explanation
Indices: 7763087--7763114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7763077 AGTATGGTTT
7763087 TTTGAAACCATAAG
1 TTTGAAACCATAAG
7763101 TTTGAAACCATAAG
1 TTTGAAACCATAAG
7763115 GTGATCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAACCATAAG
Found at i:7764252 original size:7 final size:7
Alignment explanation
Indices: 7764240--7764264 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7764230 AAAATTTCAA
7764240 TTTAAGG
1 TTTAAGG
7764247 TTTAAGG
1 TTTAAGG
7764254 TTTAAGG
1 TTTAAGG
7764261 TTTA
1 TTTA
7764265 GGAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:7771077 original size:9 final size:9
Alignment explanation
Indices: 7771063--7771116 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
7771053 TTGGGTAATT
7771063 TTCGGGTAA
1 TTCGGGTAA
7771072 TTCGGG-AA
1 TTCGGGTAA
*
7771080 TTCGGTTAA
1 TTCGGGTAA
*
7771089 TTCGGTTAA
1 TTCGGGTAA
7771098 -TCGGGTAA
1 TTCGGGTAA
7771106 TTCGGGTAA
1 TTCGGGTAA
7771115 TT
1 TT
7771117 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 14 0.34
9 27 0.66
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:7771089 original size:17 final size:17
Alignment explanation
Indices: 7771063--7771116 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
7771053 TTGGGTAATT
7771063 TTCGGGTAATTCGGGAA
1 TTCGGGTAATTCGGGAA
* *
7771080 TTCGGTTAATTCGGTTAA
1 TTCGGGTAATTCGG-GAA
7771098 -TCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGG-AA
7771115 TT
1 TT
7771117 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 27 0.90
18 3 0.10
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (17 bp):
TTCGGGTAATTCGGGAA
Found at i:7771093 original size:26 final size:26
Alignment explanation
Indices: 7771064--7771115 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7771054 TGGGTAATTT
*
7771064 TCGGGTAATTCGGG-AATTCGGTTAA
1 TCGGGTAATTCGGGTAATTCGGGTAA
*
7771089 TTCGGTTAA-TCGGGTAATTCGGGTAA
1 -TCGGGTAATTCGGGTAATTCGGGTAA
7771115 T
1 T
7771116 TTTTAACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.35
Consensus pattern (26 bp):
TCGGGTAATTCGGGTAATTCGGGTAA
Found at i:7771435 original size:27 final size:27
Alignment explanation
Indices: 7771405--7771459 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
7771395 CATTTCTACA
7771405 AGCCTAAGGCATCATAGAACAAAATTC
1 AGCCTAAGGCATCATAGAACAAAATTC
7771432 AGCCTAAGGCATCATAGAACAAAATTC
1 AGCCTAAGGCATCATAGAACAAAATTC
7771459 A
1 A
7771460 AACTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (27 bp):
AGCCTAAGGCATCATAGAACAAAATTC
Found at i:7775446 original size:42 final size:42
Alignment explanation
Indices: 7775395--7775516 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
7775385 GATATGTGAT
7775395 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
* ** * *
7775437 TTACGTGTAAGACCTTGTCTGGGACCGTGGCGTCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGA
* * * *
7775480 TTACATGTAAGACCACGTTTGGGACGTTGGCATCGTA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
7775517 CGAGCTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
Found at i:7775492 original size:43 final size:42
Alignment explanation
Indices: 7775395--7775516 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
7775385 GATATGTGAT
*
7775395 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGA
* * * *
7775437 TTACGTGTAAGACCTTGTCTGGGACCGTGGCGTCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGA
* * *
7775480 TTACATGTAAGACCACGTTTGGGAC-GTTGGCATCGTA
1 TTACGTGTAAGACCATGTCTGGGACAG-TGGCATCGTA
7775517 CGAGCTTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGA
Found at i:7777582 original size:109 final size:109
Alignment explanation
Indices: 7777393--7777711 Score: 511
Period size: 109 Copynumber: 3.0 Consensus size: 109
7777383 AATTCAAGAA
* * * * *
7777393 GATATTTGGCAATTTGGTTAAACGAG--AAATCGAA-ACCCAGCACCTTAGGGCACG-TTCCTCG
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCG
7777454 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
65 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
*
7777499 GATATTTAGCTATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAAGGCATGTTTTCTCGA
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGA
*
7777564 ATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTGAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
** *
7777608 GATATTTAGCTATTTGGTTGAACGAGAAAAATTGACACCCAGCACCTTAGGGCATGTTTTCTTGA
1 GATATTTAGCTATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGA
7777673 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTT
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTT
7777712 TAGAAAAAAT
Statistics
Matches: 197, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
106 23 0.12
107 2 0.01
108 23 0.12
109 149 0.76
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (109 bp):
GATATTTAGCTATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
Found at i:7778126 original size:67 final size:67
Alignment explanation
Indices: 7778049--7778183 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
7778039 GCATCATGAC
*
7778049 AAATGATAAACAGGCAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAA
1 AAATGATAAACAGACAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAA
7778114 CA
66 CA
*
7778116 AAATGATAAACAGATAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAA
1 AAATGATAAACAGACAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAA
7778181 CA
66 CA
7778183 A
1 A
7778184 GACTAACAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.64, C:0.14, G:0.10, T:0.13
Consensus pattern (67 bp):
AAATGATAAACAGACAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAA
CA
Found at i:7778305 original size:16 final size:16
Alignment explanation
Indices: 7778284--7778319 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7778274 AATTATAGAA
7778284 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
7778300 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
7778316 ATAT
1 ATAT
7778320 GTATGTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:7779233 original size:24 final size:25
Alignment explanation
Indices: 7779198--7779246 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
7779188 GCCCGACCCG
*
7779198 TTTTTAATTAAAATTAAAATTAATT
1 TTTTTAATTAAAATTAAAACTAATT
7779223 TTTTTAA-TAAAATTAAAACTAATT
1 TTTTTAATTAAAATTAAAACTAATT
7779247 GTTATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTTTAATTAAAATTAAAACTAATT
Found at i:7779338 original size:59 final size:59
Alignment explanation
Indices: 7779270--7779409 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
7779260 TCAAATTATT
*
7779270 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
*
7779329 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
7779388 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
7779410 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
Found at i:7779403 original size:9 final size:9
Alignment explanation
Indices: 7779391--7779418 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7779381 TTTATCAAAT
7779391 TATTAATTG
1 TATTAATTG
7779400 TATTAATTG
1 TATTAATTG
7779409 TATTAATTG
1 TATTAATTG
7779418 T
1 T
7779419 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:7780248 original size:18 final size:19
Alignment explanation
Indices: 7780215--7780250 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7780205 TGTTTTCGAG
7780215 TTAAAGAAAAAAAATAAAC
1 TTAAAGAAAAAAAATAAAC
*
7780234 TTAAA-AAAAACAATAAA
1 TTAAAGAAAAAAAATAAA
7780251 AACAGTAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
TTAAAGAAAAAAAATAAAC
Found at i:7784147 original size:19 final size:19
Alignment explanation
Indices: 7784123--7784160 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7784113 TTAATGTGCG
* *
7784123 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
7784142 AATATATATATATATGTGT
1 AATATATATATATATGTGT
7784161 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:7784457 original size:41 final size:41
Alignment explanation
Indices: 7784373--7784631 Score: 401
Period size: 41 Copynumber: 6.3 Consensus size: 41
7784363 GTTTGGAATT
* *
7784373 GGTGATATGAATCAGGTTATAAACCTAAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCT-AGCAGGCTAAGTGCC
*
7784415 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
7784456 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
7784497 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
7784538 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
7784579 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
7784620 GGTGATCCGAAT
1 GGTGATCTGAAT
7784632 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
41 174 0.88
42 23 0.12
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:7784511 original size:82 final size:82
Alignment explanation
Indices: 7784373--7784625 Score: 488
Period size: 82 Copynumber: 3.1 Consensus size: 82
7784363 GTTTGGAATT
*
7784373 GGTGATATGAATCAGGTTATAAACCTAAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 GGTGATATGAATCAGGTTATAAACCT-AGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAG
7784438 CCTAGCAGGCTAAGTGCC
65 CCTAGCAGGCTAAGTGCC
7784456 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
7784521 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
7784538 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
7784603 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
7784620 GGTGAT
1 GGTGAT
7784626 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
82 143 0.85
83 26 0.15
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:7791865 original size:19 final size:19
Alignment explanation
Indices: 7791841--7791878 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7791831 TTAATGTGCG
* *
7791841 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
7791860 AATATATATATATATGTGT
1 AATATATATATATATGTGT
7791879 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:7792153 original size:41 final size:41
Alignment explanation
Indices: 7792091--7792346 Score: 370
Period size: 41 Copynumber: 6.1 Consensus size: 41
7792081 GTTTGGAATT
*
7792091 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
7792132 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
7792173 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
7792214 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
7792255 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAG-TGCC
*
7792297 GGTGATATGAATCAGCCTAGGCTATAA-CTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTA---TA-AACCTAGCAGGCTAAGTGCC
7792341 GGTGAT
1 GGTGAT
7792347 CCGAATATGA
Statistics
Matches: 192, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
41 146 0.76
42 20 0.10
44 9 0.05
45 15 0.08
46 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:7792228 original size:82 final size:82
Alignment explanation
Indices: 7792091--7792346 Score: 426
Period size: 82 Copynumber: 3.1 Consensus size: 82
7792081 GTTTGGAATT
*
7792091 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
7792156 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
7792173 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
7792238 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
7792255 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGGCCGGTGATATGAATCAGCCTAGGCT
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC-GCCGGTGATCTGAAT----C-AGGCT
7792320 ATAA--CTAGCAGGCTAAGTGCC
60 ATAAGCCTAGCAGGCTAAGTGCC
7792341 GGTGAT
1 GGTGAT
7792347 CCGAATATGA
Statistics
Matches: 166, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
82 119 0.72
83 14 0.08
86 23 0.14
87 1 0.01
88 9 0.05
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:7793576 original size:32 final size:32
Alignment explanation
Indices: 7793537--7793629 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
7793527 TTAGATATTG
*
7793537 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
7793569 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
7793601 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
7793630 ATGATTGACA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:7795023 original size:20 final size:21
Alignment explanation
Indices: 7794986--7795030 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
7794976 TCCAAACACC
7794986 AAAAAAGTAAATCATTTCCA-
1 AAAAAAGTAAATCATTTCCAG
7795006 AAAAAAG-AAATCATTTTCCAG
1 AAAAAAGTAAATCA-TTTCCAG
7795027 AAAA
1 AAAA
7795031 CATTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAAAAGTAAATCATTTCCAG
Found at i:7797410 original size:90 final size:84
Alignment explanation
Indices: 7797246--7797465 Score: 250
Period size: 90 Copynumber: 2.6 Consensus size: 84
7797236 TTTTGATGCA
***
7797246 TTCAAGTACTCAATTAGTGCAAAAAAAATAGGCTTAATTGTTTTTTTTTTAAAGTTTGAGGATCT
1 TTCAAGTACTCAATTAGTGCAAAAAAAATAGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGATCT
* ***
7797311 TTTTTATGCATTTTGGTAG
66 TTTTGATGCATTTTAAAAG
*
7797330 TTCAAGTAC-CAAATTAAGTGCAAAAAAGAAGTAGGGGCTTAATTGCTTTTTTTGAAAAATTTTG
1 TTCAAGTACTC-AATT-AGTGCAAAAAA-AA-TA--GGCTTAATTG-TTTTTTTGAAAAAGTTTG
*
7797394 AGGGTCTTTTTGATGCATTTTAAAAG
59 AGGATCTTTTTGATGCATTTTAAAAG
7797420 TTCAAGTACTCAATTGAGTG---AAAAAATAGGACTTAATTGTTTTTTT
1 TTCAAGTACTCAATT-AGTGCAAAAAAAATAGG-CTTAATTGTTTTTTT
7797466 TTTAAGTTTG
Statistics
Matches: 117, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
83 10 0.09
84 21 0.18
85 13 0.11
86 4 0.03
87 6 0.05
89 10 0.09
90 52 0.44
91 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (84 bp):
TTCAAGTACTCAATTAGTGCAAAAAAAATAGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGATCT
TTTTGATGCATTTTAAAAG
Found at i:7798959 original size:94 final size:90
Alignment explanation
Indices: 7798799--7798967 Score: 223
Period size: 94 Copynumber: 1.8 Consensus size: 90
7798789 AAAAGTATAA
* * ** * *
7798799 ATTTTTTGAAAGTTTATTAGTGTAATCAAAATACAAATATAATTGAATGTTTAAATAATCATAAA
1 ATTTTTTGAAAATTTACTAGTGTAATCAAAATACAAATATAATTGAATGTCCAAATAACCACAAA
7798864 ATGTAAAATTAAATAATTGCAATAT
66 ATGTAAAATTAAATAATTGCAATAT
*
7798889 ATTTTTTGAAAATTTACTAGTGCATTAATCAAAGTACAAAATATAATT-ATATGTCCAAATAACC
1 ATTTTTTGAAAATTTACTAGTG---TAATCAAAATAC-AAATATAATTGA-ATGTCCAAATAACC
7798953 ACAAAATGTAAAATT
61 ACAAAATGTAAAATT
7798968 GAACTATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
90 20 0.30
93 12 0.18
94 35 0.52
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (90 bp):
ATTTTTTGAAAATTTACTAGTGTAATCAAAATACAAATATAATTGAATGTCCAAATAACCACAAA
ATGTAAAATTAAATAATTGCAATAT
Found at i:7803045 original size:13 final size:14
Alignment explanation
Indices: 7803017--7803050 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
7803007 ATTTTATAAA
7803017 TAAAAGAGATTTAAT
1 TAAAA-AGATTTAAT
7803032 TAAAAAGA-TTAAT
1 TAAAAAGATTTAAT
7803045 TAAAAA
1 TAAAAA
7803051 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 3 0.16
15 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (14 bp):
TAAAAAGATTTAAT
Found at i:7804884 original size:9 final size:9
Alignment explanation
Indices: 7804870--7804900 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7804860 GTTAAACGAA
7804870 TCGAGTTAT
1 TCGAGTTAT
*
7804879 TCGAGTTAA
1 TCGAGTTAT
7804888 TCGAGTTAT
1 TCGAGTTAT
7804897 TCGA
1 TCGA
7804901 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7805234 original size:30 final size:30
Alignment explanation
Indices: 7805184--7805241 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7805174 AAACTTTTTA
*
7805184 TTTTCCCCCAAAATTTTTACTCCCTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTCCCAC
* *
7805214 TTTTTCCCTAAAACTTTTACTCCCTCCC
1 TTTTCCCCCAAAACTTTTACTCCCTCCC
7805242 CATCCCATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:7806131 original size:17 final size:18
Alignment explanation
Indices: 7806106--7806139 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7806096 GAAGTAGAAG
*
7806106 AGAATAAAAAAA-AAAGA
1 AGAAGAAAAAAAGAAAGA
7806123 AGAAGAAAAAAAGAAAG
1 AGAAGAAAAAAAGAAAG
7806140 TTAAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AGAAGAAAAAAAGAAAGA
Found at i:7806819 original size:18 final size:17
Alignment explanation
Indices: 7806770--7806841 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 17
7806760 TTAATTTTTT
*
7806770 AAAATT-TTAAAAATTA
1 AAAATTATTAAAAAATA
* **
7806786 AAAA-AATTGTAAAA-A
1 AAAATTATTAAAAAATA
*
7806801 AATATT-TTAAAAAATA
1 AAAATTATTAAAAAATA
7806817 AAAATTATTAAAAAATA
1 AAAATTATTAAAAAATA
7806834 TAAAATTA
1 -AAAATTA
7806842 AAAAAATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
15 10 0.24
16 15 0.36
17 10 0.24
18 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (17 bp):
AAAATTATTAAAAAATA
Found at i:7806819 original size:19 final size:18
Alignment explanation
Indices: 7806797--7806841 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7806787 AAAAATTGTA
*
7806797 AAAAAATATTTTAAAAAAT
1 AAAAAAT-TATTAAAAAAT
7806816 -AAAAATTATTAAAAAAT
1 AAAAAATTATTAAAAAAT
*
7806833 ATAAAATTA
1 AAAAAATTA
7806842 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATTATTAAAAAAT
Found at i:7806819 original size:29 final size:30
Alignment explanation
Indices: 7806773--7806852 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
7806763 ATTTTTTAAA
*
7806773 ATTTTAAAAATTAAAAAAATTGTAAAAAAAT
1 ATTTTAAAAA-TAAAAAAATTATAAAAAAAT
* *
7806804 ATTTTAAAAA-ATAAAAATTATTAAAAAAT
1 ATTTTAAAAATAAAAAAATTATAAAAAAAT
*
7806833 A---TAAAATTAAAAAAATTATA
1 ATTTTAAAAATAAAAAAATTATA
7806853 TTTTAATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.12
27 10 0.24
29 17 0.40
31 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATTATAAAAAAAT
Found at i:7806846 original size:17 final size:18
Alignment explanation
Indices: 7806809--7806852 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
7806799 AAAATATTTT
*
7806809 AAAAAATA-AAAATTATT
1 AAAAAATATAAAATTATA
7806826 AAAAAATATAAAATTA-A
1 AAAAAATATAAAATTATA
*
7806843 AAAAATTATA
1 AAAAAATATA
7806853 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAAATATAAAATTATA
Found at i:7806847 original size:18 final size:17
Alignment explanation
Indices: 7806809--7806847 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7806799 AAAATATTTT
**
7806809 AAAAAATAAAAATTATT
1 AAAAAATAAAAATTAAA
7806826 AAAAAATATAAAATTAAA
1 AAAAAATA-AAAATTAAA
7806844 AAAA
1 AAAA
7806848 TTATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAATAAAAATTAAA
Found at i:7815072 original size:18 final size:19
Alignment explanation
Indices: 7815035--7815072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7815025 GAATATAATA
*
7815035 TTATTTAAAAATTATATAT
1 TTATTTAAAAATAATATAT
*
7815054 TTATTT-AAAATAATTTAT
1 TTATTTAAAAATAATATAT
7815072 T
1 T
7815073 GATAGTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTTAAAAATAATATAT
Found at i:7826897 original size:19 final size:19
Alignment explanation
Indices: 7826875--7826922 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
7826865 TTGAATTAAT
7826875 ATATAAAAATATTAAAATA
1 ATATAAAAATATTAAAATA
* *
7826894 ATATAAAAAT-TTAGAATT
1 ATATAAAAATATTAAAATA
7826912 ATATAAAAATA
1 ATATAAAAATA
7826923 ATAATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATAAAAATATTAAAATA
Found at i:7828944 original size:21 final size:21
Alignment explanation
Indices: 7828919--7828977 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
7828909 AATCTGTAAT
7828919 AATTAGTATTTAAATTATAT-G
1 AATTAG-ATTTAAATTATATAG
7828940 AATTA-ATTATAAATTTATATAG
1 AATTAGATT-TAAA-TTATATAG
*
7828962 AATCTTGATTTAAATT
1 AAT-TAGATTTAAATT
7828978 TTTTTAGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 11 0.34
22 6 0.19
23 5 0.16
24 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (21 bp):
AATTAGATTTAAATTATATAG
Found at i:7828975 original size:23 final size:20
Alignment explanation
Indices: 7828926--7828978 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
7828916 AATAATTAGT
7828926 ATTTAAA-TTATATGAATTA
1 ATTTAAATTTATATGAATTA
*
7828945 ATTATAAATTTATATAGAATCTTG
1 ATT-TAAATTTATAT-GAA--TTA
7828969 ATTTAAATTT
1 ATTTAAATTT
7828979 TTTTAGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.11
20 4 0.14
21 6 0.21
22 3 0.11
23 7 0.25
24 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTTAAATTTATATGAATTA
Found at i:7831411 original size:17 final size:17
Alignment explanation
Indices: 7831389--7831439 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
7831379 GAAGAGGTTC
7831389 CATACAAGTTCATATTT
1 CATACAAGTTCATATTT
7831406 CATACAAGTTCATATTT
1 CATACAAGTTCATATTT
7831423 CATACAAGTTCATATTT
1 CATACAAGTTCATATTT
7831440 AAACTTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
CATACAAGTTCATATTT
Found at i:7833098 original size:32 final size:32
Alignment explanation
Indices: 7833038--7833099 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
7833028 TATTATTGGC
*
7833038 TTAACAATTGGACTGAAAGTCTTCTGGAAGGT
1 TTAACAATTGGACTGAAACTCTTCTGGAAGGT
7833070 TTAACAATTGGACTGAAACTC-TCTTGGAAG
1 TTAACAATTGGACTGAAACTCTTC-TGGAAG
7833100 TCCACACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (32 bp):
TTAACAATTGGACTGAAACTCTTCTGGAAGGT
Found at i:7839056 original size:16 final size:16
Alignment explanation
Indices: 7839006--7839059 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
7838996 TTTACATACG
*
7839006 TTTTATATA-TATATA
1 TTTTATATATTTTATA
*
7839021 TTTT-TATCTTTT-TA
1 TTTTATATATTTTATA
7839035 GCTTTTATATATTTTATA
1 --TTTTATATATTTTATA
7839053 TTTTATA
1 TTTTATA
7839060 GATATATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 11 0.35
17 7 0.23
18 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTATATATTTTATA
Found at i:7850074 original size:58 final size:58
Alignment explanation
Indices: 7849938--7850074 Score: 211
Period size: 58 Copynumber: 2.4 Consensus size: 58
7849928 TAGTAATCCC
* * *
7849938 GTGATATTCAACTTTGTTTAAATCAGGTCTATCATCTTCTGCTTGAATCAAGAATCTT
1 GTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAGAATCTT
* *
7849996 GTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTATTTGAATTAAGAATCTT
1 GTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAGAATCTT
* *
7850054 GTGATGTTCAACTTTACTTGA
1 GTGATATTCAACTTTGCTTGA
7850075 TTTGGGTCCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (58 bp):
GTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAGAATCTT
Found at i:7852402 original size:9 final size:9
Alignment explanation
Indices: 7852389--7852436 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
7852379 AAAATTAAAA
7852389 TTTTAAATT
1 TTTTAAATT
* *
7852398 CTTTACATT
1 TTTTAAATT
7852407 TTTTAAATT
1 TTTTAAATT
7852416 TTTTAAATT
1 TTTTAAATT
*
7852425 TTTTTAATT
1 TTTTAAATT
7852434 TTT
1 TTT
7852437 GTTGTCATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAAATT
Found at i:7853986 original size:15 final size:14
Alignment explanation
Indices: 7853966--7854016 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
7853956 CCATATTTTT
7853966 AATATTTAAATATTC
1 AATATTTAAAT-TTC
*
7853981 AATATTATAATTTTC
1 AATATT-TAAATTTC
*
7853996 TAAAATTTAAATTT-
1 -AATATTTAAATTTC
7854010 AATATTT
1 AATATTT
7854017 TTATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.20
15 15 0.50
16 9 0.30
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (14 bp):
AATATTTAAATTTC
Found at i:7855903 original size:56 final size:56
Alignment explanation
Indices: 7855788--7855903 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 56
7855778 TTTTTTTTTC
* * * * *
7855788 TTTTTTGGTCACATAACCATGAAAAGTTATAAAATGGTCACTCAATTATTAGTATT
1 TTTTTTGGTCACACAACCATGAAAAGTTACAAAATGGTCACCCAACTATTAGGATT
* * * *
7855844 TTTTTTTGTCACCCAACTATGAAAAGTTACAAAATGGTCACCCAACTATCTTGGATT
1 TTTTTTGGTCACACAACCATGAAAAGTTACAAAATGGTCACCCAACTAT-TAGGATT
7855901 TTT
1 TTT
7855904 GGGTGTTCCG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 42 0.84
57 8 0.16
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (56 bp):
TTTTTTGGTCACACAACCATGAAAAGTTACAAAATGGTCACCCAACTATTAGGATT
Found at i:7856121 original size:23 final size:23
Alignment explanation
Indices: 7856095--7856145 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
7856085 TAATAATTAT
7856095 ATATTTTAGAA-TTTTATAAAAAA
1 ATATTTTAGAACTTTT-TAAAAAA
* *
7856118 ATATTTTTGAACTTTTTAAAAAT
1 ATATTTTAGAACTTTTTAAAAAA
7856141 ATATT
1 ATATT
7856146 ATATGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
ATATTTTAGAACTTTTTAAAAAA
Found at i:7857043 original size:25 final size:25
Alignment explanation
Indices: 7857007--7857097 Score: 130
Period size: 25 Copynumber: 3.6 Consensus size: 25
7856997 TTATTATGCA
*
7857007 CTAATGAA-CAGAGAGCACTGACATG
1 CTAAT-AATCAGAGAGCACTGACGTG
*
7857032 CTAATAATCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
7857057 TTAATAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
7857082 CTATTAATCAGAGAGC
1 CTAATAATCAGAGAGC
7857098 GCGCTTAGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 2 0.03
25 57 0.97
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:7857638 original size:13 final size:13
Alignment explanation
Indices: 7857617--7857648 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7857607 TTTGATTAAT
*
7857617 TAATGTAATATAA
1 TAATATAATATAA
7857630 TAATATAATATAA
1 TAATATAATATAA
7857643 TAATAT
1 TAATAT
7857649 TTTAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:7858128 original size:13 final size:14
Alignment explanation
Indices: 7858085--7858130 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
7858075 ATATTTAATA
7858085 TTATAATTTTCTATT
1 TTATAATTTT-TATT
7858100 TTATAATTTTTATT
1 TTATAATTTTTATT
7858114 TTA-AATTTATT-TT
1 TTATAATTT-TTATT
7858127 TTAT
1 TTAT
7858131 TTTAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.34
14 9 0.31
15 10 0.34
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATAATTTTTATT
Found at i:7860742 original size:11 final size:11
Alignment explanation
Indices: 7860705--7860757 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
7860695 ATAAACACCA
7860705 AAAAATTATTTT
1 AAAAA-TATTTT
***
7860717 AAAAATAAAAAT
1 AAAAAT-ATTTT
*
7860729 AAAAGTATTTT
1 AAAAATATTTT
7860740 AAAAATATTTT
1 AAAAATATTTT
7860751 AAAAATA
1 AAAAATA
7860758 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
11 20 0.62
12 12 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7860768 original size:13 final size:13
Alignment explanation
Indices: 7860750--7860777 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7860740 AAAAATATTT
7860750 TAAAAATAAAAAA
1 TAAAAATAAAAAA
7860763 TAAAAATAAAAAA
1 TAAAAATAAAAAA
7860776 TA
1 TA
7860778 TATTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:7873995 original size:21 final size:21
Alignment explanation
Indices: 7873966--7874042 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
7873956 GTGCAAAGGA
7873966 TATGAGTTTCCGTTTAACCTT
1 TATGAGTTTCCGTTTAACCTT
* * * *
7873987 TATGGGTTTCCATTCAGCTCTT
1 TATGAGTTTCCGTTTAAC-CTT
* * *
7874009 T-TGAGCTTCAGTTTAACCCT
1 TATGAGTTTCCGTTTAACCTT
*
7874029 TATGGGTTTCCGTT
1 TATGAGTTTCCGTT
7874043 CAGCTCTTAC
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 3 0.08
21 33 0.82
22 4 0.10
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCCGTTTAACCTT
Found at i:7874036 original size:42 final size:42
Alignment explanation
Indices: 7873966--7874080 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
7873956 GTGCAAAGGA
* * *
7873966 TATGAGTTTCCGTTTAACCTTTATGGGTTTCCATTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
* *
7874008 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
* * *
7874050 TACGAGCTTCAGTTCAACCCGTATGGGTTTC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTC
7874081 TGTTTAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
Found at i:7874064 original size:21 final size:21
Alignment explanation
Indices: 7873999--7874065 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
7873989 TGGGTTTCCA
*
7873999 TTCAGCTCTTTTGAGCTTCAG
1 TTCAGCTCTTATGAGCTTCAG
* * * * * *
7874020 TTTAACCCTTATGGGTTTCCG
1 TTCAGCTCTTATGAGCTTCAG
*
7874041 TTCAGCTCTTACGAGCTTCAG
1 TTCAGCTCTTATGAGCTTCAG
7874062 TTCA
1 TTCA
7874066 ACCCGTATGG
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TTCAGCTCTTATGAGCTTCAG
Found at i:7880160 original size:67 final size:67
Alignment explanation
Indices: 7880052--7880179 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
7880042 TTTCCAATTT
* **
7880052 AGAGAGCACACTCTCGCGAACCTCATTTCTTACAGTGGGATTACCAGTCCAGGCTAAATCCTTTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCTTTG
7880117 CA
66 CA
*
7880119 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCC
7880180 CCTGTAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCTTTG
CA
Found at i:7884981 original size:17 final size:18
Alignment explanation
Indices: 7884949--7884991 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
7884939 TCTAAATTAA
*
7884949 TAATTTCATTCAATATAT
1 TAATTTCATACAATATAT
7884967 TAATTT-ATACAATATA-
1 TAATTTCATACAATATAT
*
7884983 AAATTTCAT
1 TAATTTCAT
7884992 TTCATACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTCATACAATATAT
Found at i:7908161 original size:3 final size:3
Alignment explanation
Indices: 7908148--7908180 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
7908138 ATCTAACAAA
7908148 TTG TT- TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
7908181 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:7915326 original size:42 final size:42
Alignment explanation
Indices: 7915267--7915440 Score: 188
Period size: 42 Copynumber: 4.1 Consensus size: 42
7915257 TATGAGTTTT
*
7915267 TGTTTAACCC-TATTGGGTTTCCGTTTAGCTTTTTTGAGCTTC
1 TGTTTAACCCTTA-TGGGTTTCCGTTTAGCTCTTTTGAGCTTC
* *
7915309 TGTTTAACCCTTATGGGTTTCCATTCAGCTCTTTTGAGCTTC
1 TGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTC
** *
7915351 TAATTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTTC
1 TGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTC
* ** * * * * * *
7915393 CGTTCGATCCTTACGGGTTTCTGTTTAGCACTTATGTGCTTC
1 TGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTC
*
7915435 AGTTTA
1 TGTTTA
7915441 GCCTTCGGGC
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 108 0.98
43 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
TGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTC
Found at i:7915386 original size:21 final size:21
Alignment explanation
Indices: 7915280--7915442 Score: 67
Period size: 21 Copynumber: 7.8 Consensus size: 21
7915270 TTAACCCTAT
* * *
7915280 TGGGTTTCCGTTTAGCTTTTT
1 TGGGCTTCCGTTTAGCTCTTA
* * * *
7915301 TGAGCTTCTGTTTAACCCTTA
1 TGGGCTTCCGTTTAGCTCTTA
* * * *
7915322 TGGGTTTCCATTCAGCTCTTT
1 TGGGCTTCCGTTTAGCTCTTA
* *** * *
7915343 TGAGCTTCTAATTAACCCTTA
1 TGGGCTTCCGTTTAGCTCTTA
*
7915364 TGGGTTTCCGTTTAGCTCTTA
1 TGGGCTTCCGTTTAGCTCTTA
* * *
7915385 TGAGCTTCCG-TTCGATCCTTA
1 TGGGCTTCCGTTTAGCT-CTTA
* * * *
7915406 CGGGTTTCTGTTTAGCACTTA
1 TGGGCTTCCGTTTAGCTCTTA
* *
7915427 TGTGCTTCAGTTTAGC
1 TGGGCTTCCGTTTAGC
7915443 CTTCGGGCTT
Statistics
Matches: 95, Mismatches: 45, Indels: 4
0.66 0.31 0.03
Matches are distributed among these distances:
20 4 0.04
21 88 0.93
22 3 0.03
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (21 bp):
TGGGCTTCCGTTTAGCTCTTA
Found at i:7916276 original size:17 final size:17
Alignment explanation
Indices: 7916254--7916304 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
7916244 CAAATTATCA
7916254 GAAGCTTGATTGGGTTG
1 GAAGCTTGATTGGGTTG
*
7916271 GAAGCTCGATTGGGTTG
1 GAAGCTTGATTGGGTTG
7916288 GAAGCTTG-TTGGAGTTG
1 GAAGCTTGATTGG-GTTG
7916305 TATCACACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.13
17 27 0.87
ACGTcount: A:0.18, C:0.08, G:0.41, T:0.33
Consensus pattern (17 bp):
GAAGCTTGATTGGGTTG
Found at i:7946006 original size:102 final size:102
Alignment explanation
Indices: 7945830--7946036 Score: 414
Period size: 102 Copynumber: 2.0 Consensus size: 102
7945820 GTCTTTCAAA
7945830 TTTATTGCATATTGTTACATTCTCTTCAGGGAATGGTTAGATTCATGATTAAAAATCGTTGTTCA
1 TTTATTGCATATTGTTACATTCTCTTCAGGGAATGGTTAGATTCATGATTAAAAATCGTTGTTCA
7945895 ATCATAAGTAAACATGATATTAACTCTTGAAATTTTT
66 ATCATAAGTAAACATGATATTAACTCTTGAAATTTTT
7945932 TTTATTGCATATTGTTACATTCTCTTCAGGGAATGGTTAGATTCATGATTAAAAATCGTTGTTCA
1 TTTATTGCATATTGTTACATTCTCTTCAGGGAATGGTTAGATTCATGATTAAAAATCGTTGTTCA
7945997 ATCATAAGTAAACATGATATTAACTCTTGAAATTTTT
66 ATCATAAGTAAACATGATATTAACTCTTGAAATTTTT
7946034 TTT
1 TTT
7946037 CACGATACTG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 105 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (102 bp):
TTTATTGCATATTGTTACATTCTCTTCAGGGAATGGTTAGATTCATGATTAAAAATCGTTGTTCA
ATCATAAGTAAACATGATATTAACTCTTGAAATTTTT
Found at i:7948082 original size:21 final size:20
Alignment explanation
Indices: 7948054--7948093 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7948044 ATAACACAAT
**
7948054 TATAAAATTTGTAAAAAATA
1 TATAAAATTACTAAAAAATA
7948074 TATACAAATTACTAAAAAAT
1 TATA-AAATTACTAAAAAAT
7948094 TATTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAATTACTAAAAAATA
Found at i:7950650 original size:12 final size:12
Alignment explanation
Indices: 7950635--7950668 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7950625 TATTAATATA
7950635 TTAATTATGATT
1 TTAATTATGATT
*
7950647 TTAATTATAATT
1 TTAATTATGATT
*
7950659 ATAATTATGA
1 TTAATTATGA
7950669 CTGGGGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTAATTATGATT
Found at i:7951561 original size:4 final size:4
Alignment explanation
Indices: 7951552--7951585 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
7951542 CACACCGAAT
*
7951552 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AGGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
7951586 ATGTTGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:7953224 original size:56 final size:50
Alignment explanation
Indices: 7952962--7953260 Score: 400
Period size: 50 Copynumber: 5.8 Consensus size: 50
7952952 GATAATAACA
* ** * *
7952962 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGG
* * * * * *
7953013 TGCCCATGCCATGTACCAGACATGGTCTTATAGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7953063 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7953113 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7953163 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG
*
7953218 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7953261 TTACCCAAAT
Statistics
Matches: 222, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
50 143 0.64
51 32 0.14
52 1 0.00
53 4 0.02
55 2 0.01
56 40 0.18
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:7953375 original size:13 final size:13
Alignment explanation
Indices: 7953354--7953385 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7953344 GCTTGGATCA
*
7953354 TCATCAAATAAAT
1 TCATAAAATAAAT
7953367 TCATAAAATAAAT
1 TCATAAAATAAAT
7953380 TCATAA
1 TCATAA
7953386 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7953632 original size:30 final size:30
Alignment explanation
Indices: 7953597--7953654 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7953587 CCTCGACTCT
*
7953597 AACTTTTTCAAAATTACAATTTTACCCCTA
1 AACTTTTGCAAAATTACAATTTTACCCCTA
* * *
7953627 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTACCCC
7953655 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTACCCCTA
Found at i:7959397 original size:35 final size:35
Alignment explanation
Indices: 7959351--7959420 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
7959341 TGATAAAAAT
* *
7959351 AGTTTGGATTTGAATCTTAATTATATTTTAAACCC
1 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
7959386 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
1 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
7959421 CATATAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (35 bp):
AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
Found at i:7960169 original size:59 final size:59
Alignment explanation
Indices: 7960065--7960187 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 59
7960055 AAGCAAAAAT
* * * * * *
7960065 AAAAGATTAGATATCAAATTAGGAAAAAGTGTCGAGTTTATGTACTAAATGGGACCCA-A
1 AAAAGATTAAATACCAAATTAGGAAAAAGTGTCAAATTCAAGTACTAAATGGGA-CCATA
*
7960124 AAAAGATTAAATACCAAATTAGGAAAATA-TGTCAAATTCAAGTACTAAATTGGACCATA
1 AAAAGATTAAATACCAAATTAGGAAAA-AGTGTCAAATTCAAGTACTAAATGGGACCATA
7960183 AAAAG
1 AAAAG
7960188 TCAAGGTACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 3 0.05
59 51 0.93
60 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (59 bp):
AAAAGATTAAATACCAAATTAGGAAAAAGTGTCAAATTCAAGTACTAAATGGGACCATA
Found at i:7963810 original size:15 final size:14
Alignment explanation
Indices: 7963783--7963810 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7963773 AATTAGTGTT
7963783 GAAAACTAAAAAAA
1 GAAAACTAAAAAAA
7963797 GAAAACTAAAAAAA
1 GAAAACTAAAAAAA
7963811 TGGGGGAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
GAAAACTAAAAAAA
Found at i:7964930 original size:5 final size:5
Alignment explanation
Indices: 7964920--7964968 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
7964910 TTGAAGTTTT
* *
7964920 ATCGA ATCGA ATCGA GT-GA GATAGAA ATCGA ATCGA ATCGA ATCGA ATC
1 ATCGA ATCGA ATCGA ATCGA -ATCG-A ATCGA ATCGA ATCGA ATCGA ATC
7964969 AAATTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
4 2 0.05
5 31 0.82
6 4 0.11
7 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:7967129 original size:29 final size:29
Alignment explanation
Indices: 7967092--7967150 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7967082 TAATTTTTAA
*
7967092 ATGTAGTGTTTTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
*
7967121 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
7967150 A
1 A
7967151 GTTTATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:7968015 original size:36 final size:35
Alignment explanation
Indices: 7967960--7968036 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
7967950 AAGAAAATAT
*
7967960 ATTTTGTTTAACTAGACTTGCAAGTAATCTCTTAG
1 ATTTTGTTTAACTAGACTTGCAAGCAATCTCTTAG
*
7967995 ATTTTGTTTTAACTTA-ACTTGCAAGCAATCTTTTAG
1 ATTTTG-TTTAAC-TAGACTTGCAAGCAATCTCTTAG
*
7968031 AATTTG
1 ATTTTG
7968037 AGTCACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 6 0.16
36 29 0.78
37 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (35 bp):
ATTTTGTTTAACTAGACTTGCAAGCAATCTCTTAG
Found at i:7968463 original size:7 final size:7
Alignment explanation
Indices: 7968453--7968477 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7968443 AAAAATAAAG
7968453 ATATGAT
1 ATATGAT
7968460 ATATGAT
1 ATATGAT
7968467 ATATGAT
1 ATATGAT
7968474 ATAT
1 ATAT
7968478 TGTATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATATGAT
Found at i:7972705 original size:14 final size:14
Alignment explanation
Indices: 7972663--7972710 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
7972653 GCAATTTAGA
7972663 TTTTTTTCTTTTATGT
1 TTTTTTTC-TTTAT-T
*
7972679 TTTTTTTAACTTTCTT
1 TTTTTTT--CTTTATT
7972695 TTTTTTTCTTTATT
1 TTTTTTTCTTTATT
7972709 TT
1 TT
7972711 CCATTCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
16 15 0.54
17 4 0.14
18 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTATT
Found at i:7976618 original size:34 final size:34
Alignment explanation
Indices: 7976574--7976646 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
7976564 GTAATTAACA
* *
7976574 AATCCCCATTTTGATGGCGGAGAGAAAAAA-AACT
1 AATCCACATTTT-ATGGCCGAGAGAAAAAACAACT
* *
7976608 AATCCACATTTTCTGGCCGAGTGAAAAAACAACT
1 AATCCACATTTTATGGCCGAGAGAAAAAACAACT
*
7976642 GATCC
1 AATCC
7976647 TCATCTTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (34 bp):
AATCCACATTTTATGGCCGAGAGAAAAAACAACT
Found at i:7985825 original size:22 final size:22
Alignment explanation
Indices: 7985799--7985844 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7985789 CTAATAGAAT
*
7985799 AAAATTATTTA-AGTTAAATTAA
1 AAAATTATATATA-TTAAATTAA
7985821 AAAATTATATATATTAAATTAA
1 AAAATTATATATATTAAATTAA
7985843 AA
1 AA
7985845 TTTTGTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATTATATATATTAAATTAA
Found at i:7986071 original size:18 final size:17
Alignment explanation
Indices: 7986050--7986093 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
7986040 TTTAAAAATA
7986050 TATAAAATTTGAAATTTT
1 TATAAAATTTG-AATTTT
*
7986068 TATAAATATTTGGATTTT
1 TATAAA-ATTTGAATTTT
7986086 TA-AAAATT
1 TATAAAATT
7986094 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 13 0.54
19 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAAATTTGAATTTT
Found at i:7986104 original size:18 final size:18
Alignment explanation
Indices: 7986063--7986105 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7986053 AAAATTTGAA
*
7986063 ATTTTTATAAATATTTGG
1 ATTTTTAAAAATATTTGG
*
7986081 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTGG
7986100 ATTTTT
1 ATTTTT
7986106 TTTGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATATTTGG
Found at i:7988771 original size:23 final size:23
Alignment explanation
Indices: 7988735--7988786 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
7988725 GATTATTTTT
*
7988735 ATATAA-ACATAAATTTA-TAAA
1 ATATAATACATAAATATATTAAA
7988756 ATATAATACATCAAATATATTAAA
1 ATATAATACAT-AAATATATTAAA
7988780 ATA-AATA
1 ATATAATA
7988787 TATTTCCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 6 0.22
22 4 0.15
23 10 0.37
24 7 0.26
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAATACATAAATATATTAAA
Found at i:7988951 original size:22 final size:22
Alignment explanation
Indices: 7988926--7988968 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7988916 TATCTAAATA
7988926 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
* *
7988948 ATAATAGCAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
7988969 AACTGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:7990264 original size:28 final size:28
Alignment explanation
Indices: 7990224--7990281 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7990214 CATCAGAGTT
7990224 AGTCTCTTTTTGATAGTTTAACAACCAA
1 AGTCTCTTTTTGATAGTTTAACAACCAA
7990252 AGTCTCTTTTTGATAGTTTAACAACCAA
1 AGTCTCTTTTTGATAGTTTAACAACCAA
7990280 AG
1 AG
7990282 AGAATATCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (28 bp):
AGTCTCTTTTTGATAGTTTAACAACCAA
Found at i:7991503 original size:25 final size:25
Alignment explanation
Indices: 7991472--7991521 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7991462 ATGAGGATGC
7991472 GGAGATATGTTTGTGTAGCCTCTGA
1 GGAGATATGTTTGTGTAGCCTCTGA
7991497 GGAGATATGTTTGTGTAGCCTCTGA
1 GGAGATATGTTTGTGTAGCCTCTGA
7991522 TAGGGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (25 bp):
GGAGATATGTTTGTGTAGCCTCTGA
Found at i:7994036 original size:22 final size:22
Alignment explanation
Indices: 7993990--7994036 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7993980 TGCATTTATT
* **
7993990 ATTATAATTGTAATTATTTTTA
1 ATTAAAATTGTAATTATTTACA
*
7994012 ATTAAAATTTTAATTATTTACA
1 ATTAAAATTGTAATTATTTACA
7994034 ATT
1 ATT
7994037 TTGTACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTAAAATTGTAATTATTTACA
Found at i:7994673 original size:17 final size:17
Alignment explanation
Indices: 7994646--7994695 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
7994636 GAAATATTTG
* *
7994646 ATATTTGAAATGGCA-A
1 ATATGTGAAATGGAAGA
7994662 ATGATGTGAAATGGAAGTA
1 AT-ATGTGAAATGGAAG-A
7994681 ATATGTGAAATGGAA
1 ATATGTGAAATGGAA
7994696 TATGCAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 11 0.38
18 13 0.45
19 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.26, T:0.28
Consensus pattern (17 bp):
ATATGTGAAATGGAAGA
Found at i:7998313 original size:15 final size:15
Alignment explanation
Indices: 7998288--7998322 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7998278 AACTCTATTT
*
7998288 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
7998302 TAATTAATATTAAGA
1 TAATTAATATTAAGA
7998317 TAATTA
1 TAATTA
7998323 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8000671 original size:24 final size:23
Alignment explanation
Indices: 8000639--8000689 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
8000629 GAAGTTGATA
*
8000639 ATTTTATTTCTT-TTGTTATTTATT
1 ATTTTATTT-TTATTCTTATTT-TT
8000663 ATTTTATTTTTATTCTTATTTTT
1 ATTTTATTTTTATTCTTATTTTT
8000686 ATTT
1 ATTT
8000690 CTCTTTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTATTTTTATTCTTATTTTT
Found at i:8000684 original size:11 final size:11
Alignment explanation
Indices: 8000639--8000689 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
8000629 GAAGTTGATA
8000639 ATTTTATTTCTT
1 ATTTTATTT-TT
8000651 -TTGTTATTTATT
1 ATT-TTATTT-TT
8000663 ATTTTATTTTT
1 ATTTTATTTTT
8000674 ATTCTTATTTTT
1 ATT-TTATTTTT
8000686 ATTT
1 ATTT
8000690 CTCTTTATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 8 0.23
12 25 0.71
13 2 0.06
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:8008379 original size:15 final size:15
Alignment explanation
Indices: 8008359--8008389 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8008349 AGTGTTGGCA
8008359 TTTTTTACTATGAAT
1 TTTTTTACTATGAAT
8008374 TTTTTTACTATGAAT
1 TTTTTTACTATGAAT
8008389 T
1 T
8008390 AATGTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTTTACTATGAAT
Found at i:8009496 original size:26 final size:26
Alignment explanation
Indices: 8009441--8009496 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
8009431 CCTAATTTAA
* **
8009441 TTAATTCTTAAATATATTTTTAATTT
1 TTAACTCTTAAATATATTTTTAATAC
*
8009467 TTAACTCTTAAGTATATTTTTTAA-AC
1 TTAACTCTTAAATATA-TTTTTAATAC
8009493 TTAA
1 TTAA
8009497 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (26 bp):
TTAACTCTTAAATATATTTTTAATAC
Done.