Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 55
Found at i:787810 original size:28 final size:28
Alignment explanation
Indices: 787778--787861 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
787768 AATTTTATAA
*
787778 AAACCCTAAACTTTAAATCATAAACCCT
1 AAACCCTAAACTTTAAACCATAAACCCT
*
787806 AAACCCTAAACTTTAAACCATAAACACT
1 AAACCCTAAACTTTAAACCATAAACCCT
* *
787834 AAACCCTAAACCTTAAACCTTAAACCCT
1 AAACCCTAAACTTTAAACCATAAACCCT
787862 TATATAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACCCTAAACTTTAAACCATAAACCCT
Found at i:788340 original size:7 final size:7
Alignment explanation
Indices: 788328--788420 Score: 78
Period size: 7 Copynumber: 13.3 Consensus size: 7
788318 ATTTTTATAG
788328 AAACCCT
1 AAACCCT
788335 AAACCCT
1 AAACCCT
***
788342 AAATTAT
1 AAACCCT
788349 AAACCCT
1 AAACCCT
788356 AAACCCT
1 AAACCCT
***
788363 AAATTAT
1 AAACCCT
788370 AAACCCT
1 AAACCCT
788377 AAACCCT
1 AAACCCT
**
788384 AAACTTT
1 AAACCCT
*
788391 AAACCTT
1 AAACCCT
**
788398 AAATACT
1 AAACCCT
*
788405 AAACACT
1 AAACCCT
788412 AAACCCT
1 AAACCCT
788419 AA
1 AA
788421 TGTAAATAGA
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 66 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:788353 original size:21 final size:21
Alignment explanation
Indices: 788328--788400 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
788318 ATTTTTATAG
788328 AAACCCTAAACCCTAAATTAT
1 AAACCCTAAACCCTAAATTAT
788349 AAACCCTAAACCCTAAATTAT
1 AAACCCTAAACCCTAAATTAT
788370 AAACCCTAAACCCTAAACTT-T
1 AAACCCTAAACCCTAAA-TTAT
*
788391 AAACCTTAAA
1 AAACCCTAAA
788401 TACTAAACAC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 48 0.96
22 2 0.04
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCCTAAACCCTAAATTAT
Found at i:788760 original size:23 final size:23
Alignment explanation
Indices: 788733--788776 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
788723 TTATTTTTTC
788733 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
788756 TTTATATAAATTAAACTATAT
1 TTTATATAAATTAAACTATAT
788777 TTATTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTATATAAATTAAACTATATAA
Found at i:789098 original size:17 final size:16
Alignment explanation
Indices: 789050--789100 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
789040 CGGATCATTT
789050 ACAAGTCAGGTTAAAA
1 ACAAGTCAGGTTAAAA
*
789066 ACAAGTCAGTTTAAAA
1 ACAAGTCAGGTTAAAA
* *
789082 ACAGGTCAGGTTGAAA
1 ACAAGTCAGGTTAAAA
789098 ACA
1 ACA
789101 GATCGGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (16 bp):
ACAAGTCAGGTTAAAA
Found at i:790086 original size:21 final size:20
Alignment explanation
Indices: 790035--790088 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
790025 TTCTCTGGCT
790035 CAAAGGATCGATCCCTTAGC
1 CAAAGGATCGATCCCTTAGC
* *
790055 AAAAGGATCGATCCCTTTGAC
1 CAAAGGATCGATCCCTTAG-C
*
790076 CAAATGATCGATC
1 CAAAGGATCGATC
790089 TCTTGGACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAAGGATCGATCCCTTAGC
Found at i:790149 original size:20 final size:21
Alignment explanation
Indices: 790110--790163 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
790100 AGTGAGTTTG
*
790110 GGATCGATCCCTTGAG-AAAA
1 GGATCGATCCCTTCAGAAAAA
**
790130 GGATCGATCCCTTCCTAAAAA
1 GGATCGATCCCTTCAGAAAAA
*
790151 GGATCAATCCCTT
1 GGATCGATCCCTT
790164 TGGTATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (21 bp):
GGATCGATCCCTTCAGAAAAA
Found at i:792851 original size:20 final size:19
Alignment explanation
Indices: 792828--792890 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 19
792818 CAAAGAATCA
792828 ATCCCTTAGCAAAAGGATCG
1 ATCCCTT-GCAAAAGGATCG
*
792848 ATCCCCTTG-AAAAGGATTG
1 AT-CCCTTGCAAAAGGATCG
792867 ATCCCTTGACAAAAGGATCG
1 ATCCCTTG-CAAAAGGATCG
792887 ATCC
1 ATCC
792891 TTTTGGTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.16
19 11 0.29
20 16 0.42
21 5 0.13
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (19 bp):
ATCCCTTGCAAAAGGATCG
Found at i:792862 original size:19 final size:20
Alignment explanation
Indices: 792838--792890 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
792828 ATCCCTTAGC
792838 AAAAGGATCGATCCCCTTG-
1 AAAAGGATCGATCCCCTTGA
*
792857 AAAAGGATTGAT-CCCTTGA
1 AAAAGGATCGATCCCCTTGA
792876 CAAAAGGATCGATCC
1 -AAAAGGATCGATCC
792891 TTTTGGTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.21
19 11 0.38
20 11 0.38
21 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
AAAAGGATCGATCCCCTTGA
Found at i:793758 original size:8 final size:8
Alignment explanation
Indices: 793740--793775 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
793730 AGAAAGATTC
793740 ATACGATAT
1 ATAC-ATAT
*
793749 ATATATAT
1 ATACATAT
793757 ATACATAT
1 ATACATAT
793765 ATACATAT
1 ATACATAT
793773 ATA
1 ATA
793776 AAAAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 22 0.88
9 3 0.12
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (8 bp):
ATACATAT
Found at i:801186 original size:20 final size:20
Alignment explanation
Indices: 801161--801203 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
801151 AATTTGCAGC
801161 GTCCTAATGAGGTGAGAGAA
1 GTCCTAATGAGGTGAGAGAA
801181 GTCCTAATGAGGTGAGAGAA
1 GTCCTAATGAGGTGAGAGAA
801201 GTC
1 GTC
801204 AAAGCAACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.21
Consensus pattern (20 bp):
GTCCTAATGAGGTGAGAGAA
Found at i:801958 original size:27 final size:27
Alignment explanation
Indices: 801902--801960 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
801892 GAAGATCGAG
* * *
801902 CTGAAGATAAGGAATATGATGAATTGT
1 CTGAAGAGAAGGAAAATGATGAATGGT
801929 CTGAAGAGAAGGAAAATGATGAA-GGCT
1 CTGAAGAGAAGGAAAATGATGAATGG-T
801956 CTGAA
1 CTGAA
801961 AATCATCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (27 bp):
CTGAAGAGAAGGAAAATGATGAATGGT
Found at i:810829 original size:70 final size:70
Alignment explanation
Indices: 810715--810856 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 70
810705 CTGGTTTTTG
** *
810715 AACTGTAGGAGCTGGCTCTGGATTATCCCTCATGAGATGGTCACCAGAACCATATTTAAAATATG
1 AACTGTAGGAGCTGGCTCTGGATTATCCCTCATGAGATCATCACCAGAACCATATTTAAAACATG
*
810780 TACCC
66 TAACC
810785 AACTGTAGGAGCTGGCTCTGGATTATCCCTCATGAGATCATCACCAGAACCATATTTAAAACATG
1 AACTGTAGGAGCTGGCTCTGGATTATCCCTCATGAGATCATCACCAGAACCATATTTAAAACATG
810850 TAACC
66 TAACC
810855 AA
1 AA
810857 ATTCTTTCTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (70 bp):
AACTGTAGGAGCTGGCTCTGGATTATCCCTCATGAGATCATCACCAGAACCATATTTAAAACATG
TAACC
Found at i:829493 original size:9 final size:8
Alignment explanation
Indices: 829454--829770 Score: 127
Period size: 8 Copynumber: 39.2 Consensus size: 8
829444 AAAACATTAT
829454 TAATAAATA
1 TAAT-AATA
*
829463 AAATAATA
1 TAATAATA
829471 TAACATAATA
1 T-A-ATAATA
829481 TAATAACTA
1 TAATAA-TA
829490 TAAT-ATA
1 TAATAATA
*
829497 TATATTATA
1 TA-ATAATA
*
829506 TAATAGTA
1 TAATAATA
829514 -AATAATA
1 TAATAATA
829521 TACTATAATA
1 TA--ATAATA
829531 -ATATAA-A
1 TA-ATAATA
*
829538 TACTATAATG
1 TA--ATAATA
829548 T-ATAATA
1 TAATAATA
829555 T-ATAATA
1 TAATAATA
829562 -AATAATA
1 TAATAATA
*
829569 TAATACTA
1 TAATAATA
*
829577 TAAT-ATG
1 TAATAATA
*
829584 T-ATATTA
1 TAATAATA
829591 TAATAATA
1 TAATAATA
829599 TAATAATA
1 TAATAATA
829607 -AAT-ATA
1 TAATAATA
829613 TACTATAATA
1 TA--ATAATA
829623 T-ATAATA
1 TAATAATA
*
829630 TATGACAAATA
1 TA--A-TAATA
*
829641 TATATACTA
1 TA-ATAATA
*
829650 TAATGTATA
1 TAAT-AATA
829659 TTATATAATA
1 -TA-ATAATA
*
829669 TAATACTA
1 TAATAATA
829677 TAAT-ATA
1 TAATAATA
829684 T-AT-ATA
1 TAATAATA
829690 T-ATAATA
1 TAATAATA
**
829697 TGCT-ATA
1 TAATAATA
829704 TAAT-ATAA
1 TAATAAT-A
829712 TATATAATA
1 TA-ATAATA
*
829721 TAATATGTA
1 TAATA-ATA
*
829730 TTATAATA
1 TAATAATA
829738 TAATATATA
1 TAATA-ATA
*
829747 TTATACA-A
1 TAATA-ATA
829755 TAA-AATA
1 TAATAATA
829762 T-ATAATA
1 TAATAATA
829769 TA
1 TA
829771 CTATATTGTA
Statistics
Matches: 240, Mismatches: 32, Indels: 73
0.70 0.09 0.21
Matches are distributed among these distances:
6 15 0.06
7 66 0.28
8 72 0.30
9 52 0.22
10 27 0.11
11 8 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (8 bp):
TAATAATA
Found at i:829553 original size:7 final size:7
Alignment explanation
Indices: 829465--829770 Score: 181
Period size: 7 Copynumber: 42.1 Consensus size: 7
829455 AATAAATAAA
829465 ATAATAT
1 ATAATAT
829472 A-ACATAAT
1 ATA-AT-AT
829480 ATAATAACT
1 ATAAT-A-T
829489 ATAATAT
1 ATAATAT
829496 ATATATTAT
1 ATA-A-TAT
829505 ATAATAGT
1 ATAATA-T
829513 A-AATAAT
1 ATAAT-AT
*
829520 ATACTAT
1 ATAATAT
829527 AATAATAT
1 -ATAATAT
829535 A-AATACT
1 ATAATA-T
*
829542 ATAATGT
1 ATAATAT
829549 ATAATAT
1 ATAATAT
*
829556 ATAATAA
1 ATAATAT
829563 AT-A-AT
1 ATAATAT
829568 ATAATACT
1 ATAATA-T
829576 ATAATAT
1 ATAATAT
*
829583 GT-ATATT
1 ATAATA-T
829590 ATAATAAT
1 ATAAT-AT
829598 ATAATA-
1 ATAATAT
829604 ATAA-AT
1 ATAATAT
829610 AT-ATACT
1 ATAATA-T
829617 ATAATAT
1 ATAATAT
829624 ATAATAT
1 ATAATAT
*
829631 ATGACAAAT
1 AT-A-ATAT
829640 ATATATACT
1 ATA-ATA-T
*
829649 ATAATGT
1 ATAATAT
*
829656 ATATTAT
1 ATAATAT
829663 AT-A-AT
1 ATAATAT
829668 ATAATACT
1 ATAATA-T
829676 ATAATAT
1 ATAATAT
829683 ATATATAT
1 ATA-ATAT
829691 ATAATAT
1 ATAATAT
*
829698 GCTATATAAT
1 -ATA-AT-AT
829708 ATAATAT
1 ATAATAT
829715 ATAATAT
1 ATAATAT
*
829722 A-ATATGT
1 ATA-ATAT
*
829729 ATTATAAT
1 ATAAT-AT
829737 ATAATAT
1 ATAATAT
*
829744 ATATTAT
1 ATAATAT
*
829751 ACAATA-
1 ATAATAT
829757 A-AATAT
1 ATAATAT
829763 ATAATAT
1 ATAATAT
829770 A
1 A
829771 CTATATTGTA
Statistics
Matches: 238, Mismatches: 24, Indels: 74
0.71 0.07 0.22
Matches are distributed among these distances:
5 13 0.05
6 21 0.09
7 104 0.44
8 71 0.30
9 27 0.11
10 2 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (7 bp):
ATAATAT
Found at i:829704 original size:59 final size:55
Alignment explanation
Indices: 829475--829776 Score: 128
Period size: 52 Copynumber: 5.4 Consensus size: 55
829465 ATAATATAAC
* * *
829475 ATAATATAATAACTATAATATAT-ATAT-TATATAATAGTAA-ATAATATACTATAATA
1 ATAATAT-ATAA-TATAATATATAATATATATAT-ATA-TAATATTATATAATATAATT
* * * * *
829531 AT-ATAAATACTATAATGTATAATATATA-ATAAATAATA-TA-ATACTATAA-T
1 ATAATATATAATATAATATATAATATATATATATATAATATTATATAATATAATT
* * * * *
829581 AT-GTATATTATAATAATATAATAATAAATATATACTATAATA-TATAATATATGACAAAT
1 ATAATATATAAT-ATAATAT-ATAATATATATATA-TATAATATTAT-ATA-AT-ATAATT
* *
829640 ATATATACTATAATGTATATTATATAATATA-ATA-CTATAATA-TATATATATATAA-T
1 ATA-ATA-TATAA--TATAATATATAATATATATATATATAATATTATATA-ATATAATT
** * * *
829696 ATGCTATATAATATAATATATAATATAATATGTATTATAATATAATATATATTATACAAT
1 ATAATATATAATATAATATATAATAT-ATATATA-TATAATAT--TATATAATATA-ATT
* *
829756 AAAATATATAATATACTATAT
1 ATAATATATAATATAATATAT
829777 TGTATACTAT
Statistics
Matches: 189, Mismatches: 31, Indels: 48
0.71 0.12 0.18
Matches are distributed among these distances:
50 7 0.04
51 15 0.08
52 27 0.14
53 16 0.08
54 24 0.13
55 7 0.04
56 15 0.08
57 4 0.02
58 13 0.07
59 20 0.11
60 18 0.10
61 5 0.03
62 11 0.06
63 6 0.03
64 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (55 bp):
ATAATATATAATATAATATATAATATATATATATATAATATTATATAATATAATT
Found at i:829721 original size:17 final size:17
Alignment explanation
Indices: 829454--829775 Score: 192
Period size: 17 Copynumber: 18.7 Consensus size: 17
829444 AAAACATTAT
*
829454 TAATA-AATAAAATAATA
1 TAATATAATATAAT-ATA
*
829471 TAACATAATATAATAACTA
1 TAATATAATATAAT-A-TA
*
829490 TAATAT-ATATATTATA
1 TAATATAATATAATATA
829506 TAATAGTAA-ATAATATA
1 TAATA-TAATATAATATA
829523 CT-ATAATAATATAAATACTA
1 -TAAT-ATAATAT-AATA-TA
829543 TAATGTATAATAT-ATA-A
1 TAA--TATAATATAATATA
829560 TAA-ATAATATAATACTA
1 TAATATAATATAATA-TA
* *
829577 TAATAT-GTATATTATAA
1 TAATATAATATAATAT-A
*
829594 TAATAT-A-ATAATAAA
1 TAATATAATATAATATA
*
829609 T-ATATACTATAATATA
1 TAATATAATATAATATA
*
829625 TAATAT-ATGACAA-ATA
1 TAATATAAT-ATAATATA
*
829641 T-ATATACTATAATGTATA
1 TAATATAATATAA--TATA
*
829659 TTATATAATATAATACTA
1 TAATATAATATAATA-TA
829677 TAATAT-ATAT-ATATA
1 TAATATAATATAATATA
*
829692 TAATATGCTATATAATATA
1 TAATAT--AATATAATATA
*
829711 -ATATATAATATAATATG
1 TA-ATATAATATAATATA
*
829728 TATTATAATATAATATA
1 TAATATAATATAATATA
* *
829745 TATTATACAATAAAATATA
1 TA--ATATAATATAATATA
*
829764 TAATATACTATA
1 TAATATAATATA
829776 TTGTATACTA
Statistics
Matches: 242, Mismatches: 28, Indels: 70
0.71 0.08 0.21
Matches are distributed among these distances:
14 11 0.05
15 20 0.08
16 30 0.12
17 83 0.34
18 39 0.16
19 48 0.20
20 3 0.01
21 7 0.03
22 1 0.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATATAATATAATATA
Found at i:829775 original size:12 final size:12
Alignment explanation
Indices: 829475--829790 Score: 200
Period size: 12 Copynumber: 25.3 Consensus size: 12
829465 ATAATATAAC
829475 ATAATATAATAACT
1 ATAATATAAT-A-T
829489 ATAATAT-ATAT
1 ATAATATAATAT
*
829500 ATTATATAATAGT
1 ATAATATAATA-T
*
829513 AAATAATATACTAT
1 --ATAATATAATAT
829527 AATAATATAAATACT
1 -ATAATAT-AATA-T
*
829542 ATAATGT-ATA-
1 ATAATATAATAT
*
829552 AT-ATATAATAA
1 ATAATATAATAT
829563 ATAATATAATACT
1 ATAATATAATA-T
*
829576 ATAATAT-GTAT
1 ATAATATAATAT
*
829587 ATTATAATAATAT
1 ATAAT-ATAATAT
829600 AATAATA-AATAT
1 -ATAATATAATAT
*
829612 ATACTATAATAT
1 ATAATATAATAT
*
829624 ATAATAT-ATGAC
1 ATAATATAAT-AT
829636 A-AATATATATACT
1 ATAATATA-ATA-T
*
829649 ATAATGTATATTAT
1 ATAA--TATAATAT
829663 ATAATATAATACT
1 ATAATATAATA-T
829676 ATAATATATATATAT
1 AT-A-ATATA-ATAT
**
829691 ATAATATGCTAT
1 ATAATATAATAT
829703 ATAATATAATAT
1 ATAATATAATAT
829715 ATAATATAATAT
1 ATAATATAATAT
* *
829727 GTATTATAATAT
1 ATAATATAATAT
*
829739 A-ATATATATTAT
1 ATA-ATATAATAT
* *
829751 ACAATAAAATAT
1 ATAATATAATAT
*
829763 ATAATATACTAT
1 ATAATATAATAT
** *
829775 ATTGTATACTAT
1 ATAATATAATAT
829787 ATAA
1 ATAA
829791 AAATAACATA
Statistics
Matches: 240, Mismatches: 35, Indels: 56
0.73 0.11 0.17
Matches are distributed among these distances:
9 3 0.01
10 5 0.02
11 27 0.11
12 115 0.48
13 33 0.14
14 30 0.12
15 20 0.08
16 7 0.03
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:829787 original size:5 final size:5
Alignment explanation
Indices: 829456--829775 Score: 139
Period size: 5 Copynumber: 65.6 Consensus size: 5
829446 AACATTATTA
* * * *
829456 ATAA- ATAAA ATAAT ATAAC ATAAT ATAAT A-ACT ATAAT ATATAT ATTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT
* *
829505 ATAAT AGTAA- ATAAT ATACT AT-A- ATAAT ATAA- ATACT ATAATGT
1 ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T
* * *
829549 ATAAT AT-AT AATAA- ATAAT AT-A- ATACT ATAAT ATGTAT ATTAT AATAAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT -ATAAT
* * *
829598 ATAAT AATAA- AT-AT ATACT ATAAT AT-AT A-ATAT ATGAC A-AAT AT-AT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT
* * * *
829644 ATACT ATAAT GT-AT ATTAT ATAAT AT-A- ATACT ATAAT AT-AT ATATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
* *
829691 ATAAT ATGCTAT ATAAT ATAATAT ATAAT ATAAT ATGTATT ATAAT ATAAT
1 ATAAT AT--AAT ATAAT AT-A-AT ATAAT ATAAT A--TAAT ATAAT ATAAT
* * *
829742 AT-AT ATTAT ACAAT A-AA- AT-AT ATAAT ATACT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
829776 TTGTATACTA
Statistics
Matches: 241, Mismatches: 35, Indels: 79
0.68 0.10 0.22
Matches are distributed among these distances:
3 9 0.04
4 50 0.21
5 138 0.57
6 27 0.11
7 17 0.07
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:830696 original size:2 final size:2
Alignment explanation
Indices: 830689--830728 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
830679 ATCACAAGGA
830689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
830729 GTGTGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835447 original size:8 final size:8
Alignment explanation
Indices: 835436--835485 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
835426 ATAATAATTT
835436 TATTTTAA
1 TATTTTAA
*
835444 TATTATAA
1 TATTTTAA
835452 T-TTTTAA
1 TATTTTAA
835459 TATTTTAA
1 TATTTTAA
* *
835467 TAATATTAT
1 T-ATTTTAA
835476 TATTTTAA
1 TATTTTAA
835484 TA
1 TA
835486 CATAACTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.18
8 22 0.65
9 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTTAA
Found at i:835458 original size:15 final size:15
Alignment explanation
Indices: 835438--835467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
835428 AATAATTTTA
835438 TTTTAATATTATAAT
1 TTTTAATATTATAAT
*
835453 TTTTAATATTTTAAT
1 TTTTAATATTATAAT
835468 AATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:835498 original size:73 final size:70
Alignment explanation
Indices: 835421--835555 Score: 166
Period size: 73 Copynumber: 1.9 Consensus size: 70
835411 TTCTTAAAAT
* ** *
835421 ATAATATAATAATT-TTATTTTAATATTATAATTTTTAATATTTTAATAAT-ATTATTATTTTAA
1 ATAATAT-ATAATTCTTATTTTAATA-AATAATTAAT-ATAATTT-ATAATAATTA-TATTTTAA
835484 TACATAACTA
61 TACATAACTA
*
835494 ATAATATATTATTCTTATTTTAATAAATAATTAATATAATTTATAATAATTATATTTTAATA
1 ATAATATATAATTCTTATTTTAATAAATAATTAATATAATTTATAATAATTATATTTTAATA
835556 AAATAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
70 15 0.27
71 10 0.18
72 12 0.22
73 18 0.33
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (70 bp):
ATAATATATAATTCTTATTTTAATAAATAATTAATATAATTTATAATAATTATATTTTAATACAT
AACTA
Found at i:835505 original size:30 final size:32
Alignment explanation
Indices: 835464--835582 Score: 84
Period size: 33 Copynumber: 3.6 Consensus size: 32
835454 TTTAATATTT
*
835464 TAATAATATTA-TTATTTTAATACATAACTAA
1 TAATAATATTATTTATTTTAATAAATAACTAA
*
835495 TAAT-ATATTATTCTTATTTTAATAAATAATTAA
1 TAATAATATTA-T-TTATTTTAATAAATAACTAA
*
835528 T-ATAATTTATAATAATTATATTTTAATAAAATAAATAA
1 TAATAA--TAT--T-ATT-TATTTTAAT-AAATAACTAA
**
835566 TCTTAATATT-TTTATTT
1 TAATAATATTATTTATTT
835583 ATAACATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 23
0.73 0.04 0.23
Matches are distributed among these distances:
30 6 0.08
31 4 0.06
32 7 0.10
33 22 0.31
35 4 0.06
36 1 0.01
37 14 0.19
38 11 0.15
39 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TAATAATATTATTTATTTTAATAAATAACTAA
Found at i:835561 original size:19 final size:19
Alignment explanation
Indices: 835509--835557 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
835499 ATATTATTCT
835509 TATTTTAATAAATAATTAA
1 TATTTTAATAAATAATTAA
835528 TATAATTT-AT-AATAATT-A
1 TAT--TTTAATAAATAATTAA
835546 TATTTTAATAAA
1 TATTTTAATAAA
835558 ATAAATAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 6 0.23
19 10 0.38
20 2 0.08
21 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTTTAATAAATAATTAA
Found at i:836430 original size:21 final size:21
Alignment explanation
Indices: 836400--836552 Score: 122
Period size: 21 Copynumber: 7.3 Consensus size: 21
836390 GATTTACATA
*
836400 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
836421 TTCGCGTTGCGATTTATTTCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
836444 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
836463 TTCGCGTTGCGATTTATTCCTAA-
1 TTCGCGTTGCGA--TAGTCC-AAG
836486 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
836505 TTCGCGTTACGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
836528 TT-G-GTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
836547 TTCGCG
1 TTCGCG
836553 CCAAACAGCT
Statistics
Matches: 104, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
18 2 0.02
19 24 0.23
20 1 0.01
21 49 0.47
22 1 0.01
23 25 0.24
24 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:836454 original size:42 final size:42
Alignment explanation
Indices: 836406--836552 Score: 233
Period size: 42 Copynumber: 3.5 Consensus size: 42
836396 CATATTCGCA
*
836406 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
836448 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCTAA-TTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCC-AAGTTCG
* *
836490 TTGCGATAGTCCAAGTTCGCGTTACGATTTATTCCAAGTTGG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
836532 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
836553 CCAAACAGCT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.02
42 93 0.96
43 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:838597 original size:16 final size:16
Alignment explanation
Indices: 838573--838603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
838563 ATTGAATCCT
838573 TGTTCTTGACTTGGTG
1 TGTTCTTGACTTGGTG
*
838589 TGTTGTTGACTTGGT
1 TGTTCTTGACTTGGT
838604 TTAACGGGAA
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:0.06, C:0.10, G:0.32, T:0.52
Consensus pattern (16 bp):
TGTTCTTGACTTGGTG
Found at i:840458 original size:10 final size:11
Alignment explanation
Indices: 840433--840457 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
840423 TTAAACACTT
840433 AAAACAAAAAA
1 AAAACAAAAAA
840444 AAAACAAAAAA
1 AAAACAAAAAA
840455 AAA
1 AAA
840458 CCCTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:840785 original size:16 final size:16
Alignment explanation
Indices: 840764--840794 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
840754 ATAAATAAAT
840764 GAACATAAACGAACAC
1 GAACATAAACGAACAC
840780 GAACATAAACGAACA
1 GAACATAAACGAACA
840795 ATTTTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:840882 original size:16 final size:16
Alignment explanation
Indices: 840861--840925 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
840851 TAATAAATAA
**
840861 ACGAACATAAACGCGC
1 ACGAACATAAACGAAC
840877 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
840893 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
840909 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
840925 A
1 A
840926 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.54, C:0.25, G:0.14, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:842013 original size:14 final size:14
Alignment explanation
Indices: 841996--842040 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
841986 GATTGGGTTA
841996 AACATAACCGAACG
1 AACATAACCGAACG
842010 AACAT-A---AACG
1 AACATAACCGAACG
842020 AACATAACCGAACG
1 AACATAACCGAACG
842034 AACATAA
1 AACATAA
842041 ATGAACATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.09
Consensus pattern (14 bp):
AACATAACCGAACG
Found at i:842057 original size:24 final size:24
Alignment explanation
Indices: 841996--842048 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
841986 GATTGGGTTA
841996 AACATAACCGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
*
842020 AACATAACCGAACGAACATAAATG
1 AACATAACCGAACGAACATAAACG
842044 AACAT
1 AACAT
842049 TCACGAACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAACCGAACGAACATAAACG
Found at i:851926 original size:13 final size:13
Alignment explanation
Indices: 851908--851941 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
851898 CATGTTGATG
851908 TTTGGAGCTGCTA
1 TTTGGAGCTGCTA
* *
851921 TTTGGAGTTGCTG
1 TTTGGAGCTGCTA
851934 TTTGGAGC
1 TTTGGAGC
851942 ATGTTGTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.35, T:0.41
Consensus pattern (13 bp):
TTTGGAGCTGCTA
Found at i:852925 original size:2 final size:2
Alignment explanation
Indices: 852918--852942 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
852908 CTAGTAAAAT
852918 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
852943 TTAAGTTTAT
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:859609 original size:25 final size:24
Alignment explanation
Indices: 859558--859621 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
859548 TCATCATTTA
* * *
859558 ACATATATATAATATATACATATC
1 ACATACATATAATACATACAAATC
859582 ACATAACATATAATACATA-AAATGC
1 ACAT-ACATATAATACATACAAAT-C
*
859607 ACATTCATATAATAC
1 ACATACATATAATAC
859622 CTAGTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 17 0.50
25 17 0.50
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.31
Consensus pattern (24 bp):
ACATACATATAATACATACAAATC
Found at i:861653 original size:18 final size:19
Alignment explanation
Indices: 861630--861672 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
861620 AGATCATCAT
*
861630 CATATAACATAT-ATATAA
1 CATATAACATATCACATAA
861648 CATAT-ACATATCACATAA
1 CATATAACATATCACATAA
861666 CATATAA
1 CATATAA
861673 TACATATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (19 bp):
CATATAACATATCACATAA
Found at i:867498 original size:64 final size:65
Alignment explanation
Indices: 867396--867531 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 65
867386 GCACTAATTA
* *
867396 CATTCGATGTTTCAAAAAAGACTGGAGTGCATCGATGCATGGTCTGTGAATTGGTACACAAAATG
1 CATTCGATGTTTCAAAAAACACTGGAGTGCATCGATGCATGGTCTGTGAATCGGTACACAAAATG
* * * * * *
867461 CATTCGATGTTTTAATAAACCCT-GAGTGCATCGATGCATGGTGTGTGCATCGGTACACTAAATG
1 CATTCGATGTTTCAAAAAACACTGGAGTGCATCGATGCATGGTCTGTGAATCGGTACACAAAATG
867525 CATTCGA
1 CATTCGA
867532 AATGAAGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
64 44 0.70
65 19 0.30
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (65 bp):
CATTCGATGTTTCAAAAAACACTGGAGTGCATCGATGCATGGTCTGTGAATCGGTACACAAAATG
Found at i:868203 original size:2 final size:2
Alignment explanation
Indices: 868196--868221 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
868186 AACCAAACAG
868196 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
868222 TATTAAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:871855 original size:19 final size:19
Alignment explanation
Indices: 871827--871876 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
871817 CCTCTTCTTG
*
871827 AGTATAGCCTTGAGCAACA
1 AGTATAGCCTTGAGAAACA
*
871846 AGTCTAGCCTTGAGAAACA
1 AGTATAGCCTTGAGAAACA
871865 AGTATAGCCTTG
1 AGTATAGCCTTG
871877 TTTCTCACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (19 bp):
AGTATAGCCTTGAGAAACA
Found at i:874893 original size:16 final size:17
Alignment explanation
Indices: 874842--874893 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
874832 TCCTTTACAT
*
874842 TTTTATTTATTTATTT-
1 TTTTATATATTTATTTA
* *
874858 TTTTATATATTTGTTAA
1 TTTTATATATTTATTTA
*
874875 TTTTA-ATATTTTTTTA
1 TTTTATATATTTATTTA
874891 TTT
1 TTT
874894 CTTTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 25 0.83
17 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTATATATTTATTTA
Found at i:879293 original size:61 final size:60
Alignment explanation
Indices: 879198--879372 Score: 208
Period size: 60 Copynumber: 2.9 Consensus size: 60
879188 ACATAATCTC
* * *
879198 TTGCAGCTTTTAGAGTCAATTTCAACTTCACAGCGAATGATATTTGACTCAACAAATAACT
1 TTGCAGCTTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC-ACAAACAACT
* ** *
879259 TTGCAGCTTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCACAAACAATT
1 TTGCAGCTTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCACAAACAACT
* * * * ** *
879319 TTCCAACTTTTAGAGTTAATTTCAACTTGACAGCGAAATATATTGAACTC-CAAA
1 TTGCAGCTTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCACAAA
879373 GATATGCAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 48 0.49
61 45 0.46
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (60 bp):
TTGCAGCTTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCACAAACAACT
Found at i:879730 original size:36 final size:36
Alignment explanation
Indices: 879664--879966 Score: 268
Period size: 36 Copynumber: 8.3 Consensus size: 36
879654 AATTTACTCA
*
879664 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
879701 AAACAAAATTTGTCTCTCTCGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
879737 AAACAAA------ATCT-TTGA-ATATGTTT-TACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-TTG
* *
879766 AAACAAATTTTGTCTCTCTTGAGACAATTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * * *
879802 GAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCTTA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
879839 AAACAAATTTTGTCTTTGTCTCTCTTGAGACAATTTCTCTTG
1 AAACAAA-----T-TTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
879881 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
879917 AAACAAATTTTGTCTCTCTTGAGACAGTTTC-CTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTC-TTG
879953 AAACGAAATCTTTG
1 AAAC-AAAT-TTTG
879967 AATATGTTTT
Statistics
Matches: 218, Mismatches: 25, Indels: 45
0.76 0.09 0.16
Matches are distributed among these distances:
28 2 0.01
29 15 0.07
30 5 0.02
35 6 0.03
36 108 0.50
37 45 0.21
38 4 0.02
41 1 0.00
42 32 0.15
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:879899 original size:21 final size:21
Alignment explanation
Indices: 879874--879938 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
879864 TGAGACAATT
879874 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
879895 TCTCTTGAGAC-AA--TT-TC
1 TCTCTTGAAACAAATTTTGTC
879912 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
879931 TCTCTTGA
1 TCTCTTGA
879939 GACAGTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
15 7 0.19
16 3 0.08
17 2 0.06
18 4 0.11
19 2 0.06
20 3 0.08
21 15 0.42
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:879926 original size:78 final size:79
Alignment explanation
Indices: 879774--879931 Score: 246
Period size: 78 Copynumber: 2.0 Consensus size: 79
879764 TTAAACAAAT
* * * * *
879774 TTTGTCTCTCTTGAGACAATTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCTTA
1 TTTGTCTCTCTTGAGACAATTTCTCTTGAAACTAAATTTTATCTCTCTTGAGACAATTTCCCTTA
879839 AAACAAATTTTGTC
66 AAACAAATTTTGTC
* *
879853 TTTGTCTCTCTTGAGACAATTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 TTTGTCTCTCTTGAGACAATTTCTCTTGAAACTAAATTTTATCTCTCTTGAGACAATTTCCCTTA
879917 AAACAAATTTTGTC
66 AAACAAATTTTGTC
879931 T
1 T
879932 CTCTTGAGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 42 0.58
79 30 0.42
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (79 bp):
TTTGTCTCTCTTGAGACAATTTCTCTTGAAACTAAATTTTATCTCTCTTGAGACAATTTCCCTTA
AAACAAATTTTGTC
Found at i:880076 original size:36 final size:36
Alignment explanation
Indices: 880036--880400 Score: 327
Period size: 36 Copynumber: 10.2 Consensus size: 36
880026 TTTTGTCTCT
880036 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* *
880072 CTTGAAACAAATTTTATTTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * * *
880108 CTTGAAACAAATTTCGTCTCCCTTGAGATATTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * *
880144 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
*
880181 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * * * *
880217 TTTTAAACAAA------ATCT-TT-AAATATGTTTTC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACA-GTTTCC
* * *
880246 CTT-AACACAAATTTCGTTTGC-CTTGAGACAGTTTCT
1 CTTGAA-ACAAATTTTGTCT-CTCTTGAGACAGTTTCC
* * * * *
880282 TTTGGAACTAAGTTTTGTCTTTCTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
880319 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
** * * *
880355 CCAGAAACAAAGTTCTGTCTGTCTTGAGACAGTTTCT
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCC
880392 CTTGAAACA
1 CTTGAAACA
880401 CAAAAAACCT
Statistics
Matches: 261, Mismatches: 52, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
28 5 0.02
29 14 0.05
30 3 0.01
35 1 0.00
36 148 0.57
37 90 0.34
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:880160 original size:130 final size:123
Alignment explanation
Indices: 879913--880308 Score: 375
Period size: 138 Copynumber: 3.0 Consensus size: 123
879903 GACAATTTCC
* * *
879913 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTGAAACGAAATCTTTGAATATGTTTTA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAACATGTTTTA
879978 CATTAAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
66 CATTAAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
880036 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATTTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----A--TCT-TTGA-AC
* * * * * *
880101 A-G-TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATATTTTCTTTTGGAACTAAGTTTTGTCT
58 ATGTTTTACATT-AAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCT
880164 CT
122 CT
* *
880166 CTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCTTTTAAACAAAATC
1 CTTGA-A-A------C-------AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* * * * * * *
880231 TTTAAATATGTTTT-CCTTAACACAAATTTCGTTTGCCTTGAGACAGTTTCTTTTGGAACTAAGT
51 TTTGAACATGTTTTACATTAA-ACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGT
*
880295 TTTGTCTTT
115 TTTGTCTCT
880304 CTTGA
1 CTTGA
880309 GACAGTTTCT
Statistics
Matches: 228, Mismatches: 18, Indels: 39
0.80 0.06 0.14
Matches are distributed among these distances:
123 45 0.20
127 1 0.00
129 9 0.04
130 60 0.26
131 3 0.01
132 1 0.00
137 4 0.02
138 61 0.27
139 6 0.03
141 1 0.00
145 37 0.16
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (123 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAACATGTTTTA
CATTAAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
Found at i:880193 original size:73 final size:72
Alignment explanation
Indices: 880033--880400 Score: 335
Period size: 73 Copynumber: 5.2 Consensus size: 72
880023 AAGTTTTGTC
*
880033 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATTTCTCTTGA
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTTGA
880098 GACAGTT
66 GACAGTT
* * * * * ** * * *
880105 TCCCTTGAAACAAATTTCGTCTCCCTTGAGATATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTATCTCTCTTG
880170 AGACAGTT
65 AGACAGTT
* * *
880178 TCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCTTTTAAACAAA----A--TCT-TT-A
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTTGA
* *
880235 AATATGTT
66 GACA-GTT
* * ** * * * *
880243 T-TCCTT-AACACAAATTTCGTTTGC-CTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTTTC
1 TCT-CTTGAA-ACAAATTTTGTCT-CTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTATCTCTC
880305 TTGAGACAGTT
62 TTGAGACAGTT
** * * *
880316 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCCAGAAACAAAGTTCTGTCTGTCTTG
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTATCTCTCTTG
880381 AGACAGTT
65 AGACAGTT
880389 TCTCTTGAAACA
1 TCTCTTGAAACA
880401 CAAAAAACCT
Statistics
Matches: 233, Mismatches: 45, Indels: 35
0.74 0.14 0.11
Matches are distributed among these distances:
64 6 0.03
65 39 0.17
66 6 0.03
72 46 0.20
73 130 0.56
74 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (72 bp):
TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTTGA
GACAGTT
Found at i:880307 original size:138 final size:141
Alignment explanation
Indices: 880033--880365 Score: 460
Period size: 138 Copynumber: 2.4 Consensus size: 141
880023 AAGTTTTGTC
880033 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATTTCTCTTGA
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA---TA-TTCTCTTGA
* * *
880098 GACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATATTTTCTTTTGGAACTAAGTTTTGTC
62 AACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTC
880163 TCTCTTGAGACAGTT
127 TCTCTTGAGACAGTT
* * * *
880178 TCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCTTTTAAACAAA-A-TCT-TT-AAATA
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATATTCTCTTGAAACA
* * * *
880239 TGTTTTCCTT-AACACAAATTTCGTTTGCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTT
66 -GTTTCCCTTGAA-ACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTC
880303 TCTTGAGACAGTT
129 TCTTGAGACAGTT
**
880316 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCCAGAAACAAA
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
880366 GTTCTGTCTG
Statistics
Matches: 170, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
137 5 0.03
138 114 0.67
139 3 0.02
141 1 0.01
145 47 0.28
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (141 bp):
TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATATTCTCTTGAAACA
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
TTGAGACAGTT
Found at i:880317 original size:37 final size:36
Alignment explanation
Indices: 880267--880400 Score: 169
Period size: 37 Copynumber: 3.7 Consensus size: 36
880257 TTTCGTTTGC
* * *
880267 CTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTTT
1 CTTGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCT
*
880304 CTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
1 CTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCT
* ** * *
880340 CTTGAGACAGTTTCCCCAGAAACAAAGTTCTGTCTGT
1 CTTGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCT
880377 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
880401 CAAAAAACCT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 32 0.39
37 51 0.61
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (36 bp):
CTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCT
Found at i:880427 original size:33 final size:33
Alignment explanation
Indices: 880386--880474 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
880376 TCTTGAGACA
880386 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
** *
880419 GTTTCTCTTGAAATGCAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
880452 GTTTCTCTTGAAACACATAAAAA
1 GTTTCTCTTGAAACACA-AAAAA
880475 GAAAAAACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.90
34 5 0.10
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:880949 original size:21 final size:21
Alignment explanation
Indices: 880896--880949 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
880886 CCGTCCCATT
* *
880896 ATAATATATTATATTATATAAT
1 ATAA-ATATTTTATTATATAAC
**
880918 ATAAACGTTTTATTATATAAC
1 ATAAATATTTTATTATATAAC
*
880939 ATACATATTTT
1 ATAAATATTTT
880950 TACTTAAACC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAAATATTTTATTATATAAC
Found at i:883419 original size:21 final size:21
Alignment explanation
Indices: 883393--883432 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
883383 AAGACTATTT
883393 TCATTTCTC-AATTTTGAAATA
1 TCATTT-TCGAATTTTGAAATA
*
883414 TCATTTTCGTATTTTGAAA
1 TCATTTTCGAATTTTGAAA
883433 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TCATTTTCGAATTTTGAAATA
Found at i:885444 original size:65 final size:64
Alignment explanation
Indices: 885373--885528 Score: 197
Period size: 64 Copynumber: 2.4 Consensus size: 64
885363 TACACTAGGG
* * * *
885373 GTGCATCGGTGCACTAATTACATTCAATGTTTCAA-ACAAGCCTGGAGTGCATCGATGCATGGTA
1 GTGCATCGGTACACTAAATGCATTCAATGTTTCAATA-AACCCT-GAGTGCATCGATGCATGGTA
885437 T
64 T
* ** * *
885438 GTGCATCGGTACACAAAATGCATTTGATGTTTTAATAAACCCTGAGTGCATCGATGCATGGTGT
1 GTGCATCGGTACACTAAATGCATTCAATGTTTCAATAAACCCTGAGTGCATCGATGCATGGTAT
*
885502 ATGCATCGGTACACTAAATGCATTCAA
1 GTGCATCGGTACACTAAATGCATTCAA
885529 AATGGGGTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 43 0.56
65 33 0.43
66 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACACTAAATGCATTCAATGTTTCAATAAACCCTGAGTGCATCGATGCATGGTAT
Found at i:890566 original size:18 final size:19
Alignment explanation
Indices: 890511--890567 Score: 53
Period size: 23 Copynumber: 2.8 Consensus size: 19
890501 ATAATTTACA
890511 AAATATAACATAAAAATAAT
1 AAATATAACATAAAAAT-AT
* *
890531 ATAACACTTAATATAAAAAT-T
1 A-AATA--TAACATAAAAATAT
890552 AAATATAACATAAAAA
1 AAATATAACATAAAAA
890568 CCTAACATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 10 0.33
20 4 0.13
21 5 0.17
23 11 0.37
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATATAACATAAAAATAT
Found at i:890608 original size:24 final size:25
Alignment explanation
Indices: 890553--890612 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
890543 ATAAAAATTA
*
890553 AATATAACATAAAAACCTAACATTC
1 AATATAACATAAAAACATAACATTC
*
890578 AATTATAACATAAAAA-ATTA-ATTC
1 AA-TATAACATAAAAACATAACATTC
890602 AGATATAACAT
1 A-ATATAACAT
890613 TAAATACCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 13 0.42
25 5 0.16
26 13 0.42
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (25 bp):
AATATAACATAAAAACATAACATTC
Found at i:891120 original size:21 final size:21
Alignment explanation
Indices: 891070--891120 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
891060 AGTGGAGTCT
*
891070 ACATGTAAATCGATGAGCTCG
1 ACATGTAAATCGATGAGCTCA
* *
891091 ATATCTAAATCGAT-AGGCTCA
1 ACATGTAAATCGATGA-GCTCA
891112 ACATGTAAA
1 ACATGTAAA
891121 CCGGTGGACT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (21 bp):
ACATGTAAATCGATGAGCTCA
Found at i:892707 original size:54 final size:54
Alignment explanation
Indices: 892649--893139 Score: 687
Period size: 54 Copynumber: 9.1 Consensus size: 54
892639 AATGCACCCG
* * * * * * * *
892649 TAGTGCCCATACGGTCATTCATAAACATATTATGAATTCTGTGGTTTGCACACA
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
*
892703 TAGTGCCAAAACGGTTATTCATCAACATATGATGAATTCCGT-ACTTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGA-TTTGCACACT
*
892757 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * * *
892811 TAGTACCGAAATGGTTATTCATCAAGATATGATGAATTCCGTTATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * *
892865 GAGTGCCAAAACGGTTATTCATCAACATATGATGAATTCCGCGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * **
892919 TAGTGCTGAAACAGTTATTCATCAACATATGATGAATTCTATGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * *
892973 TAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCTGTGACTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * *
893027 TAGTGTCGAAACGATTATTCATCAACATATGATGAATTCCGTGATTTACACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
* * * *
893081 TAGTGCCGAAACGGTTATTCATCAATATATGATGAATTTCGTTAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
893135 TAGTG
1 TAGTG
893140 TCTATTTGGT
Statistics
Matches: 390, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
54 389 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
Found at i:893601 original size:20 final size:20
Alignment explanation
Indices: 893576--893628 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
893566 GTGATAAATG
*
893576 GTATCGATACCATCCTCATA
1 GTATCGATACCACCCTCATA
* *
893596 GTATCGATACTC-CCCTCTTG
1 GTATCGATAC-CACCCTCATA
893616 GTATCGATACCAC
1 GTATCGATACCAC
893629 TTGAATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (20 bp):
GTATCGATACCACCCTCATA
Found at i:906870 original size:21 final size:21
Alignment explanation
Indices: 906814--906972 Score: 77
Period size: 21 Copynumber: 7.5 Consensus size: 21
906804 GGGTTCTACA
*
906814 TGGTCCTTCGAGACATATATG
1 TGGTCCTTCGAAACATATATG
** * *
906835 TAATCCTTTGGAACATATATG
1 TGGTCCTTCGAAACATATATG
* * *
906856 TGGTTCTTCGAAACACATATT
1 TGGTCCTTCGAAACATATATG
* * * * *
906877 TGGTTCTTTGGAATATAGATG
1 TGGTCCTTCGAAACATATATG
* * *
906898 TGGTCCTTAAGGAGAA-TTCTATG
1 TGGTCCTT--CGA-AACATATATG
* *
906921 TGGTCATTCGAGACATATATG
1 TGGTCCTTCGAAACATATATG
** * * *
906942 TGGTATTTTGAGACATCTATG
1 TGGTCCTTCGAAACATATATG
906963 TGGTCCTTCG
1 TGGTCCTTCG
906973 GGACATTCTA
Statistics
Matches: 98, Mismatches: 36, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.01
21 83 0.85
23 12 0.12
24 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (21 bp):
TGGTCCTTCGAAACATATATG
Found at i:906977 original size:21 final size:21
Alignment explanation
Indices: 906915--906987 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
906905 TAAGGAGAAT
906915 TCTATGTGGTCATTCGAGACA
1 TCTATGTGGTCATTCGAGACA
* *
906936 TATATGTGGT-ATTTTGAGACA
1 TCTATGTGGTCA-TTCGAGACA
* *
906957 TCTATGTGGTCCTTCGGGACA
1 TCTATGTGGTCATTCGAGACA
906978 TTCTATGTGG
1 -TCTATGTGG
906988 CACTTTAGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.77
22 9 0.21
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (21 bp):
TCTATGTGGTCATTCGAGACA
Found at i:907725 original size:32 final size:32
Alignment explanation
Indices: 907687--907753 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
907677 TACATCTATG
*
907687 TGCATTATCTAAATACAACGCTAACTCTACTA
1 TGCATTATCTAAATACAACACTAACTCTACTA
* * *
907719 TGCATTATCTGAATGCAACACTGACTCTACTA
1 TGCATTATCTAAATACAACACTAACTCTACTA
907751 TGC
1 TGC
907754 TAGTATTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (32 bp):
TGCATTATCTAAATACAACACTAACTCTACTA
Found at i:908492 original size:2 final size:2
Alignment explanation
Indices: 908487--908608 Score: 124
Period size: 2 Copynumber: 61.0 Consensus size: 2
908477 TTTTACTCTC
908487 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * *
908527 GTT TA GA -A AA TA TG TA CA TA GTA TA GTA TA TA TA TT TT TA AA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA
908569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
908609 GTTTGGAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.03
2 94 0.92
3 5 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:908644 original size:37 final size:37
Alignment explanation
Indices: 908583--908663 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 37
908573 TATATATATA
908583 TATATATATATATATATATATATATAGTT-TGGAAAAT
1 TATATATATATATATATATATATATAGTTCT-GAAAAT
908620 TATA-ATATATA-ATATAGTACTATATAGTTCTGAAAAT
1 TATATATATATATATATA-TA-TATATAGTTCTGAAAAT
908657 T-TATATA
1 TATATATA
908664 AATGTATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
35 5 0.12
36 11 0.28
37 23 0.57
38 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (37 bp):
TATATATATATATATATATATATATAGTTCTGAAAAT
Found at i:908807 original size:16 final size:16
Alignment explanation
Indices: 908773--908807 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
908763 CATGTTTATA
**
908773 ATTTATTATTATTGTT
1 ATTTATTATTATTAAT
908789 ATTTATTATTATTAAT
1 ATTTATTATTATTAAT
908805 ATT
1 ATT
908808 ATGTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTATTATTATTAAT
Found at i:909940 original size:15 final size:16
Alignment explanation
Indices: 909920--909949 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
909910 ATATAGTAAC
909920 AAGTTTT-GTAACTAA
1 AAGTTTTAGTAACTAA
909935 AAGTTTTAGTAACTA
1 AAGTTTTAGTAACTA
909950 TGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (16 bp):
AAGTTTTAGTAACTAA
Found at i:915172 original size:134 final size:134
Alignment explanation
Indices: 914993--915684 Score: 960
Period size: 134 Copynumber: 5.1 Consensus size: 134
914983 ATTCCATTGT
*
914993 TCTTCAGGGAAGATTGAATCGGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* * *
915058 GAAGAAGAATCTGCTCCACTAGTCTTTAGGGGAGATCATACTCGAGAAAACTTTGATCCACTTCA
66 GAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCA
915123 CTGC
131 CTGC
* *
915127 TATTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATATGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* *
915192 GAACAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCA
66 GAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCA
915257 CTGC
131 CTGC
* * *
915261 TCTTCAGGGAAGAATGAATCAGAATCGATTTGCTTCACTGCTATTCAGTAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* * * * *
915326 GAAGAAGAATATACTCCACTAATCTTTAGGGGAAATTAGACTCGAG-ACACTTTTGATTCACTTC
66 GAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAAC-TTTGATCCACTTC
** *
915390 GTTGA
130 ACTGC
** *
915395 TCTTCAGGGAAGATTGAATC-GAACTTAATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAA
1 TCTTCAGGGAAGATTGAATCAGAA-TCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTG--
* * * * * * *
915459 AAAAAAATAAGAATTTGCTCCACTACTC-TTAAGGGAGATTAGACTCGAGAAATCTTTGATCCAC
63 -AAAGAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCAC
*
915523 TTCA-AGTC
127 TTCACTG-C
* ** * *
915531 TCTTCAGGGAAGATTGAATCAGAATTGATTTGCTTCACAACTCTTCAAGAAGACCAAATCTGAGA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* * *
915596 GAAGAAGAATATGCTCCACTAATCTTTAGGGAAGATCATACTCGAGAAAAATTTGATCCACTTCA
66 GAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCA
915661 CTGC
131 CTGC
915665 TCTTCAGGGAAGATTGAATC
1 TCTTCAGGGAAGATTGAATC
915685 TGAAAATCAA
Statistics
Matches: 492, Mismatches: 56, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
133 28 0.06
134 349 0.71
135 2 0.00
136 86 0.17
137 27 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (134 bp):
TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
GAAGAAGAATATGCTCCACTAATCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCA
CTGC
Found at i:916421 original size:43 final size:42
Alignment explanation
Indices: 916373--916455 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
916363 TGGCACCACT
*
916373 AAAATATTAACTCATCTTCAATAGAAAGTCAAGAAGGACAACA
1 AAAATATTAACTCATCTTC-AGAGAAAGTCAAGAAGGACAACA
** * * *
916416 AAAATATTGGCTCCTCTTCCGAGAAAGTCAAGAATGACAA
1 AAAATATTAACTCATCTTCAGAGAAAGTCAAGAAGGACAA
916456 TACTGAGAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 18 0.53
43 16 0.47
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (42 bp):
AAAATATTAACTCATCTTCAGAGAAAGTCAAGAAGGACAACA
Found at i:916489 original size:87 final size:86
Alignment explanation
Indices: 916395--917234 Score: 401
Period size: 76 Copynumber: 10.6 Consensus size: 86
916385 CATCTTCAAT
* * * *
916395 AGAAAGTCAAGAAGGACAACAAAAATATTGGCTCCTCTTC-CGAGAAAGTCAAGAATGACAATAC
1 AGAAAGTCAAGAA-TA-AACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATAC
* *
916459 TGAGAGATTGACTTCTCTTCACG
64 TGAAAGATTGAATTCTCTTCACG
* * * *
916482 AGAAAGTCAAGAATAAAAGTGAAAGATTGACTCCTCTTCATGAGAAAGT-ATAAAATGACAATAC
1 AGAAAGTCAAGAAT-AAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA-AGAATGACAATAC
916546 TGAAAGATTGAATTCTCTTCACG
64 TGAAAGATTGAATTCTCTTCACG
**
916569 AGAAAGTCAAGAATAATACTAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAAT----A-AC-
1 AGAAAGTCAAGAATAA-ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACT
* * *
916628 -AAAGATCGTATTCTCTTCATG
65 GAAAGATTGAATTCTCTTCACG
* * * * ** *
916649 AGAAAATCAAGAATAACATTGAAAGA--GACTTCTCTTCA-GAGGGAGTTAAGAAT---AA-A--
1 AGAAAGTCAAGAATAA-ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACT
*
916705 -AAAGATT-AACTTTTCTTCACG
65 GAAAGATTGAA-TTCTCTTCACG
* * * * * *
916726 AGGAAGACAAAAAT-AAC--AAAGATTGACTTCACTTCACGAGGAAGTCAAGAAT----A-AC--
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACTG
*
916781 AAAGATTGATTTCTCTTCACG
66 AAAGATTGAATTCTCTTCACG
* * *
916802 AGGAAGTCAAGAAT-AAC--AAAGAATTGACTTCTCTTCACGAGGAAGTCAAGAAT----A-AC-
1 AGAAAGTCAAGAATAAACTAAAAG-ATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACT
* *
916858 -AAAGATCGACTTCTCTTCACG
65 GAAAGATTGAATTCTCTTCACG
* * * * *
916879 AGGAAGTCAAGAAT-AA-T-AAAGATTGATTTCTCTTCATGAGGAAGTCAAGAAT----A-AC--
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACTG
* *
916934 AAAGATCGATTTCTCTTCACG
66 AAAGATTGAATTCTCTTCACG
* * * * *
916955 AGGAAGTCAAGAAT-AA-TGAAA-ATCGACTTCTCTTCACGAGGAAGTCAAGAAT----A-AC--
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACTG
*
917010 AAAGATTGATTTCTCTTCACG
66 AAAGATTGAATTCTCTTCACG
* * *
917031 AGGAAGTCAAGAAT-AA--AAAAGATCGACTTCTCTTCACGAGGAAA-TCAAGAAT----A-AC-
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGA-GAAAGTCAAGAATGACAATACT
* *
917086 -AAATA-TCAACTTCTCTTCACG
65 GAAAGATTGAA-TTCTCTTCACG
* * * *
917107 AGGAAGTCAAGAAT-AA--AAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAAT-----TAC--
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACTG
*
917162 AAAGATTGAATTCTCTTCACA
66 AAAGATTGAATTCTCTTCACG
* ** * * * * *
917183 AGGAAGAGAAGAAT-AAC--AAAGATCGAATTCTCTTCACAAGGAAGTCAAGAAT
1 AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAT
917235 AAAAAAGATT
Statistics
Matches: 667, Mismatches: 64, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
73 5 0.01
75 22 0.03
76 341 0.51
77 121 0.18
78 13 0.02
80 40 0.06
82 2 0.00
83 1 0.00
86 21 0.03
87 100 0.15
88 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (86 bp):
AGAAAGTCAAGAATAAACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACAATACTG
AAAGATTGAATTCTCTTCACG
Found at i:916491 original size:45 final size:44
Alignment explanation
Indices: 916421--916625 Score: 242
Period size: 42 Copynumber: 4.7 Consensus size: 44
916411 CAACAAAAAT
* *
916421 ATTGGCTCCTCTTC-CGAGAAAGTCAAGAATGACAATACTGAGAG
1 ATTGACTCCTCTTCACGAGAAAGTCAAGAAT-ACAATACTGAAAG
* *
916465 ATTGACTTCTCTTCACGAGAAAGTCAAGAATA-AA-AGTGAAAG
1 ATTGACTCCTCTTCACGAGAAAGTCAAGAATACAATACTGAAAG
* *
916507 ATTGACTCCTCTTCATGAGAAAGT-ATAAAATGACAATACTGAAAG
1 ATTGACTCCTCTTCACGAGAAAGTCA-AGAAT-ACAATACTGAAAG
* * *
916552 ATTGAATTCTCTTCACGAGAAAGTCAAGAAT--AATACTAAAAG
1 ATTGACTCCTCTTCACGAGAAAGTCAAGAATACAATACTGAAAG
**
916594 ATTGACTCCTCTTCACGAGGGAGTCAAGAATA
1 ATTGACTCCTCTTCACGAGAAAGTCAAGAATA
916626 ACAAAGATCG
Statistics
Matches: 137, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 69 0.50
43 3 0.02
44 15 0.11
45 48 0.35
46 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (44 bp):
ATTGACTCCTCTTCACGAGAAAGTCAAGAATACAATACTGAAAG
Found at i:916644 original size:38 final size:38
Alignment explanation
Indices: 916548--917248 Score: 863
Period size: 38 Copynumber: 18.3 Consensus size: 38
916538 GACAATACTG
* * *
916548 AAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATAATAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAAT-A-AC
* * *
916588 TAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
1 --AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
916628 AAAGATCGTA-TTCTCTTCATGAGAAAATCAAGAATAAC
1 AAAGATCG-ACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
916666 ATTGAAAGA--GACTTCTCTTCA-GAGGGAGTTAAGAATAAA
1 ----AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** * * *
916705 AAAGATTAACTTTTCTTCACGAGGAAGACAAAAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
916743 AAAGATTGACTTCACTTCACGAGGAAGTCAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
916781 AAAGATTGATTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
916819 AAAGAATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAG-ATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
916858 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAT
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
916896 AAAGATTGATTTCTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
916934 AAAGATCGATTTCTCTTCACGAGGAAGTCAAGAATAATG
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAA-C
916973 AAA-ATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
917010 AAAGATTGATTTCTCTTCACGAGGAAGTCAAGAATAAA
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
917048 AAAGATCGACTTCTCTTCACGAGGAAATCAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
917086 AAATATCAACTTCTCTTCACGAGGAAGTCAAGAATAAA
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
917124 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATTAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * **
917162 AAAGATTGAATTCTCTTCACAAGGAAGAGAAGAATAAC
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
917200 AAAGATCGAATTCTCTTCACAAGGAAGTCAAGAATAAA
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
917238 AAAGATTGACT
1 AAAGATCGACT
917249 CCTAGTCGTG
Statistics
Matches: 579, Mismatches: 68, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
35 5 0.01
37 13 0.02
38 457 0.79
39 55 0.09
40 12 0.02
41 1 0.00
42 36 0.06
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (38 bp):
AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:920703 original size:255 final size:255
Alignment explanation
Indices: 919841--920816 Score: 1515
Period size: 255 Copynumber: 3.8 Consensus size: 255
919831 ATTATGCCTA
* * * ** * *
919841 AAAACATCCTAACAGAAAGTCTTACGGATGGCTTGAAGGACTTATCATCTCACTCGAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTCGCTCGAAAGACTTA
* * * *
919906 CAGATAACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACAGATGGCCCGTACGACTTACCA
66 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
919971 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTCA-
131 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTCAT
**
920035 TTTCATGAAAATACTAAATGAGAAACTTTGGAAATCATTTCTCATTTTTCAAATTCATATG
196 TTTC-TGAAAATACTAAATGAGAAACTTTGGAAATCGCTTCTCATTTTTCAAATTCATATG
* *
920096 AAAACATCCTACCCGAAGGTCTTACGGATAGCCCGAAAGACTTATCATCTCGCTCGAAAGAGTTA
1 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTCGCTCGAAAGACTTA
* * *
920161 CAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGTCCGAAGGACTTACCA
66 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
*
920226 ATTTTGGAAATAGATTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTCAA
131 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTC-A
* *
920291 TTTTCTAAAAATACTAAATGAGAAACTTTGGAAATAGCTTTCTCATTTTTTCAAATTCATATG
195 TTTTCTGAAAATACTAAATGAGAAACTTTGGAAATCGC-TTCTCA-TTTTTCAAATTCATATG
* *
920354 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCAAAAGACTTATCATCTCGCTTGAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTCGCTCGAAAGACTTA
* *
920419 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT-GCCCAAATGACTTACCA
66 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* * *
920483 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTACTTATTTTTCAAAAATTTCA
131 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAA-TTCA
* *
920548 TTTTCTGAAAATACTAAATGAGAAACTTTGGAATTCGCTTCTTATTTTTCAAATTCATATG
195 TTTTCTGAAAATACTAAATGAGAAACTTTGGAAATCGCTTCTCATTTTTCAAATTCATATG
* * * *
920609 AAAACATCCTACCTGAAGGTCTTACGGATGGTCCGAAATACTTATCATCTTGCTCGAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTCGCTCGAAAGACTTA
* * * **
920674 CAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTTCTGATGGTTCGAAGGACTTACCA
66 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
*
920739 ATTTTGGAAATAGTTTATTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA
131 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAA-TTCA
*
920804 TTTTTTGAAAATA
195 TTTTCTGAAAATA
920817 TCATACTTAT
Statistics
Matches: 659, Mismatches: 56, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
255 296 0.45
256 121 0.18
257 116 0.18
258 126 0.19
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (255 bp):
AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTCGCTCGAAAGACTTA
CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTCAT
TTTCTGAAAATACTAAATGAGAAACTTTGGAAATCGCTTCTCATTTTTCAAATTCATATG
Found at i:923150 original size:21 final size:21
Alignment explanation
Indices: 923125--923168 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
923115 CGAAATGTTA
* * *
923125 AAAAATATTGATATTTTAGAT
1 AAAAATAATAATAATTTAGAT
923146 AAAAATAATAATAATTTAGAT
1 AAAAATAATAATAATTTAGAT
923167 AA
1 AA
923169 TTTTTTATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAAATAATAATAATTTAGAT
Found at i:926450 original size:72 final size:72
Alignment explanation
Indices: 926333--926470 Score: 258
Period size: 72 Copynumber: 1.9 Consensus size: 72
926323 TATATTTATA
926333 TGTTAGGTTTGGATTGCAGTTGGGATGAACTATGAATGCTAAGATGGTTTTTTAGCTTCTGATTT
1 TGTTAGGTTTGGATTGCAGTTGGGATGAACTATGAATGCTAAGATGGTTTTTTAGCTTCTGATTT
926398 CAATATT
66 CAATATT
* *
926405 TGTTAGGTTTGGGTTGCAGTTGGGATGAACTTTGAATGCTAAGATGGTTTTTTAGCTTCTGATTT
1 TGTTAGGTTTGGATTGCAGTTGGGATGAACTATGAATGCTAAGATGGTTTTTTAGCTTCTGATTT
926470 C
66 C
926471 CCTTTTATGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (72 bp):
TGTTAGGTTTGGATTGCAGTTGGGATGAACTATGAATGCTAAGATGGTTTTTTAGCTTCTGATTT
CAATATT
Found at i:940825 original size:21 final size:21
Alignment explanation
Indices: 940799--940839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
940789 CCGTGTAGAA
940799 ATGTCCCGAAGGACCACATAG
1 ATGTCCCGAAGGACCACATAG
* *
940820 ATGTCCTGAATGACCACATA
1 ATGTCCCGAAGGACCACATA
940840 TAACATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAG
Found at i:947295 original size:2 final size:2
Alignment explanation
Indices: 947290--947340 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
947280 TATAAGTAAG
947290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
947332 TA TA TA TA T
1 TA TA TA TA T
947341 TATTTAAGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:948022 original size:14 final size:14
Alignment explanation
Indices: 948000--948050 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
947990 GCGATTATAT
*
948000 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
948014 GTTCATTTATG-T-
1 GTTCATTTATGTTC
948026 -TT-ATTTATGTTC
1 GTTCATTTATGTTC
948038 GTTCATTTATGTT
1 GTTCATTTATGTT
948051 TGAACAGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
13 3 0.09
14 19 0.59
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.61
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:948032 original size:24 final size:24
Alignment explanation
Indices: 948005--948051 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
947995 TATATGTTCG
948005 TTTATGTTCGTTCATTTATGTTTA
1 TTTATGTTCGTTCATTTATGTTTA
948029 TTTATGTTCGTTCATTTATGTTT
1 TTTATGTTCGTTCATTTATGTTT
948052 GAACAGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.09, G:0.13, T:0.64
Consensus pattern (24 bp):
TTTATGTTCGTTCATTTATGTTTA
Found at i:948355 original size:14 final size:14
Alignment explanation
Indices: 948336--948365 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
948326 TTCGTTTATA
948336 TTCGTTTATGTTCG
1 TTCGTTTATGTTCG
*
948350 TTCGTTTGTGTTCG
1 TTCGTTTATGTTCG
948364 TT
1 TT
948366 TACGTTCGTT
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:0.03, C:0.13, G:0.23, T:0.60
Consensus pattern (14 bp):
TTCGTTTATGTTCG
Found at i:948363 original size:24 final size:24
Alignment explanation
Indices: 948311--948375 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
948301 GTGTTTGTGT
948311 TGTTCGTTTAT-TGT-GTTCGTTTA
1 TGTTCGTTTATGT-TCGTTCGTTTA
* *
948334 TATTCGTTTATGTTCGTTCGTTTG
1 TGTTCGTTTATGTTCGTTCGTTTA
*
948358 TGTTCGTTTACGTTCGTT
1 TGTTCGTTTATGTTCGTT
948376 TATCATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 11 0.31
24 25 0.69
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (24 bp):
TGTTCGTTTATGTTCGTTCGTTTA
Found at i:948465 original size:16 final size:16
Alignment explanation
Indices: 948444--948486 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
948434 AAAAAAAATT
948444 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
948460 TGTTCGTTTATGTTCT
1 TGTTCGTTTATGTTCG
948476 TGTTCGTTTAT
1 TGTTCGTTTAT
948487 TTATTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.07, C:0.12, G:0.21, T:0.60
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:949214 original size:16 final size:17
Alignment explanation
Indices: 949189--949222 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
949179 AATTTCATTC
949189 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
949206 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
949222 T
1 T
949223 GACATCACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:954057 original size:18 final size:18
Alignment explanation
Indices: 954036--954070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
954026 ATTCAAGCCC
*
954036 AGCAACTAGTTCAGACCT
1 AGCAACCAGTTCAGACCT
954054 AGCAACCAGTTCAGACC
1 AGCAACCAGTTCAGACC
954071 CAGATCCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (18 bp):
AGCAACCAGTTCAGACCT
Found at i:956368 original size:47 final size:46
Alignment explanation
Indices: 956295--956391 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
956285 TTATTTAGTA
* * * *
956295 TTAT-TTTATTTTTTGAATAAATGCATGCGAACTAGGAATCATGCGG
1 TTATGTTTATTTTTTAAACAAATGCATG-GAACTAGAAAACATGCGG
* *
956341 TTATGTTTATTTTTCTAAACAAA-GCATGGAATTAGAAAACATGTGG
1 TTATGTTTATTTTT-TAAACAAATGCATGGAACTAGAAAACATGCGG
956387 TTATG
1 TTATG
956392 ATGTATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
46 23 0.53
47 14 0.33
48 6 0.14
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (46 bp):
TTATGTTTATTTTTTAAACAAATGCATGGAACTAGAAAACATGCGG
Found at i:962347 original size:20 final size:20
Alignment explanation
Indices: 962319--962372 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
962309 CTAGAAAAAT
962319 TAAATCCTTCGGGTAATTTG
1 TAAATCCTTCGGGTAATTTG
*
962339 TAAAACCTTCGGGTAATTTG
1 TAAATCCTTCGGGTAATTTG
*
962359 TAAATCCTTTGGGT
1 TAAATCCTTCGGGT
962373 CATCTGTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (20 bp):
TAAATCCTTCGGGTAATTTG
Found at i:962741 original size:51 final size:48
Alignment explanation
Indices: 962661--962777 Score: 114
Period size: 47 Copynumber: 2.4 Consensus size: 48
962651 GATCTTCACG
* * *
962661 GAAGAGTAGTGAAACAA-ATTATGTTCAAGTCATGCAAATTCAGCCTTCATA
1 GAAGAGTAGTGAAGCAAGATCATGTTCAAGTCAT-C---TTCAGCCATCATA
962712 GAAGAGTAGTGAAGCAAGA-CAT-TTGCAAGTCATCTTCAGCCATCATA
1 GAAGAGTAGTGAAGCAAGATCATGTT-CAAGTCATCTTCAGCCATCATA
* * *
962759 AAAGAGTAATGAAGTAAGA
1 GAAGAGTAGTGAAGCAAGA
962778 ACAAGATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
47 28 0.48
50 3 0.05
51 26 0.45
52 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (48 bp):
GAAGAGTAGTGAAGCAAGATCATGTTCAAGTCATCTTCAGCCATCATA
Found at i:962971 original size:15 final size:16
Alignment explanation
Indices: 962951--962991 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
962941 ACGTTTTGTA
*
962951 TATTTATATTTA-TAT
1 TATTTATATATATTAT
962966 TATTTAT-TATATTAT
1 TATTTATATATATTAT
962981 TA-TTATATATA
1 TATTTATATATA
962992 AAGCCCGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATATATTAT
Found at i:964367 original size:18 final size:18
Alignment explanation
Indices: 964340--964413 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
964330 ACTGAATATT
*
964340 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
964358 TGTCCCGAAGTACCACTGATA
1 TGTCCCGAAGGACCAC---TA
964379 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
964397 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
964414 GATAATCCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 32 0.65
21 17 0.35
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:964389 original size:39 final size:39
Alignment explanation
Indices: 964340--964417 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
964330 ACTGAATATT
* *
964340 TGTCCTGAAGGACCACTATGTCCCGAAGTACCACTGATA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
*
964379 TGTCCCGAAGGACCACTATGTCTCGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
964418 ATCCCTCGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
Found at i:969538 original size:18 final size:18
Alignment explanation
Indices: 969511--969545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
969501 ACTGAATATT
*
969511 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
969529 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
969546 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:970306 original size:31 final size:31
Alignment explanation
Indices: 970268--970330 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
970258 TTACATAACC
970268 TATATTATACTTAAAAACATATATATATATA
1 TATATTATACTTAAAAACATATATATATATA
970299 TATATTATACTTAAAAACATATATATATATA
1 TATATTATACTTAAAAACATATATATATATA
970330 T
1 T
970331 CACTTCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (31 bp):
TATATTATACTTAAAAACATATATATATATA
Found at i:971159 original size:20 final size:20
Alignment explanation
Indices: 971124--971161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
971114 TTCCCATTGA
*
971124 AGTGCATCGGTACATTCTAC
1 AGTGCATCGATACATTCTAC
*
971144 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
971162 TTAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:973690 original size:19 final size:20
Alignment explanation
Indices: 973661--973698 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
973651 TCCGAATTCG
*
973661 AATATAAATTTTAATTTAAA
1 AATATAAATTTAAATTTAAA
973681 AATA-AAATTTAAATTTAA
1 AATATAAATTTAAATTTAA
973699 CAAAATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAAATTTAAATTTAAA
Found at i:974199 original size:17 final size:17
Alignment explanation
Indices: 974177--974220 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
974167 ATGTAAAAAT
974177 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
974194 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
974211 AAATATTTAA
1 AAATATTTAA
974221 TCAAGTAGTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:975616 original size:25 final size:25
Alignment explanation
Indices: 975587--975669 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
975577 ACAAATCCAA
975587 AAAATATTATATTTAAACTTAAATC
1 AAAATATTATATTTAAACTTAAATC
***
975612 AAAATATT-TAAAAATAAC--AAATCC
1 AAAATATTATATTTA-AACTTAAAT-C
975636 AAAAAAATATTATATTTAAACTTAAATC
1 ---AAAATATTATATTTAAACTTAAATC
975664 AAAATA
1 AAAATA
975670 ATTAAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 17 0.39
27 11 0.25
28 4 0.09
29 4 0.09
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATATTATATTTAAACTTAAATC
Found at i:975630 original size:51 final size:52
Alignment explanation
Indices: 975566--975676 Score: 206
Period size: 52 Copynumber: 2.2 Consensus size: 52
975556 TTTAAATATA
975566 ATTTAAAAATAACAAATCC-AAAAAATATTATATTTAAACTTAAATCAAAAT
1 ATTTAAAAATAACAAATCCAAAAAAATATTATATTTAAACTTAAATCAAAAT
975617 ATTTAAAAATAACAAATCCAAAAAAATATTATATTTAAACTTAAATCAAAAT
1 ATTTAAAAATAACAAATCCAAAAAAATATTATATTTAAACTTAAATCAAAAT
*
975669 AATTAAAA
1 ATTTAAAA
975677 TAAATATAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 19 0.33
52 39 0.67
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (52 bp):
ATTTAAAAATAACAAATCCAAAAAAATATTATATTTAAACTTAAATCAAAAT
Found at i:975673 original size:26 final size:26
Alignment explanation
Indices: 975587--975673 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
975577 ACAAATCCAA
975587 AAAAT-ATTATATTTAAACTTAAATC
1 AAAATAATTATATTTAAACTTAAATC
* * **
975612 AAAATATTTAAAAAT-AAC--AAATCC
1 AAAATAATTATATTTAAACTTAAAT-C
*
975636 AAAAAAATATTATATTTAAACTTAAATC
1 -AAAATA-ATTATATTTAAACTTAAATC
975664 AAAATAATTA
1 AAAATAATTA
975674 AAATAAATAT
Statistics
Matches: 45, Mismatches: 10, Indels: 13
0.66 0.15 0.19
Matches are distributed among these distances:
23 4 0.09
24 1 0.02
25 13 0.29
26 14 0.31
27 8 0.18
28 1 0.02
29 4 0.09
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATAATTATATTTAAACTTAAATC
Found at i:975712 original size:20 final size:19
Alignment explanation
Indices: 975664--975725 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
975654 AACTTAAATC
*
975664 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
975684 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
*
975702 AAAATAATTTATATGAA-AT
1 AAAATAATTTA-ATAAATAT
975721 AAAAT
1 AAAAT
975726 TAAATAGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.14
18 11 0.31
19 7 0.19
20 10 0.28
21 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:975758 original size:19 final size:20
Alignment explanation
Indices: 975736--975783 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
975726 TAAATAGCTA
975736 TAATATAA-TATTAAAAAAT
1 TAATATAATTATTAAAAAAT
*
975755 TAATATTTAATTTATTTAAAAAT
1 TAATA--TAA-TTATTAAAAAAT
975778 TAATAT
1 TAATAT
975784 CTATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 5 0.21
21 4 0.17
23 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATATAATTATTAAAAAAT
Found at i:975824 original size:52 final size:51
Alignment explanation
Indices: 975721--975835 Score: 203
Period size: 51 Copynumber: 2.2 Consensus size: 51
975711 TATATGAAAT
*
975721 AAAATTAAATAGCTATAATATAATATTAAAAAATTAATATTTAATTTATTTA
1 AAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTA
975773 AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAATTTA
1 AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTT-ATTTA
975825 AAAATTAATAT
1 AAAATTAATAT
975836 TAAAATTAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 39 0.64
52 22 0.36
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (51 bp):
AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTA
Found at i:975830 original size:24 final size:24
Alignment explanation
Indices: 975749--975836 Score: 124
Period size: 24 Copynumber: 3.5 Consensus size: 24
975739 TATAATATTA
975749 AAAAATTAATATTTAATTT-ATTT
1 AAAAATTAATATTTAATTTAATTT
*
975772 AAAAATTAATATCTATAATATAATATT
1 AAAAATTAATAT-T-TAATTTAAT-TT
975799 AAAAAATTAATATTTAATTTAATTT
1 -AAAAATTAATATTTAATTTAATTT
975824 AAAAATTAATATT
1 AAAAATTAATATT
975837 AAAATTAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
23 12 0.21
24 14 0.24
25 7 0.12
26 10 0.17
27 3 0.05
28 12 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAAATTAATATTTAATTTAATTT
Found at i:975832 original size:12 final size:12
Alignment explanation
Indices: 975750--975844 Score: 70
Period size: 12 Copynumber: 7.7 Consensus size: 12
975740 ATAATATTAA
975750 AAAATTAATATT
1 AAAATTAATATT
* *
975762 -TAATTTAT-TT
1 AAAATTAATATT
975772 AAAAATTAATATCT
1 -AAAATTAATAT-T
*
975786 ATAATATAATATT
1 AAAAT-TAATATT
975799 AAAAAATTAATATT
1 --AAAATTAATATT
* *
975813 TAATTTAAT-TT
1 AAAATTAATATT
975824 AAAAATTAATATT
1 -AAAATTAATATT
975837 AAAATTAA
1 AAAATTAA
975845 AATCAAATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
10 2 0.03
11 8 0.12
12 28 0.44
13 8 0.12
14 14 0.22
15 4 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:978354 original size:20 final size:19
Alignment explanation
Indices: 978331--978376 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
978321 CGATATACCA
978331 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
978351 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
978371 GGTAAA
1 GGTAAA
978377 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:978512 original size:20 final size:19
Alignment explanation
Indices: 978498--978544 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
978488 CGATATAACA
978498 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
978518 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
978538 GGTAAAA
1 GGTAAAA
978545 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:978546 original size:17 final size:19
Alignment explanation
Indices: 978507--978549 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
978497 AGGTAAAAAT
978507 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
978527 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
978544 ATGATA
1 ATGATA
978550 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:980835 original size:21 final size:21
Alignment explanation
Indices: 980788--980852 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
980778 AAGACAATCA
* *
980788 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
980810 A-AGTC-ATAGAGAAACTCGAG
1 AGAGTCGA-AGAGAAACTCGAG
* *
980830 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
980851 AG
1 AG
980853 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:980933 original size:33 final size:33
Alignment explanation
Indices: 980886--980951 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
980876 AAATAGATGG
* *
980886 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
980919 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
980952 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:982771 original size:19 final size:19
Alignment explanation
Indices: 982747--982795 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
982737 AATGTAGGGT
982747 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
982766 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
982785 TATTTTTGTAT
1 TAATTTTGTAT
982796 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:983254 original size:199 final size:199
Alignment explanation
Indices: 982914--984084 Score: 2236
Period size: 199 Copynumber: 5.9 Consensus size: 199
982904 CAATATGGCC
982914 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
982979 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* *
983043 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTTTCGATATTTGTTTTCCAGAATTAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
983108 TGGAA
195 TGGAA
983113 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
983178 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
983243 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
983308 GGAA
196 GGAA
983312 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
983377 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
983442 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
983507 GGAA
196 GGAA
983511 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
983576 CAAAAGTATAATGTAATATGTAGTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
983641 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
983706 GGAA
196 GGAA
*
983710 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
983775 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
983840 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
983905 GGAA
196 GGAA
*
983909 AACAGGGTGCACCCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
983974 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTTTACCTGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
984039 AATATATCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
984085 CTAATTTAAA
Statistics
Matches: 958, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
198 51 0.05
199 907 0.95
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
GGAA
Found at i:985565 original size:12 final size:12
Alignment explanation
Indices: 985548--985600 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
985538 GGTCGCAGAA
*
985548 GATGAAGCTGAC
1 GATGAAGATGAC
985560 GATGAAGATGAC
1 GATGAAGATGAC
*
985572 GATGATGATGAC
1 GATGAAGATGAC
* *
985584 GATGATGATGAT
1 GATGAAGATGAC
985596 GATGA
1 GATGA
985601 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:985580 original size:3 final size:3
Alignment explanation
Indices: 985560--985613 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
985550 TGAAGCTGAC
* * * *
985560 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
985608 GAT GAT
1 GAT GAT
985614 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:985581 original size:18 final size:18
Alignment explanation
Indices: 985545--985613 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
985535 AGCGGTCGCA
* *
985545 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
985563 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
985581 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
985596 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
985614 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:985601 original size:12 final size:12
Alignment explanation
Indices: 985556--985613 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
985546 AAGATGAAGC
*
985556 TGACGATGAAGA
1 TGACGATGATGA
985568 TGACGATGATGA
1 TGACGATGATGA
985580 TGACGATGATGA
1 TGACGATGATGA
*
985592 TGATGATGATGA
1 TGACGATGATGA
* *
985604 AGATGATGAT
1 TGACGATGAT
985614 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:987346 original size:183 final size:183
Alignment explanation
Indices: 987038--987924 Score: 1612
Period size: 183 Copynumber: 4.8 Consensus size: 183
987028 TTTCAACATA
** * * * *
987038 TTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
987103 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
987168 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
987221 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
* * * *
987286 GTCTACAACCTATCTCAACACTTTATAATATTGTGTTGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
987351 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
987404 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
987469 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
* * *
987534 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAA
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
*
987587 TTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
*
987652 GTCTACAACTTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
987717 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
987770 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
* *
987835 GTCTACAACATATATCGACACTTTTTAATATTGTGTCGGTACTTGATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
*
987900 ATGTGTCGATACCATTTAAAAAAGT
131 ATGTGTCGATACGATTTAAAAAAGT
987925 GTCGGTAATT
Statistics
Matches: 678, Mismatches: 26, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 678 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
Found at i:990754 original size:23 final size:23
Alignment explanation
Indices: 990723--990786 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
990713 ATAGGTAAAC
*
990723 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
990746 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
990769 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
990787 TGGTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:990793 original size:23 final size:23
Alignment explanation
Indices: 990723--990795 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
990713 ATAGGTAAAC
* **
990723 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
990746 ATATAATGTAATAGATA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
990769 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
990792 ATAT
1 ATAT
990796 TGTAAAGTGC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:991016 original size:25 final size:25
Alignment explanation
Indices: 990982--991032 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
990972 ACAACAAATC
*
990982 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
991007 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
991032 A
1 A
991033 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:991441 original size:18 final size:18
Alignment explanation
Indices: 991420--991456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
991410 GTAATTGGAG
991420 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
991438 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
991456 T
1 T
991457 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:991464 original size:24 final size:24
Alignment explanation
Indices: 991412--991458 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
991402 TTTCATATGT
* *
991412 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
991436 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
991459 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:991758 original size:39 final size:39
Alignment explanation
Indices: 991715--991801 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
991705 TCCGATGCTC
*
991715 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
991754 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
991793 ATCAAAATC
1 ATCAAAATC
991802 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Done.