Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 118 of 153
Found at i:36907682 original size:3 final size:3
Alignment explanation
Indices: 36907674--36907883 Score: 84
Period size: 3 Copynumber: 71.7 Consensus size: 3
36907664 TAACGATTAA
* * *
36907674 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * *
36907718 ATT AAT AAA AAT AAT AAT AAT -AT AAA AAT AAT AAA AAT AAC AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** ** *
36907764 GTT TCT AAT AAT AAT AA- AA- AATT AAT AAT GAT AAT AA- ATAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A-AT A-AT
* * ** *
36907809 AA- AAT AAT AGT AAC AGC AAT AA- AAT AA- ATAC AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
36907851 AAT AAT ATAT AAT AAT AAC AAT ATT AAA AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
36907884 CACTTTCCCT
Statistics
Matches: 158, Mismatches: 33, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
2 20 0.13
3 125 0.79
4 13 0.08
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:36907730 original size:17 final size:16
Alignment explanation
Indices: 36907704--36907762 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
36907694 AATAGAAGAC
* *
36907704 AATAATAATAATATATT
1 AATAAAAATAATA-ATA
36907721 AATAAAAATAATAATA
1 AATAAAAATAATAATA
36907737 ATATAAAAATAATAA-A
1 A-ATAAAAATAATAATA
*
36907753 AATAACAATA
1 AATAAAAATA
36907763 TGTTTCTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 8 0.21
16 5 0.13
17 25 0.66
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAAATAATAATA
Found at i:36907732 original size:23 final size:24
Alignment explanation
Indices: 36907704--36907763 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
36907694 AATAGAAGAC
**
36907704 AATAATAATAATATATTAATAA-A
1 AATAATAATAATATAAAAATAATA
36907727 AATAATAATAATATAAAAATAATA
1 AATAATAATAATATAAAAATAATA
*
36907751 AA-AATAACAATAT
1 AATAATAATAATAT
36907764 GTTTCTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 30 0.91
24 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AATAATAATAATATAAAAATAATA
Found at i:36907789 original size:17 final size:18
Alignment explanation
Indices: 36907769--36907868 Score: 57
Period size: 20 Copynumber: 5.5 Consensus size: 18
36907759 AATATGTTTC
36907769 TAATAATAATAAAAAAT-
1 TAATAATAATAAAAAATA
* *
36907786 TAATAATGATAATAAATA
1 TAATAATAATAAAAAATA
* *
36907804 TATATAA-AATAATAGTAACA
1 TA-ATAATAATAA-A-AAATA
*
36907824 GCAATAA-AATAAATACAATA
1 -TAATAATAATAAA-A-AATA
*
36907844 TAATAATAAT--AATATA
1 TAATAATAATAAAAAATA
36907860 TAATAATAA
1 TAATAATAA
36907869 CAATATTAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 15
0.70 0.13 0.16
Matches are distributed among these distances:
16 12 0.19
17 16 0.25
18 7 0.11
19 10 0.16
20 18 0.28
21 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
TAATAATAATAAAAAATA
Found at i:36907854 original size:16 final size:16
Alignment explanation
Indices: 36907841--36907883 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
36907831 AATAAATACA
36907841 ATATAATAATAATAAT
1 ATATAATAATAATAAT
*
36907857 ATATAATAATAACAAT
1 ATATAATAATAATAAT
*
36907873 AT-TAAAAATAA
1 ATATAATAATAA
36907884 CACTTTCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAATAATAATAAT
Found at i:36908131 original size:24 final size:24
Alignment explanation
Indices: 36908099--36908148 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
36908089 TTTTTTTGTA
36908099 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
*
36908123 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
36908147 GG
1 GG
36908149 GGTGATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:36908149 original size:17 final size:17
Alignment explanation
Indices: 36908127--36908184 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
36908117 GTTAGTGGCA
36908127 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
36908144 AGTGGGGTGAT----TT
1 AGTGGGGTGATGGAGTT
36908157 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
*
36908174 AGTGAGGTGAT
1 AGTGGGGTGAT
36908185 TTAGTAGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 13 0.36
17 23 0.64
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:36908160 original size:13 final size:13
Alignment explanation
Indices: 36908142--36908195 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
36908132 GGTGATGGAG
36908142 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
36908155 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
*
36908168 GGAGTTAGTGAGGTGAT
1 ----TTAGTGGGGTGAT
*
36908185 TTAGTAGGGTG
1 TTAGTGGGGTG
36908196 TGGGGGTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 22 0.65
17 12 0.35
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:36908163 original size:30 final size:30
Alignment explanation
Indices: 36908127--36908195 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
36908117 GTTAGTGGCA
*
36908127 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGAGGTGATTT
36908157 AGTGGGGTGATGGAGTTAGTGAGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGAGGTGATTT
*
36908187 AGTAGGGTG
1 AGTGGGGTG
36908196 TGGGGGTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (30 bp):
AGTGGGGTGATGGAGTTAGTGAGGTGATTT
Found at i:36909877 original size:29 final size:31
Alignment explanation
Indices: 36909827--36909888 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
36909817 AAAATTTTCT
36909827 AAATAATTTTTTGCTAATTTTTAT-ATTTTTA
1 AAATAATTTTTTGCTAATTTTT-TCATTTTTA
*
36909858 AAATAA-TTTTTGC-CATTTTTTCATTTTTA
1 AAATAATTTTTTGCTAATTTTTTCATTTTTA
36909887 AA
1 AA
36909889 TATTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.52
30 7 0.24
31 6 0.21
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (31 bp):
AAATAATTTTTTGCTAATTTTTTCATTTTTA
Found at i:36910762 original size:3 final size:3
Alignment explanation
Indices: 36910754--36910786 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
36910744 TATCGAATTT
36910754 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
36910787 ATATTATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:36917720 original size:28 final size:28
Alignment explanation
Indices: 36917688--36917742 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
36917678 TAATTAGATG
*
36917688 AATAGTCTATTTTGTTGACTTAGTAACT
1 AATAGTCTATTTTGTTGACTCAGTAACT
36917716 AATAGTCTATTTTGTTGACTCAGTAAC
1 AATAGTCTATTTTGTTGACTCAGTAAC
36917743 GAATGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (28 bp):
AATAGTCTATTTTGTTGACTCAGTAACT
Found at i:36918988 original size:17 final size:17
Alignment explanation
Indices: 36918946--36918989 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
36918936 AAAATATACA
*
36918946 AAAAATGTATAAAACAT
1 AAAAATTTATAAAACAT
* * *
36918963 AAGATTTTATAAAATAT
1 AAAAATTTATAAAACAT
36918980 AAAAATTTAT
1 AAAAATTTAT
36918990 GTATCTTTAA
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:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAAATTTATAAAACAT
Found at i:36925224 original size:6 final size:6
Alignment explanation
Indices: 36925213--36925239 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36925203 CGTCGGCCAT
36925213 GGCGGA GGCGGA GGCGGA GGCGGA GGC
1 GGCGGA GGCGGA GGCGGA GGCGGA GGC
36925240 TTCGAACGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.67, T:0.00
Consensus pattern (6 bp):
GGCGGA
Found at i:36926947 original size:130 final size:129
Alignment explanation
Indices: 36926698--36927069 Score: 395
Period size: 130 Copynumber: 2.9 Consensus size: 129
36926688 AAAATTCTTC
* * * * * *
36926698 AAAACGAAGACGAAATCTGATGTTCGGCGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAC
1 AAAACGAAGATGAGATGTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * *
36926763 TTTCGCATCTGCTCACAATAATCGAGTTTTCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGTTCAAAATAATCGA-ATATCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
36926828 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGTGAAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAGATGTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* ** * * **
36926893 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATTTCT
66 TTTCGCATTTGTTCAAAATAATCGAATATC-CTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * *
36926958 AAAACGAAGGTGATATGTGATATTTGGCAATTCGCGGGATCGTGCCCTAATGTGTTGGGTAGCAA
1 AAAACGAAGATGAGATGTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
36927023 TTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGTTCAAAATAATCGAATAT-CCTTCAAAATTTCACTC
36927070 GGCTCTTCTA
Statistics
Matches: 198, Mismatches: 41, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
129 3 0.02
130 193 0.97
131 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (129 bp):
AAAACGAAGATGAGATGTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGTTCAAAATAATCGAATATCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:36931420 original size:18 final size:18
Alignment explanation
Indices: 36931397--36931452 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
36931387 AACTTCAATT
36931397 TTTTAAAGGATAATATAA
1 TTTTAAAGGATAATATAA
* *
36931415 TTTTAAA--ATAAACCAAAA
1 TTTTAAAGGAT-AA-TATAA
36931433 TATTTAAAGGATAATATAA
1 T-TTTAAAGGATAATATAA
36931452 T
1 T
36931453 AAAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 11 0.38
19 10 0.34
20 2 0.07
21 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (18 bp):
TTTTAAAGGATAATATAA
Found at i:36931453 original size:19 final size:19
Alignment explanation
Indices: 36931398--36931453 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
36931388 ACTTCAATTT
36931398 TTTAAAGGATAATATAAT-
1 TTTAAAGGATAATATAATA
* *
36931416 TTTAAA--ATAAACCAAAATA
1 TTTAAAGGAT-AA-TATAATA
36931435 TTTAAAGGATAATATAATA
1 TTTAAAGGATAATATAATA
36931454 AAAATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 10 0.34
19 11 0.38
20 2 0.07
21 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (19 bp):
TTTAAAGGATAATATAATA
Found at i:36948536 original size:8 final size:8
Alignment explanation
Indices: 36948523--36948547 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36948513 GGTGTTCGGC
36948523 GCAAGTGG
1 GCAAGTGG
36948531 GCAAGTGG
1 GCAAGTGG
36948539 GCAAGTGG
1 GCAAGTGG
36948547 G
1 G
36948548 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:36948689 original size:18 final size:18
Alignment explanation
Indices: 36948666--36948701 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36948656 TGGGCCCGGC
36948666 AAATTTGGGCTTCTACAA
1 AAATTTGGGCTTCTACAA
36948684 AAATTTGGGCTTCTACAA
1 AAATTTGGGCTTCTACAA
36948702 TAGTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AAATTTGGGCTTCTACAA
Found at i:36959248 original size:19 final size:19
Alignment explanation
Indices: 36959218--36959263 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
36959208 TAATAAGATG
36959218 GTTAGCTCATAACCT-TTTTA
1 GTTAG-TCATAA-CTGTTTTA
36959238 GTTAGTCATAACTGTTTTA
1 GTTAGTCATAACTGTTTTA
36959257 GTTAGTC
1 GTTAGTC
36959264 GGTTGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
GTTAGTCATAACTGTTTTA
Found at i:36964514 original size:15 final size:14
Alignment explanation
Indices: 36964471--36964516 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
36964461 TACATAATTT
36964471 AAAATTAAATATTG
1 AAAATTAAATATTG
*
36964485 AAAATTTAAACATTG
1 AAAA-TTAAATATTG
*
36964500 AAAACTTAAGTATTG
1 AAAA-TTAAATATTG
36964515 AA
1 AA
36964517 TTTAAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (14 bp):
AAAATTAAATATTG
Found at i:36973005 original size:22 final size:22
Alignment explanation
Indices: 36972979--36973022 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36972969 TAAACTAAAA
36972979 ATATTCCAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
*
36973001 ATATTCTAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
36973023 TTAATCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATTCCAAATTTTAAGTACCT
Found at i:36973483 original size:78 final size:78
Alignment explanation
Indices: 36973354--36973500 Score: 267
Period size: 78 Copynumber: 1.9 Consensus size: 78
36973344 AAAAAAGCGG
*
36973354 GAGTAAAAAGGAGTAGTTCAAGTTCAGCACCAACTTGGTTAGGCCATGATTCTCCTCCCAATAAT
1 GAGTAAAAAGGAGTAGTTCAAGTTCAGCACCAACTTGGGTAGGCCATGATTCTCCTCCCAATAAT
36973419 CCTCCCTCGCCGC
66 CCTCCCTCGCCGC
* *
36973432 GAGTAAAAAGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
1 GAGTAAAAAGGAGTAGTTCAAGTTCAGCACCAACTTGGGTAGGCCATGATTCTCCTCCCAATAAT
36973497 CCTC
66 CCTC
36973501 TTCAAGTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (78 bp):
GAGTAAAAAGGAGTAGTTCAAGTTCAGCACCAACTTGGGTAGGCCATGATTCTCCTCCCAATAAT
CCTCCCTCGCCGC
Found at i:36973528 original size:53 final size:53
Alignment explanation
Indices: 36973448--36973553 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
36973438 AAAGGAGTCG
36973448 TTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAATCCTC
1 TTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAATCCTC
36973501 TTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAATCCTC
1 TTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAATCCTC
36973554 CCTCGCCGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (53 bp):
TTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAATCCTC
Found at i:36974713 original size:27 final size:26
Alignment explanation
Indices: 36974683--36974838 Score: 108
Period size: 25 Copynumber: 6.0 Consensus size: 26
36974673 ATTCTAAATT
* *
36974683 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATATTTT-AATA
* *
36974710 CTATTTTATGTATATAT-CTTTAATA
1 CTATATTATGTATATATATTTTAATA
* **
36974735 CTATATTATTTATATATATATTTTTCTA
1 CTATATTA--TGTATATATATTTTAATA
* *
36974763 C-ATGTTATCTTATGTATATATTTT-A-A
1 CTATATTAT-GTA--TATATATTTTAATA
* *
36974789 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTTAATA
*
36974814 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATTTTAATA
36974839 TTATCACGTA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 34 0.33
26 9 0.09
27 34 0.33
28 16 0.16
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATTTTAATA
Found at i:36974780 original size:28 final size:28
Alignment explanation
Indices: 36974705--36974822 Score: 104
Period size: 28 Copynumber: 4.3 Consensus size: 28
36974695 TATATATTTT
*
36974705 CTATACTATTTTATGTATATATCTTTAATA
1 CTATATTA-TTTATGTATATAT-TTTAATA
* **
36974735 CTATATTATTTATATATATATTTTTCTA
1 CTATATTATTTATGTATATATTTTAATA
*
36974763 C-ATGTTATCTTATGTATATATTTT-A-A
1 CTATATTAT-TTATGTATATATTTTAATA
* *
36974789 CTATATTATGTATG--TAT-TTTTAACA
1 CTATATTATTTATGTATATATTTTAATA
36974814 CTATATTAT
1 CTATATTAT
36974823 GTACATATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
23 4 0.05
24 4 0.05
25 10 0.13
26 6 0.08
27 12 0.16
28 20 0.27
29 12 0.16
30 7 0.09
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
CTATATTATTTATGTATATATTTTAATA
Found at i:36975011 original size:31 final size:31
Alignment explanation
Indices: 36974976--36975045 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
36974966 TTTGTCAATA
36974976 TTAATTATTATTAT-TCTAATATTTTGATAT-T
1 TTAATTATT-TTATATCTAATATTTT-ATATAT
* *
36975007 TTAA-TATTTTATATTTTATATTTTATATAT
1 TTAATTATTTTATATCTAATATTTTATATAT
*
36975037 TTTATTATT
1 TTAATTATT
36975046 CACATCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 8 0.24
30 17 0.52
31 8 0.24
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
TTAATTATTTTATATCTAATATTTTATATAT
Found at i:36975020 original size:23 final size:23
Alignment explanation
Indices: 36974994--36975041 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
36974984 TATTATTCTA
36974994 ATATTTTGATATTTTA-ATATTTT
1 ATATTTT-ATATTTTATATATTTT
36975017 ATATTTTATATTTTATATATTTT
1 ATATTTTATATTTTATATATTTT
36975040 AT
1 AT
36975042 TATTCACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTTTATATTTTATATATTTT
Found at i:36975022 original size:7 final size:7
Alignment explanation
Indices: 36974994--36975034 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
36974984 TATTATTCTA
36974994 ATATTTT
1 ATATTTT
36975001 GATATTTT
1 -ATATTTT
36975009 AATATTTT
1 -ATATTTT
36975017 ATATTTT
1 ATATTTT
36975024 ATATTTT
1 ATATTTT
36975031 ATAT
1 ATAT
36975035 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
ATATTTT
Found at i:36975029 original size:14 final size:15
Alignment explanation
Indices: 36974987--36975034 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
36974977 TAATTATTAT
*
36974987 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
36975003 TATTTTAATATTTTA
1 TATTTTAATATTTTA
36975018 TATTTT-ATATTTTA
1 TATTTTAATATTTTA
36975032 TAT
1 TAT
36975035 ATTTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 11 0.35
15 7 0.23
16 13 0.42
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:36975035 original size:16 final size:16
Alignment explanation
Indices: 36974994--36975045 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
36974984 TATTATTCTA
36974994 ATATTTTGATATTTTA-
1 ATATTTT-ATATTTTAT
36975010 ATATTTTATATTTTAT
1 ATATTTTATATTTTAT
36975026 AT-TTTATATATTTTAT
1 ATATTT-TATATTTTAT
36975042 -TATT
1 ATATT
36975046 CACATCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
ATATTTTATATTTTAT
Found at i:36985604 original size:75 final size:75
Alignment explanation
Indices: 36985439--36985992 Score: 800
Period size: 75 Copynumber: 7.5 Consensus size: 75
36985429 TTCCGTTTTC
* ** * * *
36985439 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACATGTT-AAGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
36985503 TGTCTTTCAA
66 TGTCTTTCAA
* *
36985513 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTAAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
36985578 TGTCTTTCAA
66 TGTCTTTCAA
* *
36985588 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
36985653 TGTCTTTCAA
66 TGTCTTTCAA
** *
36985663 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
36985728 TGTCTTTCAA
66 TGTCTTTCAA
36985738 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
36985802 CTGT-TTTC--
65 CTGTCTTTCAA
*
36985810 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
36985875 TGTCTTTC-A
66 TGTCTTTCAA
** * * * * *
36985884 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
36985949 TGT-TGTAAA
66 TGTCTTTCAA
* *
36985958 AACAAATCAACTCGTATTGCGA-AAGGTGAGTTGAG
1 AA-AAATCAACTCATATTGCGAGAA-ATGAGTTGAG
36985993 TCTCGGGCCA
Statistics
Matches: 438, Mismatches: 34, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
71 5 0.01
72 61 0.14
73 6 0.01
74 110 0.25
75 251 0.57
76 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTCAA
Found at i:36986063 original size:14 final size:15
Alignment explanation
Indices: 36986028--36986060 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36986018 TCAAATTTCA
*
36986028 TTTTCAATTTCTGCT
1 TTTTCAATTTATGCT
36986043 TTTTCAATTTATGCT
1 TTTTCAATTTATGCT
36986058 TTT
1 TTT
36986061 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:36986080 original size:103 final size:104
Alignment explanation
Indices: 36985939--36986199 Score: 323
Period size: 103 Copynumber: 2.5 Consensus size: 104
36985929 GCTGAGGTAA
* * * * *
36985939 TTTCAATTTCTGT-TGTAAAAACAAATCAACTCGTATTGCGAAAGGTGAGTTGAGTCTCGGGCCA
1 TTTCAATTTATGTCTTTTAAAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCA
*
36986003 CACACCGAGGTCTTTTCAAATT-TCATTTTCAATTTCTGCTT
65 CACACCGAGGTCTTTTCAAATTCT-ATTTTCAATTTCT-ATT
*
36986044 TTTCAATTTATG-CTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCAC
1 TTTCAATTTATGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCAC
*** * * *
36986107 ATGTCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATT
66 ACACCGAGGTCTTTTCAAATTCTATTTTCAATTTCTATT
* * *
36986146 TTTTAATTTCTGTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTCAATTTATGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
36986200 CCTTAGTTCA
Statistics
Matches: 135, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
102 12 0.09
103 73 0.54
104 37 0.27
105 13 0.10
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (104 bp):
TTTCAATTTATGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCAC
ACACCGAGGTCTTTTCAAATTCTATTTTCAATTTCTATT
Found at i:36986357 original size:14 final size:13
Alignment explanation
Indices: 36986310--36986348 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36986300 TGCTGAGGTC
*
36986310 TTTTTAAATTCTG
1 TTTTTAATTTCTG
*
36986323 TTTTTAGTTTCTG
1 TTTTTAATTTCTG
36986336 TTTTTTAATTTCT
1 -TTTTTAATTTCT
36986349 ATGTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:36986406 original size:104 final size:101
Alignment explanation
Indices: 36986229--36986432 Score: 239
Period size: 104 Copynumber: 2.0 Consensus size: 101
36986219 CTATTTTCAA
* * * * *
36986229 TTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGTGAGAAACGAGTTGAGTCTCAG
1 TTTCTGTTTTTAATGTCTAGTTTTAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAG
* * *
36986294 GCCACATGCTGAGGTCTTTTTAAATTCTGTTTTTAG
66 GCCACATGCTGAGCTATTTTCAAATTCTGTTTTTAG
* ***
36986330 TTTCTGTTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCTG-TTTTTAATGTCTA-GTTTT-AAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCT
* *
36986395 -TGGCTCACATGCTGAGCTATTTTCAATTTCTGTTTTTA
63 CAGGC-CACATGCTGAGCTATTTTCAAATTCTGTTTTTA
36986433 ATGTCTAGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
101 6 0.07
102 12 0.14
103 8 0.09
104 59 0.69
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (101 bp):
TTTCTGTTTTTAATGTCTAGTTTTAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAG
GCCACATGCTGAGCTATTTTCAAATTCTGTTTTTAG
Found at i:36986410 original size:192 final size:193
Alignment explanation
Indices: 36986027--36986498 Score: 715
Period size: 192 Copynumber: 2.5 Consensus size: 193
36986017 TTCAAATTTC
* * **
36986027 ATTTTCAATTTCTGCTTTTTCAAT-T-TATGCTTTTCAAA-AATCAACTCATATTGCGAGAGGTG
1 ATTTTCAATTTCTG-TTTTT-AATGTCTA-G-TTTT-AAAGAGTCAATTCATATTGCGAGAAATG
*
36986089 AGTTGAGTCTCGGGCCACATG-TCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATTTTTTAAT
61 AGTTGAGTCTCAGGCCACATGCTCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATTTTTTAAT
* * *
36986153 TTCTGTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGTTCACGTGCTGA
126 TTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACATGCTGA
36986218 GCT
191 GCT
* *
36986221 ATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGTGAGAAACGAGTTG
1 ATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTG
* *
36986286 AGTCTCAGGCCACATGCT-GAGGTCTTTTTAAATTCTGTTTTTAGTTTCTGTTTTTTAATTTCTA
66 AGTCTCAGGCCACATGCTCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATTTTTTAATTTCTA
*
36986350 TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCT
131 TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACATGCTGAGCT
36986413 ATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTG
1 ATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTG
*
36986478 AG-CTCAGGATCACATGC-CGAG
66 AGTCTCAGG-CCACATGCTCGAG
36986499 TAAAGAATAA
Statistics
Matches: 256, Mismatches: 16, Indels: 14
0.90 0.06 0.05
Matches are distributed among these distances:
191 9 0.04
192 223 0.87
193 8 0.03
194 16 0.06
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (193 bp):
ATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTG
AGTCTCAGGCCACATGCTCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATTTTTTAATTTCTA
TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACATGCTGAGCT
Found at i:36986491 original size:88 final size:91
Alignment explanation
Indices: 36986330--36986494 Score: 221
Period size: 88 Copynumber: 1.8 Consensus size: 91
36986320 CTGTTTTTAG
* **
36986330 TTTCTGTTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCTGTTTTTTAATGTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
36986395 TGGCTCACATGCTGAGCTATTTTCAA
66 AGGATCACATGCTGAGCTATTTTCAA
* * *
36986421 TTTCTG-TTTTTAATGTCTA-GTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CT
1 TTTCTGTTTTTTAATGTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
36986482 CAGGATCACATGC
66 -AGGATCACATGC
36986495 CGAGTAAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
87 2 0.03
88 40 0.62
89 5 0.08
90 12 0.18
91 6 0.09
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (91 bp):
TTTCTGTTTTTTAATGTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
AGGATCACATGCTGAGCTATTTTCAA
Found at i:36987582 original size:2 final size:2
Alignment explanation
Indices: 36987575--36987604 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36987565 CACCCCCTCC
36987575 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36987605 TTTTGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:36987651 original size:23 final size:23
Alignment explanation
Indices: 36987611--36987654 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36987601 CTCTTTTTGT
36987611 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
*
36987634 TATTA-TATATTCTTTTAATAT
1 TATTATTATATT-TCTTAATAT
36987655 ATTAGGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:36987655 original size:20 final size:21
Alignment explanation
Indices: 36987614--36987668 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
36987604 TTTTTGTTAT
*
36987614 TATTATAT-TTCTTAATATTA
1 TATTATATATTCTTAATAATA
*
36987634 TATTATATATTCTT-TTAATA
1 TATTATATATTCTTAATAATA
36987654 TATTAGGTATATTCT
1 TATTA--TATATTCT
36987669 AAATTCTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 5 0.17
22 8 0.27
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTATATATTCTTAATAATA
Found at i:36987704 original size:27 final size:26
Alignment explanation
Indices: 36987674--36987825 Score: 141
Period size: 27 Copynumber: 5.8 Consensus size: 26
36987664 ATTCTAAATT
*
36987674 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATATTTT-TATA
* *
36987701 CTATTTTATGTATATATATCTTTAATA
1 CTATATTATGTATATATAT-TTTTATA
* *
36987728 CTATATTATTTATATATATTTTTCTA
1 CTATATTATGTATATATATTTTTATA
* *
36987754 C-ATGTTATCTTATATATATATTTTA-A
1 CTATATTAT-GTATATATAT-TTTTATA
* * *
36987780 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTTTATA
*
36987805 CTATATTATGTACATAT-TTTT
1 CTATATTATGTATATATATTTT
36987826 AATATTATCA
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.04
25 27 0.26
26 24 0.23
27 47 0.45
28 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATTTTTATA
Found at i:36987741 original size:25 final size:25
Alignment explanation
Indices: 36987686--36987829 Score: 105
Period size: 25 Copynumber: 5.6 Consensus size: 25
36987676 ATATTACGTA
*
36987686 TATATATTTTCT-ATACTATTTTATGT
1 TATATATTTT-TAATACTATATTAT-T
*
36987712 ATATATATCTTTAATACTATATTATT
1 -TATATATTTTTAATACTATATTATT
** *
36987738 TATATATATTTTTCTAC-ATGTTATCT
1 TATATAT-TTTTAATACTATATTAT-T
* *
36987764 TATATATATATTTTA-ACTATATTATG
1 TATATAT-T-TTTAATACTATATTATT
* * *
36987790 TATGTATTTTTAACACTATATTATG
1 TATATATTTTTAATACTATATTATT
*
36987815 TACATATTTTTAATA
1 TATATATTTTTAATA
36987830 TTATCACGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
24 4 0.04
25 37 0.38
26 26 0.27
27 30 0.31
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATT
Found at i:36988004 original size:16 final size:16
Alignment explanation
Indices: 36987980--36988031 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
36987970 TAATTATTCT
*
36987980 TATTCTAATATTTTGA
1 TATTTTAATATTTTGA
36987996 TATTTTAATATTTT-A
1 TATTTTAATATTTTGA
*
36988011 TATTTTATATATTTTGT
1 TATTTTA-ATATTTTGA
36988028 TATT
1 TATT
36988032 CACATCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 8 0.25
16 20 0.62
17 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (16 bp):
TATTTTAATATTTTGA
Found at i:36988015 original size:7 final size:8
Alignment explanation
Indices: 36987980--36988025 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
36987970 TAATTATTCT
*
36987980 TATTCTAA
1 TATTTTAA
*
36987988 TATTTTGA
1 TATTTTAA
36987996 TATTTTAA
1 TATTTTAA
36988004 TATTTT-A
1 TATTTTAA
36988011 TATTTTATA
1 TATTTTA-A
36988020 TATTTT
1 TATTTT
36988026 GTTATTCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 19 0.58
9 7 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:36990242 original size:20 final size:20
Alignment explanation
Indices: 36990219--36990267 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
36990209 AATCCAAATT
36990219 AAAATACTAAAATTCAGGAG
1 AAAATACTAAAATTCAGGAG
* *
36990239 AAAAT-CTTGAAATTCAGGAT
1 AAAATAC-TAAAATTCAGGAG
36990259 AAGAATACT
1 AA-AATACT
36990268 GATGTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 4 0.17
22 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAATACTAAAATTCAGGAG
Found at i:36996202 original size:25 final size:25
Alignment explanation
Indices: 36996155--36996202 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36996145 ACTTATTTTT
* *
36996155 TATAATTTTTATTATTTTTTAAAAA
1 TATAATTTTTATAATTTTATAAAAA
36996180 TATAATTTTTA-AATGTTTATAAA
1 TATAATTTTTATAAT-TTTATAAA
36996203 TATTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TATAATTTTTATAATTTTATAAAAA
Found at i:36997026 original size:26 final size:26
Alignment explanation
Indices: 36996969--36997020 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36996959 ATATTTTATC
36996969 AACTTTTCATACATTGAAATGATTCT
1 AACTTTTCATACATTGAAATGATTCT
36996995 AACTTTTCATACATTGAAATGATTCT
1 AACTTTTCATACATTGAAATGATTCT
36997021 TTCTTTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
AACTTTTCATACATTGAAATGATTCT
Found at i:37004125 original size:57 final size:57
Alignment explanation
Indices: 37004037--37004151 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
37004027 AAGAACAAAA
37004037 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
1 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
*
37004094 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGCGAACAATATTTACCT
1 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
37004151 A
1 A
37004152 CACACCTAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (57 bp):
AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
Found at i:37008105 original size:16 final size:17
Alignment explanation
Indices: 37008084--37008128 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
37008074 AAAAAAAGGC
*
37008084 AAAT-AATTGTTTTATA
1 AAATAAATTATTTTATA
37008100 AAATAAATTATTTTATATA
1 AAATAAATTA-TTT-TATA
37008119 AAATAAATTA
1 AAATAAATTA
37008129 ATATTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 3 0.12
19 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATAAATTATTTTATA
Found at i:37011215 original size:30 final size:29
Alignment explanation
Indices: 37011163--37011223 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
37011153 AGAATTTAAT
* *
37011163 TTATTAATAATTTTAGGATAAATATGAAAA
1 TTATAAATAAATTTAGGATAAAT-TGAAAA
* * *
37011193 TTATAAATAAATTTGGGTTAAATTTAAAA
1 TTATAAATAAATTTAGGATAAATTGAAAA
37011222 TT
1 TT
37011224 TTTGTGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (29 bp):
TTATAAATAAATTTAGGATAAATTGAAAA
Found at i:37027425 original size:14 final size:14
Alignment explanation
Indices: 37027406--37027434 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37027396 ATAGGTTAAT
37027406 TAAATCTGAATCGG
1 TAAATCTGAATCGG
37027420 TAAATCTGAATCGG
1 TAAATCTGAATCGG
37027434 T
1 T
37027435 TGTTGACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TAAATCTGAATCGG
Found at i:37027803 original size:6 final size:7
Alignment explanation
Indices: 37027786--37027811 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37027776 TAAGGGGTTC
37027786 AAAAAAT
1 AAAAAAT
37027793 AAAAAAT
1 AAAAAAT
37027800 AAAAAAT
1 AAAAAAT
37027807 AAAAA
1 AAAAA
37027812 GCAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:37033181 original size:30 final size:32
Alignment explanation
Indices: 37033136--37033194 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
37033126 TAAAAATATT
37033136 AATTTAGGCCATCAACATTT-AAAAAAAGTTG
1 AATTTAGGCCATCAACATTTCAAAAAAAGTTG
* *
37033167 AATTTA-GCCGTCAACCTTTCAAAAAAAG
1 AATTTAGGCCATCAACATTTCAAAAAAAG
37033195 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (32 bp):
AATTTAGGCCATCAACATTTCAAAAAAAGTTG
Found at i:37034028 original size:19 final size:19
Alignment explanation
Indices: 37034006--37034043 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37033996 TACGTTTATC
37034006 TGTGATTAATATTAAAATA
1 TGTGATTAATATTAAAATA
*
37034025 TGTGATTAGTATTAAAATA
1 TGTGATTAATATTAAAATA
37034044 GCGGTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
TGTGATTAATATTAAAATA
Found at i:37034264 original size:79 final size:79
Alignment explanation
Indices: 37034114--37034269 Score: 287
Period size: 79 Copynumber: 2.0 Consensus size: 79
37034104 AACATACCAT
*
37034114 ACTACACCTTACCGCATATCCAAATCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTTCA
1 ACTACACCTTACCGCATATCCAAACCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTTCA
37034179 TAATATATATATAC
66 TAATATATATATAC
37034193 ACTACACCTTACCGCATATCCAAACCCACCCTT-AATTCTTAAACAAAACCAGGTTATTTGTTCA
1 ACTACACCTTACCGCATATCCAAACCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTTCA
37034257 TATATATATATAT
66 TA-ATATATATAT
37034270 GGAGGTACCT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
78 33 0.44
79 42 0.56
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (79 bp):
ACTACACCTTACCGCATATCCAAACCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTTCA
TAATATATATATAC
Found at i:37036224 original size:19 final size:19
Alignment explanation
Indices: 37036200--37036238 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
37036190 TATATAAAAA
37036200 ATAAAAAAATAGAAAT-TT
1 ATAAAAAAATAGAAATGTT
*
37036218 ATAAAAAATTAGAAATGTT
1 ATAAAAAAATAGAAATGTT
37036237 AT
1 AT
37036239 TTCACCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
ATAAAAAAATAGAAATGTT
Found at i:37039627 original size:17 final size:17
Alignment explanation
Indices: 37039605--37039641 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
37039595 ACTTACACAT
37039605 AATAAAACTTAAATTAA
1 AATAAAACTTAAATTAA
* *
37039622 AATAAAATTTGAATTAA
1 AATAAAACTTAAATTAA
37039639 AAT
1 AAT
37039642 CCACAGGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAAAACTTAAATTAA
Found at i:37049335 original size:22 final size:22
Alignment explanation
Indices: 37049309--37049356 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
37049299 TCAGTTTTAT
37049309 AATTCAAGTCCAGTATTTATTA
1 AATTCAAGTCCAGTATTTATTA
37049331 AATTCAAGTCCAGTATTTATTA
1 AATTCAAGTCCAGTATTTATTA
37049353 AATT
1 AATT
37049357 TAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (22 bp):
AATTCAAGTCCAGTATTTATTA
Found at i:37051197 original size:16 final size:17
Alignment explanation
Indices: 37051176--37051212 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37051166 ACATGTAATG
*
37051176 ATTTTATT-TTTTTTTA
1 ATTTTATTCTGTTTTTA
37051192 ATTTTATTCTGTTTTTA
1 ATTTTATTCTGTTTTTA
37051209 ATTT
1 ATTT
37051213 GTTATTGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTATTCTGTTTTTA
Found at i:37060966 original size:24 final size:23
Alignment explanation
Indices: 37060915--37060966 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
37060905 TAATCATTTA
37060915 TTTATTTTGTTATTTCAAAATAT
1 TTTATTTTGTTATTTCAAAATAT
* *
37060938 CTTATTGTGTGTTATTT-TAAATAT
1 TTTATT-T-TGTTATTTCAAAATAT
37060962 TTTAT
1 TTTAT
37060967 AGGCTGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTATTTTGTTATTTCAAAATAT
Found at i:37068755 original size:12 final size:12
Alignment explanation
Indices: 37068738--37068762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37068728 CGTCATTTGA
37068738 AGATTTTTTTAT
1 AGATTTTTTTAT
37068750 AGATTTTTTTAT
1 AGATTTTTTTAT
37068762 A
1 A
37068763 TTGTTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AGATTTTTTTAT
Found at i:37071542 original size:140 final size:138
Alignment explanation
Indices: 37071253--37071549 Score: 310
Period size: 140 Copynumber: 2.1 Consensus size: 138
37071243 TTCTACTTAC
* * * *
37071253 ATTTATATCTTTTATTTCATGTTGCTTCAAGCTTTTTAAATCTTTAGTTAATGTTTTTAACATAT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTT--ATCTTTAATTAATATTTTTAACATAT
* * ** ** *
37071318 TAGTTCTTTGGTTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTTGATTCCTC
64 TACTCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTC
* **
37071383 TTCGACTCAT
129 TTAGAAACAT
*
37071393 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTT-TTTTTAAATTAATATTTTTAACATATT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTATCTTT-AATTAATATTTTTAACATATT
* * * * * * * *
37071457 AACTCCTTTCATTAGATGGTTAGATAATTGCGATTAC-ATCCTTGAGTTTGAGGTTCCATTATTT
65 -ACTCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTC
*
37071521 TTATAAACAT
129 TTAGAAACAT
37071531 ATTAATGTATTTTTTATTT
1 ATT--TGTATTTTTTATTT
37071550 TTAACTTTTA
Statistics
Matches: 129, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
137 4 0.03
138 47 0.36
139 29 0.22
140 49 0.38
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (138 bp):
ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTATCTTTAATTAATATTTTTAACATATTA
CTCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTCTT
AGAAACAT
Found at i:37071651 original size:16 final size:16
Alignment explanation
Indices: 37071630--37071682 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
37071620 TAATATGCTT
37071630 ATAAAAATAATTAAAA
1 ATAAAAATAATTAAAA
37071646 ATAAAAATATATATTAAATA
1 AT-AAAA-ATA-ATTAAA-A
*
37071666 AAAAAAATAATTAAAA
1 ATAAAAATAATTAAAA
37071682 A
1 A
37071683 ATCATCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.12
17 10 0.31
18 6 0.19
19 10 0.31
20 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAATAATTAAAA
Found at i:37071663 original size:19 final size:16
Alignment explanation
Indices: 37071632--37071683 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 16
37071622 ATATGCTTAT
37071632 AAAAATAATTAAAAATA
1 AAAAATAATTAAAAA-A
37071649 AAAATATATATTAAATAAA
1 AAAA-ATA-ATTAAA-AAA
37071668 AAAAATAATTAAAAAA
1 AAAAATAATTAAAAAA
37071684 TCATCAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.09
17 10 0.31
18 6 0.19
19 11 0.34
20 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATAATTAAAAAA
Found at i:37079155 original size:23 final size:24
Alignment explanation
Indices: 37079128--37079174 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
37079118 TTCCCCCTCT
*
37079128 TCTTCCATA-ATACTCTTT-CTTTC
1 TCTT-CATATATAATCTTTACTTTC
37079151 TCTTCATATATAATCTTTACTTTC
1 TCTTCATATATAATCTTTACTTTC
37079175 AAACACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTCATATATAATCTTTACTTTC
Found at i:37083763 original size:20 final size:20
Alignment explanation
Indices: 37083738--37083777 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37083728 TCCAGATATA
37083738 ATTATAGTGAGTCTATCAAT
1 ATTATAGTGAGTCTATCAAT
37083758 ATTATAGTGAGTCTATCAAT
1 ATTATAGTGAGTCTATCAAT
37083778 TAGGAGTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTATAGTGAGTCTATCAAT
Found at i:37088690 original size:132 final size:131
Alignment explanation
Indices: 37088188--37088705 Score: 501
Period size: 132 Copynumber: 3.9 Consensus size: 131
37088178 AAAATACGAA
* * * * * * *
37088188 TGAAATTCCGAAGAGACACTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCATGAT-GGG
1 TGAAATT-CGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGG
* * *** * *
37088252 CACTG-TTCCCCGAATCGCCAAACATCGAATATTTTTTTCGTTTTAAAGGGTTTTTAGAAA-ACG
65 CAC-GATTCCGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTA-AAAGACA
37088315 TGAG
128 TGAG
* ** *
37088319 TGAAATTCCGAA-GGATATTCGATTGTTTTGAAG-AAACGAGAAATCACAACCCAGCACGATAGG
1 TGAAATT-CGAAGGGATATTCGATTATTTTG-AGCAAACGAGAAATTGCAACCCAACACGATAGG
* * * * * **
37088382 GCATGATTCC-CGAATTGTCAAACACCGAGTATTGCCTTCGTTTTGAAGGATTTTTGGAAGACAT
64 GCACGATTCCGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAAAAGACAT
37088446 GAG
129 GAG
* * *
37088449 TGAAATCTCGAAGGGATATTTGATTATTTTGAGTAAACGAGAAATTGCAACCCAACACGTTAGGG
1 TGAAAT-TCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGG
* * * * * *
37088514 CACGACTCCGCAAATTGCCAAATATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGGCAT
65 CACGATTCCGCGAATTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGGATTTTTAAAAGACAT
37088578 GAG
129 GAG
* * * *
37088581 TGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGG
1 TGAAA-TTCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGG
* * * * * * *
37088646 CACAATTCCGCGAATTGCCAAATATCGAATCTCGTCTTCATTTTAAAGCGTTTTTTAAAA
65 CACGATTCCGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAG-GATTTTTAAAA
37088706 AAAAATTGTG
Statistics
Matches: 320, Mismatches: 55, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
129 2 0.01
130 92 0.29
131 74 0.23
132 141 0.44
133 11 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
TGAAATTCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGGC
ACGATTCCGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAAAAGACATGA
G
Found at i:37092248 original size:17 final size:17
Alignment explanation
Indices: 37092226--37092258 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37092216 TCAAAAAAAG
*
37092226 AAAAAAAATGAATAAAT
1 AAAAAAAATAAATAAAT
37092243 AAAAAAAATAAATAAA
1 AAAAAAAATAAATAAA
37092259 AAGAACAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAAATAAAT
Found at i:37092252 original size:13 final size:13
Alignment explanation
Indices: 37092218--37092260 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
37092208 GAATTGATTC
*
37092218 AAAAAAAGAAA-A
1 AAAAAAATAAATA
*
37092230 AAAATGAATAAATA
1 AAAA-AAATAAATA
37092244 AAAAAAATAAATA
1 AAAAAAATAAATA
37092257 AAAA
1 AAAA
37092261 GAACAAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 4 0.15
13 17 0.65
14 5 0.19
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:37100285 original size:46 final size:46
Alignment explanation
Indices: 37100233--37100460 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
37100223 AGTGTGCTCT
37100233 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
37100279 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
37100325 GTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
37100371 GTGATATGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
37100417 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
37100461 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:37109542 original size:17 final size:18
Alignment explanation
Indices: 37109505--37109542 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37109495 TTGGTCTTAA
37109505 TAAGTTAGTTGACTATTT
1 TAAGTTAGTTGACTATTT
* *
37109523 TAAGTTA-TTTACTTTTT
1 TAAGTTAGTTGACTATTT
37109540 TAA
1 TAA
37109543 AAAATGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
TAAGTTAGTTGACTATTT
Found at i:37109989 original size:30 final size:28
Alignment explanation
Indices: 37109922--37109990 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 28
37109912 TAATAGCCTA
* *
37109922 TAATTTTATTATTTTTAAATAAATAAATT
1 TAATTTTA-TAATTTTAAATAAATAAATG
37109951 TAATTTTTATAATTTTAAA-AAGATTAAAATG
1 TAA-TTTTATAATTTTAAATAA-A-T-AAATG
37109982 TAATTTTAT
1 TAATTTTAT
37109991 GTTTATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 13 0.38
30 12 0.35
31 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TAATTTTATAATTTTAAATAAATAAATG
Found at i:37115858 original size:30 final size:31
Alignment explanation
Indices: 37115795--37115861 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
37115785 TTTAATACTC
*
37115795 AAACTTGACACTTTTTCCTAATTTGATACCT
1 AAACTTGACACTTTTTCCTAAGTTGATACCT
* * *
37115826 AAACTTGACAC-TTTTCTTAAGTTGGTATCT
1 AAACTTGACACTTTTTCCTAAGTTGATACCT
37115856 AAACTT
1 AAACTT
37115862 TTTGGGAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (31 bp):
AAACTTGACACTTTTTCCTAAGTTGATACCT
Found at i:37116376 original size:60 final size:60
Alignment explanation
Indices: 37116265--37116377 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 60
37116255 AACTGAACCT
* * * * *
37116265 AAAAATAACTTAGGTACCAAATTAGGAAAAAATGCCAGGTTCAGGTATCAAATTGGGCCC
1 AAAAAAAACTTAGGTACCAAATTAAGAAAAAATGCAAAGTTCAAGTATCAAATTGGGCCC
* * * * *
37116325 AAAAAAAATTTAGGTACCAAATTAAGAAAAAGTGTAAAGTTTAAGTTTCAAAT
1 AAAAAAAACTTAGGTACCAAATTAAGAAAAAATGCAAAGTTCAAGTATCAAAT
37116378 GTTATATTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 43 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.25
Consensus pattern (60 bp):
AAAAAAAACTTAGGTACCAAATTAAGAAAAAATGCAAAGTTCAAGTATCAAATTGGGCCC
Found at i:37126301 original size:43 final size:43
Alignment explanation
Indices: 37126252--37126339 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 43
37126242 CTTCAAATGA
37126252 ATTTGGACATCTATTCATTATGGACTTTGAATGTTTA-ATACAT
1 ATTTGGACATCTATTCATTATGGAC-TTGAATGTTTATATACAT
*
37126295 ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATATAT
1 ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATACAT
37126338 AT
1 AT
37126340 ATATATATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 11 0.26
43 32 0.74
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (43 bp):
ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATACAT
Found at i:37126697 original size:9 final size:9
Alignment explanation
Indices: 37126683--37126719 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
37126673 CCTAATTCTA
37126683 AAAATACAT
1 AAAATACAT
37126692 AAAATA-A-
1 AAAATACAT
*
37126699 AAAATATAT
1 AAAATACAT
37126708 AAAATACAT
1 AAAATACAT
37126717 AAA
1 AAA
37126720 TTTATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
7 6 0.24
8 2 0.08
9 17 0.68
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATACAT
Found at i:37126703 original size:16 final size:16
Alignment explanation
Indices: 37126682--37126713 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37126672 TCCTAATTCT
37126682 AAAAATACATAAAATA
1 AAAAATACATAAAATA
*
37126698 AAAAATATATAAAATA
1 AAAAATACATAAAATA
37126714 CATAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATACATAAAATA
Found at i:37128128 original size:29 final size:30
Alignment explanation
Indices: 37128078--37128140 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
37128068 GCAATTAATT
* * *
37128078 AATTTTTTTTAAAATTTATAAAATTA-TAA
1 AATTTTTTTAAAAAATTATAAAACTATTAA
37128107 AATTTATTTTAAAAAATT-TAAAACTATTAA
1 AATTT-TTTTAAAAAATTATAAAACTATTAA
37128137 AATT
1 AATT
37128141 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTTTTTTAAAAAATTATAAAACTATTAA
Found at i:37128430 original size:31 final size:31
Alignment explanation
Indices: 37128392--37128453 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
37128382 GATCACATTT
37128392 TTGGAAAGAGTAACCACAAACTTCTAACATG
1 TTGGAAAGAGTAACCACAAACTTCTAACATG
37128423 TTGGAAAGAGTAACCACAAACTTCTAACATG
1 TTGGAAAGAGTAACCACAAACTTCTAACATG
37128454 ATTTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (31 bp):
TTGGAAAGAGTAACCACAAACTTCTAACATG
Found at i:37128937 original size:14 final size:14
Alignment explanation
Indices: 37128918--37128945 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37128908 GCTTCAACCT
37128918 TTTAATATTTTTAA
1 TTTAATATTTTTAA
37128932 TTTAATATTTTTAA
1 TTTAATATTTTTAA
37128946 CATATTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATATTTTTAA
Found at i:37131342 original size:24 final size:24
Alignment explanation
Indices: 37131315--37131366 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37131305 TTAGTAAGTC
*
37131315 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
37131339 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
37131363 AAAT
1 AAAT
37131367 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:37131435 original size:19 final size:19
Alignment explanation
Indices: 37131411--37131448 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37131401 ACTTACAAGC
37131411 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
37131430 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
37131449 CACACAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AATCTCTTAGAATTTGGGT
Found at i:37132635 original size:24 final size:24
Alignment explanation
Indices: 37132608--37132659 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37132598 TTAGTAAGTC
*
37132608 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
37132632 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
37132656 AAAT
1 AAAT
37132660 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:37136367 original size:17 final size:17
Alignment explanation
Indices: 37136345--37136378 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37136335 GGGTACACTA
37136345 AAATA-TTTAAAATAAAT
1 AAATATTTTAAAA-AAAT
37136362 AAATATTTTAAAAAAAT
1 AAATATTTTAAAAAAAT
37136379 GACACATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATTTTAAAAAAAT
Found at i:37137568 original size:27 final size:27
Alignment explanation
Indices: 37137516--37137569 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
37137506 TACATGTACC
*
37137516 AATTTTTAACTAGTAAACGAAGTATAA
1 AATTTTTAACTAATAAACGAAGTATAA
37137543 AATTATTTAACTACATAAAC-AA-TATAA
1 AATT-TTTAACTA-ATAAACGAAGTATAA
37137570 TGGTTTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 10 0.42
29 5 0.21
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (27 bp):
AATTTTTAACTAATAAACGAAGTATAA
Found at i:37144727 original size:26 final size:25
Alignment explanation
Indices: 37144681--37144729 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
37144671 AATTAAAAGT
*
37144681 ATTAAATTATAATTTTGATATAAGA
1 ATTAAATTATAATTTTAATATAAGA
*
37144706 ATTAAATTTTAAATTTTAATATAA
1 ATTAAATTAT-AATTTTAATATAA
37144730 TAGAGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTAAATTATAATTTTAATATAAGA
Found at i:37150263 original size:62 final size:62
Alignment explanation
Indices: 37150120--37150254 Score: 186
Period size: 62 Copynumber: 2.2 Consensus size: 62
37150110 TGGTAAACTT
*
37150120 TTTATAATCAAATCAAGAATTCCAACCAATTGAATCGAGACATGAAAACAAGAAATGAAAAG
1 TTTATAATCAAATCAAGAAGTCCAACCAATTGAATCGAGACATGAAAACAAGAAATGAAAAG
* * * * *
37150182 TTTATAATCAAATCAAGAAGTCCAACCAATTGGATTGAGACGT-AAAA-AGGAGAA-GAAGAG
1 TTTATAATCAAATCAAGAAGTCCAACCAATTGAATCGAGACATGAAAACAAGA-AATGAAAAG
37150242 TTTATAATCAAAT
1 TTTATAATCAAAT
37150255 TCTTAGAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 21 0.32
61 6 0.09
62 39 0.59
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.23
Consensus pattern (62 bp):
TTTATAATCAAATCAAGAAGTCCAACCAATTGAATCGAGACATGAAAACAAGAAATGAAAAG
Found at i:37150573 original size:18 final size:19
Alignment explanation
Indices: 37150514--37150567 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
37150504 CTTACAAAAA
37150514 AAAATCAAAAATATTTTTT
1 AAAATCAAAAATATTTTTT
37150533 AAAATCAAAAATATTTTTT
1 AAAATCAAAAATATTTTTT
*
37150552 AAAATTAAAAATATTT
1 AAAATCAAAAATATTT
37150568 ATAAAAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATCAAAAATATTTTTT
Found at i:37150576 original size:19 final size:19
Alignment explanation
Indices: 37150513--37150575 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
37150503 ACTTACAAAA
37150513 AAAAATCAAAAATATTTTT
1 AAAAATCAAAAATATTTTT
*
37150532 TAAAATCAAAAATATTTTT
1 AAAAATCAAAAATATTTTT
* * *
37150551 TAAAATTAAAAATATTTAT
1 AAAAATCAAAAATATTTTT
37150570 AAAAAT
1 AAAAAT
37150576 TCTTAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATCAAAAATATTTTT
Found at i:37154121 original size:14 final size:15
Alignment explanation
Indices: 37154104--37154135 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37154094 ATTTTAATTA
37154104 TTAATTT-TTCTATT
1 TTAATTTCTTCTATT
37154118 TTAATTTCTTCTATT
1 TTAATTTCTTCTATT
37154133 TTA
1 TTA
37154136 TAAAAACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTTCTTCTATT
Found at i:37154420 original size:2 final size:2
Alignment explanation
Indices: 37154413--37154442 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
37154403 TCTATTATTT
37154413 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37154443 TTGTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:37155532 original size:14 final size:14
Alignment explanation
Indices: 37155513--37155540 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37155503 AAATAAATTT
37155513 TTAATTAATTAAAA
1 TTAATTAATTAAAA
37155527 TTAATTAATTAAAA
1 TTAATTAATTAAAA
37155541 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAATTAAAA
Found at i:37155903 original size:14 final size:14
Alignment explanation
Indices: 37155884--37155913 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37155874 TCCTCTTAAA
37155884 ATTAAAATTTTTTT
1 ATTAAAATTTTTTT
*
37155898 ATTAAAGTTTTTTT
1 ATTAAAATTTTTTT
37155912 AT
1 AT
37155914 AGTTTTTAAT
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
ATTAAAATTTTTTT
Found at i:37181791 original size:15 final size:15
Alignment explanation
Indices: 37181773--37181803 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37181763 TTTGATTATT
37181773 ACTCTAATTATTAAA
1 ACTCTAATTATTAAA
37181788 ACTCTAATTATTAAA
1 ACTCTAATTATTAAA
37181803 A
1 A
37181804 TATTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTCTAATTATTAAA
Found at i:37194280 original size:22 final size:22
Alignment explanation
Indices: 37194254--37194324 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
37194244 CTTATGTTAA
37194254 TTATTTCATGCTTATTTAGTAG
1 TTATTTCATGCTTATTTAGTAG
* * **
37194276 TTATTGTGCTTTG-TT-TTT-TTTC
1 TTATT-T-C-ATGCTTATTTAGTAG
37194298 TTATTTCATGCTTATTTAGTAG
1 TTATTTCATGCTTATTTAGTAG
37194320 TTATT
1 TTATT
37194325 GTGCTTTGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 4 0.11
22 17 0.49
23 4 0.11
24 3 0.09
25 2 0.06
ACGTcount: A:0.17, C:0.08, G:0.13, T:0.62
Consensus pattern (22 bp):
TTATTTCATGCTTATTTAGTAG
Found at i:37194317 original size:44 final size:43
Alignment explanation
Indices: 37194254--37194343 Score: 171
Period size: 44 Copynumber: 2.1 Consensus size: 43
37194244 CTTATGTTAA
37194254 TTATTTCATGCTTATTTAGTAGTTATTGTGCTTTGTTTTTTTTC
1 TTATTTCATGCTTATTTAGTAGTTATTGTGCTTTG-TTTTTTTC
37194298 TTATTTCATGCTTATTTAGTAGTTATTGTGCTTTGTTTTTTTC
1 TTATTTCATGCTTATTTAGTAGTTATTGTGCTTTGTTTTTTTC
37194341 TTA
1 TTA
37194344 ATCTTGTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 11 0.24
44 35 0.76
ACGTcount: A:0.14, C:0.09, G:0.13, T:0.63
Consensus pattern (43 bp):
TTATTTCATGCTTATTTAGTAGTTATTGTGCTTTGTTTTTTTC
Found at i:37195573 original size:23 final size:23
Alignment explanation
Indices: 37195544--37195591 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
37195534 GAAAAAAAAA
37195544 AAACAATGCACCTCTTTTAGTGC
1 AAACAATGCACCTCTTTTAGTGC
37195567 AAACAATGCACCTCTTTTAGTGC
1 AAACAATGCACCTCTTTTAGTGC
37195590 AA
1 AA
37195592 TTTTTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (23 bp):
AAACAATGCACCTCTTTTAGTGC
Found at i:37198359 original size:20 final size:20
Alignment explanation
Indices: 37198336--37198397 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
37198326 AAAATTACAA
37198336 AAAAAAATTAAAATATTTAT
1 AAAAAAATTAAAATATTTAT
*
37198356 -AAAAATTCTAAAATA--TAT
1 AAAAAAAT-TAAAATATTTAT
* *
37198374 AAAGGAAATTAAAA-ATTTTT
1 AAA-AAAATTAAAATATTTAT
37198394 AAAA
1 AAAA
37198398 GTTCTAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 11
0.67 0.10 0.23
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 15 0.47
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAAAATTAAAATATTTAT
Found at i:37198369 original size:39 final size:38
Alignment explanation
Indices: 37198326--37198408 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 38
37198316 TTTCTCAACA
37198326 AAAAT-TACAAAAAAAAATTAAAATATTTATAAAAATTCT
1 AAAATATA-AAAAAAAAATTAAAA-ATTTATAAAAATTCT
* ** * *
37198365 AAAATATATAAAGGAAATTAAAAATTTTTAAAAGTTCT
1 AAAATATAAAAAAAAAATTAAAAATTTATAAAAATTCT
*
37198403 AGAATA
1 AAAATA
37198409 ATATTTTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 18 0.49
39 17 0.46
40 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (38 bp):
AAAATATAAAAAAAAAATTAAAAATTTATAAAAATTCT
Found at i:37202806 original size:23 final size:25
Alignment explanation
Indices: 37202744--37202806 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
37202734 TTGTTAAAAA
37202744 ATATTT-ATTTTA-ATATTTTTTAT
1 ATATTTAATTTTATATATTTTTTAT
*
37202767 ATATTTAA-TGTATTATATTTTTTA-
1 ATATTTAATTTTA-TATATTTTTTAT
37202791 A-ATTTAATTTTATATA
1 ATATTTAATTTTATATA
37202807 AAAATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 19 0.56
24 5 0.15
25 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTTAATTTTATATATTTTTTAT
Found at i:37205021 original size:22 final size:22
Alignment explanation
Indices: 37204996--37205044 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
37204986 TGGTGTAAAA
*
37204996 TATATAAACAAATTAATGAAAT
1 TATATAAACAAATAAATGAAAT
* * *
37205018 TATAAAAATAAATAAATTAAAT
1 TATATAAACAAATAAATGAAAT
37205040 TATAT
1 TATAT
37205045 CAAAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TATATAAACAAATAAATGAAAT
Found at i:37205437 original size:23 final size:23
Alignment explanation
Indices: 37205391--37205437 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37205381 AAATTTTTAT
*
37205391 AAATTTAAGAGTTTAATGAGAAA
1 AAATTTAAGAGTTTAATGAAAAA
* * *
37205414 AAATTTAGGGGTTTAATTAAAAA
1 AAATTTAAGAGTTTAATGAAAAA
37205437 A
1 A
37205438 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (23 bp):
AAATTTAAGAGTTTAATGAAAAA
Found at i:37208725 original size:32 final size:33
Alignment explanation
Indices: 37208689--37208771 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
37208679 GTACACTATA
* * *
37208689 TGTGTAC-ACTTGAAAAGGTTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGGTATGTACACTTCG
*
37208721 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTACAACTTGAAAAGGGTATGTACACTTCG
*
37208754 TGTGTACGACTTGAAAAG
1 TGTGTACAACTTGAAAAG
37208772 AGAATGTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 7 0.16
33 37 0.84
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGGTATGTACACTTCG
Found at i:37208738 original size:33 final size:32
Alignment explanation
Indices: 37208663--37208771 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 32
37208653 TTGAGTATAT
* ** *
37208663 CACTTGACAAGGAAATGTACACTAT-ATGTGTA
1 CACTTGAAAAGGGTATGTACACT-TCGTGTGTA
* * *
37208695 CACTTGAAAAGGTTATGTGCACTTTGTGTGTA
1 CACTTGAAAAGGGTATGTACACTTCGTGTGTA
*
37208727 CAAATTGAAAAGGGTATGTACACTTCGTGTGTA
1 C-ACTTGAAAAGGGTATGTACACTTCGTGTGTA
37208760 CGACTTGAAAAG
1 C-ACTTGAAAAG
37208772 AGAATGTGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.02
32 26 0.41
33 37 0.58
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (32 bp):
CACTTGAAAAGGGTATGTACACTTCGTGTGTA
Found at i:37213318 original size:4 final size:4
Alignment explanation
Indices: 37213309--37213337 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
37213299 CCCTTTTCTA
37213309 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
37213338 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:37216844 original size:12 final size:12
Alignment explanation
Indices: 37216827--37216855 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
37216817 CCACGCCCGT
37216827 GCGCCGACCATA
1 GCGCCGACCATA
37216839 GCGCCGACCATA
1 GCGCCGACCATA
37216851 GCGCC
1 GCGCC
37216856 ACCTTTGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.45, G:0.28, T:0.07
Consensus pattern (12 bp):
GCGCCGACCATA
Found at i:37219044 original size:7 final size:7
Alignment explanation
Indices: 37219032--37219056 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37219022 CAGAAATCTT
37219032 TAAACCC
1 TAAACCC
37219039 TAAACCC
1 TAAACCC
37219046 TAAACCC
1 TAAACCC
37219053 TAAA
1 TAAA
37219057 TTTGACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:37221964 original size:34 final size:34
Alignment explanation
Indices: 37221921--37221987 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
37221911 ACTATGAAGG
37221921 TTAAAGGTTAAGTCATAGGAATTTTGGTGATATT
1 TTAAAGGTTAAGTCATAGGAATTTTGGTGATATT
37221955 TTAAAGGTTAAGTCATAGGAATTTTGGTGATAT
1 TTAAAGGTTAAGTCATAGGAATTTTGGTGATAT
37221988 ACAGATTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (34 bp):
TTAAAGGTTAAGTCATAGGAATTTTGGTGATATT
Found at i:37222725 original size:45 final size:45
Alignment explanation
Indices: 37222661--37222821 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
37222651 TATCGTACGG
* * * * * *
37222661 TACTATCCGAGCCTTTGAGCCTAGCAGGTTATGATGTCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
37222706 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
37222751 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
37222795 -A-TGATGTCGGG-CTTCGAGCCTAGCAGG
1 TACT-AT-TCGGGCCTTCGAGCCTAGCAGG
37222822 TGAAATGCCG
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 19 0.18
44 6 0.06
45 80 0.75
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:37224198 original size:64 final size:63
Alignment explanation
Indices: 37224097--37224223 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 63
37224087 TTATTTTTCT
* *
37224097 AGTTAAGTGATTTGTTCAATTCAATCTCGATTTTAACCTTTTTCTTTCAGCTTCTGACCACACC
1 AGTTAAGTGATTTGTTCAATTCAATATCGATTCTAACC-TTTTCTTTCAGCTTCTGACCACACC
* * *
37224161 AGTTAGGTGATTTGTTCAATTCGATATCGATTCTAACCTTTTCTTTCAGCTTCTGACGACACC
1 AGTTAAGTGATTTGTTCAATTCAATATCGATTCTAACCTTTTCTTTCAGCTTCTGACCACACC
37224224 CCCTAACCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 24 0.41
64 34 0.59
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (63 bp):
AGTTAAGTGATTTGTTCAATTCAATATCGATTCTAACCTTTTCTTTCAGCTTCTGACCACACC
Found at i:37233037 original size:53 final size:53
Alignment explanation
Indices: 37232949--37233099 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
37232939 CTTACACGGT
* **
37232949 TCACATATCATACCGAAGCCATATTCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
37233004 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
37233057 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
37233100 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:37233969 original size:13 final size:15
Alignment explanation
Indices: 37233943--37233971 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37233933 AAACTCTAGA
37233943 TTTACCTAATATATT
1 TTTACCTAATATATT
37233958 TTTACCTAATATAT
1 TTTACCTAATATAT
37233972 CACATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTACCTAATATATT
Found at i:37236276 original size:21 final size:21
Alignment explanation
Indices: 37236214--37236290 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
37236204 GAAGCTCATG
*
37236214 AGAGCTAAACAGAAACCTATA
1 AGAGCTAAACAGAAACCTGTA
* * * * * *
37236235 AGGGTTGAACGGAAGCTTGTA
1 AGAGCTAAACAGAAACCTGTA
*
37236256 AGCGCTAAACAGAAACCTGTA
1 AGAGCTAAACAGAAACCTGTA
*
37236277 AGAGTTAAACAGAA
1 AGAGCTAAACAGAA
37236291 GCTCAATAAA
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAGCTAAACAGAAACCTGTA
Found at i:37242148 original size:14 final size:15
Alignment explanation
Indices: 37242129--37242170 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
37242119 CTGCTCATAT
37242129 TTAATTTTTTTAG-A
1 TTAATTTTTTTAGAA
37242143 TTAATTTTTATTTAGAA
1 TTAA-TTTT-TTTAGAA
*
37242160 ATAATTTTTTT
1 TTAATTTTTTT
37242171 TTAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 9 0.38
17 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TTAATTTTTTTAGAA
Found at i:37242180 original size:17 final size:17
Alignment explanation
Indices: 37242133--37242181 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
37242123 TCATATTTAA
*
37242133 TTTTTTTAGAT-TAATT
1 TTTTTTTAAATATAATT
*
37242149 TTTATTTAGAA-ATAATT
1 TTTTTTTA-AATATAATT
37242166 TTTTTTTAAATATAAT
1 TTTTTTTAAATATAAT
37242182 ATACTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTTTTTAAATATAATT
Found at i:37244878 original size:13 final size:13
Alignment explanation
Indices: 37244862--37244886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37244852 TTTTTATATA
37244862 AAAAATAAAAAAT
1 AAAAATAAAAAAT
37244875 AAAAATAAAAAA
1 AAAAATAAAAAA
37244887 ATTAATACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:37249505 original size:15 final size:15
Alignment explanation
Indices: 37249487--37249535 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
37249477 AAAGTTTAAT
37249487 AAATAAAAATATATA
1 AAATAAAAATATATA
37249502 AAATTAATAAATAT-TA
1 AAA-TAA-AAATATATA
*
37249518 AATTAAAAATAATATA
1 AAATAAAAAT-ATATA
37249534 AA
1 AA
37249536 TATATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 11 0.38
17 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAAAAATATATA
Found at i:37249513 original size:17 final size:16
Alignment explanation
Indices: 37249490--37249535 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
37249480 GTTTAATAAA
37249490 TAAAAATATATAAAAT
1 TAAAAATATATAAAAT
37249506 TAATAAATAT-T-AAAT
1 TAA-AAATATATAAAAT
37249521 TAAAAATAATATAAA
1 TAAAAAT-ATATAAA
37249536 TATATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 5 0.19
17 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATATATAAAAT
Found at i:37250000 original size:25 final size:25
Alignment explanation
Indices: 37249972--37250027 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
37249962 ATTTAGTCAC
37249972 ATAATAAATTATTATT-ATAAATAAT
1 ATAATAAATTATT-TTAATAAATAAT
** *
37249997 ATAATTTATTATTTTAATAAATTAT
1 ATAATAAATTATTTTAATAAATAAT
*
37250022 TTAATA
1 ATAATA
37250028 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATAAATTATTTTAATAAATAAT
Done.