Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 145 of 185
Found at i:44766631 original size:23 final size:24
Alignment explanation
Indices: 44766604--44766664 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 24
44766594 ACAAGAATTT
44766604 ATACATATATATA-TTCGAACATG
1 ATACATATATATATTTCGAACATG
44766627 ATACATATATATATTTTCGAACATG
1 ATACATATATATA-TTTCGAACATG
44766652 ATACATATATATA
1 ATACATATATATA
44766665 CATATCATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 13 0.36
25 23 0.64
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (24 bp):
ATACATATATATATTTCGAACATG
Found at i:44767713 original size:14 final size:15
Alignment explanation
Indices: 44767694--44767723 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44767684 ACACGAAATT
44767694 TTCACACA-AATAAA
1 TTCACACATAATAAA
44767708 TTCACACATAATAAA
1 TTCACACATAATAAA
44767723 T
1 T
44767724 AGATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:44773485 original size:41 final size:41
Alignment explanation
Indices: 44773428--44773574 Score: 240
Period size: 41 Copynumber: 3.6 Consensus size: 41
44773418 AACATATTCG
*
44773428 CCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCA
1 CCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCA
*
44773469 CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
1 CCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCA
* * *
44773510 CTGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGATCA
1 CCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCA
*
44773551 CCGGCACTTAGCCTGCTAGACTTA
1 CCGGCACTTAGCCTGCTAGGCTTA
44773575 AAGTTCGAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
CCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCA
Found at i:44774262 original size:23 final size:24
Alignment explanation
Indices: 44774235--44774295 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 24
44774225 ACAAGAATTT
44774235 ATACATATATATA-TTCGAACATG
1 ATACATATATATATTTCGAACATG
44774258 ATACATATATATATTTTCGAACATG
1 ATACATATATATA-TTTCGAACATG
44774283 ATACATATATATA
1 ATACATATATATA
44774296 CATATCATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 13 0.36
25 23 0.64
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (24 bp):
ATACATATATATATTTCGAACATG
Found at i:44775345 original size:14 final size:15
Alignment explanation
Indices: 44775326--44775355 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44775316 ACACGAAATT
44775326 TTCACACA-AATAAA
1 TTCACACATAATAAA
44775340 TTCACACATAATAAA
1 TTCACACATAATAAA
44775355 T
1 T
44775356 AGATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:44781179 original size:26 final size:26
Alignment explanation
Indices: 44781144--44781196 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
44781134 TTTTAGTTTA
*
44781144 TTTTCTTTTTGACCTTTTAAATTCTT
1 TTTTCCTTTTGACCTTTTAAATTCTT
44781170 TTTTCCTTTTGACCTTTTAAATTCTT
1 TTTTCCTTTTGACCTTTTAAATTCTT
44781196 T
1 T
44781197 CTTGTTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTCCTTTTGACCTTTTAAATTCTT
Found at i:44788726 original size:124 final size:124
Alignment explanation
Indices: 44788505--44788759 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 124
44788495 AAATAGTGGG
** * ***
44788505 AAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
44788570 TCGCTACAGTGGTCATGTAAGAAATG-ATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATGAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* * * *
44788629 AAATCGCTGATACCAGGATGCTATATGAGGAGAAATTGTGAAATCGCACCCTCGTGGTCGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
* * *
44788694 TCGCTACAGTTGGTCATGTAGGAAAT-AATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTAAGAAATGAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
44788753 AAATCGC
1 AAATCGC
44788760 GCCCTCGTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 88 0.76
125 28 0.24
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATGAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:44789931 original size:23 final size:23
Alignment explanation
Indices: 44789905--44791248 Score: 722
Period size: 23 Copynumber: 53.6 Consensus size: 23
44789895 TACCACGTCG
*
44789905 TTAGGTTAGGGTTTTCAATTAAATTA
1 TTAGGTTAGGGTTTTTAATT-AA--A
44789931 GGTTAGGGTTAGGGTTTTTAATTAAATTAAA
1 --TTA-GGTTAGGGTTTTTAATT-A----AA
* *
44789962 TTAGCTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
* *
44789985 TTATGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790008 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790031 TTAGGTTAGGGTTTTCAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
44790054 TTAGGTTAGGG-TTTTAATT-AA
1 TTAGGTTAGGGTTTTTAATTAAA
* *
44790075 GTAGGGTTAGGGTTTTTAATTAAG
1 TTA-GGTTAGGGTTTTTAATTAAA
*
44790099 TTATGTTAGGGTTTTTAATTTAATTAA
1 TTAGGTTAGGGTTTTTAA-TT-A--AA
44790126 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 -TTAGGTTAGGGTTTTTAA-TT-A--AA
* *
44790154 GTTAGGTTAGGTTTTTTAATTAAG
1 -TTAGGTTAGGGTTTTTAATTAAA
*
44790178 TTATGTTAGGGTTTTTAATTTAATTAA
1 TTAGGTTAGGGTTTTTAA-TT-A--AA
44790205 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 -TTAGGTTAGGGTTTTTAA-TT-A--AA
* *
44790233 GTTAGGTTAGGTTTTTTAATTAAG
1 -TTAGGTTAGGGTTTTTAATTAAA
*
44790257 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790280 TTAGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790303 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
**
44790326 TTAGGTTAGGG---TT--CCAAA
1 TTAGGTTAGGGTTTTTAATTAAA
44790344 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
44790367 TTAGGTTAGGGTTAGGGATTTTAATTAAA
1 TTAGGTTAGGG-T-----TTTTAATTAAA
* *
44790396 ATAGGTTAGGGTTAGGGTTTTCATGTAAAATA
1 TTAGGTTAGGG-T----TTTTAAT-T-AA--A
*
44790428 GGTTAGGGTTGGGGTTTTTAATTAAATTA
1 --TTA-GGTTAGGGTTTTTAATT-AA--A
*
44790457 GGTTAGAGTTAGGGTTTTCAATTAAA
1 --TTAG-GTTAGGGTTTTTAATTAAA
44790483 TTAGGTTAGGGTTAGAGTTTTTAATTAAATTAAA
1 TTAGGTTA--G---G-GTTTTTAATT-A----AA
* *
44790517 TTAGCTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
* * *
44790540 TTATGTTAGGGTTTTTAGGGTT--T
1 TTAGGTTAGGGTTTTTA--ATTAAA
* * * * **
44790563 TTA-ATTA-AG-TTAT-GTTAGGG
1 TTAGGTTAGGGTTTTTAATTA-AA
* * **
44790583 TT--TTTA--ATTTAATTAAGTTAGG
1 TTAGGTTAGGGTTT--TTAA-TTAAA
* *
44790605 TTAGGGTT---TTTAATTTAATTAAG
1 TTA-GGTTAGGGTT--TTTAATTAAA
* *
44790628 TTAGGTTAGGTTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790651 TTATGTTAGGGTTTTTAATTTAATTAA
1 TTAGGTTAGGGTTTTTAA-TT-A--AA
44790678 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 -TTAGGTTAGGGTTTTTAA-TT-A--AA
* *
44790706 GTTAGGTTAGGTTTTTTAATTAAG
1 -TTAGGTTAGGGTTTTTAATTAAA
*
44790730 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790753 TTAGGTTAGGG-TTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790775 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
44790798 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
44790821 TTAGGTTAGGGTTAGGGATTTTAATTAAA
1 TTAGGTTAGGG-T-----TTTTAATTAAA
* *
44790850 ATAGGTTAGGGTTAGGGTTTTCATGTAAATA
1 TTAGGTTAGGG-T----TTTTAAT-T-AA-A
*
44790881 GGTTAGGGTTGGGGTTTTTAATTAAA
1 --TTA-GGTTAGGGTTTTTAATTAAA
44790907 TTAGGTTA-GGTTAGGGATTTCAATTAAATTA
1 TTAGGTTAGGGTT-----TTT-AATT-AA--A
44790938 GGTTAGGGTTAGGGTTTTTAATTAAATTAAA
1 --TTA-GGTTAGGGTTTTTAATT-A----AA
* *
44790969 TTAGCTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44790992 TTATGTTAGGGTTTTTAATTTAATTAA
1 TTAGGTTAGGGTTTTTAA-TT-A--AA
*
44791019 GTTAGGTTAGGGTTTTTAATTAAG
1 -TTAGGTTAGGGTTTTTAATTAAA
*
44791043 TTATGTTAGGGTTTTTAATTTAATTAA
1 TTAGGTTAGGGTTTTTAA-TT-A--AA
*
44791070 GTTAGGTTAGGGTTTTTAATTAAG
1 -TTAGGTTAGGGTTTTTAATTAAA
44791094 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
44791117 TTAGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTTTTAATTAAA
*
44791140 TTATGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
44791163 TTAGGTTAGAGTTTTTAATTAAATTA
1 TTAGGTTAGGGTTTTTAATT-AA--A
44791189 GGTTAGGGTTAGGGTTTTTAATT-AA
1 --TTA-GGTTAGGGTTTTTAATTAAA
*
44791214 GTAGGGTTAGGG-TTTTAATT-AA
1 TTA-GGTTAGGGTTTTTAATTAAA
44791236 TTAGGTTAGGGTT
1 TTAGGTTAGGGTT
44791249 AGGGTTTTTT
Statistics
Matches: 1093, Mismatches: 105, Indels: 242
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.00
18 14 0.01
19 5 0.00
20 7 0.01
21 16 0.01
22 63 0.06
23 464 0.42
24 35 0.03
25 14 0.01
26 9 0.01
27 24 0.02
28 239 0.22
29 137 0.13
30 14 0.01
31 4 0.00
32 2 0.00
33 8 0.01
34 24 0.02
35 11 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:44789936 original size:28 final size:27
Alignment explanation
Indices: 44789904--44791257 Score: 1056
Period size: 28 Copynumber: 52.6 Consensus size: 27
44789894 TTACCACGTC
* *
44789904 GTTAGGTTAGGGTTTTCAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATT-AATTAA
44789932 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* *
44789961 ATTAGCTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44789984 GTTATGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790007 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790031 -TTAGGTTAGGGTTTTCAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790054 -TTAGGTTAGGG-TTTTAATTAAGT-A
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44790078 G---GGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790098 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790126 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790154 GTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790177 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790205 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790233 GTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790256 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44790280 -TTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790302 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
** *
44790326 -TTAGGTTAGGG--TTCCA--AATTAG
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790348 -----GTTAGGGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATT-AATTAA
* * *
44790371 GTTAGGGTTAGGGATTTTAATTAAAATAG
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* * *
44790400 GTTAGGGTTAGGG-TTTTCATGTAAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-T-AATTAA
* *
44790429 GTTAGGGTTGGGGTTTTTAATTAAATTAG
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* *
44790458 GTTAGAGTTAGGGTTTTCAATTAAATTAG
1 GTTAG-GTTAGGGTTTTTAATT-AATTAA
*
44790487 GTTAGGGTTAGAGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* * *
44790516 ATTAGCTTAGGGTTTTTAATTAAGTTAT
1 GTTAGGTTAGGGTTTTTAATTAA-TTAA
44790544 GTTAGGGTTTTTAGGG--TTT--TTAATTAA
1 GTTA-GG---TTAGGGTTTTTAATTAATTAA
*
44790571 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790599 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790627 GTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790650 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790678 GTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44790706 GTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790729 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44790753 -TTAGGTTAGGG-TTTTAATT-A---A
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790774 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790798 -TTAGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATT-AATTAA
* * *
44790825 GTTAGGGTTAGGGATTTTAATTAAAATAG
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* * *
44790854 GTTAGGGTTAGGG-TTTTCATGTAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-TAATTAA
* *
44790882 GTTAGGGTTGGGGTTTTTAATTAAATTAG
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* * *
44790911 GTTAGGTTAGGGATTTCAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATT-AATTAA
44790939 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATT-AATTAA
* *
44790968 ATTAGCTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44790991 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44791019 GTTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44791042 GTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTAA-TTAATTAA
44791070 GTTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44791093 GTTAGGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44791117 -TTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
*
44791139 GTTATGTTAGGGTTTTTAATT-A--AA
1 GTTAGGTTAGGGTTTTTAATTAATTAA
* *
44791163 -TTAGGTTAGAGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATT-AATTAA
*
44791190 GTTAGGGTTAGGGTTTTTAATTAAGT-A
1 GTTA-GGTTAGGGTTTTTAATTAATTAA
*
44791217 G---GGTTAGGG-TTTTAATTAATTAG
1 GTTAGGTTAGGGTTTTTAATTAATTAA
44791240 GTTAGGGTTAGGGTTTTT
1 GTTA-GGTTAGGGTTTTT
44791258 TAATCAAATA
Statistics
Matches: 1127, Mismatches: 80, Indels: 238
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.01
19 9 0.01
20 8 0.01
21 13 0.01
22 50 0.04
23 324 0.29
24 26 0.02
25 42 0.04
26 35 0.03
27 40 0.04
28 327 0.29
29 230 0.20
30 10 0.01
32 6 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (27 bp):
GTTAGGTTAGGGTTTTTAATTAATTAA
Found at i:44790299 original size:18 final size:18
Alignment explanation
Indices: 44790278--44790364 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 18
44790268 TTTTTAATTA
44790278 AATTAGGTTAGGGTTTTT
1 AATTAGGTTAGGGTTTTT
44790296 AATTAAGTTATGTTAGGGTTTTTAATT
1 AATT-AG----GTTAGGG--TTT--TT
***
44790323 AAATTAGGTTAGGGTTCCA
1 -AATTAGGTTAGGGTTTTT
44790342 AATTAGGTTAGGGTTTTT
1 AATTAGGTTAGGGTTTTT
44790360 AATTA
1 AATTA
44790365 AATTAGGTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 20
0.67 0.08 0.25
Matches are distributed among these distances:
18 24 0.45
19 2 0.04
21 2 0.04
23 14 0.26
25 3 0.06
27 4 0.08
28 4 0.08
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (18 bp):
AATTAGGTTAGGGTTTTT
Found at i:44791258 original size:51 final size:51
Alignment explanation
Indices: 44789904--44791261 Score: 961
Period size: 51 Copynumber: 26.4 Consensus size: 51
44789894 TTACCACGTC
*
44789904 GTTAGGTTAGGGTTTTCAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGTTAGGGTTTT---TT-AATTAAGTTA-GGTTAGGGTTTTTAATT-AATTAA
* * *
44789961 ATTAGCTTAGGG-TTTTTAATTAAGTTATGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* * *
44790007 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGGGTTTTCAATT-A--AA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
44790054 -TTAGGTTAGGG--TTTTAATTAAG-TAGGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTA-GGTTAGGGTTTTTAATTAATTAA
*
44790098 GTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAA-TTAATTAA
*
44790154 GTTAGGTTA-GGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAA-TTAATTAA
44790205 GTTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* *
44790256 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* * **
44790302 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGGG----T--TCCA--AA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* * * *
44790344 -TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAG
1 GTTAGGTTAGGG-TTTT--TT-AATTAAGTTA-GGTTAGGGTTTTTAATT-AATTAA
* * * *
44790400 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAG
1 GTTA-GGTTAGGGTTTT--T-T-AATTAAGTTA-GGTTAGGGTTTTTAATT-AATTAA
* *
44790458 GTTAGAGTTAGGGTTTTCAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAA
1 GTTAG-GTTAGGGTTTT---TT-AATTAAGTTA-GGTTAGGGTTTTTAATT-AATTAA
* * * *
44790516 ATTAGCTTAGGG-TTTTTAATTAAGTTATGTTAGGGTTTTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTA-----ATTAATTAA
*
44790571 GTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAA-TTAATTAA
*
44790627 GTTAGGTTA-GGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAA-TTAATTAA
44790678 GTTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGTTA-GG-TTTT--TTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* *
44790729 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGGG---TT--TTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* * *
44790774 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATT-AATTAA
* * * * *
44790825 GTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTCATGTAAATAG
1 GTTA-GGTTAGGG-TTTT--TT-AATTAAGTTA-GGTTAGGGTTTTTAAT-TAATTAA
* * * * *
44790882 GTTAGGGTTGGGGTTTTTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAG
1 GTTA-GGTTAGGG-TTTT--TT-AATTAAGTTAGGTTAGGGTTTTTAATT-AATTAA
* *
44790939 GTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGG--TTT--TTAATTAA
1 GTTA-GGTTAGGG-TTTT--TT-AATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
*
44790991 GTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
*
44791042 GTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGG--TTT--TTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
*
44791093 GTTAGGTTAGGG-TTTTTAATTAAATTAGGTTAGGG--TTT--TTAATTAA
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
* * * *
44791139 GTTATGTTAGGG-TTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATT-AATTAA
*
44791190 GTTAGGGTTAGGG-TTTTTAATTAAG-TAGGGTTAGGG-TTTTAATTAATTAG
1 GTTA-GGTTAGGGTTTTTTAATTAAGTTA-GGTTAGGGTTTTTAATTAATTAA
44791240 GTTAGGGTTAGGGTTTTTTAAT
1 GTTA-GGTTAGGGTTTTTTAAT
44791262 CAAATAATGT
Statistics
Matches: 1127, Mismatches: 83, Indels: 188
0.81 0.06 0.13
Matches are distributed among these distances:
41 12 0.01
42 3 0.00
43 5 0.00
44 7 0.01
45 75 0.07
46 198 0.18
47 16 0.01
48 13 0.01
49 5 0.00
50 25 0.02
51 298 0.26
52 71 0.06
53 16 0.01
54 19 0.02
55 25 0.02
56 86 0.08
57 121 0.11
58 104 0.09
59 2 0.00
60 26 0.02
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (51 bp):
GTTAGGTTAGGGTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAATTAA
Found at i:44793422 original size:14 final size:15
Alignment explanation
Indices: 44793405--44793438 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44793395 AATAAATATC
44793405 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
44793419 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
44793434 TAAAA
1 TAAAA
44793439 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:44793665 original size:22 final size:22
Alignment explanation
Indices: 44793635--44793676 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44793625 ATTTGGAGAT
*
44793635 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
44793657 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
44793677 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:44793706 original size:22 final size:22
Alignment explanation
Indices: 44793678--44793769 Score: 107
Period size: 22 Copynumber: 4.2 Consensus size: 22
44793668 ATTTGAGAGT
44793678 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* * *
44793700 ATAAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
44793722 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
44793744 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
44793766 TTGA
1 TTGA
44793770 TATTGAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.17
22 38 0.66
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:44793718 original size:52 final size:51
Alignment explanation
Indices: 44793626--44793728 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 51
44793616 TTAATATGGA
* * * * *
44793626 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAAATAAGAGAATTTTGGAAGGGAA-TTGAGAG
44793677 TTTGAGAGAATTTTGGAAGGAAAATAAGAGAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAAATAAGAG-AATTTTGGAAGGGAATTGAGAG
44793729 AATTTTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 4 0.09
52 31 0.70
53 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAAATAAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:44793727 original size:44 final size:44
Alignment explanation
Indices: 44793678--44793769 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
44793668 ATTTGAGAGT
* *
44793678 TTGAGAGAA-TTTTGGAAGGAAAATAAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AAATAAGAGAAATTTTGAAGGAAA
* * *
44793722 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAAATAAGAGAAATTTTGAAGGAAA
44793766 TTGA
1 TTGA
44793770 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 33 0.79
45 9 0.21
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.29
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAAATAAGAGAAATTTTGAAGGAAA
Found at i:44799344 original size:22 final size:22
Alignment explanation
Indices: 44799313--44799355 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44799303 AGCAAAGATC
* * *
44799313 AAAACGTGCTACGAAGTAGAGG
1 AAAACATGCTACAAAGCAGAGG
44799335 AAAACATGCTACAAAGCAGAG
1 AAAACATGCTACAAAGCAGAG
44799356 TGATTTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.12
Consensus pattern (22 bp):
AAAACATGCTACAAAGCAGAGG
Found at i:44802417 original size:21 final size:19
Alignment explanation
Indices: 44802380--44802454 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
44802370 AATCATATCT
44802380 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
44802399 TCCAAGATTGCATATATCATG
1 TCTAAGATTGC--ATATCATA
44802420 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44802439 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
44802455 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
21 17 0.34
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44807397 original size:20 final size:20
Alignment explanation
Indices: 44807369--44807415 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
44807359 TAGATACAAA
* *
44807369 TTTAATTTT-AGTTATTTTAT
1 TTTATTTTTCAGTTA-TTAAT
*
44807389 TTTATTTTTCGGTTATTAAT
1 TTTATTTTTCAGTTATTAAT
44807409 TTTATTT
1 TTTATTT
44807416 CAATTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTATTTTTCAGTTATTAAT
Found at i:44812958 original size:22 final size:21
Alignment explanation
Indices: 44812939--44812985 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
44812929 TTTTAAAATA
44812939 AAATAAACCTAAACTAAAAACCT
1 AAATAAA-CTAAACTAAAAA-CT
* *
44812962 AAATATACTAAACTAAAACCT
1 AAATAAACTAAACTAAAAACT
44812983 AAA
1 AAA
44812986 AATGGCTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAACTAAACTAAAAACT
Found at i:44815099 original size:29 final size:29
Alignment explanation
Indices: 44815061--44815252 Score: 131
Period size: 29 Copynumber: 6.6 Consensus size: 29
44815051 CCTTTCCGAA
44815061 GATAGCCACAAA-GCATTCCTTTTAACAGT
1 GATAGCCACAAAGGC-TTCCTTTTAACAGT
*
44815090 GATAGCCACAAAGGCTTCCTTTTAACAGA
1 GATAGCCACAAAGGCTTCCTTTTAACAGT
* * * * *
44815119 GAT-CCTCCCAAAGGCTTTCTTATAACAGA
1 GATAGC-CACAAAGGCTTCCTTTTAACAGT
* * * *
44815148 GATCGCCATAAAGGCTTCCTTATAACAGA
1 GATAGCCACAAAGGCTTCCTTTTAACAGT
* * * * *
44815177 GATCGCCATAAAGACATT-CTTTTAATAGA
1 GATAGCCACAAAGGC-TTCCTTTTAACAGT
* * * * *
44815206 GATCGCCACAAGGGCTTCCTTATAATAGA
1 GATAGCCACAAAGGCTTCCTTTTAACAGT
*
44815235 GGTCA-CCACAAAGGCTTC
1 GAT-AGCCACAAAGGCTTC
44815253 ATTTCAAAGG
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.02
29 130 0.94
30 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (29 bp):
GATAGCCACAAAGGCTTCCTTTTAACAGT
Found at i:44815197 original size:58 final size:57
Alignment explanation
Indices: 44815060--44815247 Score: 207
Period size: 58 Copynumber: 3.2 Consensus size: 57
44815050 TCCTTTCCGA
* * * *
44815060 AGATAGCCACAAAGCATTCCTTTTAACAGTGATAGCCACAAAGGCTTCCTTTTAACAG
1 AGATCGCCACAAAGCATT-CTTTTAACAGAGATCGCCACAAAGGCTTCCTTATAACAG
* * * *
44815118 AGATC-CTCCCAAAGGCTTTCTTATAACAGAGATCGCCATAAAGGCTTCCTTATAACAG
1 AGATCGC-CACAAA-GCATTCTTTTAACAGAGATCGCCACAAAGGCTTCCTTATAACAG
* * * *
44815176 AGATCGCCATAAAGACATTCTTTTAATAGAGATCGCCACAAGGGCTTCCTTATAATAG
1 AGATCGCCACAAAG-CATTCTTTTAACAGAGATCGCCACAAAGGCTTCCTTATAACAG
* *
44815234 AGGTCACCACAAAG
1 AGATCGCCACAAAG
44815248 GCTTCATTTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
57 2 0.02
58 100 0.93
59 5 0.05
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (57 bp):
AGATCGCCACAAAGCATTCTTTTAACAGAGATCGCCACAAAGGCTTCCTTATAACAG
Found at i:44815228 original size:87 final size:87
Alignment explanation
Indices: 44815066--44815252 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 87
44815056 CCGAAGATAG
* * * *
44815066 CCACAAA-GCATTCCTTTTAACAGTGATAGCCACAAAGGCTTCCTTTTAACAGAGATCCTCCCAA
1 CCACAAAGGC-TTCCTTATAACAGAGATAGCCACAAAGACTTCCTTTTAACAGAGATCCTCACAA
* *
44815130 AGGCTTTCTTATAACAGAGATCG
65 AGGCTTCCTTATAACAGAGATCA
* * * *
44815153 CCATAAAGGCTTCCTTATAACAGAGATCGCCATAAAGACATT-CTTTTAATAGAGATCGC-CACA
1 CCACAAAGGCTTCCTTATAACAGAGATAGCCACAAAGAC-TTCCTTTTAACAGAGATC-CTCACA
* * *
44815216 AGGGCTTCCTTATAATAGAGGTCA
64 AAGGCTTCCTTATAACAGAGATCA
44815240 CCACAAAGGCTTC
1 CCACAAAGGCTTC
44815253 ATTTCAAAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
87 78 0.94
88 5 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (87 bp):
CCACAAAGGCTTCCTTATAACAGAGATAGCCACAAAGACTTCCTTTTAACAGAGATCCTCACAAA
GGCTTCCTTATAACAGAGATCA
Found at i:44816527 original size:21 final size:21
Alignment explanation
Indices: 44816469--44816555 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
44816459 CTTGATCAGT
*
44816469 ATACGATACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
44816489 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
44816510 ATACGACACATAAAGTGCATGAG
1 ATACGACACATAAAGTGCCT--G
44816533 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
44816554 AT
1 AT
44816556 CGGCAGAGCC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
20 8 0.15
21 26 0.48
23 20 0.37
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:44816551 original size:44 final size:41
Alignment explanation
Indices: 44816469--44816555 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
44816459 CTTGATCAGT
* * * *
44816469 ATACGATACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCATGAAACGACACACAAAGTGCCTG
*
44816510 ATACGACACATAAAGTGCATGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCATGA-A-ACGACACACAAAGTGCCTG
44816554 AT
1 AT
44816556 CGGCAGAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 9 0.24
43 1 0.03
44 18 0.47
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCATGAAACGACACACAAAGTGCCTG
Found at i:44817747 original size:25 final size:25
Alignment explanation
Indices: 44817704--44817756 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
44817694 TATTATCTTA
44817704 ATTTTAATTAATATAA-TTTATAAT
1 ATTTTAATTAATATAATTTTATAAT
44817728 ATTTTAATTTAATA-ACATTTTTATAAT
1 ATTTTAA-TTAATATA-A-TTTTATAAT
44817755 AT
1 AT
44817757 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.32
25 7 0.28
27 10 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTAATTAATATAATTTTATAAT
Found at i:44828218 original size:113 final size:113
Alignment explanation
Indices: 44828020--44828230 Score: 404
Period size: 113 Copynumber: 1.9 Consensus size: 113
44828010 ATTTTATTAA
44828020 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
1 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
44828085 ATGCGTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
66 ATGCGTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
*
44828133 TCAAATGAGTCCTTCAATTTGAAGTGCCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
1 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
*
44828198 ATGCTTAAGTTGTTCAACTACCTTTATTAATAC
66 ATGCGTAAGTTGTTCAACTACCTTTATTAATAC
44828231 AATGAATCTT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 96 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (113 bp):
TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
ATGCGTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
Found at i:44828477 original size:18 final size:18
Alignment explanation
Indices: 44828450--44828484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44828440 GAAATGGTAT
44828450 TTGTTATTGTTATTATTA
1 TTGTTATTGTTATTATTA
* *
44828468 TTGTTGTTGTTGTTATT
1 TTGTTATTGTTATTATT
44828485 TTGCGTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (18 bp):
TTGTTATTGTTATTATTA
Found at i:44834499 original size:17 final size:18
Alignment explanation
Indices: 44834474--44834507 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44834464 TTTTTATTAA
44834474 TTTATATTTTTAAATATT
1 TTTATATTTTTAAATATT
*
44834492 TTTA-ATTTTTTAATAT
1 TTTATATTTTTAAATAT
44834508 ATGTTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATATTTTTAAATATT
Found at i:44837995 original size:10 final size:10
Alignment explanation
Indices: 44837973--44838005 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
44837963 TGCATGTATT
44837973 CAAA-ACTAC
1 CAAAGACTAC
*
44837982 CAAAGACTAT
1 CAAAGACTAC
44837992 CAAAGACTAC
1 CAAAGACTAC
44838002 CAAA
1 CAAA
44838006 CTTCTTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.55, C:0.27, G:0.06, T:0.12
Consensus pattern (10 bp):
CAAAGACTAC
Found at i:44843101 original size:5 final size:5
Alignment explanation
Indices: 44843093--44843125 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
44843083 AGCTGGGCTG
*
44843093 AGCTA AGCTA AGCTA AGCTA AGCAA AGC-A AGCT
1 AGCTA AGCTA AGCTA AGCTA AGCTA AGCTA AGCT
44843126 TCTGAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (5 bp):
AGCTA
Found at i:44845413 original size:2 final size:2
Alignment explanation
Indices: 44845408--44845432 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44845398 GAAAAAAAGG
44845408 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
44845433 CCCTCAAGTA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44849739 original size:44 final size:44
Alignment explanation
Indices: 44849684--44850991 Score: 1234
Period size: 44 Copynumber: 29.7 Consensus size: 44
44849674 TCAGTCTGCC
**
44849684 TCACTACCAATATAAAAAGACAGGATCTGCTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * ** *
44849729 TCACGCCAATACATGAAGATAATATCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * * * *
44849773 TCACGCCAATACATGAAGATAAGACCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44849817 TCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTTGATCCACT
1 TC-ACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
*
44849861 TC-CTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44849905 TCACGCCAATACATGAAGAC-GAGATCTGCTTTCTTCGATCCACT
1 TCACACCAATATAGGAAGACAG-GATCTGCTATCTTCGATCTACT
* * *
44849949 TC-CTACCAATATAGGAAGATATGATCTGCTATCTTCGATCCACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
*
44849993 TC-CTACCAATATAGGAAGACAGAATCTGCTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44850037 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * *
44850081 TCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACT
1 TC-ACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
*
44850125 TC-CTACCAATATAGGAAAACAGGATCTGCTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44850169 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44850213 TCACCACCAATATGGGAAGGCAAGATCTAC-ATCTTCGATCCACTT
1 TCA-CACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTAC-T
*
44850258 TC-TACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * **
44850301 TCACGCCGATACATTAAAGACAGGATCTGCTATCTTCGATCTACT
1 TCACACCAATATA-GGAAGACAGGATCTGCTATCTTCGATCTACT
* * * ** * *
44850346 TCACGCCGATACATAAAGATAGGATCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * *
44850390 TCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACT
1 TC-ACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* *
44850434 TC-CTACCAATATAGGAAGATAGGATCTGTTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * * *
44850478 TCACGCCAATACATGAAGAC-GAGATCTGCTTTCTTTGATCCACT
1 TCACACCAATATAGGAAGACAG-GATCTGCTATCTTCGATCTACT
* *
44850522 TC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCCACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
44850566 TC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * ** * *
44850610 TCACGCCAATACATGAAGACAATATATGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * *
44850654 TCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACT
1 TC-ACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * *
44850698 TC-CTACTAATATAGGAAAACAGAATCTGCTATCTTCGATCTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * *
44850742 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * * *
44850786 TCACCACCAATATGGGAAGGCAAGATTTAC-ATCTTCGATCCACT
1 TCA-CACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
*
44850830 TC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATTTACT
1 TCAC-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* * * * * *
44850874 TCACGCCGATACATGAAGACAGGATCTGCTTTCTTCTATCTACTT
1 TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTAC-T
* ** *
44850919 TGC-CACCAATATGGGAAGACAATATCTGC-ATCTTCGATCCACT
1 T-CACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
**
44850962 TCTTACCAATATAGGAAGACAGGATCTGCT
1 TCACACCAATATAGGAAGACAGGATCTGCT
44850992 TTTTTTGTGA
Statistics
Matches: 1041, Mismatches: 185, Indels: 75
0.80 0.14 0.06
Matches are distributed among these distances:
42 6 0.01
43 157 0.15
44 680 0.65
45 197 0.19
46 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
TCACACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
Found at i:44850160 original size:264 final size:263
Alignment explanation
Indices: 44849684--44850993 Score: 1372
Period size: 264 Copynumber: 5.0 Consensus size: 263
44849674 TCAGTCTGCC
** * * * * *
44849684 TCACTACCAATATAAAAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGA
1 TCAC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGA
* * * * * *
44849748 TA-ATATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGATAAGACCTGCTTTCTTCGAT
64 CAGA-ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAGGATCTGCTATCTTCGAT
* ** * *
44849812 CTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAG
128 CTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAG
* * * * *
44849875 GAAGACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACGAGATCTGCTTTCT
192 GAAGACAAGATCTG-CATCTTCGATCCACTTC-CTACCAATACAGGAAGAC-AGATCTGCTTTCT
*
44849939 TCGATCCACT
254 TCGATCTACT
* *
44849949 TC-CTACCAATATAGGAAGATATGATCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGAC
1 TCAC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGAC
* *
44850013 AGAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
65 AGAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAGGATCTGCTATCTTCGATCT
* ** *
44850078 ACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGA
130 ACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAGGA
* * * * *
44850141 AAACAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTC
194 AGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATACAGGAAGAC-AGATCTGCTTTCTTC
44850205 GATCTACT
256 GATCTACT
* * * *
44850213 TCACCACCAATATGGGAAGGCAAGATCTAC-ATCTTCGATCCACTTTCTACCAATATAGGAAGAC
1 TCA-CACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGAC
* * *
44850277 AGGATCTGCTATCTTCGATCTACTTCACGCCGATACATTAAAGACAGGATCTGCTATCTTCGATC
65 AGAATCTGCTATCTTCGATCTACTTCACGCCAATACA-TGAAGACAGGATCTGCTATCTTCGATC
* * ** * * * * *
44850342 TACTTCACGCCGATACATAAAGATAGGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGA
129 TACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAGGA
* *
44850407 AGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG-TTATCTTCG
194 AGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGGAAGACA-GATCTGCTT-TCTTCG
44850471 ATCTACT
257 ATCTACT
* * * * * *
44850478 TCACGCCAATACATGAAGACGAGATCTGCTTTCTTTGATCCACTTCCTACCAATATAGGAAGACA
1 TCACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGACA
* * * * * *
44850543 GGATCTGCTATCTTCAATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
66 GAATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAGGATCTGCTATCTTCGATCT
* * * * * * *
44850607 ACTTCACGCCAATACATGAAGACAATATATGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
130 ACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAA
* * * *
44850672 GACAAGATCTGCATCTTCGATCCACTTCCTACTAATATAGGAAAACAGAATCTGCTATCTTCGAT
195 GACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGGAAGACAG-ATCTGCTTTCTTCGAT
44850737 CTACT
259 CTACT
* * * * * * * *
44850742 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGGC
1 TCACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGAC
* * * * * *
44850807 A-AGATTTAC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGAT
65 AGA-ATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAGGATCTGCTATCTTCGAT
* * * * * * * * * *
44850869 TTACTTCACGCCGATACATGAAGACAGGATCTGCTTTCTTCTATCTACTTTGCCACCAATATGGG
128 CTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAGG
* * *
44850934 AAGACAATATCTGCATCTTCGATCCACTTCTTACCAATATAGGAAGACAGGATCTGCTTT
193 AAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGGAAGACA-GATCTGCTTT
44850994 TTTTGTGAGA
Statistics
Matches: 930, Mismatches: 97, Indels: 37
0.87 0.09 0.03
Matches are distributed among these distances:
263 2 0.00
264 705 0.76
265 199 0.21
266 24 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (263 bp):
TCACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGACA
GAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAGGATCTGCTATCTTCGATCTA
CTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAG
ACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGGAAGACAGATCTGCTTTCTTCGATCT
ACT
Found at i:44851640 original size:25 final size:26
Alignment explanation
Indices: 44851602--44851650 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44851592 GTGTCTTGAA
44851602 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
44851627 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
44851651 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:44877710 original size:8 final size:8
Alignment explanation
Indices: 44877663--44877690 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
44877653 AAGAAGAAGC
44877663 AAAAAACA
1 AAAAAACA
44877671 AAAAAACA
1 AAAAAACA
44877679 AAAAAACA
1 AAAAAACA
44877687 AAAA
1 AAAA
44877691 GAGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:44878109 original size:16 final size:16
Alignment explanation
Indices: 44878088--44878155 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
44878078 TTTGGTTCGC
*
44878088 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
44878104 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
44878120 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
44878136 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
44878152 TGTA
1 TGTA
44878156 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44878411 original size:18 final size:17
Alignment explanation
Indices: 44878390--44878424 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44878380 TTATTATTAA
*
44878390 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44878408 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44878425 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44878563 original size:157 final size:157
Alignment explanation
Indices: 44878277--44878593 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
44878267 TAGAATACCC
*
44878277 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
44878342 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
44878407 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
44878434 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
44878499 ATATCAATAATAAATAATTTAATCATATTTACACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
44878564 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
44878591 TTA
1 TTA
44878594 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:44878575 original size:14 final size:15
Alignment explanation
Indices: 44878536--44878577 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44878526 TTTACACATA
*
44878536 ATTATTATTAAATAT
1 ATTATAATTAAATAT
44878551 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
44878565 A-TATAATTTAATA
1 ATTATAATTAAATA
44878578 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:44878688 original size:18 final size:17
Alignment explanation
Indices: 44878667--44878701 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44878657 TTATTATTAA
*
44878667 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44878685 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44878702 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44878833 original size:120 final size:120
Alignment explanation
Indices: 44878531--44878822 Score: 557
Period size: 120 Copynumber: 2.4 Consensus size: 120
44878521 TCATATTTAC
*
44878531 ACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
1 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
44878596 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
44878651 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
1 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
44878716 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
* *
44878771 ACATAATTATTGTTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
44878823 TAAAATAATT
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 169 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
Found at i:44878960 original size:91 final size:91
Alignment explanation
Indices: 44878838--44879044 Score: 283
Period size: 91 Copynumber: 2.3 Consensus size: 91
44878828 TAATTATAAC
* * * * * *
44878838 TAATAAATTATATT-TATGAATTTGTATAATTTTAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
44878901 TAATATATAATTTCAGAAAATTCTTGA
65 TAATATATAATTTCAGAAAATTCTTAA
*
44878928 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
44878993 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCAGAAAATTCTTAA
*
44879019 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
44879045 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
90 12 0.12
91 68 0.66
92 23 0.22
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCAGAAAATTCTTAA
Found at i:44879019 original size:47 final size:46
Alignment explanation
Indices: 44878887--44879025 Score: 117
Period size: 47 Copynumber: 3.0 Consensus size: 46
44878877 TAATTATTAC
* * *
44878887 ATATAATTTAATAATAATATATAATTTCAGAAAATTCTTGATAATAA
1 ATATAATTTAAT-ATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
44878934 AT-T--TTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
44878978 ATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATA-TGATATATAATTTCATAAAATTCTTAATAATAA
44879025 A
1 A
44879026 ATGTTCTTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
44 19 0.28
45 13 0.19
46 14 0.21
47 22 0.32
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (46 bp):
ATATAATTTAATATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:44881729 original size:33 final size:33
Alignment explanation
Indices: 44881690--44881766 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
44881680 ATTATAAAGC
44881690 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
44881723 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
44881756 ATGTATAATTG
1 ATGTATAATTG
44881767 TTGGTGTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:44881766 original size:18 final size:18
Alignment explanation
Indices: 44881743--44881784 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
44881733 GACCTAAAAT
44881743 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
44881761 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
44881779 TAATTG
1 TAATTG
44881785 ACCTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TAATTGTTGGTGTATGTA
Found at i:44881769 original size:51 final size:51
Alignment explanation
Indices: 44881710--44881813 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
44881700 GACCTAAAAT
*
44881710 TAATTGTTGGTGTATGTATAATTGACCTAAAATTAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTATAATTGACCTAAAATTAATTGTTGGTATATGTA
44881761 TAATTGTTGGTGTATGTATAATTGACCTAAAATTAATTGTTGGTATATGTA
1 TAATTGTTGGTGTATGTATAATTGACCTAAAATTAATTGTTGGTATATGTA
44881812 TA
1 TA
44881814 TTTCAAGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (51 bp):
TAATTGTTGGTGTATGTATAATTGACCTAAAATTAATTGTTGGTATATGTA
Found at i:44883201 original size:71 final size:69
Alignment explanation
Indices: 44883063--44883204 Score: 196
Period size: 71 Copynumber: 2.0 Consensus size: 69
44883053 AATAAAGTTC
* *
44883063 CAGTTTCATATTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
1 CAGTTTCATATTCTACTCACTAACAAATAAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
44883128 AGAA
66 AGAA
* * * *
44883132 CAGTTTCATCTTCTACTCACTAACAAACTAAAATAACATTTTCCAGCAGACTATCAAAACAA-TG
1 CAGTTTCATATTCTACTCACTAACAAA-T-AAAGAACAATTTCCAGCAGACAATCAAAACAACTG
44883196 TCCAGAA
64 -CCAGAA
44883203 CA
1 CA
44883205 AACCAACAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
69 25 0.39
70 3 0.05
71 36 0.56
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.24
Consensus pattern (69 bp):
CAGTTTCATATTCTACTCACTAACAAATAAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
AGAA
Found at i:44883886 original size:36 final size:37
Alignment explanation
Indices: 44883793--44883924 Score: 160
Period size: 36 Copynumber: 3.6 Consensus size: 37
44883783 GTAAATCGGC
* *
44883793 AGAAAC-TGTGAGCAAATCGGCCGAAAAAGAAAAGAAA
1 AGAAACATGGGAGCAAATCGG-CAAAAAAGAAAAGAAA
*
44883830 AGAAACGAGGGGAGCAAATCGGCAAAAAAGAAAAGAAA
1 AGAAAC-ATGGGAGCAAATCGGCAAAAAAGAAAAGAAA
* * *
44883868 ATAAAC-TGGGAGCAAATCGGCAGAAAAGAAAAGCAA
1 AGAAACATGGGAGCAAATCGGCAAAAAAGAAAAGAAA
* *
44883904 AGAAACAAGGAAGCAAATCGG
1 AGAAACATGGGAGCAAATCGG
44883925 ATGAAGGTAG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
36 32 0.39
37 18 0.22
38 20 0.24
39 12 0.15
ACGTcount: A:0.55, C:0.13, G:0.27, T:0.06
Consensus pattern (37 bp):
AGAAACATGGGAGCAAATCGGCAAAAAAGAAAAGAAA
Found at i:44884257 original size:5 final size:5
Alignment explanation
Indices: 44884245--44884279 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
44884235 TTCACTTGAA
* *
44884245 AAAAG AAATG AAAAG AAAAA AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
44884280 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:44885579 original size:50 final size:50
Alignment explanation
Indices: 44885525--44885920 Score: 198
Period size: 50 Copynumber: 7.9 Consensus size: 50
44885515 TTACTCATAC
*
44885525 CCCTGAGGTTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTT
1 CCCTGAGGTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* * * * * * *
44885575 CCCTG-GCGATGCAGTGAAACAGATTGAAGCTACAACGGCAAATCTT-GTT
1 CCCTGAG-GTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* ** * *
44885624 CCCCGACATTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTT
1 CCCTGAGGTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-TT
* * * ** * * * * *
44885675 CCCTG-GCGGTGCAGTGGAGTAA-ATTAAAGCTACGACGGTGAATCTTGCTT
1 CCCTGAG-GTTGCAAT-TAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* ** * * *
44885725 CCCCGAAATTGCAATTTAAAATATTGAAGCCGCAACGGCGAATCTTACTT
1 CCCTGAGGTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* * * ** ** * ** * *
44885775 CTCT--GGTAGTACAGTGGAGCAGATTAAAGATACGACGGCGAATCTTGCTT
1 CCCTGAGGT--TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
** * *
44885825 -CCTCGATATTGCAATTTAAAAGATTGAAGCCATAACGGCGAATCTTACTT
1 CCCT-GAGGTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* ** * *
44885875 CCCTG-GCAG-TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTT
1 CCCTGAG--GTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTT
44885921 GTTCCCCGAT
Statistics
Matches: 242, Mismatches: 88, Indels: 32
0.67 0.24 0.09
Matches are distributed among these distances:
48 1 0.00
49 41 0.17
50 161 0.67
51 36 0.15
52 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
CCCTGAGGTTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
Found at i:44885836 original size:100 final size:99
Alignment explanation
Indices: 44885533--44885930 Score: 528
Period size: 100 Copynumber: 4.0 Consensus size: 99
44885523 ACCCCTGAGG
* * *
44885533 TTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTGGC-GATGCAGTGAAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAG-TGCAGTGGAACAG
* * *
44885597 ATTGAAGCTACAACGGCAAATCTTGTTCCCCGACA
65 ATTAAAGCTACAACGGCGAATCTTGTTCCCCGATA
* * ** *
44885632 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCCTGGCGGTGCAGTGGAGTAA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCAGTGCAGTGGAACAG
* * *
44885697 ATTAAAGCTACGACGGTGAATCTTGCTTCCCCGAAA
65 ATTAAAGCTACAACGGCGAATCTTG-TTCCCCGATA
* * * * * *
44885733 TTGCAATTTAAAATATTGAAGCCGCAACGGCGAATCTTACTTCTCTGGTAGTACAGTGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGA
* * *
44885798 TTAAAGATACGACGGCGAATCTTGCTTCCTCGATA
66 TTAAAGCTACAACGGCGAATCTTG-TTCCCCGATA
*
44885833 TTGCAATTTAAAAGATTGAAGCCATAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGA
*
44885898 TTGAAGCTACAACGGCGAATCTTGTTCCCCGAT
66 TTAAAGCTACAACGGCGAATCTTGTTCCCCGAT
44885931 GTAATACCCA
Statistics
Matches: 260, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
99 45 0.17
100 168 0.65
101 47 0.18
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (99 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGA
TTAAAGCTACAACGGCGAATCTTGTTCCCCGATA
Found at i:44889783 original size:28 final size:27
Alignment explanation
Indices: 44889750--44889847 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
44889740 TAATGAGATT
44889750 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
44889777 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
44889806 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
44889834 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
44889848 ATACTTATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 55 0.92
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:44890845 original size:22 final size:23
Alignment explanation
Indices: 44890820--44890925 Score: 101
Period size: 22 Copynumber: 4.7 Consensus size: 23
44890810 GCAATTTAAA
*
44890820 GCTG-CCAAATTTGATATATGAT
1 GCTGTCCAATTTTGATATATGAT
* * *
44890842 GCTGTCC-ATTTTAATGTATAAT
1 GCTGTCCAATTTTGATATATGAT
44890864 GCTGTCCAATTTTGAGTATATTGAT
1 GCTGTCCAATTTTGA-TATA-TGAT
* * *
44890889 GCTGTCC-ATTTTAATGTATAAT
1 GCTGTCCAATTTTGATATATGAT
*
44890911 GCTGTCAAATTTTGA
1 GCTGTCCAATTTTGA
44890926 GCATATTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
22 31 0.46
23 17 0.25
24 9 0.13
25 10 0.15
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.42
Consensus pattern (23 bp):
GCTGTCCAATTTTGATATATGAT
Found at i:44890893 original size:25 final size:23
Alignment explanation
Indices: 44890820--44890947 Score: 97
Period size: 22 Copynumber: 5.5 Consensus size: 23
44890810 GCAATTTAAA
*
44890820 GCTG-CCAAATTTGA-TATATGAT
1 GCTGTCCAATTTTGAGTATAT-AT
*
44890842 GCTGTCC-ATTTTAATGTATA-AT
1 GCTGTCCAATTTTGA-GTATATAT
44890864 GCTGTCCAATTTTGAGTATATTGAT
1 GCTGTCCAATTTTGAGTATA-T-AT
*
44890889 GCTGTCC-ATTTTAATGTATA-AT
1 GCTGTCCAATTTTGA-GTATATAT
* *
44890911 GCTGTCAAATTTTGAGCATATTATT
1 GCTGTCCAATTTTGAGTATA-TA-T
*
44890936 ACTGTCCAATTT
1 GCTGTCCAATTT
44890948 GATGAATAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
22 35 0.41
23 14 0.16
24 11 0.13
25 25 0.29
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (23 bp):
GCTGTCCAATTTTGAGTATATAT
Found at i:44890893 original size:47 final size:47
Alignment explanation
Indices: 44890820--44890967 Score: 187
Period size: 47 Copynumber: 3.2 Consensus size: 47
44890810 GCAATTTAAA
*
44890820 GCTG-CCAAATTTGA-TATA-TGATGCTGTCCATTTTAATGTATAAT
1 GCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAAT
44890864 GCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAAT
1 GCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAAT
* * * * * *
44890911 GCTGTCAAATTTTGAGCATATT-ATTACTGTCCAATTTGATGAATAATT
1 GCTGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTAATGTATAA-T
44890959 GCTGTCCAA
1 GCTGTCCAA
44890968 AACAGGGTTG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
44 4 0.04
45 9 0.10
46 5 0.05
47 64 0.70
48 9 0.10
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (47 bp):
GCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAAT
Found at i:44891831 original size:128 final size:128
Alignment explanation
Indices: 44891603--44891856 Score: 411
Period size: 128 Copynumber: 2.0 Consensus size: 128
44891593 GCTATACATT
* * *
44891603 ACAGATCTTATCTCTCTAAAGTTGCTGTAGAGTAGATCACATCCAGTCTTATCTCCCTAAGTAGT
1 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGT
44891668 AGTGGAGCAGACAAAAGAAACAAATCCTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAACC
66 AGTGGAGCAGACAAAAGAAACAAATCCTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAACC
* * *
44891731 ACAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
1 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGT
* * *
44891796 AGTGGAGCAGACAAAAGAAA-AGAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
66 AGTGGAGCAGACAAAAGAAACA-AATCCTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAA
44891857 TAATGAATCG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
127 1 0.01
128 115 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (128 bp):
ACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGT
AGTGGAGCAGACAAAAGAAACAAATCCTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAACC
Found at i:44891997 original size:44 final size:44
Alignment explanation
Indices: 44891916--44892001 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
44891906 TATATCAAAC
* * * *
44891916 CTTATCTCCCTGAAGTTGCAGTTGAGCAAGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGCTAAAGATACAAGT
44891960 CTTATCTCCCTGAAGTTACAGTGGAG-AAGACTAAAGATACAA
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAG-CTAAAGATACAA
44892002 ATCTCATCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAAGCTAAAGATACAAGT
Found at i:44895001 original size:20 final size:21
Alignment explanation
Indices: 44894969--44895009 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
44894959 ATTTACCGTT
44894969 CAACCCTTTTCATGTAAGCAC
1 CAACCCTTTTCATGTAAGCAC
44894990 CAACCC-TTTCATGTAAGCAC
1 CAACCCTTTTCATGTAAGCAC
44895010 TAACTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (21 bp):
CAACCCTTTTCATGTAAGCAC
Found at i:44895450 original size:9 final size:9
Alignment explanation
Indices: 44895436--44895460 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44895426 GTGCATTGGA
44895436 AAATAAAAG
1 AAATAAAAG
44895445 AAATAAAAG
1 AAATAAAAG
44895454 AAATAAA
1 AAATAAA
44895461 TAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:44897121 original size:42 final size:42
Alignment explanation
Indices: 44896967--44897107 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
44896957 GACCATGACT
* * * * *
44896967 TTTAGCGGCGCTTTTGCTACAAACGCCGCTATAGATCAGGATC
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGATCA-AACC
* * * * *
44897010 TTAAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTGAAGACC
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGATCAA-ACC
* * *
44897053 TTTAGTGACGTTTTTACCACAAACGCCGCTATAGAACAAACC
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGATCAAACC
44897095 TTTAGCGACGCTT
1 TTTAGCGACGCTT
44897108 CTTGCAAAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 14 0.17
43 66 0.82
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
TTTAGCGACGCTTTTACCACAAACGCCGCTATAGATCAAACC
Found at i:44901345 original size:17 final size:18
Alignment explanation
Indices: 44901312--44901345 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44901302 TATTTCTTAA
44901312 ATAATTTAAACTATATTC
1 ATAATTTAAACTATATTC
*
44901330 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
44901346 TAATTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTC
Found at i:44902052 original size:15 final size:15
Alignment explanation
Indices: 44902032--44902070 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
44902022 ACTCGACCAC
44902032 AAATCTCTAAACCCT
1 AAATCTCTAAACCCT
*
44902047 AAATCTCT-AACTCT
1 AAATCTCTAAACCCT
*
44902061 AAACCTCTAA
1 AAATCTCTAA
44902071 TCTCAAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATCTCTAAACCCT
Found at i:44902060 original size:21 final size:21
Alignment explanation
Indices: 44902031--44902090 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
44902021 AACTCGACCA
44902031 CAAATCTCTAAACCCTAAATCT
1 CAAA-CTCTAAACCCTAAATCT
*
44902053 CTAACTCTAAACCTCT-AATCT
1 CAAACTCTAAACC-CTAAATCT
44902074 CAAACTC-ATAACCCTAA
1 CAAACTCTA-AACCCTAA
44902091 TTACCGCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 3 0.09
21 25 0.76
22 5 0.15
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (21 bp):
CAAACTCTAAACCCTAAATCT
Found at i:44902227 original size:29 final size:30
Alignment explanation
Indices: 44902194--44902256 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
44902184 AACCCGACCA
*
44902194 TTAACCCTTAAATCC-T-AAACCCTGAACCC
1 TTAACCCTTAAA-CCTTAAAACCCTAAACCC
44902223 TTAA-CCTTAAACCTTAAAACCCTAAACCC
1 TTAACCCTTAAACCTTAAAACCCTAAACCC
*
44902252 ATAAC
1 TTAAC
44902257 GCATAACCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 2 0.07
28 8 0.28
29 19 0.66
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.24
Consensus pattern (30 bp):
TTAACCCTTAAACCTTAAAACCCTAAACCC
Found at i:44902251 original size:7 final size:7
Alignment explanation
Indices: 44902196--44902300 Score: 52
Period size: 7 Copynumber: 14.6 Consensus size: 7
44902186 CCCGACCATT
44902196 AACCCTTA
1 AACCC-TA
*
44902204 AATCCTA
1 AACCCTA
*
44902211 AACCCTG
1 AACCCTA
*
44902218 AACCCTT
1 AACCCTA
*
44902225 AACCTTA
1 AACCCTA
*
44902232 AACCTTAA
1 AACCCT-A
44902240 AACCCTA
1 AACCCTA
44902247 AACCC-A
1 AACCCTA
*
44902253 TAACGCATA
1 -AAC-CCTA
* *
44902262 ACCCCCA
1 AACCCTA
*
44902269 ACCCCT-
1 AACCCTA
44902275 AACCTCTA
1 AACC-CTA
*
44902283 ACCCCTA
1 AACCCTA
*
44902290 ACCCCTA
1 AACCCTA
44902297 AACC
1 AACC
44902301 TTATTTAATA
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
6 4 0.05
7 55 0.72
8 16 0.21
9 1 0.01
ACGTcount: A:0.37, C:0.43, G:0.02, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:44902264 original size:36 final size:35
Alignment explanation
Indices: 44902194--44902264 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
44902184 AACCCGACCA
* * *
44902194 TTAACCCTTAAATCCTAAACCCTGAACCCTTAACC
1 TTAAACCTTAAACCCTAAACCCTGAACCCATAACC
*
44902229 TTAAACCTTAAAACCCTAAACCCAT-AACGCATAACC
1 TTAAACCTT-AAACCCTAAACCC-TGAACCCATAACC
44902265 CCCAACCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 8 0.27
36 21 0.70
37 1 0.03
ACGTcount: A:0.39, C:0.35, G:0.03, T:0.23
Consensus pattern (35 bp):
TTAAACCTTAAACCCTAAACCCTGAACCCATAACC
Found at i:44902297 original size:14 final size:14
Alignment explanation
Indices: 44902260--44902297 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44902250 CCATAACGCA
*
44902260 TAACCCCCAACCCC
1 TAACCCCTAACCCC
*
44902274 TAACCTCTAACCCC
1 TAACCCCTAACCCC
44902288 TAACCCCTAA
1 TAACCCCTAA
44902298 ACCTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:44903007 original size:41 final size:41
Alignment explanation
Indices: 44902936--44903172 Score: 341
Period size: 41 Copynumber: 5.8 Consensus size: 41
44902926 TTTTATTATT
*
44902936 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGACCGAAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
*
44902976 ATTAGCGGCGCTTCTTCAAAAACGCCACTAAAGACCGGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
* *
44903017 ATTAGCGGCGCTTCTTCAAAAATGCCACTAAAGACCGGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
* * * *
44903058 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
* * **
44903099 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCCAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
* *
44903140 ATTAGCGGCGCTTTTTCTAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAG
44903173 GCCCCAAAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 13 0.07
41 169 0.93
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCGGAGC
Found at i:44903426 original size:20 final size:22
Alignment explanation
Indices: 44903403--44903450 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
44903393 TCTTTTTCAA
*
44903403 ATTTTTTTT-AAGAAA-TAACT
1 ATTTTTTTTAAAAAAATTAACT
44903423 ATTTTTTTTAAAAAAATTAACT
1 ATTTTTTTTAAAAAAATTAACT
44903445 ATTTTT
1 ATTTTT
44903451 GGTATAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
21 5 0.20
22 11 0.44
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTTTTTTTAAAAAAATTAACT
Found at i:44909919 original size:16 final size:15
Alignment explanation
Indices: 44909898--44909927 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
44909888 TAGTTTATTT
44909898 AAACCCTAAAACCCTA
1 AAACCCT-AAACCCTA
44909914 AAACCCTAAACCCT
1 AAACCCTAAACCCT
44909928 TAACACATAA
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:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:44909924 original size:7 final size:8
Alignment explanation
Indices: 44909898--44909927 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
44909888 TAGTTTATTT
44909898 AAACCCTA
1 AAACCCTA
44909906 AAACCCTA
1 AAACCCTA
44909914 AAACCCT-
1 AAACCCTA
44909921 AAACCCT
1 AAACCCT
44909928 TAACACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (8 bp):
AAACCCTA
Found at i:44909973 original size:7 final size:7
Alignment explanation
Indices: 44909963--44910073 Score: 68
Period size: 7 Copynumber: 15.7 Consensus size: 7
44909953 CCCCCGCCTT
44909963 TAAACCA
1 TAAACCA
44909970 TAAACCA
1 TAAACCA
*
44909977 TAAATCA
1 TAAACCA
* *
44909984 TAACCCC
1 TAAACCA
44909991 TAAACCCA
1 TAAA-CCA
*
44909999 TAATCCA
1 TAAACCA
*
44910006 TAAACCT
1 TAAACCA
44910013 TAAA--A
1 TAAACCA
*
44910018 TAGTAACTCT
1 TA--AAC-CA
44910028 TAAACCA
1 TAAACCA
44910035 TAAACTC-
1 TAAAC-CA
44910042 TAAACCA
1 TAAACCA
* *
44910049 TATACCC
1 TAAACCA
44910056 TAAACCA
1 TAAACCA
*
44910063 -AAACCT
1 TAAACCA
44910069 TAAAC
1 TAAAC
44910074 TATAGTGATA
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
5 2 0.03
6 6 0.08
7 59 0.76
8 9 0.12
10 2 0.03
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:44910480 original size:41 final size:41
Alignment explanation
Indices: 44910412--44910668 Score: 258
Period size: 41 Copynumber: 6.3 Consensus size: 41
44910402 CGCTAAAATA
44910412 GAGCATTAGCGGCGC--TTCCTTAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTTCC--AAAAACGCCGCTAAAGCCCT
* * * *
44910453 GAGCATTAGCGGCACTTTTCCATAAACGTCGCTAAAGAGCCT
1 GAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG-CCCT
*
44910495 -AGCATTAGCGGTGCTTTTCCAAAAACGCCGCTAAAGACCC-
1 GAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG-CCCT
* ** * **
44910535 AAGCATTAATGGCGCTTCTT-AAAAAATACCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-TTCCAAAAACGCCGCTAAAGCCCT
* *
44910576 GAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCT
1 GAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCT
* * *
44910617 G-GTCATTAGCGGCGTTTTTTCAAAAACGCCGCAAAAGCCCT
1 GAG-CATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCT
44910658 -ATGCATTAGCG
1 GA-GCATTAGCG
44910669 ACACTTTTTA
Statistics
Matches: 181, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
40 6 0.03
41 165 0.91
42 6 0.03
43 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCT
Found at i:44910641 original size:123 final size:122
Alignment explanation
Indices: 44910381--44910653 Score: 329
Period size: 123 Copynumber: 2.2 Consensus size: 122
44910371 AATATATTTT
* * * * *
44910381 GCGGCGTTTTTTAAAAAATGCCGCTAAA-ATAGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCT
1 GCGGCGTTTTTTCAAAAACGCCGCTAAAGACAGAGCATTAACGGCGCTTCCTTAAAAACACCGCT
* * *
44910445 AAAGCCCTGAGCATTAGCGGCACTTTTCCATAAACGTCGCTAAAGAGCCTAGCATTA
66 AAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAGCATTA
* * * * *
44910502 GCGGTGCTTTTCCAAAAACGCCGCTAAAGACCCA-AGCATTAATGGCGCTT-CTTAAAAAATACC
1 GCGGCGTTTTTTCAAAAACGCCGCTAAAGA--CAGAGCATTAACGGCGCTTCCTT-AAAAACACC
* * *
44910565 GCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCTGGTCATTA
63 GCTAAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAG-CATTA
*
44910625 GCGGCGTTTTTTCAAAAACGCCGCAAAAG
1 GCGGCGTTTTTTCAAAAACGCCGCTAAAG
44910654 CCCTATGCAT
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
121 23 0.18
122 9 0.07
123 94 0.74
124 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (122 bp):
GCGGCGTTTTTTCAAAAACGCCGCTAAAGACAGAGCATTAACGGCGCTTCCTTAAAAACACCGCT
AAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAGCATTA
Found at i:44910680 original size:123 final size:123
Alignment explanation
Indices: 44910440--44910683 Score: 312
Period size: 123 Copynumber: 2.0 Consensus size: 123
44910430 CTTAAAAACG
* * *
44910440 CCGCTAAAGCCCTGAGCATTAGCGGCACTTTTCCATAAACGTCGCTAAAGAGCCTAGCATTAGCG
1 CCGCTAAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAGCATTAGCG
* * * * *
44910505 GTGCTTTTCCAAAAACGCCGCTAAAGACCCAAGCATTAATGGCGCTTCTTAAAAAATA
66 GCGCTTTTCCAAAAACGCCGCAAAAGACCCAAGCATTAACGACACTTCTTAAAAAATA
* * *
44910563 CCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCTGGTCATTAGC
1 CCGCTAAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAG-CATTAGC
* * * * *
44910627 GGCGTTTTTTCAAAAACGCCGCAAAAG-CCCTATGCATTAGCGACACTTTTTAAAAAA
65 GGCGCTTTTCCAAAAACGCCGCAAAAGACCC-AAGCATTAACGACACTTCTTAAAAAA
44910684 ACGCCACTGA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 8 0.08
123 95 0.92
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (123 bp):
CCGCTAAAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCCTAGCATTAGCG
GCGCTTTTCCAAAAACGCCGCAAAAGACCCAAGCATTAACGACACTTCTTAAAAAATA
Found at i:44910840 original size:41 final size:39
Alignment explanation
Indices: 44910746--44910868 Score: 115
Period size: 41 Copynumber: 3.1 Consensus size: 39
44910736 TTGCGGCGCA
* * *
44910746 TTTT-GGAAAATGCCGCTAATGCTCATTTTTAGCGGCGT
1 TTTTCGGAAAACGCCGCTAATACTCATTTTTAGCGGCAT
*
44910784 TTTTCGGAAAACGCCGCTAATACTCATTCTTTAGTGGCAAT
1 TTTTCGGAAAACGCCGCTAATACTCATT-TTTAGCGGC-AT
** * * *
44910825 TTTT-TTAAAAGCGCCGCTAATGATTGATTTTTAGCGGCGT
1 TTTTCGGAAAA-CGCCGCTAAT-ACTCATTTTTAGCGGCAT
44910865 TTTT
1 TTTT
44910869 TATCCAAATG
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.06
39 21 0.30
40 17 0.24
41 23 0.33
42 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (39 bp):
TTTTCGGAAAACGCCGCTAATACTCATTTTTAGCGGCAT
Found at i:44910869 original size:41 final size:40
Alignment explanation
Indices: 44910732--44910869 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 40
44910722 TAGGCTTAGG
* ** *
44910732 TTTTTTGCGGCGCATTTTGGAAAATGCCGCTAATG-CTCA
1 TTTTTAGCGGCGTTTTTTGGAAAACGCCGCTAATGACTCA
*
44910771 TTTTTAGCGGCGTTTTTCGGAAAACGCCGCTAAT-ACTCA
1 TTTTTAGCGGCGTTTTTTGGAAAACGCCGCTAATGACTCA
* * * * *
44910810 TTCTTTAGTGGCAATTTTTT-TAAAAGCGCCGCTAATGATTGA
1 TT-TTTAGCGGC-GTTTTTTGGAAAA-CGCCGCTAATGACTCA
44910852 TTTTTAGCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
44910870 ATCCAAATGC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
39 35 0.43
40 18 0.22
41 23 0.28
42 5 0.06
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGGAAAACGCCGCTAATGACTCA
Found at i:44912258 original size:19 final size:19
Alignment explanation
Indices: 44912256--44912328 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
44912246 TTTAAAATAT
*
44912256 TTTTAAAATATTTCTTTAA
1 TTTTAAAATATTTTTTTAA
**
44912275 TTTTAAAATATTTTTAAAA
1 TTTTAAAATATTTTTTTAA
***
44912294 TACTTT-TTTTATTTTTTTAA
1 T--TTTAAAATATTTTTTTAA
44912314 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
44912329 AAAATACTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
18 3 0.08
19 24 0.60
20 10 0.25
21 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAAATATTTTTTTAA
Found at i:44912261 original size:11 final size:11
Alignment explanation
Indices: 44912245--44912301 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
44912235 ATTTTTTTAA
44912245 TTTTAAAATAT
1 TTTTAAAATAT
44912256 TTTTAAAATAT
1 TTTTAAAATAT
*
44912267 TTCTT----TAA
1 TT-TTAAAATAT
44912275 TTTTAAAATAT
1 TTTTAAAATAT
44912286 TTTTAAAATACT
1 TTTTAAAATA-T
44912298 TTTT
1 TTTT
44912302 TTATTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 4 0.11
11 25 0.66
12 7 0.18
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:44912268 original size:30 final size:30
Alignment explanation
Indices: 44912234--44912309 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
44912224 TAAACATATT
44912234 TATTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTAATTTTAAAATATTTTTAAAA
*
44912264 TATTTCTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTAATTTTAAAATATTTTTAAAA
*
44912294 TACTTTTTTTATTTTT
1 TA-TTTTTTTAATTTT
44912310 TTAATTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 31 0.74
31 11 0.26
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTTTTTTAATTTTAAAATATTTTTAAAA
Found at i:44912278 original size:39 final size:40
Alignment explanation
Indices: 44912266--44912347 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
44912256 TTTTAAAATA
*
44912266 TTTCTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAT
1 TTTCTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
44912306 TTT-TTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
1 TTTCTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
44912345 TTT
1 TTT
44912348 AAAATAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 38 0.93
40 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTCTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
Found at i:44915226 original size:20 final size:20
Alignment explanation
Indices: 44915183--44915225 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
44915173 TTACATTTTT
44915183 AAATTTTATTAATCTAGAAA
1 AAATTTTATTAATCTAGAAA
44915203 AAATGTTTATTAATCTAGAAA
1 AAAT-TTTATTAATCTAGAAA
44915224 AA
1 AA
44915226 TCAAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
AAATTTTATTAATCTAGAAA
Found at i:44916470 original size:11 final size:11
Alignment explanation
Indices: 44916456--44916496 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44916446 TGTTTTCTCC
44916456 CTATTTTGCTA
1 CTATTTTGCTA
*
44916467 CTATTTTACTA
1 CTATTTTGCTA
* *
44916478 TTATGTTGCTA
1 CTATTTTGCTA
44916489 CTATTTTG
1 CTATTTTG
44916497 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:44916568 original size:30 final size:30
Alignment explanation
Indices: 44916534--44916591 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
44916524 CTTATTTTAT
*
44916534 TGTTAATCTTGTTATTGTTTTAAAGGCAAA
1 TGTTAATCTTGTTATTATTTTAAAGGCAAA
*
44916564 TGTTAATTTTGTTATTATTTTAAAGGCA
1 TGTTAATCTTGTTATTATTTTAAAGGCA
44916592 TTTGCTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (30 bp):
TGTTAATCTTGTTATTATTTTAAAGGCAAA
Found at i:44916733 original size:11 final size:11
Alignment explanation
Indices: 44916717--44916747 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44916707 TATATACATT
44916717 TAAAAATTATA
1 TAAAAATTATA
*
44916728 TAAAAATAATA
1 TAAAAATTATA
44916739 TAAAAATTA
1 TAAAAATTA
44916748 ATACGGGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:44926954 original size:36 final size:35
Alignment explanation
Indices: 44926888--44926963 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 35
44926878 CATTATCATA
*
44926888 ATAACTTTATAATATAATATAATATAATATATATT
1 ATAACTTTATAATATAATATAAAATAATATATATT
44926923 ATAAGCTTTATAA-ATAATATAAAA-ACTATATATATT
1 ATAA-CTTTATAATATAATATAAAATA--ATATATATT
44926959 ATAAC
1 ATAAC
44926964 ATAATGCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 1 0.03
35 15 0.41
36 21 0.57
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (35 bp):
ATAACTTTATAATATAATATAAAATAATATATATT
Found at i:44935215 original size:44 final size:44
Alignment explanation
Indices: 44934937--44935222 Score: 169
Period size: 44 Copynumber: 6.6 Consensus size: 44
44934927 GATGCGATCT
* **
44934937 GCTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
* * * * * *
44934981 GCTCCACTACAACTTCTGGGAGATAGGAT-TATCGACTTCAATCTA
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTAATC-C
* * * ** *
44935026 G-TCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* ** * * * *
44935069 GCCCCACTGTGACTTTAGGGGGATAAGA-CT-TGT-TTTCTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTT-T-AATCC
* * * *
44935113 GCTCCACTGCAACTTTAGGGAGATAAGACCTGA-TGC---GATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* * *
44935154 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
*
44935198 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
44935223 GGATTATCGG
Statistics
Matches: 179, Mismatches: 47, Indels: 32
0.69 0.18 0.12
Matches are distributed among these distances:
40 1 0.01
41 32 0.18
42 3 0.02
43 6 0.03
44 131 0.73
45 5 0.03
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
Found at i:44935369 original size:128 final size:128
Alignment explanation
Indices: 44935213--44935825 Score: 913
Period size: 128 Copynumber: 4.8 Consensus size: 128
44935203 ACTACAACTT
* * * *
44935213 CAGGGAGATAGGA-TTATCGGCTTCAATATGCTCCCTTACACTTGAAGATAAGATTCGCCGTCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
44935277 CGATCTGCTACGCTACTGCTTAGGGAGACAAGGTCTGTAATTTCCAACCTACTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * *
44935341 TAGGGACATAGGACTTGTGGCTTAAATATTCTTCCTTACACTTGAAGATAAGATTCGCCATCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * * *
44935406 GATCTACTCCGCTATTGCTTAGGGAGACAAGATTTTTAATTTTCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * *
44935469 CAAGGACATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * *
44935534 GATCTACTCCGCTACTGCTTAGGGAGACAATATCTGTAATTTCCAACCTACTCCGCTACTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
44935597 CAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
44935662 GATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAGTTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * **
44935725 TAGGGAGATAAGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTACCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
44935790 GATCTGCTCCGCTACTACTTAGGGAGACAGGATCTG
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTG
44935826 CTATATTCAC
Statistics
Matches: 438, Mismatches: 46, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
128 435 0.99
129 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:44937083 original size:7 final size:7
Alignment explanation
Indices: 44937069--44937106 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
44937059 AGCCTCTCCA
44937069 TCATTTT
1 TCATTTT
*
44937076 TTATTTT
1 TCATTTT
44937083 TCATTTT
1 TCATTTT
44937090 CTC-TTTT
1 -TCATTTT
44937097 TCATTTT
1 TCATTTT
44937104 TCA
1 TCA
44937107 CACATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.07
7 23 0.85
8 2 0.07
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TCATTTT
Found at i:44937994 original size:32 final size:32
Alignment explanation
Indices: 44937958--44938018 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
44937948 TTTTTTTCTC
44937958 TTTTTCATATTTTT-ATTTTGACTTTGATTGAT
1 TTTTTC-TATTTTTGATTTTGACTTTGATTGAT
* *
44937990 TTTTTCTTTTTTTGCTTTTGACTTTGATT
1 TTTTTCTATTTTTGATTTTGACTTTGATT
44938019 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (32 bp):
TTTTTCTATTTTTGATTTTGACTTTGATTGAT
Found at i:44945907 original size:209 final size:208
Alignment explanation
Indices: 44945548--44945954 Score: 656
Period size: 209 Copynumber: 2.0 Consensus size: 208
44945538 CAATATTCAA
*
44945548 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* * * * *
44945613 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAGGCATCCTAAATTGCACTATTCGCTTTTTT
66 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
* *
44945678 ATAAGATCGAATTCATCAATGATAGACTCCATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
131 ATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
44945743 TGTCAAGTAAGTG
196 TGTCAAGTAAGTG
44945756 AAAAGAATAACTAATACTATAAT-AAAATATAAAAAAATATCATTATAATTCTAAAAATTAAATT
1 AAAAGAATAACTAATACTATAATAAAAATAT-AAAAAATATCATTATAATTCTAAAAATTAAATT
* *
44945820 AAAAAATACT-TGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCCTCCACTTT
65 AAAAAA-A-TGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTT
** *
44945884 TTCATAAGATCAAATTCATCAATGATAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGAT
128 TTCATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTCTCGAACTATCTCTTTTTCGAT
44945949 GTATGT
193 GTATGT
44945955 TACCAAGTAA
Statistics
Matches: 183, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
207 7 0.04
208 61 0.33
209 114 0.62
210 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (208 bp):
AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
ATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
TGTCAAGTAAGTG
Found at i:44950356 original size:51 final size:49
Alignment explanation
Indices: 44950242--44950406 Score: 240
Period size: 51 Copynumber: 3.3 Consensus size: 49
44950232 CTTATGTATG
** *
44950242 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTA-CACTT
44950292 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTA-CACTT
*
44950343 CTCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTAC-ACTT
*
44950394 ATCACTTGTCACT
1 ATCACTTGCCACT
44950407 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
50 36 0.34
51 69 0.66
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (49 bp):
ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACACTT
Found at i:44957957 original size:15 final size:15
Alignment explanation
Indices: 44957937--44957970 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
44957927 CACCTAATAA
44957937 AAACTAAAGTATTAT
1 AAACTAAAGTATTAT
44957952 AAACTAAAGTATTAT
1 AAACTAAAGTATTAT
44957967 AAAC
1 AAAC
44957971 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (15 bp):
AAACTAAAGTATTAT
Found at i:44965876 original size:50 final size:50
Alignment explanation
Indices: 44965783--44966064 Score: 210
Period size: 50 Copynumber: 5.6 Consensus size: 50
44965773 TTTCCTGTAC
* * * * * * **
44965783 TGCCAATGCCATATCCCAGATATGGTATTATATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * * * **
44965833 TGCCCATGTCATGTCCCATACATGGTCTCAAAGGGGACCTCTCATCCCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
44965883 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* **
44965933 TGCCAACGCCATGTCCCAGACATGGTCTTACTTGGGACCTCTCATAATCTCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TCGG
* * * * *
44965986 TGACCAATGCCATGTTCTAGACATGGTCTTACACT-GG--CTCACATATCGA
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCGG
* * * *
44966035 TGTCGATGCCATGTCCCAAACATGGTCTTA
1 TGCCAACGCCATGTCCCAGACATGGTCTTA
44966065 TATGAGATCG
Statistics
Matches: 186, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
48 23 0.12
49 5 0.03
50 119 0.64
51 1 0.01
52 6 0.03
53 3 0.02
54 28 0.15
55 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:44988726 original size:30 final size:31
Alignment explanation
Indices: 44988692--44988772 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 31
44988682 TTAATATTGC
* *
44988692 ATATTAATTG-ATGGAGTTTATTTTTAAAAG
1 ATATTAATTGAAGGGAGTTTATTTCTAAAAG
*
44988722 ATATTAATTGAAGGGAGTTTATTTCTAAAAAAA
1 ATATTAATTGAAGGGAGTTTATTTCT--AAAAG
*
44988755 AAATTAATTGAAGGGAGT
1 ATATTAATTGAAGGGAGT
44988773 CTGTTCAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 10 0.23
31 13 0.30
33 21 0.48
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (31 bp):
ATATTAATTGAAGGGAGTTTATTTCTAAAAG
Found at i:44988971 original size:18 final size:18
Alignment explanation
Indices: 44988948--44988983 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44988938 GTATAAAATT
44988948 TTAGGAGTTGAGGATTTA
1 TTAGGAGTTGAGGATTTA
44988966 TTAGGAGTTGAGGATTTA
1 TTAGGAGTTGAGGATTTA
44988984 AATGTAATGT
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:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (18 bp):
TTAGGAGTTGAGGATTTA
Found at i:44991036 original size:212 final size:211
Alignment explanation
Indices: 44990665--44991094 Score: 754
Period size: 212 Copynumber: 2.0 Consensus size: 211
44990655 CAATATTCAA
44990665 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* * *
44990730 AAAAAATGTGTCCTTAGTCCTATTTCTCAATACTAGGCATCCTAAATTGCACCATTCGCTTTTTC
66 AAAAAATGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTTTC
44990795 ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
131 ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
44990860 TGTCACCAAGTAAGTT
196 TGTCACCAAGTAAGTT
44990876 AAAAGAATAACTAATACTATACTAAAAATATAAAAAAATATCATTATAATTCTAAAAATTAAATT
1 AAAAGAATAACTAATACTATACTAAAAATAT-AAAAAATATCATTATAATTCTAAAAATTAAATT
*
44990941 AAAAAAACT-TGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCCTCCGCTTTT
65 AAAAAAA-TGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTT
* * *
44991005 TCATAAGTTTGAATTCATCAATGATAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATG
129 TCATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATG
*
44991070 TATGTTACCAAGTAAGTT
194 TATGTCACCAAGTAAGTT
*
44991088 GAAAGAA
1 AAAAGAA
44991095 AATCATCCTC
Statistics
Matches: 208, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
211 31 0.15
212 176 0.85
213 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (211 bp):
AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTTTC
ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
TGTCACCAAGTAAGTT
Found at i:44998052 original size:19 final size:19
Alignment explanation
Indices: 44998028--44998086 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
44998018 GTTCAGATTC
44998028 AATAAAAAAATAAAATCAA
1 AATAAAAAAATAAAATCAA
*
44998047 AATAAAAAAACAAAATCAA
1 AATAAAAAAATAAAATCAA
*
44998066 AA-AAAAAAATCAAAGTCAA
1 AATAAAAAAAT-AAAATCAA
44998085 AA
1 AA
44998087 GCAAAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 7 0.19
19 29 0.81
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (19 bp):
AATAAAAAAATAAAATCAA
Found at i:44998056 original size:14 final size:14
Alignment explanation
Indices: 44998039--44998079 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
44998029 ATAAAAAAAT
*
44998039 AAAATCAAAAT-AA
1 AAAAACAAAATCAA
44998052 AAAAACAAAATCAA
1 AAAAACAAAATCAA
44998066 AAAAA-AAAATCAA
1 AAAAACAAAATCAA
44998079 A
1 A
44998080 GTCAAAAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAACAAAATCAA
Found at i:44999898 original size:87 final size:87
Alignment explanation
Indices: 44999749--45000248 Score: 775
Period size: 87 Copynumber: 5.7 Consensus size: 87
44999739 GTGAAAATCA
* * * *
44999749 AAAACAAAGACTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACCAAATCTTACCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
44999814 GCGTTAACAGCGAAGCAGACCG
66 GCGTTAACAACGAAGCAGACCG
*
44999836 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCC
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
44999901 GCGTTAACAGCGAAGCAGACCA
66 GCGTTAACAACGAAGCAGACCG
* * * * *
44999923 AAAACAAAGCCTTGCCTCCATCTGCTGCAGTGGAGCTGGTTAAAGATAACAGATATTTCTTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
44999988 GCGTTAACATCGAAGCAAACCG
66 GCGTTAACAACGAAGCAGACCG
45000010 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
45000075 GCGTTAACAACGAAGCAAACTG
66 GCGTTAACAACGAAGCAGACCG
* *
45000097 AAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAAATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* * **
45000162 GTGTTAACAACGAAACAGATTG
66 GCGTTAACAACGAAGCAGACCG
* *
45000184 AAAACAAAGCCTTGCCTTCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
45000249 AAGCACTAGC
Statistics
Matches: 383, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 383 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
GCGTTAACAACGAAGCAGACCG
Found at i:45000710 original size:142 final size:142
Alignment explanation
Indices: 45000539--45001004 Score: 736
Period size: 142 Copynumber: 3.3 Consensus size: 142
45000529 AGAAAATAAG
* * *
45000539 TCTTATCCCCCTGAAGTTACAGTGGAGTAGATCGCAGT-AGATTGAAGCCAGAAATCTTATCTCC
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGATTGAAGCCAGAAATCTTATCTCC
* *
45000603 TTGAAATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACATTGGAGCGGA
65 TTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
*
45000668 TTAAAATAAAGGG
130 TTAAAATAAAGGA
* * * * *
45000681 TCTTATCTCTCTAAAGTTACAGTAAAGTAGATCGCATCAGTTTGAAGCCAGAAATCTCATCTCAT
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
* *
45000746 TGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCTATCTCCCTGAGATTACAGTGGAGTGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
45000811 TAAAATAAAGGA
131 TAAAATAAAGGA
*
45000823 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
* * * *
45000888 TGAGATTACAACGGAGCATATTGAAGCTAGTAATCTTATCTCCCTGAGAATACAGTGGAGCGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
*
45000953 TAATATAAAGGA
131 TAAAATAAAGGA
*
45000965 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAG
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
45001005 GTCTTATCTC
Statistics
Matches: 296, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 1 0.00
142 295 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
TAAAATAAAGGA
Found at i:45000830 original size:44 final size:44
Alignment explanation
Indices: 45000782--45001031 Score: 118
Period size: 44 Copynumber: 5.5 Consensus size: 44
45000772 CTAATAATCC
45000782 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCT
* * * * * *
45000826 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCT
1 TATCTCCCTGAGA-TTACAGT-G-G-AG-T-GGATTAAAAT-AA---AG-GATCT
** *** ** *
45000880 TATCTCCCTGAGATTACAACGGAGCATATTGAAGCT--AGTAATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATCT
* * *
45000924 TATCTCCCTGAGAATACAGTGGAGCGGATTAATATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCT
* * * ** *
45000968 TATCTCTCTGA-AGTTACAGTAGAGTAGATT-GCAT-CAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAGGATCT
45001009 TATCTCCCTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
45001032 ATAGACCGAA
Statistics
Matches: 154, Mismatches: 35, Indels: 37
0.68 0.15 0.16
Matches are distributed among these distances:
41 22 0.14
42 4 0.03
43 7 0.05
44 76 0.49
45 3 0.02
46 1 0.01
47 2 0.01
48 1 0.01
49 8 0.05
50 4 0.03
51 2 0.01
52 1 0.01
53 3 0.02
54 19 0.12
55 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCT
Found at i:45001125 original size:50 final size:50
Alignment explanation
Indices: 45001070--45001619 Score: 414
Period size: 50 Copynumber: 11.0 Consensus size: 50
45001060 TCCCAGGCGA
* * **
45001070 TGCAGTGGAACAGATTAAAGCCATATTGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
* ** * * * * * * * *
45001120 GGCAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCAG
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
* * * *
45001170 TGTAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * *
45001220 TGCAGTTAAAAAGATTAAAGCCACAGCGGTGAATCTTACTT-CTCTAGCGA-
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA-C-AT
** * *
45001270 TGCAGCAGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * * *
45001320 TGCAGTTAAAAAGATTAAAACCACAGCGGT-AACTCTTACTT-CTCTAGCGA-
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAA-TCTTGCTTCCCCGA-C-AT
* *
45001370 TGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * * *
45001420 TGCAGTTAAAAAGATTAAAACCACAGCGGT-AACTCTTACTT-CTCTAGCGA-
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAA-TCTTGCTTCCCCGA-C-AT
* * * **
45001470 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTAACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * * * **
45001520 TGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACTTCCCTGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
* * *
45001570 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTGCCTGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
45001620 CACAGTTAAG
Statistics
Matches: 378, Mismatches: 106, Indels: 32
0.73 0.21 0.06
Matches are distributed among these distances:
49 16 0.04
50 347 0.92
51 15 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
Found at i:45001635 original size:100 final size:99
Alignment explanation
Indices: 45001066--45001628 Score: 743
Period size: 100 Copynumber: 5.6 Consensus size: 99
45001056 ATTTTCCCAG
* * * * *
45001066 GCGATGCAGTGGAACAGATTAAAGCCATATTGGTGAATCTTGCTTCCCCGACATGGCAGTTCAAA
1 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * *
45001131 AGATTAAAGCTACAACAGCGAATCTTACCTCCC-A
66 AGATTAAAGCCACAGC-GGGAATCTTACTTCCCTA
* * *
45001165 G-GCAGTGTAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAA
1 GCG-A-TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAA
*
45001229 AAAGATTAAAGCCACAGCGGTGAATCTTACTTCTCTA
64 AAAGATTAAAGCCACAGCGG-GAATCTTACTTCCCTA
* *
45001266 GCGATGCAGCAGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
45001331 AGATTAAAACCACAGCGGTAACTCTTACTTCTCTA
66 AGATTAAAGCCACAGCGGGAA-TCTTACTTCCCTA
*
45001366 GCGATGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
45001431 AGATTAAAACCACAGCGGTAACTCTTACTTCTCTA
66 AGATTAAAGCCACAGCGGGAA-TCTTACTTCCCTA
**
45001466 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTAACATTGCAGTTAAAA
1 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
** *
45001531 AGATTAAAGCCACAATGGCGAATCTTACTTCCCTG
66 AGATTAAAGCCACAGCGG-GAATCTTACTTCCCTA
* * * * * **
45001566 GCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTGCCTGACATCACAGTTAA
1 GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAA
45001629 GCAGATTTAC
Statistics
Matches: 420, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
98 1 0.00
99 5 0.01
100 408 0.97
101 5 0.01
102 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (99 bp):
GCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
AGATTAAAGCCACAGCGGGAATCTTACTTCCCTA
Found at i:45002636 original size:14 final size:14
Alignment explanation
Indices: 45002617--45002645 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45002607 GGAGTTGAAG
45002617 TTTTTTTATTTTAT
1 TTTTTTTATTTTAT
45002631 TTTTTTTATTTTAT
1 TTTTTTTATTTTAT
45002645 T
1 T
45002646 CTGGTTGATA
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTAT
Found at i:45007282 original size:17 final size:16
Alignment explanation
Indices: 45007260--45007293 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45007250 GGGGATGGAG
45007260 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
45007277 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
45007293 T
1 T
45007294 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:45023388 original size:45 final size:45
Alignment explanation
Indices: 45023324--45023417 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
45023314 AATAGATACT
* *
45023324 CGGTGGATTCAGCACATAGCAACCACCTGATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
* * *
45023369 CGGTGGAATCAGCATATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
45023414 CGGT
1 CGGT
45023418 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
Found at i:45037195 original size:19 final size:20
Alignment explanation
Indices: 45037157--45037196 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
45037147 AGCGTTCGAT
*
45037157 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
*
45037177 AACTC-AGATAAAATCAAAA
1 AACTCAAGATAAAATAAAAA
45037196 A
1 A
45037197 TCATACTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:45037195 original size:20 final size:20
Alignment explanation
Indices: 45037157--45037196 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45037147 AGCGTTCGAT
*
45037157 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
45037177 AACTC-AGATAAAATCAAAAA
1 AACTCAAGATAAAAT-AAAAA
45037197 TCATACTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:45047372 original size:8 final size:8
Alignment explanation
Indices: 45047359--45047387 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
45047349 TTTTAAATGA
45047359 TATTTTAT
1 TATTTTAT
45047367 TATTTTAT
1 TATTTTAT
45047375 TATTTTAT
1 TATTTTAT
45047383 TATTT
1 TATTT
45047388 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:45051542 original size:29 final size:29
Alignment explanation
Indices: 45051500--45051557 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45051490 GGGAAGGGTC
45051500 CATGAAATAATTTCTCATTATTACAGTAT
1 CATGAAATAATTTCTCATTATTACAGTAT
45051529 CATGAAATAATTTCTCATTATTACAGTAT
1 CATGAAATAATTTCTCATTATTACAGTAT
45051558 TAAAAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
CATGAAATAATTTCTCATTATTACAGTAT
Found at i:45056006 original size:17 final size:17
Alignment explanation
Indices: 45055984--45056017 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45055974 CACTAACATT
*
45055984 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
45056001 AAAATGCAACGACAATA
1 AAAATGCAACGACAATA
45056018 TGCACAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:45064488 original size:34 final size:34
Alignment explanation
Indices: 45064445--45064518 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
45064435 AATACCAATA
* **
45064445 ATCAGTAGGGCCTTTGGCCAATTTCAGTAATAG-T
1 ATCAGTAGGGCC-TTAGCCAATAACAGTAATAGAT
*
45064479 ATCAGTAGGGCCTTAGCCCATAACAGTAATAGAT
1 ATCAGTAGGGCCTTAGCCAATAACAGTAATAGAT
45064513 ATCAGT
1 ATCAGT
45064519 CATGCAGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (34 bp):
ATCAGTAGGGCCTTAGCCAATAACAGTAATAGAT
Found at i:45065014 original size:27 final size:28
Alignment explanation
Indices: 45064980--45065211 Score: 219
Period size: 27 Copynumber: 8.6 Consensus size: 28
45064970 GGGTTATAAC
45064980 AGTCATTTTACCCTATGGGGGTATTTCG
1 AGTCATTTTACCCTATGGGGGTATTTCG
* *
45065008 A-TTATTTTACCTTATGGGGGTATTTC-
1 AGTCATTTTACCCTATGGGGGTATTTCG
* * * *
45065034 AGTTATTCTACCCTATAGGGGTATTT-T
1 AGTCATTTTACCCTATGGGGGTATTTCG
*
45065061 AGTCATTTTACCCTATGAGGGTATTTC-
1 AGTCATTTTACCCTATGGGGGTATTTCG
* *
45065088 AGTCATTTTACCCTATAGGGGTATTTTG
1 AGTCATTTTACCCTATGGGGGTATTTCG
* ** *
45065116 -GTTATTTTACCCTAACGGGGTATTT-T
1 AGTCATTTTACCCTATGGGGGTATTTCG
* * *
45065142 AGTCATTTTACCCTATGGAGGCATTTTG
1 AGTCATTTTACCCTATGGGGGTATTTCG
** **
45065170 -GTCATTTTACTTTATACGGGTATTTCG
1 AGTCATTTTACCCTATGGGGGTATTTCG
*
45065197 A-TTATTTTACCCTAT
1 AGTCATTTTACCCTAT
45065212 TTTAGGGTCT
Statistics
Matches: 165, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.01
27 163 0.99
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (28 bp):
AGTCATTTTACCCTATGGGGGTATTTCG
Found at i:45065055 original size:54 final size:54
Alignment explanation
Indices: 45064979--45065211 Score: 247
Period size: 54 Copynumber: 4.3 Consensus size: 54
45064969 GGGGTTATAA
* * * *
45064979 CAGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCTTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGGTATTT
* * *
45065033 CAGTTATTCTACCCTATAGGGGTATTTT-AGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTTTGA-TCATTTTACCCTATGGGGGTATTT
* * **
45065087 CAGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACCCTAACGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGGTATTT
* * * ** **
45065141 TAGTCATTTTACCCTAT-GGAGGCATTTTGGTCATTTTACTTTATACGGGTATTT
1 CAGTCATTTTACCCTATAGG-GGTATTTTGATCATTTTACCCTATGGGGGTATTT
*
45065195 C-GATTATTTTACCCTAT
1 CAG-TCATTTTACCCTAT
45065212 TTTAGGGTCT
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.03
54 147 0.97
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (54 bp):
CAGTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGGTATTT
Found at i:45065120 original size:81 final size:80
Alignment explanation
Indices: 45064980--45065211 Score: 297
Period size: 81 Copynumber: 2.9 Consensus size: 80
45064970 GGGTTATAAC
* * * *
45064980 AGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCTTATGGGGGTATTTCAGTTATTCTAC
1 AGTCATTTTACCCTAT-GGGGTATTTCG-TCATTTTACCTTATAGGGGTATTTCGGTTATTTTAC
45065045 CCTATA-GGGGTATTTT
64 CCTATACGGGGTATTTT
* *
45065061 AGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTAC
1 AGTCATTTTACCCTATG-GGGTATTTC-GTCATTTTACCTTATAGGGGTATTTCGGTTATTTTAC
45065126 CCTA-ACGGGGTATTTT
64 CCTATACGGGGTATTTT
* * * * *
45065142 AGTCATTTTACCCTATGGAGGCATTTTGGTCATTTTACTTTATACGGGTATTTCGATTATTTTAC
1 AGTCATTTTACCCTATGG-GGTA-TTTCGTCATTTTACCTTATAGGGGTATTTCGGTTATTTTAC
45065207 CCTAT
64 CCTAT
45065212 TTTAGGGTCT
Statistics
Matches: 132, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.02
81 125 0.95
82 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (80 bp):
AGTCATTTTACCCTATGGGGTATTTCGTCATTTTACCTTATAGGGGTATTTCGGTTATTTTACCC
TATACGGGGTATTTT
Found at i:45066672 original size:17 final size:16
Alignment explanation
Indices: 45066650--45066682 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
45066640 TCAATGTCTC
45066650 CCTACAGTTTCCAGTTT
1 CCTACAGTTT-CAGTTT
45066667 CCTACAGTTTCAGTTT
1 CCTACAGTTTCAGTTT
45066683 ACTCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (16 bp):
CCTACAGTTTCAGTTT
Found at i:45067816 original size:27 final size:27
Alignment explanation
Indices: 45067783--45068341 Score: 678
Period size: 27 Copynumber: 20.6 Consensus size: 27
45067773 GGGTATAACA
* *
45067783 ATCATTTTACCCAATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
45067810 ATTATTTTACCTTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
45067837 GTTATTCTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
45067864 ATCATTTTATCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
45067891 ATCATTTTACCCTATGGGGTTATTTTGTATTTC-
1 ATCATTTTACCCTATGGGG-------GTATTTCG
* * *
45067924 AGTCATTTTACCCTGTGAGGGTCTTTCG
1 A-TCATTTTACCCTATGGGGGTATTTCG
* *
45067952 GTCATTTTACCCTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
45067979 GTCATTTTAACCTATAGGGGTATTTCTG
1 ATCATTTTACCCTATGGGGGTATTTC-G
*
45068007 -TCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
45068033 GTCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
45068060 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
45068087 GTCATTTTACCCTAT-GGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
*
45068113 ATCATTTTACCCTATGGGGATATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * * **
45068140 GTTATTTTACCTTATGGGGGTATTTTA
1 ATCATTTTACCCTATGGGGGTATTTCG
*
45068167 ATCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
45068194 GTCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
45068221 ATCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
45068248 ATCATTTTACCCTAT--GGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
45068273 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
45068300 GTCATTTTACCTTATGGGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
45068327 ATCATTTTACCCTAT
1 ATCATTTTACCCTAT
45068342 TTTAAGGTAT
Statistics
Matches: 458, Mismatches: 60, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
25 24 0.05
26 25 0.05
27 384 0.84
28 1 0.00
33 1 0.00
34 23 0.05
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:45080116 original size:13 final size:13
Alignment explanation
Indices: 45080100--45080125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45080090 ATTTATTAAA
45080100 ATTAATAATTTAT
1 ATTAATAATTTAT
45080113 ATTAATAATTTAT
1 ATTAATAATTTAT
45080126 TATATGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATAATTTAT
Done.