Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1341443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:7226 original size:8 final size:8
Alignment explanation
Indices: 7213--7240 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7203 AGATTCTCCC
7213 ATATGTAT
1 ATATGTAT
7221 ATATGTAT
1 ATATGTAT
7229 ATATGTAT
1 ATATGTAT
7237 ATAT
1 ATAT
7241 CTTCTTTTTC
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:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:11803 original size:53 final size:55
Alignment explanation
Indices: 11717--12032 Score: 419
Period size: 53 Copynumber: 5.9 Consensus size: 55
11707 CAACAATTAT
*
11717 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
* *
11772 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
* * * * * *
11825 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
* * * *
11878 TGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTAA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
* * * * *
11933 TGAAGGTTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
*
11986 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
12033 ACGGTTATTG
Statistics
Matches: 232, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
53 143 0.62
54 4 0.02
55 85 0.37
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
Found at i:11992 original size:161 final size:163
Alignment explanation
Indices: 11716--12034 Score: 498
Period size: 161 Copynumber: 2.0 Consensus size: 163
11706 CCAACAATTA
* *
11716 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG
1 TTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTAATGAAGATTG
* * * *
11781 TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTAT
66 TGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGTTCGAGTCTCAT
* *
11844 ACTCTCTGAAGATATAGGGGGCAGACACAATCG
131 ACTCTCTGAAGAAATAGGGAGCAGACACAATCG
* * * *
11877 TTGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTAATGAAGGTTG
1 TTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTAATGAAGATTG
* *
11942 TGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCAT
66 TGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGTTCGAGTCTCAT
12007 ACTCTCTGAAGAAATAGGGAGCAGACAC
131 ACTCTCTGAAGAAATAGGGAGCAGACAC
12035 GGTTATTGAA
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 108 0.76
162 1 0.01
163 33 0.23
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (163 bp):
TTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTAATGAAGATTG
TGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGTTCGAGTCTCAT
ACTCTCTGAAGAAATAGGGAGCAGACACAATCG
Found at i:12045 original size:108 final size:108
Alignment explanation
Indices: 11712--12047 Score: 471
Period size: 108 Copynumber: 3.1 Consensus size: 108
11702 TTTCCCAACA
* * * *
11712 ATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAG
1 ATTATTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAG
* *
11777 ATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCA
64 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCG
* * *
11820 ATTGA-TGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGA
1 ATT-ATTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGA
*
11884 TCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCG
65 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCG
* * *
11928 ATTAATGAAGGTTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAT
1 ATTATTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGAT
* * *
11993 TGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG
66 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCG
*
12036 GTTATTGAAGAT
1 ATTATTGAAGAT
12048 ATTCGAGTTC
Statistics
Matches: 202, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
106 44 0.22
107 3 0.01
108 154 0.76
109 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (108 bp):
ATTATTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGAT
TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCG
Found at i:12582 original size:2 final size:2
Alignment explanation
Indices: 12575--12669 Score: 120
Period size: 2 Copynumber: 47.0 Consensus size: 2
12565 TGTAGTCATG
* * ** *
12575 TA TA TA TA TA TA TA TA -A GTA TT TA TG GG TA TA TGA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA
12618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12660 TA TA TA TA TA
1 TA TA TA TA TA
12670 CGTATGCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
1 1 0.01
2 79 0.96
3 2 0.02
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15929 original size:60 final size:59
Alignment explanation
Indices: 15830--16035 Score: 232
Period size: 60 Copynumber: 3.4 Consensus size: 59
15820 TCTTCTGGTG
* * * *
15830 GAAATTGGAAAATGTTCAAAAAGTTTGGGGACCAATTTAGGATGAAGGTCATAGTTTGGGGAT
1 GAAATT-G-AAATGTT-AAAAAGTTTGAGGACTACTTTAGAATGAA-GTCATAGTTTGGGGAT
* *
15893 GAAATTGAAATGTTAAAAAGTTTGAGGACTACTTTAGAATGGTAGTCGTAGTTTGGGGAT
1 GAAATTGAAATGTTAAAAAGTTTGAGGACTACTTTAGAAT-GAAGTCATAGTTTGGGGAT
* * * *
15953 GAAATTGAAATTTTCAAAAGTTCGAGGACTACTGTAGAATGATAGTCATAGTTTGGGGAT
1 GAAATTGAAATGTTAAAAAGTTTGAGGACTACTTTAGAATGA-AGTCATAGTTTGGGGAT
* * * *
16013 GGAATTAAAATATTAGAAAGTTT
1 GAAATTGAAATGTTAAAAAGTTT
16036 AGAGACCAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 106 0.86
61 9 0.07
62 1 0.01
63 6 0.05
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (59 bp):
GAAATTGAAATGTTAAAAAGTTTGAGGACTACTTTAGAATGAAGTCATAGTTTGGGGAT
Found at i:21417 original size:19 final size:20
Alignment explanation
Indices: 21374--21421 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
21364 TCTAAATCCT
*
21374 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
21394 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
21413 TTTTCAAAA
1 TTTTCAAAA
21422 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:22308 original size:31 final size:33
Alignment explanation
Indices: 22273--22336 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
22263 CTTACAAACC
* *
22273 CCCTAG-TTTTTC-CGGGCTAAACTAGAACCTT
1 CCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
22304 CCCTAGCTTTTACACGGGATTAACTAGAACCTT
1 CCCTAGCTTTTACACGGGATAAACTAGAACCTT
22337 TCCCCTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 6 0.21
32 5 0.18
33 17 0.61
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (33 bp):
CCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:35551 original size:13 final size:13
Alignment explanation
Indices: 35533--35570 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
35523 AATATTAATC
35533 AAAGTCAAT-GATT
1 AAAGTCAATAG-TT
*
35546 AAAGTCGATAGTT
1 AAAGTCAATAGTT
35559 AAAGTCAATAGT
1 AAAGTCAATAGT
35571 CAATGATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (13 bp):
AAAGTCAATAGTT
Found at i:45841 original size:12 final size:12
Alignment explanation
Indices: 45824--45848 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45814 ATTCATGTAA
45824 ACAATGCTAAAC
1 ACAATGCTAAAC
45836 ACAATGCTAAAC
1 ACAATGCTAAAC
45848 A
1 A
45849 ACACGCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAATGCTAAAC
Found at i:71603 original size:32 final size:32
Alignment explanation
Indices: 71562--71626 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
71552 ACGAAAATTA
71562 TGGCCCAAGCGAAAAATTGCTAGAAGAGGATT
1 TGGCCCAAGCGAAAAATTGCTAGAAGAGGATT
71594 TGGCCCAAGCGAAAAATTGCTAGAAGAGGATT
1 TGGCCCAAGCGAAAAATTGCTAGAAGAGGATT
71626 T
1 T
71627 TGATAATTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (32 bp):
TGGCCCAAGCGAAAAATTGCTAGAAGAGGATT
Found at i:74803 original size:11 final size:11
Alignment explanation
Indices: 74787--74816 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
74777 TTTTGTTTTA
74787 TTTTATTTTCT
1 TTTTATTTTCT
*
74798 TTTTATTTTGT
1 TTTTATTTTCT
74809 TTTTATTT
1 TTTTATTT
74817 GGCATGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTATTTTCT
Found at i:83198 original size:79 final size:79
Alignment explanation
Indices: 83056--83297 Score: 349
Period size: 79 Copynumber: 3.1 Consensus size: 79
83046 ACGAATTATC
* * ** *
83056 AAAATAATAATGCATAGGGGTGCATTATTGGCATGAAAGGATGCCTTAGCTTAAATGCATATGGG
1 AAAAGAATAACGCATATAGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
* *
83121 TGCATTATTGGCAT
66 TGCATTATCGACAT
* *
83135 AAAAGAATAGCGCATATAGGTGTATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
1 AAAAGAATAACGCATATAGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
83200 TGCATTATCGACAT
66 TGCATTATCGACAT
* * ** *
83214 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGTTGAAATGCATATGGG
1 AAAAGAATAACGCATATAGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
*
83279 TGCATTATCAACAT
66 TGCATTATCGACAT
83293 AAAAG
1 AAAAG
83298 TATGTTATAA
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 146 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
AAAAGAATAACGCATATAGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
TGCATTATCGACAT
Found at i:89203 original size:136 final size:136
Alignment explanation
Indices: 88996--89352 Score: 518
Period size: 136 Copynumber: 2.6 Consensus size: 136
88986 AAGGAAAACA
* * * *
88996 CGGCTCCTACGTGATGAAGAGATCTGGACGGTGGATGGCACGGTTCCTATGTGATGAGGACGACT
1 CGGCTCCTACGTGATG-AGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACG-GT
* * *
89061 T-ACCATCTTTAGGGATAATGTAGAAAACTCGGTTCCTACGTGATTAGGATGGCTGGTTATCTAA
64 TGACCATCTTTAGGGATAATGTAGAAAACACAGTTCCTACGTGATGAGGATGGCTGGTTATCTAA
89125 GGGTGACG
129 GGGTGACG
* *
89133 CGGCTCCTACGTGATGAGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATGGTTG
1 CGGCTCCTACGTGATGAGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGGTTG
* * *
89198 TCCATCTTTAGGGATGATGTAGATAACACAGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGG
66 ACCATCTTTAGGGATAATGTAGAAAACACAGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGG
*
89263 TTGACG
131 GTGACG
* * *
89269 CGGCTCCTACGTGATGAGGAGATCAGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGGCT
1 CGGCTCCTACGTGATGA-GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGGTT
* *
89334 GGCCATCTTTAAGGATAAT
65 GACCATCTTTAGGGATAAT
89353 TTATTTCAAG
Statistics
Matches: 197, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
135 2 0.01
136 121 0.61
137 74 0.38
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (136 bp):
CGGCTCCTACGTGATGAGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGGTTG
ACCATCTTTAGGGATAATGTAGAAAACACAGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGG
GTGACG
Found at i:89404 original size:36 final size:36
Alignment explanation
Indices: 89350--89478 Score: 135
Period size: 36 Copynumber: 3.8 Consensus size: 36
89340 CTTTAAGGAT
* * *
89350 AATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
* *
89386 AATTTGTTTCGAGGGAAACAATCTCAA-AG-G----
1 AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
**
89416 TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
1 AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
* *
89452 AACTTGTTTCAAGGGAAACAATCTCAA
1 AATTTGTTTCAAGGGAAACTATCTCAA
89479 TTGTTTAAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
30 23 0.31
31 2 0.03
32 1 0.01
34 1 0.01
35 2 0.03
36 45 0.61
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (36 bp):
AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
Found at i:89593 original size:64 final size:65
Alignment explanation
Indices: 89356--89754 Score: 559
Period size: 64 Copynumber: 6.1 Consensus size: 65
89346 GGATAATTTA
* * * *
89356 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGGGAAACAATCTCAAAGGTTTTT
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTC-AATGTTTTT
89421 G
65 G
* * * **
89422 TTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATTGTTTAA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAA-TGTTTTT
89487 G
65 G
* * * * *
89488 TTTCAAGTGAAATTGTCTTAAGGGAGGCAAAACTTGTTTCAAGGGAAACAATCTTAAT-TTTTTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
** *
89552 TCACAAGAGAAAATGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
* *
89617 TTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACTTGTTTCAATGGAAACAATCTCTATGTTTTTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
* *
89681 TTTCGAGAGAAACTGTCTCAAAGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATG-TTTT-
89746 TG
64 TG
89748 TTTCAAG
1 TTTCAAG
89755 TGACACAATT
Statistics
Matches: 295, Mismatches: 33, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
64 115 0.39
65 62 0.21
66 110 0.37
67 8 0.03
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
Found at i:89701 original size:129 final size:130
Alignment explanation
Indices: 89356--89754 Score: 552
Period size: 129 Copynumber: 3.1 Consensus size: 130
89346 GGATAATTTA
* * * * *
89356 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGGGAAACAATCTCAAAGGTTTTT
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTC-TATGTTTTT
* * * *
89421 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATTGTTTA
65 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAA-TGTTTT
*
89486 AG
129 TG
* * * *
89488 TTTCAAGTGAAATTGTCTTAAGGGAGGCAAAACTTGTTTCAAGGGAAACAATCT-TAAT-TTTTT
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCT-ATGTTTTT
** *
89551 GTCACAAGAGAAAATGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTT
65 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTT
89616 G
130 G
*
89617 TTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACTTGTTTCAATGGAAACAATCTCTATGTTTTTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCTATGTTTTTG
* *
89681 TTTCGAGAGAAACTGTCTCAAAGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTA
66 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATG-TTTT-
89746 TG
129 TG
89748 TTTCAAG
1 TTTCAAG
89755 TGACACAATT
Statistics
Matches: 235, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
128 26 0.11
129 91 0.39
130 61 0.26
131 10 0.04
132 47 0.20
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (130 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCTATGTTTTTG
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTG
Found at i:90837 original size:14 final size:14
Alignment explanation
Indices: 90818--90846 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90808 ACAAGCCCAA
90818 AATAGATTATAAAT
1 AATAGATTATAAAT
90832 AATAGATTATAAAT
1 AATAGATTATAAAT
90846 A
1 A
90847 TTTGTAGCCC
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:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATAGATTATAAAT
Found at i:91115 original size:12 final size:12
Alignment explanation
Indices: 91098--91122 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91088 TCACCCACGC
91098 TCGACAACACCA
1 TCGACAACACCA
91110 TCGACAACACCA
1 TCGACAACACCA
91122 T
1 T
91123 TGGCGCCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.40, G:0.08, T:0.12
Consensus pattern (12 bp):
TCGACAACACCA
Found at i:91151 original size:36 final size:36
Alignment explanation
Indices: 91103--91217 Score: 221
Period size: 36 Copynumber: 3.2 Consensus size: 36
91093 CACGCTCGAC
91103 AACACCATCGACAACACCATTGGCGCCCATACCCTGT
1 AACA-CATCGACAACACCATTGGCGCCCATACCCTGT
91140 AACACATCGACAACACCATTGGCGCCCATACCCTGT
1 AACACATCGACAACACCATTGGCGCCCATACCCTGT
91176 AACACATCGACAACACCATTGGCGCCCATACCCTGT
1 AACACATCGACAACACCATTGGCGCCCATACCCTGT
91212 AACACA
1 AACACA
91218 ACAAACAAGG
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
36 74 0.95
37 4 0.05
ACGTcount: A:0.32, C:0.39, G:0.13, T:0.16
Consensus pattern (36 bp):
AACACATCGACAACACCATTGGCGCCCATACCCTGT
Found at i:94480 original size:55 final size:54
Alignment explanation
Indices: 94413--94545 Score: 185
Period size: 54 Copynumber: 2.4 Consensus size: 54
94403 GCATTCAAAT
* * *
94413 GATTCATGAAGAAGGACATCCGATGAATCAAGAAATTTGAACCTGGTTGAAGAAC
1 GATTCATGAAGAAGGACATCCGATG-ATCAAGAAATCTGAAACTGATTGAAGAAC
* * *
94468 GATTCATTAAGAAGGACATCCGATGATGAAGAAATCTGAAACTGATTGAAGATC
1 GATTCATGAAGAAGGACATCCGATGATCAAGAAATCTGAAACTGATTGAAGAAC
* *
94522 GATCCATGAACAAGGACATCCGAT
1 GATTCATGAAGAAGGACATCCGAT
94546 TAATGAAGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
54 45 0.65
55 24 0.35
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (54 bp):
GATTCATGAAGAAGGACATCCGATGATCAAGAAATCTGAAACTGATTGAAGAAC
Found at i:94932 original size:5 final size:6
Alignment explanation
Indices: 94903--94932 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
94893 ATTAACACCT
94903 TTTGCA TTTGCA TTTGCA TTTGCA -TTGCA T
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA T
94933 GTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCA
Found at i:98458 original size:123 final size:123
Alignment explanation
Indices: 98174--98495 Score: 421
Period size: 123 Copynumber: 2.6 Consensus size: 123
98164 ATTGGAGAAA
* * * * * * * *
98174 AAGAATAAGTGGTGCCAGAACATGAGGTATTCCGCGATCTTGAAGCAGACGATCCAAGAGATCAG
1 AAGAATAAGCGATGCCAGAACATGAAGTATTCCGTGATCTTGAAGCAAATGGTCAAAGAGATCAG
* *
98239 AATGGATGAAGGAAGAAATTGTAATATTTCCTTGTGACGTTGTCAGTAACCTGTCAGG
66 AATGGATGAAGGAAGAAATTGTAATATTTCCTTGTGACGTTGTCAATAACCCGTCAGG
* * * * *
98297 AAGAATAAGCGATGCCAGAACATGAAATATTCTGTGATCTTTAAGCATATGGTCAAAGAGATCAT
1 AAGAATAAGCGATGCCAGAACATGAAGTATTCCGTGATCTTGAAGCAAATGGTCAAAGAGATCAG
* * *
98362 AATGGATTAAGGAAGAAATTGTAGTATTTCCTTGTGATGTTGTCAATAACCCGTCAGG
66 AATGGATGAAGGAAGAAATTGTAATATTTCCTTGTGACGTTGTCAATAACCCGTCAGG
* * * * *
98420 AAGAATAAGCGATGCCAGAACATGAAGCATTCCATGATCGTGAAGCAAATGGTCTAAG-GAATCG
1 AAGAATAAGCGATGCCAGAACATGAAGTATTCCGTGATCTTGAAGCAAATGGTCAAAGAG-ATCA
98484 GAATGGATGAAG
65 GAATGGATGAAG
98496 AACACTTTCT
Statistics
Matches: 170, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
122 1 0.01
123 169 0.99
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (123 bp):
AAGAATAAGCGATGCCAGAACATGAAGTATTCCGTGATCTTGAAGCAAATGGTCAAAGAGATCAG
AATGGATGAAGGAAGAAATTGTAATATTTCCTTGTGACGTTGTCAATAACCCGTCAGG
Found at i:98998 original size:123 final size:125
Alignment explanation
Indices: 98703--99005 Score: 432
Period size: 123 Copynumber: 2.4 Consensus size: 125
98693 AATTTATGAT
* * *
98703 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATTACAAGATTCAGACCAAGGAAGCATGAA
1 ATGTTGGGGCACGAATGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAAGAAGCATGAA
* * *
98768 GAATAAGCCTTACAAATTGAGGTGATGGGGCATTTTGAAGGCCCGTGCCAGTATAAGATA
66 GAATAAGCCTTACAAATTGAGGTGATAGGGCATTTCGAAGGCCCGTACCAGTATAAGATA
* * *
98828 ATGTTGGGGCACGATTGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAAG-A-CATGAA
1 ATGTTGGGGCACGAATGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAAGAAGCATGAA
* * * *
98891 GAATGAGCCTTACGATTTGAGGTGATAGGGCATTTCGAAGGCCTGTACCAGTATAAGATA
66 GAATAAGCCTTACAAATTGAGGTGATAGGGCATTTCGAAGGCCCGTACCAGTATAAGATA
* * *
98951 ATGTTGGGGCATGAATGAACCCACATCATGTT-AGGATAAAAATATTCAGACCAAA
1 ATGTTGGGGCACGAATGAACCCACATCATGTTGA-GATAACAAGATTCAGACCAAA
99006 AAGGCATTGA
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
122 1 0.01
123 106 0.66
124 1 0.01
125 52 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (125 bp):
ATGTTGGGGCACGAATGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAAGAAGCATGAA
GAATAAGCCTTACAAATTGAGGTGATAGGGCATTTCGAAGGCCCGTACCAGTATAAGATA
Found at i:101329 original size:34 final size:34
Alignment explanation
Indices: 101228--101427 Score: 240
Period size: 34 Copynumber: 5.7 Consensus size: 34
101218 ACCAAAAATG
*
101228 AGTGAAGCAAACCATCTTAAGCCTTCATC-GGAGAGT
1 AGTGAAGC--ACCATCTTAAGCCTTCA-CAGAAGAGT
* * *
101264 AGTGAAGCAATCATCTTAAGCTTTCATAGAAGAGT
1 AGTGAAGC-ACCATCTTAAGCCTTCACAGAAGAGT
* *
101299 AGTGAAGCACCATCTTAAGGCTTCACAGAAGATT
1 AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGT
* *
101333 AGTGAAGCACCATCTTAAGCCTTCACAGAGGAAT
1 AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGT
*
101367 AGTGAAGCACCATCTTAAGCCTTCACCGAAGAGT
1 AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGT
101401 AGTGAAGCAAATCCATCTCTAAGCCTT
1 AGTGAAGC--A-CCATCT-TAAGCCTT
101428 TAGAGTAGGA
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
34 91 0.63
35 30 0.21
36 9 0.06
37 6 0.04
38 8 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (34 bp):
AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGT
Found at i:101381 original size:68 final size:68
Alignment explanation
Indices: 101205--101427 Score: 254
Period size: 68 Copynumber: 3.2 Consensus size: 68
101195 GGGAAAGTTA
* *
101205 ATCTTAAGCCATCACCA-AA-AATGAGTGAAGCAAACCATCTTAAGCCTTCATCGGAGAGTAGTG
1 ATCTTAAGCCTTCA-CAGAAGAAT-AGTGAAGC--ACCATCTTAAGCCTTCA-CGAAGAGTAGTG
*
101268 AAGCAATC
61 AAGCAACC
* * * * *
101276 ATCTTAAGCTTTCATAGAAGAGTAGTGAAGCACCATCTTAAGGCTTCACAGAAGATTAGTGAAGC
1 ATCTTAAGCCTTCACAGAAGAATAGTGAAGCACCATCTTAAGCCTTCAC-GAAGAGTAGTGAAGC
101341 -ACC
65 AACC
*
101344 ATCTTAAGCCTTCACAGAGGAATAGTGAAGCACCATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
1 ATCTTAAGCCTTCACAGAAGAATAGTGAAGCACCATCTTAAGCCTTCA-CGAAGAGTAGTGAAGC
101409 AAATCC
65 -AA-CC
101415 ATCTCTAAGCCTT
1 ATCT-TAAGCCTT
101428 TAGAGTAGGA
Statistics
Matches: 130, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
68 60 0.46
69 30 0.23
70 2 0.02
71 28 0.22
72 10 0.08
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (68 bp):
ATCTTAAGCCTTCACAGAAGAATAGTGAAGCACCATCTTAAGCCTTCACGAAGAGTAGTGAAGCA
ACC
Found at i:101791 original size:215 final size:214
Alignment explanation
Indices: 101414--102372 Score: 1431
Period size: 215 Copynumber: 4.5 Consensus size: 214
101404 GAAGCAAATC
* * * * *
101414 CATCTCTAAGCCTTTAGAGTAGGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAAACCTTCGGGTAGGA
* * *
101479 CGTTTTCAAATGAATTTAAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* ** * *
101544 GAATGTGATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCAT
130 AAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
101609 GATGCTTAAATCCTTCGGGT
195 GATGCTTAAATCCTTCGGGT
* *
101629 TATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGTCCATCCATAAAACCTTCGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGG-CCATCCATAAAACCTTCGGGTAGGA
* *
101694 TATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAAATTTTGAAAACTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
*
101759 AAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAA
130 AAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
101824 GATGCTTAAATCCTTCGGGT
195 GATGCTTAAATCCTTCGGGT
* *
101844 CATCTGTAAGCCTTTCA-AGCAAAATGATAAGTCCTTTAGGCCATCCATAAAACCTTCGGGTAGG
1 CATCTGTAAGCCTTT-AGAGCAAGATGATAAGTCC-TTCGGCCATCCATAAAACCTTCGGGTAGG
* *
101908 ATGTTTTCACATGAATTTGAAAATG-GAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTA
64 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* *
101972 AGAATACGAA-TTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
129 AAAATGC-AATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
102036 ATGATGCTTAAATCCTTCAGGT
193 ATGATGCTTAAATCCTTCGGGT
* * *
102058 CATCTGTAAGCCTTTAGAGTAAGATGATAAGTCCTCCGAGCCATCCATAAAACCTTCGGATAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCG-GCCATCCATAAAACCTTCGGGTAGGA
*
102123 TGTTTTCACATGAATTTGAAAATG-AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * * *
102187 AAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCA
130 AAATGCAATTTTCAAAATTTCACAATTTA-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * *
102252 TGATGATTAAATCCTTTGAGT
194 TGATGCTTAAATCCTTCGGGT
* * * * *
102273 CATCTGTAAGCCTTTAAAGCAAGATGATAAGTCTTTCGGGCCGTCCATAAGACCTTAGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAAACCTTCGGGTAGGA
* *
102338 TGTTTTCACATAAATTTGAAATTGAAAAAATGATG
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATG
102373 AAATTTTTGA
Statistics
Matches: 678, Mismatches: 56, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
213 4 0.01
214 258 0.38
215 400 0.59
216 16 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (214 bp):
CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGCCATCCATAAAACCTTCGGGTAGGAT
GTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAA
AATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAAATCCTTCGGGT
Found at i:102223 original size:429 final size:428
Alignment explanation
Indices: 101414--102895 Score: 2082
Period size: 429 Copynumber: 3.5 Consensus size: 428
101404 GAAGCAAATC
* * * *
101414 CATCTCTAAGCCTTTAGAGTAGGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGTAGGA
1 CATCTGTAAGCCTTTA-AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* * *
101479 CGTTTTCAAATGAATTTAAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * * *
101544 GAATG-TGATTTTCAAAATTTCATAATTTA-TAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGC
130 GAA-GACGAATTTCAAAATTTCA-CATTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * *
101607 ATGATGCTTAAATCCTTCGGGTTATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGTCCA
193 ATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGG-CCA
*
101672 TCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGA
257 TCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATG-AAAAATGATGTTTTAAGA
* * *
101737 AGATGAAAATTTTGAAAACTAAAAATGCAATTTTCAAAATTTCACAATTTA-TAAGTCCTTCGGG
321 AGATGAAATTTTTGAAAACTAAAAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGGG
* * * *
101801 CCATCAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGT
386 CCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGT
* ** *
101844 CATCTGTAAGCCTTTCAAGCAAAATGATAAGTCCTTTAGGCCATCCATAAAACCTTCGGGTAGGA
1 CATCTGTAAGCCTTT-AAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* *
101909 TGTTTTCACATGAATTTGAAAATG-GAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
*
101973 GAATACGAATTTCAAAATTTCACAATTTA-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
130 GAAGACGAATTTCAAAATTTCAC-ATTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* *
102037 TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCCTCCGAGCCAT
194 TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCG-GCCAT
*
102102 CCATAAAACCTTCGGATAGGATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAG
258 CCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAG
* *
102167 ATGAAATTTTTGAAAGCTAAAAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGAGCC
323 ATGAAATTTTTGAAAACTAAAAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGGGCC
*
102232 ATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTTGAGT
388 ATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGT
* * *
102273 CATCTGTAAGCCTTTAAAGCAAGATGATAAGTCTTTCGGGCCGTCCATAAGACCTTAGGGTAGGA
1 CATCTGTAAGCCTTT-AAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* *
102338 TGTTTTCACATAAATTTGAAATTG-AAAAA--A-----T-----GATGAAATTTTTGAAAACTAA
65 TGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * *
102390 GAAGGC-AATTTTCAAAGTTTCAC--TTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
130 GAAGACGAA-TTTCAAAATTTCACATTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * *
102452 TGATGTTTAAATCCTTCAGGTCATCTATAAGCCTTTAGAGCAAGAT--TAAGTCCTTTGGGCCGT
194 TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC-TTCGGCCAT
* * *
102515 CCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTAAAAATGAGAAAATGATGTTTTAAGAT
258 CCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAA
* * * *
102580 GATGAAATTTTTGAAAACTAAGAAGGGGATTTTCAAACTTT--C-ACTTAGTAAGTCCTTCGGGC
322 GATGAAATTTTTGAAAACTAAAAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGGGC
* *
102642 CATCAATAAGTCTTTCGAGCATGATGAGTAAATCTTTTGGGT
387 CATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGT
* *
102684 CATCTGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGTAGGA
1 CATCTGTAAGCCTTTA-AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* *
102749 TGTTTTCACATGAATTTGAAAAATGAAAAAATGATGTTTTAAGAAGTTGAAATTTTTTAAAACTA
65 TGTTTTCACATGAATTTG-AAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
*
102814 AGAAGACG-ATTTCAAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
129 AGAAGACGAATTTC-AAAATTTCACATTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
102878 ATGATGATTAAATCCTTC
193 ATGATGCTTAAATCCTTC
102896 GGGTAATTTA
Statistics
Matches: 941, Mismatches: 83, Indels: 59
0.87 0.08 0.05
Matches are distributed among these distances:
410 1 0.00
411 133 0.14
412 6 0.01
413 59 0.06
414 58 0.06
415 78 0.08
416 2 0.00
417 37 0.04
420 1 0.00
422 1 0.00
424 4 0.00
425 34 0.04
427 55 0.06
428 65 0.07
429 329 0.35
430 77 0.08
431 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (428 bp):
CATCTGTAAGCCTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGAT
GTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
AAGACGAATTTCAAAATTTCACATTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGCCATCCA
TAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATG
AAATTTTTGAAAACTAAAAATGCGATTTTCAAAATTTCACAACTTAGTAAGTCCTTCGGGCCATC
AATAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGT
Found at i:103014 original size:91 final size:91
Alignment explanation
Indices: 102856--103027 Score: 283
Period size: 91 Copynumber: 1.9 Consensus size: 91
102846 AGTCCTTCGG
* *
102856 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTATAAGTCTTCACCAAA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTAATTTATAAGCCTTCACCAAA
102921 GAGTAGTGAAGCAAATCCATTAGAGT
66 GAGTAGTGAAGCAAATCCATTAGAGT
* * *
102947 GCCATTAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGAGTAATTTTTAAGCCTTCA-CAGA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTAATTTATAAGCCTTCACCA-A
103011 AGAGTAGTGAAGCAAAT
65 AGAGTAGTGAAGCAAAT
103028 TCATCAGTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
90 2 0.03
91 73 0.97
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (91 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTAATTTATAAGCCTTCACCAAA
GAGTAGTGAAGCAAATCCATTAGAGT
Found at i:107752 original size:6 final size:6
Alignment explanation
Indices: 107741--107776 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
107731 ACTGCATACG
107741 ACATCA ACATCA ACATCA ACATCA ACATCA ACATCA
1 ACATCA ACATCA ACATCA ACATCA ACATCA ACATCA
107777 TAGACCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ACATCA
Found at i:112036 original size:148 final size:150
Alignment explanation
Indices: 111742--112043 Score: 554
Period size: 148 Copynumber: 2.0 Consensus size: 150
111732 TTCCCAGTTC
111742 TCGACATTGATAGCAAACGTACCTGGGGAGCGTAGATTGATCTCAATCCATTCACGATATGGCAT
1 TCGACATTGATAGCAAACGTACCTGGGGAGCGTAGATTGATCTCAATCCATTCACGATATGGCAT
*
111807 TGAAAAAACAAACTCAGCAAGCCTATCTGTTCGAATAACCCTCGGTCAAGTAGCTCTAGCCAAAA
66 TGAAAAAACAAACTCAGCAAGCCTATCTGTTCGAATAACCCTCGGCCAAGTAGCTCTAGCCAAAA
111872 TGAAGTGACGAAGAACGTGA
131 TGAAGTGACGAAGAACGTGA
* *
111892 TCGACATTTATAGCAAACGTACCTGGGGAGTGTAGATTGATCTCAATCCATTCACGATATGGCAT
1 TCGACATTGATAGCAAACGTACCTGGGGAGCGTAGATTGATCTCAATCCATTCACGATATGGCAT
111957 TG-AAAAA-AAACTCAGCAAGCCTATCTGTTCGAATAACCCTCGGCCAAGTAGCTCTAGCCAAAA
66 TGAAAAAACAAACTCAGCAAGCCTATCTGTTCGAATAACCCTCGGCCAAGTAGCTCTAGCCAAAA
*
112020 TGAAGTGGCGAAGAACGTGA
131 TGAAGTGACGAAGAACGTGA
112040 TCGA
1 TCGA
112044 TGTCCTCAGC
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 78 0.53
149 5 0.03
150 65 0.44
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (150 bp):
TCGACATTGATAGCAAACGTACCTGGGGAGCGTAGATTGATCTCAATCCATTCACGATATGGCAT
TGAAAAAACAAACTCAGCAAGCCTATCTGTTCGAATAACCCTCGGCCAAGTAGCTCTAGCCAAAA
TGAAGTGACGAAGAACGTGA
Found at i:116176 original size:15 final size:16
Alignment explanation
Indices: 116146--116178 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
116136 AAAATCTTTC
*
116146 TTTCCCGTTCTTGATT
1 TTTCCCGTTCTGGATT
116162 TTTCCC-TTCTGGATT
1 TTTCCCGTTCTGGATT
116177 TT
1 TT
116179 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.06, C:0.24, G:0.12, T:0.58
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:123636 original size:19 final size:20
Alignment explanation
Indices: 123590--123639 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
123580 CGGTCATCCA
*
123590 ATTTTTAAACCCCAGACCGG
1 ATTTTTAAACCCCAGACCAG
123610 ATTTTTAAACCCCAGACCAG
1 ATTTTTAAACCCCAGACCAG
*
123630 ATTTTAAAAC
1 ATTTTTAAAC
123640 GGATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (20 bp):
ATTTTTAAACCCCAGACCAG
Found at i:126239 original size:12 final size:14
Alignment explanation
Indices: 126216--126415 Score: 73
Period size: 14 Copynumber: 14.2 Consensus size: 14
126206 TTTCGTCCCC
*
126216 TATATATATATTTT
1 TATATTTATATTTT
126230 TA-A-TTATATTTT
1 TATATTTATATTTT
*
126242 TATATTTATA-TTA
1 TATATTTATATTTT
*
126255 TATATTT-TTTTATT
1 TATATTTATATT-TT
*
126269 TAT-TTTATATTTAA
1 TATATTTATATTT-T
*
126283 TATATCTTA-A-TTA
1 TATAT-TTATATTTT
** *
126296 TATATTTTATAGATG
1 TATA-TTTATATTTT
*
126311 TATATTT-TTTTTT
1 TATATTTATATTTT
126324 TATA-TTATATTTTT
1 TATATTTATA-TTTT
* *
126338 TCTTATTTATATTTA
1 T-ATATTTATATTTT
126353 TAT-TTATATATATTCT
1 TATATT-TATAT-TT-T
126369 TAATATTT-T-TTTT
1 T-ATATTTATATTTT
* * *
126382 TGTTTTTATTTATTTA
1 TATATTTA--TATTTT
126398 TATATTTATTATTTT
1 TATATTTA-TATTTT
126413 TAT
1 TAT
126416 TTTTTTATTA
Statistics
Matches: 139, Mismatches: 23, Indels: 47
0.67 0.11 0.22
Matches are distributed among these distances:
12 17 0.12
13 35 0.25
14 37 0.27
15 26 0.19
16 19 0.14
17 3 0.02
18 2 0.01
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (14 bp):
TATATTTATATTTT
Found at i:126262 original size:33 final size:34
Alignment explanation
Indices: 126216--126357 Score: 110
Period size: 35 Copynumber: 4.4 Consensus size: 34
126206 TTTCGTCCCC
126216 TATA-TATATATTTTTAATTATAT-TTTTATATT
1 TATATTATATATTTTTAATTATATATTTTATATT
*
126248 TATATTATATATTTTT--TTATTTATTTTATA-T
1 TATATTATATATTTTTAATTATATATTTTATATT
* *
126279 T-TA--ATATA-TCTTAATTATATATTTTATAGATG
1 TATATTATATATTTTTAATTATATATTTTAT--ATT
* * *
126311 TATATT-T-TTTTTTTATATTATATTTTTTCTTATT
1 TATATTATATATTTTTA-ATTATATATTTT-ATATT
126345 TATATT-TATATTT
1 TATATTATATATTT
126358 ATATATATTC
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.03
28 5 0.06
29 12 0.14
30 2 0.02
31 8 0.09
32 12 0.14
33 14 0.16
34 14 0.16
35 15 0.17
36 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (34 bp):
TATATTATATATTTTTAATTATATATTTTATATT
Found at i:126278 original size:76 final size:75
Alignment explanation
Indices: 126220--126363 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 75
126210 GTCCCCTATA
126220 TATATATTTT-TA-AT-TATATTTTTATATTTATATTATATATTTTTTTATTTATTTTATATTTA
1 TATATATTTTATAGATGTATATTTTT-TATTTATATTATATATTTTTTTATTTATTTTATA-TTA
*
126282 ATATATCTTAAT
64 ATATATCCTAAT
* *
126294 TATATATTTTATAGATGTATATTTTTTTTTTATATTATAT-TTTTTCTTATTTATATTTATATTT
1 TATATATTTTATAGATGTATATTTTTTATTTATATTATATATTTTT-TTATTTAT-TTTATATTA
126358 ATATAT
64 ATATAT
126364 ATTCTTAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
74 10 0.16
75 7 0.11
76 31 0.49
77 15 0.24
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (75 bp):
TATATATTTTATAGATGTATATTTTTTATTTATATTATATATTTTTTTATTTATTTTATATTAAT
ATATCCTAAT
Found at i:126287 original size:41 final size:40
Alignment explanation
Indices: 126233--126424 Score: 147
Period size: 41 Copynumber: 4.9 Consensus size: 40
126223 ATATTTTTAA
*
126233 TTATATTTTTATATTTATATTATATATTTTTTTATTTATT
1 TTATATTTATATATTTATATTATATATTTTTTTATTTATT
**
126273 TTATATTTAATATATCTTA-ATTATATA---TTTTATAGA-T
1 TTATATTT-ATATAT-TTATATTATATATTTTTTTATTTATT
* * *
126310 GTATATTT-TTTTTTTATATTATAT-TTTTTCTTATTTATAT
1 TTATATTTATATATTTATATTATATATTTTT-TTATTTAT-T
* *
126350 TTATATTTATATATAT-TCTTA-ATATTTTTTT-TTGT-TT
1 TTATATTTATATATTTATATTATATATTTTTTTATT-TATT
*
126387 TTATTTATTTATATATTTATTATT-TTTATTTTTTTATT
1 TTA--TATTTATATATTTA-TATTATATATTTTTTTATT
126425 AAATATACTT
Statistics
Matches: 118, Mismatches: 16, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
34 3 0.03
35 10 0.08
37 14 0.12
38 15 0.13
39 17 0.14
40 25 0.21
41 29 0.25
42 5 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (40 bp):
TTATATTTATATATTTATATTATATATTTTTTTATTTATT
Found at i:126336 original size:16 final size:16
Alignment explanation
Indices: 126317--126366 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
126307 GATGTATATT
126317 TTTTTTTTATATTATA
1 TTTTTTTTATATTATA
126333 TTTTTTCTTAT-TTATA
1 TTTTTT-TTATATTATA
*
126349 TTTATATTTATA-TATA
1 TTT-TTTTTATATTATA
126365 TT
1 TT
126367 CTTAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTTTATATTATA
Found at i:126421 original size:43 final size:41
Alignment explanation
Indices: 126328--126573 Score: 155
Period size: 43 Copynumber: 5.8 Consensus size: 41
126318 TTTTTTTATA
* * * * * *
126328 TTATATTTTTTCTTATTTATATTTATATTTATATATATTCTTA
1 TTAT-TTTTTTATTTTTTTTATTTAT-TTTATATTTATTATTT
* *
126371 ATATTTTTTT-TTGTTTTTATTTATTTATATATTTATTATTT
1 TTATTTTTTTATTTTTTTTATTTATTT-TATATTTATTATTT
*** * *
126412 TTATTTTTTTATTAAATATACTTTATATTTGTACTTAGTATTATTT
1 TTATTTTTTTATTTTTTTTA-TTTAT-TTTATA-TT--TATTATTT
* *
126458 TTATTTTTTTATTTCTTTTACTTT-TTTTAT-TTTTTTATTCATT
1 TTATTTTTTTATTTTTTTTA-TTTATTTTATATTTATTA-T--TT
*
126501 TTATTTTTTTATTTTTTTTATTT-TTTTACATTTA-T-TTT
1 TTATTTTTTTATTTTTTTTATTTATTTTATATTTATTATTT
* *
126539 TCATTTTGTTTATTTTTATTATTT-TTTTATTATTT
1 TTATTTT-TTTATTTTTTTTATTTATTTTA-TATTT
126574 TTAACGTGTT
Statistics
Matches: 166, Mismatches: 24, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
38 8 0.05
39 20 0.12
40 11 0.07
41 33 0.20
42 22 0.13
43 35 0.21
44 8 0.05
45 1 0.01
46 28 0.17
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (41 bp):
TTATTTTTTTATTTTTTTTATTTATTTTATATTTATTATTT
Found at i:126422 original size:17 final size:17
Alignment explanation
Indices: 126372--126576 Score: 131
Period size: 17 Copynumber: 11.6 Consensus size: 17
126362 ATATTCTTAA
126372 TATT-TTTTT-TTGTTTT
1 TATTATTTTTATT-TTTT
* * *
126388 TATT-TATTTATATATT
1 TATTATTTTTATTTTTT
126404 TATTATTTTTATTTTTT
1 TATTATTTTTATTTTTT
* *
126421 TATTAAATATACTTTATATTTG
1 TATT--AT-T--TTTATTTTTT
* *
126443 TACTTAGTATTA--TTTT
1 TA-TTATTTTTATTTTTT
126459 TATT-TTTTTATTTCTTT
1 TATTATTTTTATTT-TTT
126476 TACTT-TTTTTATTTTTT
1 TA-TTATTTTTATTTTTT
126493 TATTCA-TTTTATTTTTT
1 TATT-ATTTTTATTTTTT
*
126510 TATTTTTTTTATTTTTT
1 TATTATTTTTATTTTTT
126527 TACATTTATTTTTCATTTTGTT
1 T--A-TTATTTTT-ATTTT-TT
126549 TATT-TTTATTATTTTTT
1 TATTATTT-TTATTTTTT
126566 TATTATTTTTA
1 TATTATTTTTA
126577 ACGTGTTTTG
Statistics
Matches: 152, Mismatches: 15, Indels: 43
0.72 0.07 0.20
Matches are distributed among these distances:
14 4 0.03
15 2 0.01
16 23 0.15
17 60 0.39
18 25 0.16
19 7 0.05
20 10 0.07
21 6 0.04
22 13 0.09
23 2 0.01
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (17 bp):
TATTATTTTTATTTTTT
Found at i:126423 original size:76 final size:78
Alignment explanation
Indices: 126220--126423 Score: 188
Period size: 76 Copynumber: 2.6 Consensus size: 78
126210 GTCCCCTATA
* *
126220 TATATATTTTTAATTATATTTTTATATTTATATTATATATTTTTTTATTTATTTTATATTTAATA
1 TATAGATTTTT-ATT-TATTTTTATATTTATATT-TTTATTTTTTTA--TATTTTATATTTAATA
126285 TATCTTAATTATATATTT
61 TATCTTAATTATATATTT
* * * *
126303 TATAGATGTATATTT-TTTTTTTATATTATATTTTT-TCTTATTTATA-TTTATATTTATATATA
1 TATAGATTTTTATTTATTTTTATAT-TTATATTTTTAT-TTTTTTATATTTTATATTTA-ATATA
126365 TTCTTAA-TAT-T-TTT
63 -TCTTAATTATATATTT
* * *
126379 TTTTG-TTTTTATTTATTTATATATTTATTATTTTTATTTTTTTAT
1 TATAGATTTTTATTTATTTTTATATTTA-TATTTTTATTTTTTTAT
126424 TAAATATACT
Statistics
Matches: 101, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
75 10 0.10
76 27 0.27
77 12 0.12
78 10 0.10
79 7 0.07
80 16 0.16
81 8 0.08
82 3 0.03
83 8 0.08
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (78 bp):
TATAGATTTTTATTTATTTTTATATTTATATTTTTATTTTTTTATATTTTATATTTAATATATCT
TAATTATATATTT
Found at i:126430 original size:28 final size:28
Alignment explanation
Indices: 126370--126430 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
126360 ATATATTCTT
126370 AATATTTTTTTTTGTTTTTATTTATTTA
1 AATATTTTTTTTTGTTTTTATTTATTTA
*
126398 TATATTTATTATTTT-TATTTT-TTTA-TTA
1 AATATTT-TT-TTTTGT-TTTTATTTATTTA
126426 AATAT
1 AATAT
126431 ACTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
28 13 0.46
29 7 0.25
30 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (28 bp):
AATATTTTTTTTTGTTTTTATTTATTTA
Found at i:129916 original size:26 final size:27
Alignment explanation
Indices: 129877--129942 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
129867 TCCAATCAAG
* *
129877 AACAAAA-AAGAAAAGAAGCAA-AAAA
1 AACAAAAGAAAAAAAGAAACAACAAAA
*
129902 AACAAAAGAAAAAAAGAAATAACAAAA
1 AACAAAAGAAAAAAAGAAACAACAAAA
*
129929 ATCAAAAAGAAAAA
1 AAC-AAAAGAAAAA
129943 GGAACAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.21
26 11 0.32
27 6 0.18
28 10 0.29
ACGTcount: A:0.80, C:0.08, G:0.09, T:0.03
Consensus pattern (27 bp):
AACAAAAGAAAAAAAGAAACAACAAAA
Found at i:129943 original size:26 final size:25
Alignment explanation
Indices: 129881--129949 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
129871 ATCAAGAACA
*
129881 AAAAAG-AAAAGAAGCAAAAAAAAC
1 AAAAAGAAAAAGAAACAAAAAAAAC
* * *
129905 AAAAGAAAAAAAGAAATAACAAAAATC
1 AAAA-AGAAAAAGAAACAA-AAAAAAC
*
129932 AAAAAGAAAAAGGAACAA
1 AAAAAGAAAAAGAAACAA
129950 GAAGCACATG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
24 4 0.11
25 1 0.03
26 20 0.57
27 10 0.29
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (25 bp):
AAAAAGAAAAAGAAACAAAAAAAAC
Found at i:129965 original size:230 final size:222
Alignment explanation
Indices: 129555--130007 Score: 816
Period size: 230 Copynumber: 2.0 Consensus size: 222
129545 ACCAAGGATC
*
129555 ACCCTCCACACTGGGGGGCAAGGTGGAAGATCTGCTCACATGAGTGAAGACATCAATCCAAAGGT
1 ACCCTCCACACTGGGGGGCAAGGTGGAAGATATGCTCACATGAGTGAAGACATCAATCCAAAGGT
*
129620 GTACCAAATGTCAAGTGCGAAGATCCAATCAAGAAAAAAAAAAAAGCAAAAAAACAAAAGAAATA
66 GTACCAAATGTCAAGTGCGAAGATCCAATCAAGAAAAAAAAAAAAGCAAAAAAACAAAAGAAAAA
129685 AAGAAATAACAAAAATCAAAAAGAAAAAGGAACAAGAAGCACATGCAAAGATCCCCTAAAGACAA
131 AAGAAATAACAAAAATCAAAAAGAAAAAGGAACAAGAAGCACATGCAAAGATCCCCTAAAGACAA
129750 ATGGCGCATCAAGCTTCAAATTATGAG
196 ATGGCGCATCAAGCTTCAAATTATGAG
129777 ACCCTCCACACTGGGGGGCAAGGTGGAAGAAATATGCTCACATGAGTGAAGACATCAATCCAAAG
1 ACCCTCCACACTGGGGGGCAAGGTGGAAG--ATATGCTCACATGAGTGAAGACATCAATCCAAAG
129842 GTGTACCAAATGTCAAGTGCGAAGATCCAATCAAGAACAAAAAAGAAAAGAAGCAAAAAAAACAA
64 GTGTACCAAATGTCAAGTGCGAAGATCCAATCAAG---AAAAAA-AAAA-AAGC-AAAAAAACAA
129907 AAGAAAAAAAGAAATAACAAAAATCAAAAAGAAAAAGGAACAAGAAGCACATGCAAAGATCCCCT
123 AAGAAAAAAAGAAATAACAAAAATCAAAAAGAAAAAGGAACAAGAAGCACATGCAAAGATCCCCT
129972 AAAGACAAATGGCGCATCAAGCTTCAAATTATGAG
188 AAAGACAAATGGCGCATCAAGCTTCAAATTATGAG
130007 A
1 A
130008 TTGATCAAAC
Statistics
Matches: 221, Mismatches: 2, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
222 29 0.13
224 68 0.31
227 6 0.03
228 4 0.02
229 4 0.02
230 110 0.50
ACGTcount: A:0.50, C:0.18, G:0.19, T:0.13
Consensus pattern (222 bp):
ACCCTCCACACTGGGGGGCAAGGTGGAAGATATGCTCACATGAGTGAAGACATCAATCCAAAGGT
GTACCAAATGTCAAGTGCGAAGATCCAATCAAGAAAAAAAAAAAAGCAAAAAAACAAAAGAAAAA
AAGAAATAACAAAAATCAAAAAGAAAAAGGAACAAGAAGCACATGCAAAGATCCCCTAAAGACAA
ATGGCGCATCAAGCTTCAAATTATGAG
Found at i:131828 original size:106 final size:106
Alignment explanation
Indices: 131659--131864 Score: 232
Period size: 106 Copynumber: 1.9 Consensus size: 106
131649 CTCAAGACAA
* * * * *
131659 CACAAGTTCAACTCCACAATGAAGGGACGGCTAGTTGTCAACAAACAATATCCCAATTTCAGAGC
1 CACAAGCTCAACTCCACAACGAAGGGACGGCTAGCTGTCAACAAAAAATATCCCAATTCCAGAGC
* *
131724 CTATTTCAACTTCACATCGAAGGATATTGGACTCGAGACCT
66 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACCT
* * * * * ** * *
131765 CACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAAAAATTTCTTAGTTCCAGAGT
1 CACAAGCTCAACTCCACAACGAAGGGACGGCTAGCTGTCAACAAAAAATATCCCAATTCCAGAGC
* * * *
131830 CAATTTTAACTTCACGGCGGAGGATATTGTACTCG
66 CAATTTCAACTTCACAGCGAAGGATATTGGACTCG
131865 GAACAATACA
Statistics
Matches: 80, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
106 80 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (106 bp):
CACAAGCTCAACTCCACAACGAAGGGACGGCTAGCTGTCAACAAAAAATATCCCAATTCCAGAGC
CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACCT
Found at i:132213 original size:65 final size:66
Alignment explanation
Indices: 132092--132288 Score: 170
Period size: 65 Copynumber: 3.0 Consensus size: 66
132082 CTTTTGGAAC
* * * * * **
132092 TAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-TAAA-CATTGAAA-ACATTTCCCTTG
1 TAAATTTTATCTCCATTGAGACAGTTTCCCTTGAAACACAAAATC-TTCAAATTTATTTCCCTT-
132154 AAA
64 AAA
* * * * ** *
132157 TGAATTTTATCTCGATTGAGATAGTTTCCCTTG-AA-ATAAAATCTTTGAATTTATTTCTCCTAA
1 TAAATTTTATCTCCATTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTC-CCTTA
132220 AA
65 AA
* * * *
132222 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAA
1 TAAATTTTATCTCCATTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAA
132287 A
66 A
132288 T
1 T
132289 TTTGTTTCCC
Statistics
Matches: 102, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
63 1 0.01
64 9 0.09
65 62 0.61
66 11 0.11
67 19 0.19
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (66 bp):
TAAATTTTATCTCCATTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAA
A
Found at i:133079 original size:106 final size:105
Alignment explanation
Indices: 132947--133320 Score: 415
Period size: 106 Copynumber: 3.5 Consensus size: 105
132937 ATATCGTGCC
* * * * * *
132947 ACTCGAGACAACACAAGTTAAACTTCACAACGAAGGGACGTCTGGTTGTTAACAAATAATTTCCC
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACG-CTGGTTGTCAACAAACAACTTCCC
* *
133012 AGTTTCAGAACCAACTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
133053 ATTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAACAACTTCCC
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACG-CTGGTTGTCAACAAACAACTTCCC
* * *
133118 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTAG
65 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** *
133159 ACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCAGCTGACTGTCAACAAACAACTTCTC
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGAC-GCTGGTTGTCAACAAACAACTTCCC
**** *
133224 AATTTCAGTTTTAATTTCAACTTCCCAGCGAAGGATATTGG
65 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * ** * * *
133265 ACCCAAGATAACACAAGCTCAACTTCATGACGAATGGGAGGTTGATTGTCAACAAA
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAA-GGGACGCTGGTTGTCAACAAA
133321 ATTTCCAGAG
Statistics
Matches: 227, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
106 223 0.98
107 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (105 bp):
ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:134722 original size:23 final size:23
Alignment explanation
Indices: 134690--134763 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
134680 CCCCTATATA
*
134690 TATTTTTTTAATTATATT-TTATT
1 TATTTATTTAATTATATTATT-TT
* *
134713 TATTTATTT-ACTATATTCCTCTTT
1 TATTTATTTAATTATATT-AT-TTT
134737 T-TTTATTTATATTATATTATTTT
1 TATTTATTTA-ATTATATTATTTT
134760 TATT
1 TATT
134764 ATATATATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 7 0.17
23 19 0.46
24 7 0.17
25 8 0.20
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTTAATTATATTATTTT
Found at i:134756 original size:14 final size:14
Alignment explanation
Indices: 134739--134778 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
134729 TCCTCTTTTT
134739 TTATTTATATTATA
1 TTATTTATATTATA
*
134753 TTATTTTTATTATA
1 TTATTTATATTATA
134767 TATATCTTATAT
1 T-TAT-TTATAT
134779 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:134910 original size:32 final size:36
Alignment explanation
Indices: 134831--134904 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
134821 ATTTACTATG
*
134831 TATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTCTTAATATTATATTTTATA-GTTTT
*
134868 TATATATATTTTCTTAATATTTTATTTT-T-GTTTT
1 TATATATATTTTCTTAATATTATATTTTATAGTTTT
134902 TAT
1 TAT
134905 TTATTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 8 0.23
36 1 0.03
37 26 0.74
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (36 bp):
TATATATATTTTCTTAATATTATATTTTATAGTTTT
Found at i:134943 original size:17 final size:17
Alignment explanation
Indices: 134899--134954 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
134889 TTATTTTTGT
*
134899 TTTTATTTATTTA-TATA
1 TTTTATTT-TTTACTTTA
*
134916 TATTATATTTTTACTTTA
1 TTTTAT-TTTTTACTTTA
134934 TTTTATTTTTT-CTATTA
1 TTTTATTTTTTACT-TTA
134951 TTTT
1 TTTT
134955 TTCTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 21 0.64
18 10 0.30
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTACTTTA
Found at i:135162 original size:11 final size:10
Alignment explanation
Indices: 135148--135191 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
135138 TTTATTAACA
135148 TTTTATTCATT
1 TTTTATT-ATT
*
135159 TTTT-TTAAT
1 TTTTATTATT
135168 TTTTATTATTT
1 TTTTATTA-TT
135179 TTTTATTATT
1 TTTTATTATT
135189 TTT
1 TTT
135192 ACGTGTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 10 0.34
11 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTATT
Found at i:135171 original size:20 final size:20
Alignment explanation
Indices: 135148--135192 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
135138 TTTATTAACA
135148 TTTTATTCATTTTTTT-TAAT
1 TTTTATT-ATTTTTTTATAAT
*
135168 TTTTATTATTTTTTTATTAT
1 TTTTATTATTTTTTTATAAT
135188 TTTTA
1 TTTTA
135193 CGTGTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTATTTTTTTATAAT
Found at i:136650 original size:62 final size:62
Alignment explanation
Indices: 136561--136696 Score: 249
Period size: 62 Copynumber: 2.2 Consensus size: 62
136551 AGACCGATCA
*
136561 AATTGATTTCACC-TTGCAGATTCCAAAGAACCTTTATAATGTTCATGAGGGCTTTGTAACC
1 AATTGATTTCACCTTTGCAGATTCCAAAGAACCTTTATAATGTTCACGAGGGCTTTGTAACC
136622 AATTGATTTCACCTTTGCAGATTCCAAAGAACCTTTATAATGTTCACGAGGGCTTTGTAACC
1 AATTGATTTCACCTTTGCAGATTCCAAAGAACCTTTATAATGTTCACGAGGGCTTTGTAACC
136684 AATTGATTT-ACCT
1 AATTGATTTCACCT
136697 AACAGGCAGA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 17 0.23
62 56 0.77
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (62 bp):
AATTGATTTCACCTTTGCAGATTCCAAAGAACCTTTATAATGTTCACGAGGGCTTTGTAACC
Found at i:137991 original size:28 final size:28
Alignment explanation
Indices: 137960--138013 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
137950 AAAACTTGTG
*
137960 TTTTTTAAATATATAAATATAATTTTAA
1 TTTTTTAAATATATAAATAAAATTTTAA
* *
137988 TTTTTTAAATTTTTAAATAAAATTTT
1 TTTTTTAAATATATAAATAAAATTTT
138014 CAAAATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTTAAATATATAAATAAAATTTTAA
Found at i:144714 original size:190 final size:190
Alignment explanation
Indices: 144391--144770 Score: 681
Period size: 190 Copynumber: 2.0 Consensus size: 190
144381 ATAACCATAA
*
144391 TATGCTAAAATTGCGCAACATTTACAACATGCTAAGATTGCACAATATCAATTGAATATCACGCC
1 TATGCTAAAATTGAGCAACATTTACAACATGCTAAGATTGCACAATATCAATTGAATATCACGCC
144456 AAGACAATCCACCATGAAAATGTTCATCTGTTGCAACAACTTTTGAGGGTTTAGAGTGGCACGGG
66 AAGACAATCCACCATGAAAATGTTCATCTGTTGCAACAACTTTTGAGGGTTTAGAGTGGCACGGG
* * *
144521 AAGATTTACACAGTTTTTAATTATTTAGAGAACATCACGATAGAGTACATAAGGACATCT
131 AAGATTTACACAGTTTTTAATGATTTAGAGAACATCACAATAGAGTACAAAAGGACATCT
* *
144581 TATGCTAAAATTGAGCAACATTTGCAACATGCTAAGATTGCACAATATCAATTTG-GTATCACGC
1 TATGCTAAAATTGAGCAACATTTACAACATGCTAAGATTGCACAATATCAA-TTGAATATCACGC
*
144645 CAAGACAATCCACCATGAAAATGTTCATCTGTTGCAACAACTTTTGAGGGTTTAGATTGGCACGG
65 CAAGACAATCCACCATGAAAATGTTCATCTGTTGCAACAACTTTTGAGGGTTTAGAGTGGCACGG
144710 GAAGATTTACACAGTTTTTAATGATTTAGAGAACATCACAATAGAGTACAAAAGGACATCT
130 GAAGATTTACACAGTTTTTAATGATTTAGAGAACATCACAATAGAGTACAAAAGGACATCT
144771 CAAGGTTGGC
Statistics
Matches: 182, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 179 0.98
191 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (190 bp):
TATGCTAAAATTGAGCAACATTTACAACATGCTAAGATTGCACAATATCAATTGAATATCACGCC
AAGACAATCCACCATGAAAATGTTCATCTGTTGCAACAACTTTTGAGGGTTTAGAGTGGCACGGG
AAGATTTACACAGTTTTTAATGATTTAGAGAACATCACAATAGAGTACAAAAGGACATCT
Found at i:147379 original size:20 final size:20
Alignment explanation
Indices: 147354--147392 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
147344 TGCAAAATGA
147354 GTATCGATACTGCTACAGTT
1 GTATCGATACTGCTACAGTT
*
147374 GTATCGATACTGTTACAGT
1 GTATCGATACTGCTACAGT
147393 AATATCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTT
Found at i:147398 original size:20 final size:20
Alignment explanation
Indices: 147355--147398 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
147345 GCAAAATGAG
**
147355 TATCGATACTGCTACAGTTG
1 TATCGATACTGCTACAGTAA
*
147375 TATCGATACTGTTACAGTAA
1 TATCGATACTGCTACAGTAA
147395 TATC
1 TATC
147399 AAGCCCAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
TATCGATACTGCTACAGTAA
Found at i:147461 original size:21 final size:22
Alignment explanation
Indices: 147432--147475 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
147422 AAATATTACA
147432 AAGGTAGTACCGATACTAATTG
1 AAGGTAGTACCGATACTAATTG
* *
147454 AAGG-AGTATCGATACTACTTG
1 AAGGTAGTACCGATACTAATTG
147475 A
1 A
147476 TCTAGGCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
AAGGTAGTACCGATACTAATTG
Found at i:148710 original size:28 final size:28
Alignment explanation
Indices: 148678--148744 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
148668 TCAACAAAAG
**
148678 TTTATAGGATTTGGAGTTTATGATATAA
1 TTTATAGGATTTAAAGTTTATGATATAA
* *
148706 TTTATA-TAGTTTAAAGTTTATGATGTAA
1 TTTATAGGA-TTTAAAGTTTATGATATAA
148734 TTTATAGGATT
1 TTTATAGGATT
148745 GGTACTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 30 0.94
29 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (28 bp):
TTTATAGGATTTAAAGTTTATGATATAA
Found at i:149284 original size:16 final size:16
Alignment explanation
Indices: 149263--149293 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
149253 GTCGAGTGTG
149263 GATGAGCACCATTAAC
1 GATGAGCACCATTAAC
149279 GATGAGCACCATTAA
1 GATGAGCACCATTAA
149294 ATTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (16 bp):
GATGAGCACCATTAAC
Found at i:149636 original size:20 final size:20
Alignment explanation
Indices: 149607--149664 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
149597 TATGCTCGGA
149607 GGGA-ACCGATTCCCCCCAG
1 GGGATACCGATTCCCCCCAG
149626 GGGATACCGATTCCCCCCAG
1 GGGATACCGATTCCCCCCAG
149646 GGGATACCGATTCCCCCCA
1 GGGATACCGATTCCCCCCA
149665 CTGTTCAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 34 0.89
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.14
Consensus pattern (20 bp):
GGGATACCGATTCCCCCCAG
Found at i:149884 original size:17 final size:16
Alignment explanation
Indices: 149857--149889 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
149847 GAAGCCATTG
149857 ATCAACAACAAGAAAT
1 ATCAACAACAAGAAAT
149873 ATCAAGCAACAAGAAAT
1 ATCAA-CAACAAGAAAT
149890 CATAGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
ATCAACAACAAGAAAT
Found at i:155116 original size:23 final size:23
Alignment explanation
Indices: 155082--155131 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
155072 GGAATCGATA
155082 CCCC-TTGAAGGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
155104 CCCCTTTGAAGGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
155127 CCCCT
1 CCCCT
155132 AGGGGAATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (23 bp):
CCCCTTTGAAGGGGAACCGATTC
Found at i:155137 original size:19 final size:19
Alignment explanation
Indices: 155090--155154 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 19
155080 TACCCCTTGA
155090 AGGGGAACCGATTCCCCCTTT
1 AGGGGAACCGATTCCCCC--T
155111 GAAGGGGAACCGATTCCCCCT
1 --AGGGGAACCGATTCCCCCT
* *
155132 AGGGGAATCGATACCCCCT
1 AGGGGAACCGATTCCCCCT
155151 -GGGG
1 AGGGG
155155 TTCTGGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.10
19 17 0.43
21 1 0.03
23 18 0.45
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.17
Consensus pattern (19 bp):
AGGGGAACCGATTCCCCCT
Found at i:155154 original size:18 final size:19
Alignment explanation
Indices: 155071--155154 Score: 62
Period size: 23 Copynumber: 4.2 Consensus size: 19
155061 ATAGGGCAGA
* *
155071 GGGAATCGATACCCCTTGAAG
1 GGGAACCGATACCCCCT--AG
*
155092 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC--T--AG
*
155115 GGGAACCGATTCCCCCTAG
1 GGGAACCGATACCCCCTAG
*
155134 GGGAATCGATACCCCCT-G
1 GGGAACCGATACCCCCTAG
155152 GGG
1 GGG
155155 TTCTGGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
18 4 0.07
19 17 0.30
21 14 0.25
23 21 0.38
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.18
Consensus pattern (19 bp):
GGGAACCGATACCCCCTAG
Found at i:158090 original size:17 final size:16
Alignment explanation
Indices: 158063--158094 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
158053 GAAGCCATTG
158063 ATCAACAACAAGAAAC
1 ATCAACAACAAGAAAC
158079 ATCAAGCAACAAGAAA
1 ATCAA-CAACAAGAAA
158095 TCATAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.62, C:0.22, G:0.09, T:0.06
Consensus pattern (16 bp):
ATCAACAACAAGAAAC
Found at i:158109 original size:18 final size:17
Alignment explanation
Indices: 158069--158110 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
158059 ATTGATCAAC
*
158069 AACAAGAAACATCAAGC
1 AACAAGAAACATCAAGA
158086 AACAAGAAATCAT-AGAGA
1 AACAAGAAA-CATCA-AGA
158104 AACAAGA
1 AACAAGA
158111 GAGAAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (17 bp):
AACAAGAAACATCAAGA
Found at i:160839 original size:17 final size:17
Alignment explanation
Indices: 160819--160864 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
160809 ATGAATTTGG
*
160819 TCAATTAATAGGTTGAT
1 TCAATTAATAGGTTGAA
160836 TCAATTACAT--GTTGAA
1 TCAATTA-ATAGGTTGAA
160852 TCAATT-ATAGGTT
1 TCAATTAATAGGTT
160865 AGATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.08
16 14 0.56
17 7 0.28
18 2 0.08
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (17 bp):
TCAATTAATAGGTTGAA
Found at i:162937 original size:64 final size:65
Alignment explanation
Indices: 162869--163019 Score: 211
Period size: 65 Copynumber: 2.3 Consensus size: 65
162859 GCACTAAGTG
* * *
162869 TGCATCAAATGCATTCGATGTTTT-A-AAAAAGCCTGAGTGCATCGATGCATGGTA-TGTGCATC
1 TGCATCAAATGCATTCGATGTTTTCATAAAAA-CCCGAGTGCATCGATGCATGG-AGAGTACATC
162931 GA
64 GA
*
162933 TGCATCAAATGCATTCGATGTTTTCATTAAAACCCGAGTGCATCGATGCATGGAGAGTACATCGA
1 TGCATCAAATGCATTCGATGTTTTCATAAAAACCCGAGTGCATCGATGCATGGAGAGTACATCGA
162998 TGCAT-AAACTGCATTCGATGTT
1 TGCATCAAA-TGCATTCGATGTT
163020 CAATTTATTC
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
64 28 0.35
65 47 0.59
66 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (65 bp):
TGCATCAAATGCATTCGATGTTTTCATAAAAACCCGAGTGCATCGATGCATGGAGAGTACATCGA
Found at i:163061 original size:65 final size:63
Alignment explanation
Indices: 162869--163068 Score: 192
Period size: 65 Copynumber: 3.1 Consensus size: 63
162859 GCACTAAGTG
* * *
162869 TGCATCAAATGCATTCGATGTTTTA-AAAAAGCCTGAGTGCATCGATGCATGG-TATGTGCATCG
1 TGCAT-AAATGCATTCGATGTTTCATTAAAA-CCCGAGTGCATCGATGCATGGATA-GTGCATCG
162932 A
63 A
* *
162933 TGCATCAAATGCATTCGATGTTTTCATTAAAACCCGAGTGCATCGATGCATGGAGAGTACATCGA
1 TGCAT-AAATGCATTCGATG-TTTCATTAAAACCCGAGTGCATCGATGCATGGATAGTGCATCGA
* ** **
162998 TGCATAAACTGCATTCGATG-TTCAATTTATTCGTTG-GTGCATCGATGCATGGATTAGTGCATC
1 TGCATAAA-TGCATTCGATGTTTC-ATTAAAAC-CCGAGTGCATCGATGCATGGA-TAGTGCATC
*
163061 GG
62 GA
163063 TGCATA
1 TGCATA
163069 CCTTTGAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 3 0.03
64 45 0.39
65 63 0.54
66 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (63 bp):
TGCATAAATGCATTCGATGTTTCATTAAAACCCGAGTGCATCGATGCATGGATAGTGCATCGA
Found at i:164742 original size:21 final size:21
Alignment explanation
Indices: 164716--164883 Score: 131
Period size: 21 Copynumber: 7.9 Consensus size: 21
164706 CATATAAAAT
* *
164716 TGTCCCTAAGGACCTCATATA
1 TGTCCCAAAGGACCACATATA
* * *
164737 TGTCCCGAATGACCACTTATA
1 TGTCCCAAAGGACCACATATA
*
164758 TGTCCCAAAGTACCACATATAA
1 TGTCCCAAAGGACCACATAT-A
* **
164780 T-TCTCCTTAAGGATTACATATA
1 TGTC-CC-AAAGGACCACATATA
* * * *
164802 TATTCCAAAGGACCAAATATG
1 TGTCCCAAAGGACCACATATA
* *
164823 TGTCCCAAAGAACCGCATATA
1 TGTCCCAAAGGACCACATATA
* *
164844 TGTTCCAAAGGACTACATATA
1 TGTCCCAAAGGACCACATATA
**
164865 TGTCCTGAAGGACCACATA
1 TGTCCCAAAGGACCACATA
164884 GAACCCTTGA
Statistics
Matches: 111, Mismatches: 32, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
21 92 0.83
22 8 0.07
23 11 0.10
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (21 bp):
TGTCCCAAAGGACCACATATA
Found at i:164802 original size:65 final size:63
Alignment explanation
Indices: 164723--164883 Score: 164
Period size: 65 Copynumber: 2.5 Consensus size: 63
164713 AATTGTCCCT
* * *
164723 AAGGACCT-CATATATGTCCCGAATGACCACTTATATGTCCCAAAGTACCACATATAAT-TCTCC
1 AAGGA-CTACATATATGTCCCGAAGGACCACATATATGTCCCAAAGAACCACATAT-ATGT-TCC
*
164786 TT
63 -A
* * * * * * *
164788 AAGGATTACATATATATTCCAAAGGACCAAATATGTGTCCCAAAGAACCGCATATATGTTCCA
1 AAGGACTACATATATGTCCCGAAGGACCACATATATGTCCCAAAGAACCACATATATGTTCCA
*
164851 AAGGACTACATATATGTCCTGAAGGACCACATA
1 AAGGACTACATATATGTCCCGAAGGACCACATA
164884 GAACCCTTGA
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
63 27 0.35
64 6 0.08
65 44 0.57
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (63 bp):
AAGGACTACATATATGTCCCGAAGGACCACATATATGTCCCAAAGAACCACATATATGTTCCA
Found at i:168331 original size:23 final size:23
Alignment explanation
Indices: 168282--168348 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
168272 ATTTTATATG
* * **
168282 GCACTTCGGTTCAATTCTACGTG
1 GCACTTCGGTGCATTTCTACGCC
*
168305 GCACTACGGTGCATTTCTACGCC
1 GCACTTCGGTGCATTTCTACGCC
* *
168328 GCACTTCAGTGCATTTATACG
1 GCACTTCGGTGCATTTCTACG
168349 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.31
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGCC
Found at i:171040 original size:22 final size:21
Alignment explanation
Indices: 170985--171040 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
170975 AAATTTTAGG
*
170985 AATGG-TTAAAGGAAAATGCAT
1 AATGGATTAAA-GAAAATACAT
**
171006 AATGGAAGGAAAGAAAATACAT
1 AATGG-ATTAAAGAAAATACAT
171028 AAATGGATTAAAG
1 -AATGGATTAAAG
171041 TTATTATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.23, T:0.20
Consensus pattern (21 bp):
AATGGATTAAAGAAAATACAT
Found at i:175876 original size:12 final size:12
Alignment explanation
Indices: 175859--175888 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
175849 AAATGATGCT
175859 AATAATAATAAG
1 AATAATAATAAG
175871 AATAATAATAAG
1 AATAATAATAAG
*
175883 GATAAT
1 AATAAT
175889 GAGATGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (12 bp):
AATAATAATAAG
Found at i:181657 original size:2 final size:2
Alignment explanation
Indices: 181652--181972 Score: 176
Period size: 2 Copynumber: 164.5 Consensus size: 2
181642 AATTAAAAAA
* *
181652 AT AT AT A- AT AT AT AT A- AT AT A- AGT TT AT AT AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT
* * * * * *
181693 AT AT AA AT -T AT GT TT AT AT AT AT AT AT AT AT AA ACT AT AA AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
181735 AGT GT AT AGT TT AT AA ACT AT A- AT TT AT AT -T A- AT AT AGT GT
1 A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT
*
181776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
181818 AA ACT AT AT AT GT AT AA ACT AT AT A- AA AT AT AT -T GT TT AT AA
1 AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
181860 AT -T AT A- AT TT AT AT -T A- AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
181897 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT A- ACT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
181937 AGT A- AT CT AT AG AT -T AT AT AT AT AT AT AT AT AT AT A
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
181973 GTTTATAGAA
Statistics
Matches: 243, Mismatches: 46, Indels: 60
0.70 0.13 0.17
Matches are distributed among these distances:
1 19 0.08
2 215 0.88
3 9 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:181936 original size:109 final size:109
Alignment explanation
Indices: 181654--181936 Score: 360
Period size: 109 Copynumber: 2.6 Consensus size: 109
181644 TTAAAAAAAT
* * * *
181654 ATATAATATATATAATATAAGTTTATATATAAACTATATATATAAAT-TATGTTTATA-TATATA
1 ATATAATATATAT-ATAT-A-TATATATATATA-TATATATATATATGTATGTATA-ACTA-ATA
*
181717 TATATATAAACTATAAAAAGTGTATAGTTTATAAACTATAATTTATATTA
60 TATATATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTA
* * *
181767 ATATAGTGTATATATATATATATATATATATATATATATATATATGTATATA-AACT-ATATATG
1 ATATA--ATATATATATATATATATATATATATATATATATATATGTATGTATAACTAATATATA
* *
181830 TATAAACTATATAAAA-TATATTGTTTATAAATTATAATTTATATTA
64 TATAAACTATA-AAAAGTATATAGTTTATAAACTATAATTTATATTA
181876 ATATAATATATATATATATATATATATATATATATATATATATGTATGTATAACTAATATA
1 ATATAATATATATATATATATATATATATATATATATATATATGTATGTATAACTAATATA
181937 AGTAATCTAT
Statistics
Matches: 151, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
107 43 0.28
108 4 0.03
109 54 0.36
110 5 0.03
111 14 0.09
112 14 0.09
113 6 0.04
114 4 0.03
115 7 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (109 bp):
ATATAATATATATATATATATATATATATATATATATATATATGTATGTATAACTAATATATATA
TAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTA
Found at i:181959 original size:109 final size:107
Alignment explanation
Indices: 181677--181947 Score: 334
Period size: 107 Copynumber: 2.5 Consensus size: 107
181667 AATATAAGTT
* * * * * * * *
181677 TATATATAAACTATATATATAAAT-TATGTTTATATA-TATATATATATAAACTATAAAAAGTGT
1 TATATATATA-TATATATATATATATATGTATATAAACTATATA-AGATAAACTATATAAAATAT
* *
181740 ATAGTTTATAAACTATAATTTATATTAATATAGTGTATATATATA
64 ATTGTTTATAAACTATAATTTATATTAATATAG-ATATATATATA
*
181785 TATATATATATATATATATATATATATGTATATAAACTATATATGTATAAACTATATAAAATATA
1 TATATATATATATATATATATATATATGTATATAAACTATATAAG-ATAAACTATATAAAATATA
*
181850 TTGTTTATAAATTATAATTTATATTAATATA-ATATATATATA
65 TTGTTTATAAACTATAATTTATATTAATATAGATATATATATA
* *
181892 TATATATATATATATATATATATATATGTATGTATAACTAATATAAG-TAATCTATA
1 TATATATATATATATATATATATATATGTATATA-AACT-ATATAAGATAAACTATA
181948 GATTATATAT
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
107 63 0.44
108 23 0.16
109 57 0.40
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (107 bp):
TATATATATATATATATATATATATATGTATATAAACTATATAAGATAAACTATATAAAATATAT
TGTTTATAAACTATAATTTATATTAATATAGATATATATATA
Found at i:182573 original size:22 final size:23
Alignment explanation
Indices: 182539--182582 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
182529 ATTTGAATTT
* *
182539 TATACAGGTAGTATCGATACCCC
1 TATAAAGGTAGTACCGATACCCC
182562 TATAAAGG-AGTACCGATACCC
1 TATAAAGGTAGTACCGATACCC
182583 ATATGCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (23 bp):
TATAAAGGTAGTACCGATACCCC
Found at i:191778 original size:21 final size:22
Alignment explanation
Indices: 191748--191794 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
191738 CATGAACCCT
191748 AACCCTTAAACTT-TAAA-CTCTA
1 AACCCTTAAA-TTCTAAATC-CTA
191770 AACCC-TAAATTCTAAATCCTA
1 AACCCTTAAATTCTAAATCCTA
191791 AACC
1 AACC
191795 ATGAACTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.09
21 15 0.65
22 6 0.26
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (22 bp):
AACCCTTAAATTCTAAATCCTA
Found at i:191847 original size:20 final size:20
Alignment explanation
Indices: 191824--191868 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
191814 TATAGTACAT
* *
191824 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
191844 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
191864 -TATAT
1 GTATAT
191869 TTATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:192036 original size:16 final size:17
Alignment explanation
Indices: 192013--192095 Score: 71
Period size: 16 Copynumber: 4.8 Consensus size: 17
192003 GACAATTCAT
192013 ATATAGTTTATATAAAC
1 ATATAGTTTATATAAAC
*
192030 A-ATAGTTTATATAAATT
1 ATATAGTTTATATAAA-C
* * * *
192047 ATATAGGTAACATTAAC
1 ATATAGTTTATATAAAC
192064 ATATAGTCTATATATAAAC
1 ATATAGT-T-TATATAAAC
*
192083 A-ATAGTTAATATA
1 ATATAGTTTATATA
192096 TGTAACATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
16 19 0.37
17 9 0.18
18 16 0.31
19 7 0.14
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (17 bp):
ATATAGTTTATATAAAC
Found at i:192094 original size:18 final size:18
Alignment explanation
Indices: 192013--192112 Score: 77
Period size: 18 Copynumber: 5.7 Consensus size: 18
192003 GACAATTCAT
192013 ATATAGTT-TATATAAAC
1 ATATAGTTATATATAAAC
*
192030 A-ATAGTT-TATATAAATT
1 ATATAGTTATATATAAA-C
* * *
192047 ATATAGGTA-ACATTAAC
1 ATATAGTTATATATAAAC
192064 ATATAGTCTATATATAAAC
1 ATATAGT-TATATATAAAC
*
192083 A-ATAGTTAATATATGTAAC
1 ATATAGTT-ATATAT-AAAC
192102 ATATAG-TATAT
1 ATATAGTTATAT
192113 GTATACATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
16 14 0.21
17 9 0.14
18 27 0.41
19 12 0.18
20 4 0.06
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (18 bp):
ATATAGTTATATATAAAC
Found at i:192178 original size:2 final size:2
Alignment explanation
Indices: 192166--192244 Score: 149
Period size: 2 Copynumber: 39.0 Consensus size: 2
192156 ATAAACTATG
192166 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192209 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192245 CAATCTATTT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 74 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:192307 original size:21 final size:20
Alignment explanation
Indices: 192283--192373 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
192273 ATATGCAACC
192283 TATAGTTTATAAACAATAGTT
1 TATA-TTTATAAACAATAGTT
**
192304 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-A-ATAGTT
* * *
192326 TATACTTTATAACCTATAGTA
1 TATA-TTTATAAACAATAGTT
*
192347 TATAATTTATAAACTATAGTT
1 TAT-ATTTATAAACAATAGTT
192368 TATATT
1 TATATT
192374 AATGTACTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 30 0.55
22 11 0.20
23 2 0.04
24 3 0.05
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATTTATAAACAATAGTT
Found at i:192397 original size:22 final size:21
Alignment explanation
Indices: 192294--192398 Score: 81
Period size: 22 Copynumber: 5.0 Consensus size: 21
192284 ATAGTTTATA
*
192294 AACA-ATAGTTTATATTAGTG
1 AACATATAGTTTATATTAATG
* *
192314 TACTATATAGTTTATACTTTAT-
1 AAC-ATATAGTTTATA-TTAATG
* * * *
192336 AACCTATAGTATATAATTTATA
1 AACATATAGTTTAT-ATTAATG
192358 AAC-TATAGTTTATATTAATG
1 AACATATAGTTTATATTAATG
*
192378 TACTATATAGTTTATATTAAT
1 AAC-ATATAGTTTATATTAAT
192399 ATTAATATTA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
20 9 0.13
21 24 0.35
22 32 0.47
23 3 0.04
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (21 bp):
AACATATAGTTTATATTAATG
Found at i:192402 original size:6 final size:6
Alignment explanation
Indices: 192391--192534 Score: 81
Period size: 6 Copynumber: 24.3 Consensus size: 6
192381 TATATAGTTT
* * * * *
192391 ATATTA ATATTA ATATTA ATTTTA TAGACT- ATATTTT ATATTA TTATTA
1 ATATTA ATATTA ATATTA ATATTA -ATATTA ATA-TTA ATATTA ATATTA
* * * *
192440 ATTTTAA ATTATAA ACTATTT ATATTA ATA-TA A-GTTA ATATTA ATATT-
1 ATATT-A A-TATTA A-TATTA ATATTA ATATTA ATATTA ATATTA ATATTA
192488 A-ATT- ATATTA ATATTA AT-TATA ATATATA AT-TT- ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATAT-TA ATAT-TA ATATTA ATATTA ATATTA
192533 AT
1 AT
192535 TATAAATAGT
Statistics
Matches: 107, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
4 6 0.06
5 16 0.15
6 64 0.60
7 19 0.18
8 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:192432 original size:37 final size:37
Alignment explanation
Indices: 192383--192491 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 37
192373 TAATGTACTA
* *
192383 TATAGTTTATATTAATATTAATATTAATTTTATAGAC
1 TATATTTTATATTAATATTAATATTAATTTTATAAAC
* * *
192420 TATATTTTATATTATTATTAATTTTAA-ATTATAAAC
1 TATATTTTATATTAATATTAATATTAATTTTATAAAC
192456 TATTTATATTAATATAAGTTAATATTAATATTAATT
1 TA--TAT-TT--TAT-A-TTAATATTAATATTAATT
192492 ATATTAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
36 9 0.16
37 24 0.43
38 3 0.05
39 2 0.04
41 3 0.05
42 1 0.02
43 14 0.25
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (37 bp):
TATATTTTATATTAATATTAATATTAATTTTATAAAC
Found at i:193311 original size:25 final size:25
Alignment explanation
Indices: 193238--193311 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
193228 CACCTAATGT
*
193238 AACATGAATT-ATCAACATGCAATGC
1 AACATGAATTAAT-AACATGCAATAC
193263 AACATGAATTAATAACATGCAATAC
1 AACATGAATTAATAACATGCAATAC
*
193288 CACATGAATTAATAACATGCAATA
1 AACATGAATTAATAACATGCAATA
193312 ATTATTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 44 0.96
26 2 0.04
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (25 bp):
AACATGAATTAATAACATGCAATAC
Found at i:193746 original size:3 final size:3
Alignment explanation
Indices: 193740--193805 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
193730 AAAAATACTA
193740 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
193788 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
193806 TACATGTTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:196784 original size:29 final size:28
Alignment explanation
Indices: 196715--196785 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
196705 AATTTACATT
196715 TAAATAATTTTATTAAATAATTTATATAA
1 TAAAT-ATTTTATTAAATAATTTATATAA
** *
196744 TAGGTATATTTATTAATTTAA-TTATCATAA
1 TAAATAT-TTTATTAA-ATAATTTAT-ATAA
196774 TAAATATTTTAT
1 TAAATATTTTAT
196786 GTTAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 2 0.06
29 20 0.59
30 12 0.35
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (28 bp):
TAAATATTTTATTAAATAATTTATATAA
Found at i:203207 original size:25 final size:25
Alignment explanation
Indices: 203179--203238 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
203169 ACTATGGTTA
203179 ACGTTTAAAATTTTTAAAAGTTTTG
1 ACGTTTAAAATTTTTAAAAGTTTTG
203204 ACGTTTAAAATTTTTAAAAGTTTTG
1 ACGTTTAAAATTTTTAAAAGTTTTG
*
203229 ACTTTTAAAA
1 ACGTTTAAAA
203239 AATTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (25 bp):
ACGTTTAAAATTTTTAAAAGTTTTG
Found at i:203429 original size:20 final size:21
Alignment explanation
Indices: 203384--203422 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
203374 CGTTGATACG
203384 ATTTTCAAATAAATTTTAAAT
1 ATTTTCAAATAAATTTTAAAT
*
203405 ATTTTCAAA-GAATTTTAA
1 ATTTTCAAATAAATTTTAA
203423 GTTTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTTTCAAATAAATTTTAAAT
Found at i:204098 original size:19 final size:20
Alignment explanation
Indices: 204074--204111 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
204064 TTCAAAATTC
204074 ATTTTATATT-TATG-ATTTT
1 ATTTTA-ATTATATGTATTTT
204093 ATTTTAATTATATGTATTT
1 ATTTTAATTATATGTATTT
204112 ATTGCGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTAATTATATGTATTTT
Found at i:204647 original size:7 final size:8
Alignment explanation
Indices: 204624--204649 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
204614 CTCATCCAAA
204624 TTGCTTTT
1 TTGCTTTT
204632 TTGCTTTT
1 TTGCTTTT
204640 TTGCTTTT
1 TTGCTTTT
204648 TT
1 TT
204650 ACATCTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.77
Consensus pattern (8 bp):
TTGCTTTT
Found at i:208534 original size:20 final size:20
Alignment explanation
Indices: 208509--208560 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
208499 GCCTTGAATG
208509 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
208529 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
*
208549 TACATCGATGCA
1 TGCATCGATGCA
208561 TCCGTCGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAAGGCCA
Found at i:209248 original size:34 final size:32
Alignment explanation
Indices: 209195--209264 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
209185 CCTTACAAAC
*
209195 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
209227 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
209261 TCCC
1 TCCC
209265 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:209573 original size:21 final size:22
Alignment explanation
Indices: 209547--209589 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
209537 CCAGAATGGG
*
209547 GGGAATCGGTACCCC-TTCATA
1 GGGAATCGATACCCCATTCATA
209568 GGGAATCGATACCCCATTCATA
1 GGGAATCGATACCCCATTCATA
209590 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (22 bp):
GGGAATCGATACCCCATTCATA
Found at i:209780 original size:35 final size:35
Alignment explanation
Indices: 209702--209783 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 35
209692 AAACCATGTA
209702 GGGGGAATCTG-TACCTGGGGAATCGATACCCCTG
1 GGGGGAATCTGTTACCTGGGGAATCGATACCCCTG
* *
209736 GGGGAAATCTGTTTCC-GGGGAATCGATACCCCCTG
1 GGGGGAATCTGTTACCTGGGGAATCGATA-CCCCTG
209771 GGGGGAATCTGTT
1 GGGGGAATCTGTT
209784 CCCCCTGGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.51
35 21 0.49
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (35 bp):
GGGGGAATCTGTTACCTGGGGAATCGATACCCCTG
Found at i:209798 original size:22 final size:22
Alignment explanation
Indices: 209752--209813 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
209742 ATCTGTTTCC
209752 GGGGAATC-GATACCCCCT--GG
1 GGGGAATCTG-TACCCCCTGGGG
*
209772 GGGGAATCTGTTCCCCCTGGGG
1 GGGGAATCTGTACCCCCTGGGG
209794 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
209814 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.41
21 1 0.03
22 21 0.57
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.19
Consensus pattern (22 bp):
GGGGAATCTGTACCCCCTGGGG
Found at i:213296 original size:2 final size:2
Alignment explanation
Indices: 213289--213367 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
213279 TATTGTACAT
213289 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
213368 CATCCCTTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:213554 original size:29 final size:29
Alignment explanation
Indices: 213505--213565 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
213495 AGTTCATTAT
* * *
213505 TCTTTTACTCAACAGTGTTTAACCTTTCA
1 TCTTCTACTCAACAGTATTTAACCGTTCA
*
213534 TCTTCTACTCAACGGTATTTAACCGTTCA
1 TCTTCTACTCAACAGTATTTAACCGTTCA
213563 TCT
1 TCT
213566 AACTGGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (29 bp):
TCTTCTACTCAACAGTATTTAACCGTTCA
Found at i:213791 original size:2 final size:2
Alignment explanation
Indices: 213784--213875 Score: 184
Period size: 2 Copynumber: 46.0 Consensus size: 2
213774 CAATTCACCT
213784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213868 TA TA TA TA
1 TA TA TA TA
213876 GTATTTCATT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:214007 original size:45 final size:45
Alignment explanation
Indices: 213952--214061 Score: 152
Period size: 45 Copynumber: 2.4 Consensus size: 45
213942 TTTTAGGTTG
* *
213952 ATAATGCACCCATATGCATTTCAG-TGTTGGCATCCTTTGATACCA
1 ATAATGCACCCATATGCATTTCAGCT-ATGGCATCCTTTCATACCA
* *
213997 ATAATGCACCCATATGCATGTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATACCA
214042 ATAATGCA-CCATTATGCATT
1 ATAATGCACCCA-TATGCATT
214062 ATTCTTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 3 0.05
45 54 0.93
46 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATACCA
Found at i:214127 original size:45 final size:43
Alignment explanation
Indices: 214076--214208 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 43
214066 TTTTATGTTG
214076 ATAATGCACCCATATGCATTTCACCTATGGCATCATTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-CTATGGCATC-TTTCATGCCA
* **
214121 ATAATGCACCCATATTCA-TT-A-T-T--C-T-TTT-ATGCTG
1 ATAATGCACCCATATGCATTTCACTATGGCATCTTTCATGCCA
*
214155 ATAATGCACCCATGTGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-CTATGGCAT-CTTTCATGCCA
214200 ATAATGCAC
1 ATAATGCAC
214209 ACACAGTGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
34 20 0.29
35 5 0.07
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 5 0.07
45 30 0.43
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTCACTATGGCATCTTTCATGCCA
Found at i:214128 original size:79 final size:78
Alignment explanation
Indices: 213997--214208 Score: 352
Period size: 79 Copynumber: 2.7 Consensus size: 78
213987 TTTGATACCA
*
213997 ATAATGCACCCATATGCATGTCAGCTATGGCATCCTTTCATGCCAATAATGCACCATTATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCA-TATGCATT
*
214062 ATTCTTTTATGTTG
65 ATTCTTTTATGCTG
* * *
214076 ATAATGCACCCATATGCATTTCACCTATGGCATCATTTCATGCCAATAATGCACCCATATTCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCA-CCATATGCATT
214141 ATTCTTTTATGCTG
65 ATTCTTTTATGCTG
*
214155 ATAATGCACCCATGTGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
214209 ACACAGTGCA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 1 0.01
79 120 0.97
80 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCATATGCATTA
TTCTTTTATGCTG
Found at i:214807 original size:95 final size:94
Alignment explanation
Indices: 214648--214847 Score: 253
Period size: 95 Copynumber: 2.1 Consensus size: 94
214638 TGGTTCTTTA
* ** *
214648 GTATCGATACT---ATATTATGGTACCGATACCCCCTCCAGTATCGATACCAATTTTAGATTTGA
1 GTATCGATACTACCATACTATGGTACCGATACCCCCTCCAGTATCGATACCAAAATTAGATTCGA
* * *
214710 TGTTACCTGGTATCTATACCCTTGCCATG
66 TGTTACCTGGTATCGATACCCTTACCAGG
* * *
214739 GTATCGATACTACCATACTATGGTATCGATACCCCCTTCCGGTATCGATACCAAAATTAGGTTCG
1 GTATCGATACTACCATACTATGGTACCGATACCCCC-TCCAGTATCGATACCAAAATTAGATTCG
* *
214804 ATGTTGCTTGGTATCGATACCCTTACCAGG
65 ATGTTACCTGGTATCGATACCCTTACCAGG
*
214834 GTATCGATATTACC
1 GTATCGATACTACC
214848 TTGTCGGTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
91 11 0.12
94 20 0.22
95 61 0.66
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (94 bp):
GTATCGATACTACCATACTATGGTACCGATACCCCCTCCAGTATCGATACCAAAATTAGATTCGA
TGTTACCTGGTATCGATACCCTTACCAGG
Found at i:224241 original size:16 final size:17
Alignment explanation
Indices: 224220--224251 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
224210 TTTATTATAA
224220 TATAATTATA-AAAAAT
1 TATAATTATACAAAAAT
224236 TATAATTATACAAAAA
1 TATAATTATACAAAAA
224252 AAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAATTATACAAAAAT
Found at i:226295 original size:2 final size:2
Alignment explanation
Indices: 226288--226331 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
226278 CCCACTTTGT
226288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
226330 TA
1 TA
226332 GGGGTGTTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:228139 original size:22 final size:22
Alignment explanation
Indices: 228098--228164 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
228088 CTCGTATAAA
228098 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
228121 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
228143 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
228165 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:229882 original size:21 final size:21
Alignment explanation
Indices: 229858--229902 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
229848 TCTTGTTCGT
* *
229858 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
229879 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
229900 TTG
1 TTG
229903 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:233020 original size:22 final size:22
Alignment explanation
Indices: 232979--233045 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
232969 CTCGTATAAA
232979 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
233002 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
233024 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
233046 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:234762 original size:21 final size:21
Alignment explanation
Indices: 234738--234782 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
234728 TCTTGTTCGT
* *
234738 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
234759 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
234780 TTG
1 TTG
234783 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:238109 original size:10 final size:8
Alignment explanation
Indices: 238082--238111 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
238072 ATTCAGATTC
238082 ATATTCAT
1 ATATTCAT
238090 ATATTCAT
1 ATATTCAT
238098 ATATTCAT
1 ATATTCAT
238106 ATATTC
1 ATATTC
238112 GATCTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTCAT
Found at i:238282 original size:59 final size:59
Alignment explanation
Indices: 238190--238302 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 59
238180 TAAATATTCG
* *
238190 ATATCTGATGTTGTAGAGGCAATGCCAACCCTCCTAACTCAGTTTTCTCTATTCAATCT
1 ATATCTGATATTGTAGAGGCAATGCCAACCCTCCTAACTCAGTTTTCTCAATTCAATCT
238249 ATATCTGATATTGTAGAGGCAA-GACCAACCCTCCTAACTCAGTTTTCTCAATTC
1 ATATCTGATATTGTAGAGGCAATG-CCAACCCTCCTAACTCAGTTTTCTCAATTC
238303 GCAAACATCA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 1 0.02
59 50 0.98
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (59 bp):
ATATCTGATATTGTAGAGGCAATGCCAACCCTCCTAACTCAGTTTTCTCAATTCAATCT
Found at i:243784 original size:21 final size:21
Alignment explanation
Indices: 243758--243800 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
243748 GTGTATCCTC
243758 AGCAATCACA-AGATCTTCTTG
1 AGCAATCACAGA-ATCTTCTTG
*
243779 AGCAATCGCAGAATCTTCTTG
1 AGCAATCACAGAATCTTCTTG
243800 A
1 A
243801 CTAACACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (21 bp):
AGCAATCACAGAATCTTCTTG
Found at i:255821 original size:235 final size:236
Alignment explanation
Indices: 255404--255850 Score: 808
Period size: 235 Copynumber: 1.9 Consensus size: 236
255394 TTGGAGGCAG
*
255404 ACAGAAACCCAATATTCTTTTAGATGAATTTTGGGTTGTATTAGATCGAAATGACCTTTCGGACT
1 ACAGAAACCCAAGATTCTTTTAGATGAATTTTGGGTTGTATTAGAT--AAATGACCTTTCGGACT
*
255469 GCAAACCATCCGAAGGGTGGTTCACTTGGTTCTATAGCACAAACCCAACTACTTTTATAGCTGTA
64 GCAAACCATCCAAAGGGTGGTTCACTTGGTTCTATAGCACAAACCCAACTACTTTTATAGCTGTA
*
255534 AGGTTTGATCGGTATGTGGCTTCGCTACAATGGTTCAATGATCACGCTCATTTCCGTGTTTACAC
129 AGGTTTGATCGGTATGTGGCTTCGCTACAATGGTTCAATGATCACCCTCATTTCCGTGTTTACAC
255599 TGAATATGCGACGTGTTTGGATAATTTCTTTCTTGTTATGAGT
194 TGAATATGCGACGTGTTTGGATAATTTCTTTCTTGTTATGAGT
*
255642 ACAGAAATCCAAGA-TCATTTTAGATGAATTTTGGGTTGTATTAGAT-AATGACCTTTCGGACTG
1 ACAGAAACCCAAGATTC-TTTTAGATGAATTTTGGGTTGTATTAGATAAATGACCTTTCGGACTG
255705 CAAACCATCCAAAGGGTGGTTCACTTGGTTCTATAGCACAAACCCAACTACTTTTATAGCTGTAA
65 CAAACCATCCAAAGGGTGGTTCACTTGGTTCTATAGCACAAACCCAACTACTTTTATAGCTGTAA
*
255770 GGTTTGATCTGTATGTGGCTTCGCTACAATGGTTCAATGATCACCCTCATTTCCGTGTTTACACT
130 GGTTTGATCGGTATGTGGCTTCGCTACAATGGTTCAATGATCACCCTCATTTCCGTGTTTACACT
255835 GAATATGCGACGTGTT
195 GAATATGCGACGTGTT
255851 AGAAGGAATG
Statistics
Matches: 203, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
235 160 0.79
237 2 0.01
238 41 0.20
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (236 bp):
ACAGAAACCCAAGATTCTTTTAGATGAATTTTGGGTTGTATTAGATAAATGACCTTTCGGACTGC
AAACCATCCAAAGGGTGGTTCACTTGGTTCTATAGCACAAACCCAACTACTTTTATAGCTGTAAG
GTTTGATCGGTATGTGGCTTCGCTACAATGGTTCAATGATCACCCTCATTTCCGTGTTTACACTG
AATATGCGACGTGTTTGGATAATTTCTTTCTTGTTATGAGT
Found at i:258821 original size:14 final size:14
Alignment explanation
Indices: 258802--258844 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
258792 TACATAATTG
258802 CATATTATATAGTT
1 CATATTATATAGTT
*
258816 CATATTAAATAGTAGT
1 CATATTATATAGT--T
258832 -ATATTATATAGTT
1 CATATTATATAGTT
258845 TCCATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 11 0.44
16 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (14 bp):
CATATTATATAGTT
Done.