Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004229.1 Hibiscus syriacus cultivar Beakdansim tig00009259_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: 69963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5602 original size:17 final size:17
Alignment explanation
Indices: 5582--5639 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
5572 TCTTATTTCA
5582 TTTCTTTTGAATTCAAT
1 TTTCTTTTGAATTCAAT
*
5599 TTTC-TTT-CATTCAATACT
1 TTTCTTTTGAATTC-A-A-T
*
5617 TTTCTTTTGAATTGAAT
1 TTTCTTTTGAATTCAAT
5634 TTTCTT
1 TTTCTT
5640 CCATTCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 12 0.36
18 6 0.18
19 4 0.12
20 3 0.09
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTCTTTTGAATTCAAT
Found at i:5628 original size:35 final size:35
Alignment explanation
Indices: 5582--5652 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
5572 TCTTATTTCA
*
5582 TTTCTTTTGAATTCAATTTTCTTTCATTCAATACT
1 TTTCTTTTGAATTCAATTTTCTTCCATTCAATACT
*
5617 TTTCTTTTGAATTGAATTTTCTTCCATTCAATACT
1 TTTCTTTTGAATTCAATTTTCTTCCATTCAATACT
5652 T
1 T
5653 CGTTTTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.56
Consensus pattern (35 bp):
TTTCTTTTGAATTCAATTTTCTTCCATTCAATACT
Found at i:6955 original size:49 final size:49
Alignment explanation
Indices: 6883--6981 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
6873 TTTCTTTTAT
* *
6883 TGACTTTCCAGAATGTTTGTCATATACTTTGTTCATTTTTCCTTATAAA
1 TGACTTTCCAGAATGTTTGTCATATACTCTGTTCATTTTCCCTTATAAA
*
6932 TGACTTTCCAGAATGTTTTTCATATACTCTGTTCATTTTCCCTTATAAA
1 TGACTTTCCAGAATGTTTGTCATATACTCTGTTCATTTTCCCTTATAAA
6981 T
1 T
6982 AAATATGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (49 bp):
TGACTTTCCAGAATGTTTGTCATATACTCTGTTCATTTTCCCTTATAAA
Found at i:7600 original size:107 final size:107
Alignment explanation
Indices: 7439--7638 Score: 314
Period size: 107 Copynumber: 1.9 Consensus size: 107
7429 TATTGAACTC
*
7439 ATTTACAAGATTGGATTCCAACTTCACAACGAAGGACATCCCATTCAAAGCTCAACTTCACA-TC
1 ATTTACAAGATTGGATTCCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGT-
*
7503 GAATGAGCCACCATA-ATTTCAACTTCACAACGAAAACAATGCA
65 GAAGGAGCCACC-TACATTTCAACTTCACAACGAAAACAATGCA
** *
7546 ATTTACAAGATTGGATTTGAACTTCACAACGAAGGACATCCAATTCAAATCTCAACTTCACAGTG
1 ATTTACAAGATTGGATTCCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTG
7611 AAGGAGCCACCTACGATTTCAACTTCAC
66 AAGGAGCCACCTAC-ATTTCAACTTCAC
7639 GAAGAAGTAT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
106 2 0.02
107 69 0.81
108 14 0.16
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (107 bp):
ATTTACAAGATTGGATTCCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTG
AAGGAGCCACCTACATTTCAACTTCACAACGAAAACAATGCA
Found at i:8242 original size:2 final size:2
Alignment explanation
Indices: 8235--8295 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
8225 TTAATAAATA
8235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8277 AT A- AC AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
8296 GTTTTTGAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8325 original size:32 final size:32
Alignment explanation
Indices: 8284--8573 Score: 244
Period size: 32 Copynumber: 8.2 Consensus size: 32
8274 TATATAACAT
*
8284 ATATAATATATAGTTTTTGAAAACGTTTTGAAAACATA
1 ATAT-ATATATAGTTTTTGAAAACATTTTG---A-A-A
*
8322 TATATAATATATAGCTTTTT--AAATATTTTGAAA
1 -ATAT-ATATATAG-TTTTTGAAAACATTTTGAAA
8355 ATATATATATA-TAATCTTTGAAAACATTTTGAAAGCA
1 ATATATATATAGT--T-TTTGAAAACATTTTG-AA--A
* *
8392 TATATATATATAGTTTTTGAAGATATTTTGAAA
1 -ATATATATATAGTTTTTGAAAACATTTTGAAA
8425 ATATATATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATATAGTTTTTGAAAACATTTTGAAA
8457 ATATATTATATAGTTTTTGAAAACATTTTGAAAATATA
1 ATATA-TATATAGTTTTTGAAAACATTTTG---A-A-A
*
8495 TATATAATATATAGTTTTTGAAAATATTTTGAAAAA
1 -ATAT-ATATATAGTTTTTGAAAACATTTTG--AAA
*
8531 ATATGTAATATATTGTTTTTGAAAACATTTTGAAA
1 ATA--T-ATATATAGTTTTTGAAAACATTTTGAAA
8566 ATATATAT
1 ATATATAT
8574 TATATAGTTT
Statistics
Matches: 220, Mismatches: 10, Indels: 49
0.79 0.04 0.18
Matches are distributed among these distances:
29 1 0.00
31 8 0.04
32 46 0.21
33 27 0.12
34 10 0.05
35 14 0.06
36 15 0.07
37 29 0.13
38 23 0.10
39 41 0.19
40 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (32 bp):
ATATATATATAGTTTTTGAAAACATTTTGAAA
Found at i:8375 original size:72 final size:69
Alignment explanation
Indices: 8282--8595 Score: 325
Period size: 72 Copynumber: 4.4 Consensus size: 69
8272 TATATATAAC
* * *
8282 ATATATAATATATAGTTTTTGAAAACGTTTTGAAAACATATATATAATATATAGCTTTTT-AAAT
1 ATATAT-ATATATAATTTTTGAAAACATTTTGAAAA-A-ATATAT-ATATATAG-TTTTTGAAAC
8346 ATTTTGAAA
61 ATTTTGAAA
* ** *
8355 ATATATATATATAATCTTTGAAAACATTTTGAAAGCATATATATATATAGTTTTTGAAGATATTT
1 ATATATATATATAATTTTTGAAAACATTTTGAAAAAATATATATATATAGTTTTTGAA-ACATTT
8420 TG-AA
65 TGAAA
*
8424 A-ATATATATATAGTTTTTGAAAACATTTTG--AAAATATAT-TATATAGTTTTTGAAAACATTT
1 ATATATATATATAATTTTTGAAAACATTTTGAAAAAATATATATATATAGTTTTTG-AAACATTT
8485 TGAAAA
65 TG-AAA
* * *
8491 TATATATATAATATATAGTTTTTGAAAATATTTTGAAAAAATATGTAATATATTGTTTTTGAAAA
1 -ATATATAT-ATATA-A-TTTTTGAAAACATTTTGAAAAAATATAT-ATATATAGTTTTTG-AAA
8556 CATTTTGAAA
60 CATTTTGAAA
* * *
8566 ATATATATTATATAGTTTTTAAAAATATTT
1 ATATATA-TATATAATTTTTGAAAACATTT
8596 ATATATTATA
Statistics
Matches: 210, Mismatches: 16, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
65 20 0.10
66 9 0.04
67 2 0.01
68 33 0.16
69 19 0.09
70 19 0.09
72 55 0.26
73 6 0.03
74 20 0.10
75 4 0.02
76 23 0.11
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (69 bp):
ATATATATATATAATTTTTGAAAACATTTTGAAAAAATATATATATATAGTTTTTGAAACATTTT
GAAA
Found at i:8422 original size:11 final size:11
Alignment explanation
Indices: 8406--8529 Score: 51
Period size: 11 Copynumber: 10.8 Consensus size: 11
8396 TATATATAGT
*
8406 TTTTGAAGATA
1 TTTTGAAAATA
8417 TTTTGAAAATA
1 TTTTGAAAATA
* * *
8428 TATAT-ATAGT-
1 T-TTTGAAAATA
*
8438 TTTTGAAAACA
1 TTTTGAAAATA
8449 TTTTGAAAATA
1 TTTTGAAAATA
* *
8460 TATT--ATATA
1 TTTTGAAAATA
*
8469 GTTTTTGAAAACA
1 --TTTTGAAAATA
8482 TTTTGAAAATA
1 TTTTGAAAATA
8493 TATATAT-AATATATA
1 T-T-T-TGAA-A-ATA
8508 GTTTTTGAAAATA
1 --TTTTGAAAATA
8521 TTTTGAAAA
1 TTTTGAAAA
8530 AATATGTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 30
0.65 0.12 0.23
Matches are distributed among these distances:
9 6 0.07
10 3 0.04
11 50 0.60
12 3 0.04
13 9 0.11
14 4 0.05
15 6 0.07
16 1 0.01
17 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:8585 original size:24 final size:21
Alignment explanation
Indices: 8558--8600 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
8548 TTTGAAAACA
*
8558 TTTTGAAAATATATATTATATAG
1 TTTTTAAAA-ATAT-TTATATAG
8581 TTTTTAAAAATATTTATATA
1 TTTTTAAAAATATTTATATA
8601 TTATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTTAAAAATATTTATATAG
Found at i:15407 original size:139 final size:139
Alignment explanation
Indices: 15135--15667 Score: 728
Period size: 139 Copynumber: 3.8 Consensus size: 139
15125 GCGTCGTTCC
* * * * * *
15135 AACTCCTTATGCGATGGAAACAAGCTAAGGTTGAACAAGTTTTTCTCATTATAAACTTTTTCTCT
1 AACTCCATATGTGAT-GAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC-
* * * * *
15200 CTT-ATCGGATGAGTTCTTCTCATTATGAACTCTCCCCTGGACATGTTGATCCCTCGAATGAGGC
64 CTTCATCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
15264 GTTGCTGATTT
129 GTTGCTGATTT
* * *
15275 AACTCAATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCGCATTATGAACTTCTTCTCCT
1 AACTCCATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT
* * *
15340 TCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTCATTCCTCGAGTGAGGTGT
66 TCATCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGT
15405 TGCTGATTT
131 TGCTGATTT
* * *
15414 AACTCCATATGTGATGAATCTAGCTAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTCCT
1 AACTCCATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT
* * * *
15479 TCATCAGATGAGTTCTTCTCATTCTGAACTATGCATTGGAAATGTTGATCCCTCGAGTGAGGTGT
66 TCATCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGT
**
15544 TGCTGATAC
131 TGCTGATTT
* *
15553 AACTCCATATGTGATTAATCAAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCC-
1 AACTCCATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT
* * * * *
15617 TCTGTCAGATGAGTTTTTCTCATTATGAACTCTCTATTTGAAATGTTGATC
66 TC-ATCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATC
15668 GGTTCATCAT
Statistics
Matches: 350, Mismatches: 41, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
138 5 0.01
139 333 0.95
140 12 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (139 bp):
AACTCCATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT
TCATCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGT
TGCTGATTT
Found at i:16071 original size:73 final size:72
Alignment explanation
Indices: 15939--16357 Score: 498
Period size: 73 Copynumber: 5.7 Consensus size: 72
15929 AGAAGCTCTT
* ** * *
15939 TCGAGTGCGATAAATTTTGTTTTGA-GGAAAATGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAA
1 TCGAGTGAGATAAATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAA
*
16003 AATCATC
66 AACCATC
* * *
16010 TCGAGTTAGATAAATTTTGTTTCAAGGGAAAATTGTCTCAAGCGGGACGAAGTTGGTTTTAAGAA
1 TCGAGTGAGATAAATTTTGTTTCAAGGG-AAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAA
16075 AAACCATC
65 AAACCATC
* * *
16083 TCAAATGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAA
1 TCGAGTGAGATAAATTTTGTTTCAAGGG-AAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAA
16148 AAACCATC
65 AAACCATC
* *
16156 TCGAGTGAGATAAAATTTCTTGTTTCAAGGGAAACTGTCTCTAGTGAGACGAAGTTGGTTTTAAG
1 TCGAGTGAGAT-AAA-TT-TTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAG
*
16221 AAAAATCATC
63 AAAAACCATC
* * * * * * * *
16231 TCAAGTGACATACATTTTTGTTTCGAGTGAAACTGTCTCAAGTGAGACAAAGTTTGTTTTAAGAA
1 TCGAGTGAGATA-AATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAA
*
16296 AAACAATC
65 AAACCATC
* * * * * *
16304 TTGAATGAGATAAAATTTTATTTCAAGTGAAACTATCTCAAGCGAGATGAAGTT
1 TCGAGTGAGAT-AAATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTT
16358 TGTTGATCCC
Statistics
Matches: 300, Mismatches: 41, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
71 21 0.07
72 2 0.01
73 206 0.69
74 6 0.02
75 53 0.18
76 12 0.04
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (72 bp):
TCGAGTGAGATAAATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAA
AACCATC
Found at i:16264 original size:148 final size:144
Alignment explanation
Indices: 15952--16357 Score: 544
Period size: 148 Copynumber: 2.8 Consensus size: 144
15942 AGTGCGATAA
* * * *
15952 ATTTTGTTTTGAGGAAAATGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAATCATCTCGAGTT
1 ATTTTGTTTCGAGGAAACTGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCATCTCGAGTG
* *
16017 AGAT-AAATTTTGTTTCAAGGGAAAATTGTCTCAAGCGGGACGAAGTTGGTTTTAAGAAAAACCA
66 AGATAAAATTTTGTTTCAAGGG-AAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCA
*
16081 TCTCAAATGAGATAC
130 TCTCAAATGACATAC
* *
16096 ATTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCATCTCGAG
1 ATTTTGTTTCGA-GG-AAACTGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCATCTCGAG
* *
16161 TGAGATAAAATTTCTTGTTTCAAGGGAAACTGTCTCTAGTGAGACGAAGTTGGTTTTAAGAAAAA
64 TGAGATAAAA-TT-TTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAA
* *
16226 TCATCTCAAGTGACATAC
127 CCATCTCAAATGACATAC
* * * * *
16244 ATTTTTGTTTCGAGTGAAACTGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGAA
1 A-TTTTGTTTCGAG-GAAACTGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCATCTCGAG
* * * *
16309 TGAGATAAAATTTTATTTCAAGTGAAACTATCTCAAGCGAGATGAAGTT
64 TGAGATAAAATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTT
16358 TGTTGATCCC
Statistics
Matches: 229, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
144 10 0.04
145 2 0.01
146 82 0.36
147 5 0.02
148 107 0.47
149 23 0.10
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (144 bp):
ATTTTGTTTCGAGGAAACTGTCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCATCTCGAGTG
AGATAAAATTTTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCAT
CTCAAATGACATAC
Found at i:16628 original size:145 final size:145
Alignment explanation
Indices: 16382--16755 Score: 570
Period size: 145 Copynumber: 2.6 Consensus size: 145
16372 GTGAGGCATC
* * * * *
16382 GCTGATTCAAAATGTCGTGAATCAAGCAAAAGAAATGTTGAAAACATTCTGCCCGAAGGTCTTAT
1 GCTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTAT
* * *
16447 GGATGACCTGAAAGACTTAAGCTGATTCGAAGTGTTGTGAATCT-AGCAATATGAAATGTTAACC
66 GGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAAT-TGAGCAATATGAAATGTTAACC
* *
16511 CCTCTGGTGGGGCGTT
130 CCTCTAGAGGGGCGTT
*
16527 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTAT
1 GCTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTAT
*
16592 GGATGGCCCGAAGGACTTTAGCTGATTCGAAGTGTTGTGAATTGAGCAATATGAAATGTTAACCC
66 GGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATTGAGCAATATGAAATGTTAACCC
16657 CTCTAGAGGGGCGTT
131 CTCTAGAGGGGCGTT
* * * *
16672 GATGATTTGAAGTGTTGTGAATCAAGTAAAGGAAATGTTGAAAACATCATGCCCGAAGGTCTTAT
1 GCTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTAT
* *
16737 GGATGGCTCAAAGGACTTA
66 GGATGGCCCGAAGGACTTA
16756 TCATCTTGCT
Statistics
Matches: 208, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
144 1 0.00
145 207 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (145 bp):
GCTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTAT
GGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATTGAGCAATATGAAATGTTAACCC
CTCTAGAGGGGCGTT
Found at i:16777 original size:41 final size:42
Alignment explanation
Indices: 16715--16845 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
16705 AATGTTGAAA
* * * * *
16715 ACATCATGCCCGAAGGTCTTATGGATGGCTCAAAGGACTTA-
1 ACATCATGCTCGAAAGACTTATAGATGGCCCAAAGGACTTAC
* * *
16756 TCATCTTGCTCGAAAGACTTATAGATGGCCCGAAGGACTTAC
1 ACATCATGCTCGAAAGACTTATAGATGGCCCAAAGGACTTAC
* * * *
16798 ACATCATGCTCGAAATAATTACT-GATGGCCCGAATGACTTAC
1 ACATCATGCTCGAAAGACTTA-TAGATGGCCCAAAGGACTTAC
*
16840 TCATCA
1 ACATCA
16846 AGAAACCCTT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
41 33 0.45
42 40 0.54
43 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
ACATCATGCTCGAAAGACTTATAGATGGCCCAAAGGACTTAC
Found at i:16794 original size:20 final size:20
Alignment explanation
Indices: 16722--16796 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
16712 AAAACATCAT
* *
16722 GCCCGAAGGTCTTATGGATG
1 GCCCGAAGGACTTATAGATG
* * ** *
16742 GCTCAAAGGACTTATCATCTT
1 GCCCGAAGGACTTAT-AGATG
* *
16763 GCTCGAAAGACTTATAGATG
1 GCCCGAAGGACTTATAGATG
16783 GCCCGAAGGACTTA
1 GCCCGAAGGACTTA
16797 CACATCATGC
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (20 bp):
GCCCGAAGGACTTATAGATG
Found at i:16825 original size:42 final size:42
Alignment explanation
Indices: 16733--16845 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
16723 CCCGAAGGTC
* * * * *
16733 TTATGGATGGCTCAAAGGACTTA-TCATCTTGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGACTTACTCATCATGCTCGAAAGAA
* *
16774 TTATAGATGGCCCGAAGGACTTACACATCATGCTCGAAATAA
1 TTATAGATGGCCCGAAGGACTTACTCATCATGCTCGAAAGAA
*
16816 TTACT-GATGGCCCGAATGACTTACTCATCA
1 TTA-TAGATGGCCCGAAGGACTTACTCATCA
16846 AGAAACCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 20 0.33
42 40 0.66
43 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
TTATAGATGGCCCGAAGGACTTACTCATCATGCTCGAAAGAA
Found at i:16963 original size:53 final size:54
Alignment explanation
Indices: 16883--17214 Score: 406
Period size: 53 Copynumber: 6.2 Consensus size: 54
16873 TCTTAGTTGT
* *
16883 CATCAAGAAACCCCTAAAACTTAGGCTTAGCTTCTATAAAAATTCATTT-AAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
* * * * *
16936 CATCAAGAAACCACTGAAAATCAGGCTTAGCTTTTA-TAAAATTCATTTAAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
* * * *
16989 CATCAAGAAAACACTAAAAATTAGGCTTATCTTCT-TTTAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
* * * *
17042 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTAT-TTTAAATACATTGGAAATA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAA-A
* * * *
17096 -ATCAAGAAATCCTTGAAAATCAGGCTTAGCTTC-ATTAAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
* * *
17148 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTTTTTTTAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
*
17202 CACCAAGAAACCC
1 CATCAAGAAACCC
17215 ATGAAAATCA
Statistics
Matches: 238, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
52 12 0.05
53 196 0.82
54 30 0.13
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTATTAAAATTCATTTGAAAA
Found at i:17172 original size:159 final size:160
Alignment explanation
Indices: 16883--17214 Score: 467
Period size: 159 Copynumber: 2.1 Consensus size: 160
16873 TCTTAGTTGT
* * * *
16883 CATCAAGAAACCCCTAAAACTTAGGCTTAGCTTCTATAAAAATTCATTTAAAACATCAAGAAACC
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATATAAAAATACATTGAAAACATCAAGAAACC
*
16948 ACTGAAAATCAGGCTTAGCTTTTATAAAATTCATTTAAAAACATCAAGAAAACACTAAAAATTAG
66 ACTGAAAATCAGGCTTAGCTTATATAAAATTCATTTAAAAACATCAAGAAAACACTAAAAATTAG
*
17013 GCTTATC-TTCTTTTAAATTCATTTGAAAA
131 GCTTAGCTTTCTTTTAAATTCATTTGAAAA
**
17042 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTAT-TTTAAATACATTGGAAATA-ATCAAGAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATATAAAAATACATT-GAAA-ACATCAAGAAA
* * * *
17105 TCC-TTGAAAATCAGGCTTAGCTTCAT-TAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAA
64 -CCACTGAAAATCAGGCTTAGCTT-ATATAAAATTCATTTAAAAACATCAAGAAAACACTAAAAA
*
17168 TTAGGCTTAGCTTTTTTTTAAATTCATTTGAAAA
127 TTAGGCTTAGCTTTCTTTTAAATTCATTTGAAAA
*
17202 CACCAAGAAACCC
1 CATCAAGAAACCC
17215 ATGAAAATCA
Statistics
Matches: 154, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
158 9 0.06
159 108 0.70
160 37 0.24
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (160 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATATAAAAATACATTGAAAACATCAAGAAACC
ACTGAAAATCAGGCTTAGCTTATATAAAATTCATTTAAAAACATCAAGAAAACACTAAAAATTAG
GCTTAGCTTTCTTTTAAATTCATTTGAAAA
Found at i:17315 original size:159 final size:158
Alignment explanation
Indices: 16937--17327 Score: 450
Period size: 159 Copynumber: 2.5 Consensus size: 158
16927 CATTTAAAAC
* * *
16937 ATCAAGAAACCACTGAAAATCAGGCTTAGCTTTTATAAAATTCATTTAAAAACATCAAGAAAACA
1 ATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCT-TAAAATTCATTTAAAAACATCAAGAAACCA
* * * * *
17002 CTAAAAATTAGGCTTATCTTCTTTTAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGG
65 CTAAAAATTAGGCTTAGCTTCTTTTAAATTCATTTGAAAACACCAAGAAACCCATAAAAATCAAG
* * *
17067 CTTAGCTTATTTTAAATACATTGGAAATA
130 CTTAACTTATTTCAAATACATTGCAAATA
*
17096 ATCAAGAAATCCT-TGAAAATCAGGCTTAGCTTCATTAAAATTCATTTGAAAACATCAAGAAACC
1 ATCAAGAAA-CCTCTGAAAATCAGGCTTAGCTTC-TTAAAATTCATTTAAAAACATCAAGAAACC
* * *
17160 CCTAAAAATTAGGCTTAGCTTTTTTTTAAATTCATTTGAAAACACCAAGAAACCCATGAAAATCA
64 ACTAAAAATTAGGCTTAGC-TTCTTTTAAATTCATTTGAAAACACCAAGAAACCCATAAAAATCA
* * *
17225 AGCTTAATTTCTTTCAAA-A-ATT-CATCAT-
128 AGCTTAACTTATTTCAAATACATTGCA-AATA
* ** * *
17253 GTCAAGAAACCTCTGAAAATCAAACTTAGTTTCTTAGAAAGTTCATTTAAAAATCATTAAGAAAC
1 ATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTA-AAA-TTCATTTAAAAA-CATCAAGAAAC
**
17318 TTCTAAAAAT
63 CACTAAAAAT
17328 CAAACTTATT
Statistics
Matches: 198, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
156 6 0.03
157 29 0.15
158 16 0.08
159 91 0.46
160 56 0.28
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (158 bp):
ATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTAAAATTCATTTAAAAACATCAAGAAACCAC
TAAAAATTAGGCTTAGCTTCTTTTAAATTCATTTGAAAACACCAAGAAACCCATAAAAATCAAGC
TTAACTTATTTCAAATACATTGCAAATA
Found at i:17327 original size:55 final size:55
Alignment explanation
Indices: 17254--17559 Score: 346
Period size: 55 Copynumber: 5.7 Consensus size: 55
17244 ATTCATCATG
* * * ** *
17254 TCAAGAAACCTCTGAAAATCAAACTTAGTTTC-TTAGAAAGTTCATTTAAAAATCA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTA-AAAACTCATTTAAAAATAA
* * * **
17309 TTAAGAAACTTCTAAAAATCAAACTTATTTTCTTTAAAAA--C-------AATCG
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
*
17355 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATAA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
* * *
17410 TCAAGAAACTTCCATAAATCGGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
* *
17465 TCAAGAAACTT-TCAAAAATCGGACTTATTTTCTTTAAAAACTCATTTAAAAATAA
1 TCAAGAAACTTCT-AAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
* *
17520 TCAAGAAACTTCCAAAAATCAGACTCAGTTTCTTTAAAAA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAA
17560 ATCACGTTAA
Statistics
Matches: 216, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
46 40 0.19
48 1 0.00
53 1 0.00
55 171 0.79
56 3 0.01
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (55 bp):
TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATAA
Found at i:17381 original size:101 final size:101
Alignment explanation
Indices: 17218--17563 Score: 313
Period size: 110 Copynumber: 3.3 Consensus size: 101
17208 GAAACCCATG
* *
17218 AAAATCAAGCTTAATTTCTTTCAAAAATTCATCATGTCAAGAAACCTCTGAAAATCAAACTTAGT
1 AAAATCAAACTTAATTTCTTT-AAAAA--CATCA-GTCAAGAAACCTCTAAAAATCAAACTTAGT
* * * *
17283 TTC-TTAGAAAGTTCATTTAAAAATCATTAAGAAACTTCTA
62 TTCTTTA-AAAGCTCATTTAAAAATAATCAAGAAACTTCCA
* * *
17323 AAAATCAAACTTATTTTCTTTAAAAACAATC-GTCAAGAAACTTCTAAAAATCAGACTTAGTTTC
1 AAAATCAAACTTAATTTCTTTAAAAAC-ATCAGTCAAGAAACCTCTAAAAATCAAACTTAGTTTC
17387 TTTAAAAGCTCATTTAAAAATAATCAAGAAACTTCCA
65 TTTAAAAGCTCATTTAAAAATAATCAAGAAACTTCCA
* ** * * * * **
17424 TAAATCGGACTTAGTTTCTTTAAAAACTCATTTAAAAATAATCAAGAAA-CTTTCAAAAATCGGA
1 AAAATCAAACTTAATTTCTTTAAAAA--CA--T-----CAGTCAAGAAACCTCT-AAAAATCAAA
* *
17488 CTTATTTTCTTTAAAAACTCATTTAAAAATAATCAAGAAACTTCCA
56 CTTAGTTTCTTTAAAAGCTCATTTAAAAATAATCAAGAAACTTCCA
* * *
17534 AAAATCAGACTCAGTTTCTTTAAAAA-ATCA
1 AAAATCAAACTTAATTTCTTTAAAAACATCA
17564 CGTTAACCGA
Statistics
Matches: 204, Mismatches: 24, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
100 1 0.00
101 81 0.40
102 5 0.02
103 4 0.02
104 6 0.03
105 20 0.10
107 1 0.00
109 2 0.01
110 84 0.41
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.33
Consensus pattern (101 bp):
AAAATCAAACTTAATTTCTTTAAAAACATCAGTCAAGAAACCTCTAAAAATCAAACTTAGTTTCT
TTAAAAGCTCATTTAAAAATAATCAAGAAACTTCCA
Found at i:19154 original size:12 final size:13
Alignment explanation
Indices: 19121--19149 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19111 ACCCTCCTTT
19121 TATTATTTTTCCC
1 TATTATTTTTCCC
19134 TATTATTTTTCCC
1 TATTATTTTTCCC
19147 TAT
1 TAT
19150 CTTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATTTTTCCC
Found at i:19246 original size:7 final size:7
Alignment explanation
Indices: 19234--19313 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
19224 ATTGGTTTTT
19234 TTTCTTC
1 TTTCTTC
19241 TTTCTT-
1 TTTCTTC
*
19247 TTTTTTC
1 TTTCTTC
*
19254 TTTTCTTT
1 -TTTCTTC
*
19262 TTTCTTT
1 TTTCTTC
19269 TTTCTT-
1 TTTCTTC
*
19275 TTATCTTT
1 TT-TCTTC
19283 TTTCTTC
1 TTTCTTC
19290 TTTCTTTC
1 TTTC-TTC
19298 TTTTCTATC
1 -TTTCT-TC
19307 TTT-TTC
1 TTTCTTC
19313 T
1 T
19314 GTGTGTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
6 10 0.16
7 32 0.52
8 14 0.23
9 6 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTCTTC
Found at i:19255 original size:9 final size:9
Alignment explanation
Indices: 19229--19371 Score: 73
Period size: 9 Copynumber: 15.2 Consensus size: 9
19219 ATTTGATTGG
19229 TTTTTTTTC
1 TTTTTTTTC
*
19238 --TTCTTTC
1 TTTTTTTTC
19245 TTTTTTTTC
1 TTTTTTTTC
19254 TTTTCTTTT-
1 TTTT-TTTTC
19263 TTCTTTTTTC
1 TT-TTTTTTC
19273 TTTTATCTTT-
1 TTTT-T-TTTC
19283 TTTCTTCTTTC
1 TTT-TT-TTTC
*
19294 TTTCTTTTC
1 TTTTTTTTC
*
19303 TATCTTTTTC
1 T-TTTTTTTC
19313 TGTGTGTTTTT-
1 T-T-T-TTTTTC
*
19324 TTCTTTTTTA
1 TT-TTTTTTC
* *
19334 TGTTTTTTA
1 TTTTTTTTC
*
19343 TGTTTTTTC
1 TTTTTTTTC
19352 -TTTTTTTC
1 TTTTTTTTC
19360 TTCTTTTTTC
1 TT-TTTTTTC
19370 TT
1 TT
19372 CTCTCTTTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
7 6 0.06
8 7 0.06
9 44 0.41
10 38 0.35
11 8 0.07
12 5 0.05
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:19259 original size:21 final size:20
Alignment explanation
Indices: 19229--19384 Score: 93
Period size: 21 Copynumber: 7.2 Consensus size: 20
19219 ATTTGATTGG
19229 TTTTTTTTCTTCTTTCTTTT
1 TTTTTTTTCTTCTTTCTTTT
*
19249 TTTTCTTTTCTTTTTTCTTTT
1 TTTT-TTTTCTTCTTTCTTTT
* *
19270 TTCTTTTATCTTTTTTCTTCTT
1 TT-TTTTTTCTTCTTTCTT-TT
19292 TCTTTCTTTTCTATCTTT-TTCTGT
1 T-TTT-TTTTCT-TCTTTCTT-T-T
* *
19316 GTGTTTTTTTCTTTTTTATGTTT
1 -T-TTTTTTTCTTCTTTCT-TTT
19339 TTTATGTTTT-TTCTTT-TTTT
1 TTT-T-TTTTCTTCTTTCTTTT
*
19359 CTTCTTTTTTCTTCTCTCTTTAT
1 -TT-TTTTTTCTTCTTTCTTT-T
19382 TTT
1 TTT
19385 ATATATATAT
Statistics
Matches: 111, Mismatches: 8, Indels: 33
0.73 0.05 0.22
Matches are distributed among these distances:
20 11 0.10
21 42 0.38
22 20 0.18
23 20 0.18
24 13 0.12
25 5 0.05
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTTCTTTCTTTT
Found at i:19272 original size:28 final size:27
Alignment explanation
Indices: 19229--19371 Score: 101
Period size: 28 Copynumber: 5.0 Consensus size: 27
19219 ATTTGATTGG
*
19229 TTTTTTTTCTTCTTTCTTTTTTTTCTT
1 TTTTTTTTCTTTTTTCTTTTTTTTCTT
19256 TTCTTTTTTCTTTTTTCTTTTATCTTT-TT
1 TT-TTTTTTCTTTTTTCTTTT-T-TTTCTT
* * *
19285 TCTTCTTTCTTTCTTTTCTATCTTTTTCTGT
1 TTTTTTTTC-TT-TTTTCT-TTTTTTTCT-T
* * * *
19316 GTGTTTTTTTCTTTTTTATGTTTTTTATG
1 -T-TTTTTTTCTTTTTTCTTTTTTTTCTT
*
19345 TTTTTTCT-TTTTTTCTTCTTTTTTCTT
1 TTTTTTTTCTTTTTTCTT-TTTTTTCTT
19372 CTCTCTTTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
26 7 0.08
27 15 0.17
28 24 0.27
29 9 0.10
30 17 0.19
31 8 0.09
32 3 0.03
33 6 0.07
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (27 bp):
TTTTTTTTCTTTTTTCTTTTTTTTCTT
Found at i:19371 original size:7 final size:7
Alignment explanation
Indices: 19231--19296 Score: 89
Period size: 7 Copynumber: 9.4 Consensus size: 7
19221 TTGATTGGTT
19231 TTTTTTC
1 TTTTTTC
*
19238 TTCTTTC
1 TTTTTTC
19245 TTTTTT-
1 TTTTTTC
19251 TTCTTTTC
1 TT-TTTTC
19259 TTTTTTC
1 TTTTTTC
19266 TTTTTTC
1 TTTTTTC
*
19273 TTTTATC
1 TTTTTTC
19280 TTTTTTC
1 TTTTTTC
*
19287 TTCTTTC
1 TTTTTTC
19294 TTT
1 TTT
19297 CTTTTCTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
6 2 0.04
7 47 0.92
8 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:24353 original size:4 final size:4
Alignment explanation
Indices: 24344--26869 Score: 3690
Period size: 4 Copynumber: 631.8 Consensus size: 4
24334 TTCTTATTTG
* *
24344 ATGT ATGT ATAT ATGT ATGT ACGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
24392 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
24440 ATGT ATGT ATGT ATGT ATGT ACGT ACGT ACGT ACGT ACGT ACGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
24488 ATGT ACGT ACGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
24536 ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24584 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24632 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24680 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24728 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24776 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
24824 ATGT ATGT ATGT ATGT ACGT ATGT ATGT ACGT ATGT ATGT ACGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24872 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24920 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
24968 ATGT ATGC ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
25016 ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
25064 ATGT AAGT ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * * *
25112 ATGC ATGC ATGC ATGT ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
25160 ATGC ATGT ATGC ATGC ATGC ATGT ATGC ATGC ATG- -TGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25206 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
25254 ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25302 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
25350 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATCT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
25398 ATGT ATGT ATGT ATCT ATGT ATGT ATGT ATGT ATGT ATCT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
25446 ATGT ATCT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
25494 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * ** *
25542 ATGC ATGC ATGC ATGC ATGC ATAC ATGT ATGC ATGT ATGT ATGT ATGCAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG--T
25592 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
25640 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
25688 ATGC ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * **
25736 ATGT ATGC ATGC ATGC ATGC ATGC ATGC ATAC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
25784 ATGT ATGC ATGC ATGC ATGC ATGC ATGT ATGT TTGT ATGT ATGT ATGA
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
25832 ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGC ATGC ATGC ATGT ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25880 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25928 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25976 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26024 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26072 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
26120 ATGC ATGT ATGT ATGT ATGC ATAT ATGC ATGC ATGC ATGT ATCT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
26168 ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
26216 ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26264 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26312 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
26360 ATGC ATAT ATGC ATGC ATGC ATGT ATCT ATGT ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
26408 ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26456 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
26504 ATGC ATGT ATGT TTGC ATGT ATGT ATGT ATGG ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
26552 ATGC ATGT ATGC ATGC ATGT ATGC ATGT ATGT ATGC ATGT ATGC ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
26600 ATGC ATGT ATAT ATGC ATGT ATGG ATGC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
26648 ATGC ATGT ATGC ATGT ATAT ATAT ATGC ATGT GTGC ATTT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
26696 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT -TGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
26743 ATGT ATAT ATGC ATGC ATGC ATGT ATGT ATGT ATGC ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
26791 ATGT ATGT TTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
26839 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
26870 CATACGTGCG
Statistics
Matches: 2330, Mismatches: 187, Indels: 10
0.92 0.07 0.00
Matches are distributed among these distances:
2 2 0.00
3 2 0.00
4 2322 1.00
6 4 0.00
ACGTcount: A:0.25, C:0.05, G:0.24, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:26892 original size:8 final size:8
Alignment explanation
Indices: 26879--27107 Score: 251
Period size: 8 Copynumber: 28.5 Consensus size: 8
26869 GCATACGTGC
26879 GTGTGTGT
1 GTGTGTGT
26887 GTGTGTGT
1 GTGTGTGT
26895 GTGTGTGT
1 GTGTGTGT
*
26903 GTGCGTGT
1 GTGTGTGT
*
26911 GTGCGTGT
1 GTGTGTGT
*
26919 GTGCGTGT
1 GTGTGTGT
*
26927 GTGCGTGT
1 GTGTGTGT
*
26935 GTGCGTGT
1 GTGTGTGT
*
26943 GTGCGTGT
1 GTGTGTGT
*
26951 GTGCGTGT
1 GTGTGTGT
*
26959 GTGCGTGT
1 GTGTGTGT
*
26967 GTGCGTGT
1 GTGTGTGT
*
26975 GTGCGTGT
1 GTGTGTGT
*
26983 GTGCGTGT
1 GTGTGTGT
*
26991 GTGCGTGT
1 GTGTGTGT
*
26999 GTGCGTGT
1 GTGTGTGT
27007 GTGCTGTGT
1 GTG-TGTGT
*
27016 GCGTGTGT
1 GTGTGTGT
*
27024 GCGTGTGT
1 GTGTGTGT
*
27032 GCGTGTGT
1 GTGTGTGT
*
27040 GCGTGTGT
1 GTGTGTGT
*
27048 GCGTGTGT
1 GTGTGTGT
*
27056 GCGTGTGT
1 GTGTGTGT
*
27064 GCGTGTGT
1 GTGTGTGT
*
27072 GCGTGTGT
1 GTGTGTGT
*
27080 GCGTGTGT
1 GTGTGTGT
27088 GTGTGTGT
1 GTGTGTGT
27096 GTGTGTGT
1 GTGTGTGT
27104 GTGT
1 GTGT
27108 ATATTTGATT
Statistics
Matches: 216, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
8 210 0.97
9 6 0.03
ACGTcount: A:0.00, C:0.10, G:0.50, T:0.40
Consensus pattern (8 bp):
GTGTGTGT
Found at i:26900 original size:16 final size:16
Alignment explanation
Indices: 26874--27107 Score: 335
Period size: 16 Copynumber: 14.7 Consensus size: 16
26864 TGTATGCATA
*
26874 CGTGCGTGTGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26890 TGTGTGTGTGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26906 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26922 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26938 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26954 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26970 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
26986 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
27002 CGTGTGTG-CTGTGTG
1 CGTGTGTGTGTGTGTG
*
27017 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
27033 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
27049 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
*
27065 CGTGTGTGCGTGTGTG
1 CGTGTGTGTGTGTGTG
27081 CGTGTGTGTGTGTGTG
1 CGTGTGTGTGTGTGTG
*
27097 TGTGTGTGTGT
1 CGTGTGTGTGT
27108 ATATTTGATT
Statistics
Matches: 209, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
15 14 0.07
16 195 0.93
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.40
Consensus pattern (16 bp):
CGTGTGTGTGTGTGTG
Found at i:26918 original size:24 final size:24
Alignment explanation
Indices: 26883--27104 Score: 401
Period size: 24 Copynumber: 9.3 Consensus size: 24
26873 ACGTGCGTGT
* *
26883 GTGTGTGTGTGTGTGTGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
26907 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
26931 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
26955 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
26979 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
27003 GTGTGTGC-TGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
27026 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
27050 GTGTGTGCGTGTGTGCGTGTGTGC
1 GTGTGTGCGTGTGTGCGTGTGTGC
* *
27074 GTGTGTGCGTGTGTGTGTGTGTGT
1 GTGTGTGCGTGTGTGCGTGTGTGC
27098 GTGTGTG
1 GTGTGTG
27105 TGTATATTTG
Statistics
Matches: 193, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 23 0.12
24 170 0.88
ACGTcount: A:0.00, C:0.10, G:0.50, T:0.40
Consensus pattern (24 bp):
GTGTGTGCGTGTGTGCGTGTGTGC
Found at i:29225 original size:16 final size:13
Alignment explanation
Indices: 29204--29249 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
29194 TCCATTTGTA
29204 ATAATAATTAATAT
1 ATAATAA-TAATAT
29218 AT-ATAATAATAT
1 ATAATAATAATAT
29230 ATAATAAT-ATAT
1 ATAATAATAATAT
*
29242 ATACTAAT
1 ATAATAAT
29250 CATAACACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 19 0.63
13 9 0.30
14 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:29229 original size:10 final size:10
Alignment explanation
Indices: 29202--29242 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
29192 TCTCCATTTG
29202 TAATAATA-A
1 TAATAATATA
29211 TTAAT-ATATA
1 -TAATAATATA
29221 TAATAATATA
1 TAATAATATA
29231 TAATAATATA
1 TAATAATATA
29241 TA
1 TA
29243 TACTAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATATA
Found at i:29237 original size:22 final size:22
Alignment explanation
Indices: 29202--29254 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
29192 TCTCCATTTG
29202 TAATAATAATTAATATATATAA
1 TAATAATAATTAATATATATAA
*
29224 TAATATATAA-TAATATATATAC
1 TAATA-ATAATTAATATATATAA
*
29246 TAATCATAA
1 TAATAATAA
29255 CACTCAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAATTAATATATATAA
Found at i:29774 original size:132 final size:132
Alignment explanation
Indices: 29608--30093 Score: 583
Period size: 132 Copynumber: 3.7 Consensus size: 132
29598 AAATTCAGAT
**
29608 TCAAACTTATATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAAT-TCGTTCC
1 TCAAACTTGGATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCT-GTTCC
* * * *** * * *
29672 ACTACTCTTCCATGGAGAGCGAATTT-TGAGTTTGTTCTTTCTTTTGCTACTCTTTTATGAAGAC
65 ACTACTCTTCCGTGGAGAGCGAATTTATGAGTTTGAT-TTGCTTCCACTACTCTTCTGTGAAGTC
*
29736 TGGC
129 TGAC
* *
29740 TCGAAA-TCGGATTACTTCACTACTCTTCCGTGAAGGTT-GCATACTTTGCTGAAAAATCTGTTC
1 TC-AAACTTGGATTACTTCACTACTCTTCCGTGAA-GTTCTCATACTTTGCTGAAAAATCTGTTC
** *
29803 CACTACTCTTCCGTGGAGTTCGGATTTATG-G-TTGAATTTGCTTCCACTACTCTTCTGTGAAGT
64 CACTACTCTTCCGTGGAGAGCGAATTTATGAGTTTG-ATTTGCTTCCACTACTCTTCTGTGAAG-
*
29866 TCAGAC
127 TCTGAC
* *
29872 TCAAACTTGGATTACTTCACTACTCTTCCATGAAGTTCTCATACTTTGCTGAAAAATCCGTTCCA
1 TCAAACTTGGATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGTTCCA
** * * *
29937 CTACTCTTCCGTGGAGTTC-AGATTTATGA-TTTAATTTGCTTCCACTACTCTTCCGTGAAGTTT
66 CTACTCTTCCGTGGAGAGCGA-ATTTATGAGTTTGATTTGCTTCCACTACTCTTCTGTGAAGTCT
30000 AGAC
130 -GAC
* *
30004 TTAAACTTGGATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTCGCTGAAAAATCTGTTCCA
1 TCAAACTTGGATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGTTCCA
* *
30069 CAACTCTTCCGTGGAAAGCGAATTT
66 CTACTCTTCCGTGGAGAGCGAATTT
30094 TGATCTTGTT
Statistics
Matches: 306, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
131 29 0.09
132 265 0.87
133 12 0.04
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (132 bp):
TCAAACTTGGATTACTTCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGTTCCA
CTACTCTTCCGTGGAGAGCGAATTTATGAGTTTGATTTGCTTCCACTACTCTTCTGTGAAGTCTG
AC
Found at i:30038 original size:42 final size:43
Alignment explanation
Indices: 29800--30041 Score: 170
Period size: 44 Copynumber: 5.6 Consensus size: 43
29790 GAAAAATCTG
* * * *** *
29800 TTCCACTACTCTTCCGTGGAGTTCGGATTTATGGTTGAATTTGC
1 TTCCACTACTCTTCCGTGAAGTTCAGACTTAAACTTGAA-TTAC
* * *
29844 TTCCACTACTCTTCTGTGAAGTTCAGACTCAAACTTGGATTAC
1 TTCCACTACTCTTCCGTGAAGTTCAGACTTAAACTTGAATTAC
* * ** * *
29887 TT-CACTACTCTTCCATGAAGTTCTCATACTT-TGC-TGAAAAATCC
1 TTCCACTACTCTTCCGTGAAG-T-TCAGACTTAAACTTG--AATTAC
* * * * *
29931 GTTCCACTACTCTTCCGTGGAGTTCAGATTTATGA-TTTAATTTGC
1 -TTCCACTACTCTTCCGTGAAGTTCAGACTTA-AACTTGAA-TTAC
* *
29976 TTCCACTACTCTTCCGTGAAGTTTAGACTTAAACTTGGATTAC
1 TTCCACTACTCTTCCGTGAAGTTCAGACTTAAACTTGAATTAC
30019 TT-CACTACTCTTCCGTGAAGTTC
1 TTCCACTACTCTTCCGTGAAGTTC
30042 TCATACTTCG
Statistics
Matches: 151, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
42 38 0.25
43 13 0.09
44 78 0.52
45 5 0.03
46 17 0.11
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (43 bp):
TTCCACTACTCTTCCGTGAAGTTCAGACTTAAACTTGAATTAC
Found at i:30057 original size:264 final size:264
Alignment explanation
Indices: 29583--30083 Score: 670
Period size: 264 Copynumber: 1.9 Consensus size: 264
29573 GAATCTGTTT
* * *
29583 CACTACTCTTCCATGAAATTCAGATTCAAACTTATATTACTTCACTACTCTTCCGTGAAGTTCTC
1 CACTACTCTTCCATGAAATTCAGACTCAAACTTAGATTACTTCACTACTCTTCCATGAAGTTCTC
* ** *
29648 ATACTTTGCTGAAAAATTCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGAGTTTGTTCTTTC
66 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGAGTTTAATCTTGC
*** ** *
29713 TTTTGCTACTCTTTTATGAAGACTGGCTCGAAATCGGATTACTTCACTACTCTTCCGTGAAGGTT
131 TTCCACTACTCTTCCATGAAGACTGACTCGAAATCGGATTACTTCACTACTCTTCCGTGAAGGTT
* *
29778 GCATACTTTGCTGAAAAATCTGTTCCACTACTCTTCCGTGGAGTTCGGATTTATGGTTGAATTTG
196 GCATACTTCGCTGAAAAATCTGTTCCACAACTCTTCCGTGGAGTTCGGATTTATGGTTGAATTTG
29843 CTTC
261 CTTC
** * *
29847 CACTACTCTTCTGTGAAGTTCAGACTCAAACTTGGATTACTTCACTACTCTTCCATGAAGTTCTC
1 CACTACTCTTCCATGAAATTCAGACTCAAACTTAGATTACTTCACTACTCTTCCATGAAGTTCTC
* **
29912 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTC-AGATTTATGA-TTTAAT-TT
66 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGA-ATTT-TGAGTTTAATCTT
* ** * *
29974 GCTTCCACTACTCTTCCGTGAAGTTTAGACT-TAAACTTGGATTACTTCACTACTCTTCCGTGAA
129 GCTTCCACTACTCTTCCATGAAGACT-GACTCGAAA-TCGGATTACTTCACTACTCTTCCGTGAA
*
30038 -GTTCTCATACTTCGCTGAAAAATCTGTTCCACAACTCTTCCGTGGA
192 GGTT-GCATACTTCGCTGAAAAATCTGTTCCACAACTCTTCCGTGGA
30084 AAGCGAATTT
Statistics
Matches: 204, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
263 26 0.13
264 175 0.86
265 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (264 bp):
CACTACTCTTCCATGAAATTCAGACTCAAACTTAGATTACTTCACTACTCTTCCATGAAGTTCTC
ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGAGTTTAATCTTGC
TTCCACTACTCTTCCATGAAGACTGACTCGAAATCGGATTACTTCACTACTCTTCCGTGAAGGTT
GCATACTTCGCTGAAAAATCTGTTCCACAACTCTTCCGTGGAGTTCGGATTTATGGTTGAATTTG
CTTC
Found at i:30828 original size:22 final size:22
Alignment explanation
Indices: 30803--30854 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
30793 GCTTTCTGTC
* *
30803 TTTGAAAACATAATCTATCATT
1 TTTGAAAACAGAATCTATAATT
*
30825 TTTGAAAAGAGAATCTATAATT
1 TTTGAAAACAGAATCTATAATT
*
30847 CTTGAAAA
1 TTTGAAAA
30855 ATGTAGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (22 bp):
TTTGAAAACAGAATCTATAATT
Found at i:37679 original size:2 final size:2
Alignment explanation
Indices: 37672--37713 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37662 ATAATTAATC
37672 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
37714 CATAATAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39947 original size:6 final size:6
Alignment explanation
Indices: 39946--40011 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
39936 TCCCTCTTCC
* * * * *
39946 TCCTCT CCCTCT CCCTCT CCCTCT CCCTCT TCCTCCT CTCCCCCT TCCTCT
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCT-CT -T-CCTCT TCCTCT
*
39997 ACCTCT TCCTCT TCC
1 TCCTCT TCCTCT TCC
40012 CCTTTCTCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
6 43 0.84
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.02, C:0.61, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCTCT
Found at i:39964 original size:12 final size:12
Alignment explanation
Indices: 39947--40008 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
39937 CCCTCTTCCT
39947 CCTCTCCCTCTC
1 CCTCTCCCTCTC
39959 CCTCTCCCTCTC
1 CCTCTCCCTCTC
39971 CCTCTTCCTCCTCTC
1 CCTC-T-C-CCTCTC
* * *
39986 CCCCTTCCTCTA
1 CCTCTCCCTCTC
*
39998 CCTCTTCCTCT
1 CCTCTCCCTCT
40009 TCCCCTTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
12 31 0.72
13 1 0.02
14 2 0.05
15 9 0.21
ACGTcount: A:0.02, C:0.61, G:0.00, T:0.37
Consensus pattern (12 bp):
CCTCTCCCTCTC
Found at i:39967 original size:27 final size:27
Alignment explanation
Indices: 39930--40007 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
39920 TAGCCAAAAC
* *
39930 TCCCCCTCCCTCTTCCTCCT-CTCCCTC
1 TCCCCCTCCCTCTACCTCTTCCT-CCTC
* *
39957 TCCCTCTCCCTCTCCCTCTTCCTCCTC
1 TCCCCCTCCCTCTACCTCTTCCTCCTC
*
39984 TCCCCCTTCCTCTACCTCTTCCTC
1 TCCCCCTCCCTCTACCTCTTCCTC
40008 TTCCCCTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.01, C:0.63, G:0.00, T:0.36
Consensus pattern (27 bp):
TCCCCCTCCCTCTACCTCTTCCTCCTC
Found at i:39972 original size:33 final size:33
Alignment explanation
Indices: 39929--40011 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
39919 TTAGCCAAAA
* *
39929 CTCCCCCTCCCTCTTCCTCCTCTCCCTCTCCCT
1 CTCCCTCTCCCTCTTCCTCCTCTCCCCCTCCCT
*
39962 CTCCCTCTCCCTCTTCCTCCTCTCCCCCTTCCT
1 CTCCCTCTCCCTCTTCCTCCTCTCCCCCTCCCT
* *
39995 CTACCTCTTCCTCTTCC
1 CTCCCTCTCCCTCTTCC
40012 CCTTTCTCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.01, C:0.63, G:0.00, T:0.36
Consensus pattern (33 bp):
CTCCCTCTCCCTCTTCCTCCTCTCCCCCTCCCT
Found at i:44487 original size:24 final size:24
Alignment explanation
Indices: 44460--44507 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44450 TTTTTATTGA
44460 AAATAGGTGTCTAACATTTTCTCC
1 AAATAGGTGTCTAACATTTTCTCC
44484 AAATAGGTGTCTAACATTTTCTCC
1 AAATAGGTGTCTAACATTTTCTCC
44508 GTTACACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (24 bp):
AAATAGGTGTCTAACATTTTCTCC
Found at i:44603 original size:13 final size:13
Alignment explanation
Indices: 44567--44608 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
44557 TCACGTTTAG
44567 ATTTTTACAAAAAA
1 ATTTTTA-AAAAAA
*
44581 A-TGTTAAAAAAA
1 ATTTTTAAAAAAA
44593 TATTTTTAAAAAAA
1 -ATTTTTAAAAAAA
44607 AT
1 AT
44609 AAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
14 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATTTTTAAAAAAA
Found at i:45771 original size:64 final size:63
Alignment explanation
Indices: 45703--45883 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
45693 TTGGAACACT
* ***
45703 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
* ** * **
45767 TGATGCATCGAAGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
45831 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
45884 CAATTAATTC
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 53 0.55
65 44 0.45
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:45855 original size:19 final size:19
Alignment explanation
Indices: 45831--45881 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
45821 GAAAATATTC
45831 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
45850 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
45869 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
45882 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:45857 original size:65 final size:65
Alignment explanation
Indices: 45724--45883 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
45714 TGCACCAAGT
* ***
45724 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGAAGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGAAGCATGGAGA
* ** *
45788 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGAAGCATGGAG
45852 A
65 A
* *
45853 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
45884 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.45
65 46 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGAAGCATGGAGA
Found at i:46123 original size:20 final size:21
Alignment explanation
Indices: 46100--46139 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46090 GAATCGAATA
46100 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATAT-TAAAATTCATTTG
46120 TAAAATATTAAAATTCATTT
1 TAAAATATTAAAATTCATTT
46140 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATATTAAAATTCATTTG
Found at i:52391 original size:22 final size:21
Alignment explanation
Indices: 52349--52388 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52339 GAGTTTGTTT
*
52349 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
52370 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
52389 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:54382 original size:64 final size:63
Alignment explanation
Indices: 54314--54494 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
54304 TTGGAACACT
* ***
54314 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
54378 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
54442 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
54495 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:54466 original size:19 final size:19
Alignment explanation
Indices: 54442--54492 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
54432 GAAAATATTC
54442 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
54461 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
54480 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
54493 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:54468 original size:65 final size:65
Alignment explanation
Indices: 54335--54494 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
54325 TGCACCAAGT
* ***
54335 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
54399 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
54463 A
65 A
* *
54464 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
54495 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:54534 original size:65 final size:64
Alignment explanation
Indices: 54336--54543 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 64
54326 GCACCAAGTG
* * * * *
54336 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGAC-TG
54400 -
64 A
* * *
54400 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCATGA-TGCATCGATGCAT-GACT
54462 GA
63 GA
* *
54464 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGATGCATG-AC
54527 TGA
62 TGA
54530 TGCATCGGTGCATG
1 TGCATCGGTGCATG
54544 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 43 0.35
65 63 0.51
66 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGACTGA
Found at i:54736 original size:20 final size:21
Alignment explanation
Indices: 54711--54750 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
54701 GAATTGAATA
54711 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
54731 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
54751 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:60316 original size:94 final size:94
Alignment explanation
Indices: 60130--60386 Score: 329
Period size: 94 Copynumber: 2.7 Consensus size: 94
60120 CATATACCCA
* * *
60130 GATTAT-ATATACAATAAAGCTTGAGTTATCTCTCTAGAGCAATTGGTTAAACGCCCCAACTTTA
1 GATTATAATATACAATAAAGCATGAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCCAACTTTA
* *
60194 TGGATAAGATTCGGCTAGCCTGATAAAGGT
65 TGGATAAGATTCAGCTAGCCTGATAAAGGC
* * *
60224 GATTATAATATACAATAAAGCATGAGTTGCCCCTCTAGAGAAATTGGTTAAACGCCCGACTTTAT
1 GATTATAATATACAATAAAGCATGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCAACTTTAT
*
60289 GGATAATATTCAGCTAGCCTGATAAAGGC
66 GGATAAGATTCAGCTAGCCTGATAAAGGC
* * * *
60318 GATTATAATAT-CTATACAATGATATTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGC
1 GATTATAATATACAATA-AA-G-CA-TGAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCCAAC
60382 TTTAT
61 TTTAT
60387 AGATCCAGGT
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
93 4 0.03
94 55 0.39
95 43 0.30
96 1 0.01
97 29 0.21
98 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (94 bp):
GATTATAATATACAATAAAGCATGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCAACTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGC
Found at i:61733 original size:82 final size:83
Alignment explanation
Indices: 61338--62487 Score: 1208
Period size: 84 Copynumber: 13.8 Consensus size: 83
61328 TTTATTTGTC
* ** *
61338 GCATAGCTCAAGGTGAGAAGGGCTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAACT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACA-AAGACCTTCGAGTTCGATTACACTCAGCT
* ** *
61403 CAAAGACGTATCATTTACA
65 CAAAGGCACATCATTTGCA
* * * * *
61422 ACATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGACCTTCAAGTTCGATTACACTCAGCTC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
61487 AAAGGCACATCATTTGTA
66 AAAGGCACATCATTTGCA
* * * *
61505 GCATAGA-TCAAGACAAGAAGGGCTATCT-TC--CAAAGACCTTCGAGTTCAATTATACTCAGCT
1 GCATA-ACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
**
61566 CAAAGGCATGTCATTTGCA
65 CAAAGGCACATCATTTGCA
* * * *
61585 GCATAACTCAAGGCAAAAAGGGTTATCTGCCAACAAAAGACTTTCGAGTTCGATTGCACTCAGCT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
*** *
61650 CAAAGGTGTATCATTTACA
65 CAAAGGCACATCATTTGCA
* * * * *
61669 GTAT-ACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAACCTTCGAGTTCAATTACACTCAGCTC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
61733 AAAGACACATCA-TTGCA
66 AAAGGCACATCATTTGCA
* *
61750 GCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTCGATTACACTCAGCT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
61815 CAAAGGCATATCTTTTGCA
65 CAAAGGCACATCATTTGCA
* * * * * * * *
61834 ACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAGACATTTGATTTCGATTAC-CTCAGATC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
61898 AAAGGCACGTCATTT-CTA
66 AAAGGCACATCATTTGC-A
** *
61916 GCATAGTTCAAGGCAAGAAGGGCTATCTGCC-ACAAAGACCTTCGAGTTCGATTACACTAAGCTC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
61980 AAAGGCACATCATTTGCA
66 AAAGGCACATCATTTGCA
* * *
61998 GCATAACTCAAGGCTAGAA-GGATATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
62062 AAAGGCACATCATTTGTA
66 AAAGGCACATCATTTGCA
* * * * *
62080 GAATAACTCAAGGCAAGAAGGGCTATCTGCTAATAAAAGACCTTCAAGTTTGATTACACTCAGCT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCT
**
62145 CAAAGGCACAAT-ATTTATA
65 CAAAGGCAC-ATCATTTGCA
** * * * *
62164 GCATAACTCAAGGGGAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGACTATACTCAGCT
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* *
62229 CAAAGGAACATCAAATTTACA
65 CAAAGGCACATC--ATTTGCA
* * * * * *
62250 GCATAGCTCAAGGCGATAAGGGCTATCTGTCAACAAAAGACC-TCTGAGTTCGATTGCATTCAGC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAAC-AAAGACCTTC-GAGTTCGATTACACTCAGC
* * * * *
62314 TAAAAGGAATATTTAATTTACA
64 TCAAAGGCACA--TCATTTGCA
* * * * * * *
62336 ACATAACTCAAGGCGAGAAGAGTTATCTGTCAAGAAAGACCTTCGAGTTCGATTACACTCAACTC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
62401 AAAGGCACATCGAATCTGCA
66 AAAGGCACATC--ATTTGCA
* * * * * * * *
62421 GCATAACTCGAGGCGAGAAAGTCTATCTGTCAACAAATACCTTCGAGTTCGATTTCACTAAGCTC
1 GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
62486 AA
66 AA
62488 GAGCATGTCA
Statistics
Matches: 892, Mismatches: 148, Indels: 51
0.82 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 67 0.08
81 40 0.04
82 210 0.24
83 162 0.18
84 212 0.24
85 96 0.11
86 103 0.12
88 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (83 bp):
GCATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
AAAGGCACATCATTTGCA
Found at i:61981 original size:329 final size:329
Alignment explanation
Indices: 61338--62487 Score: 1262
Period size: 329 Copynumber: 3.5 Consensus size: 329
61328 TTTATTTGTC
* *
61338 GCATAGCTCAAGG-TGAGAAGGGCTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAAC
1 GCATAACTCAAGGCT-AGAAGGGTTATCTGCCAACA-AAGACCTTCGAGTTCGATTACACTCAAC
** * * * * * *
61402 TCAAAGACGTATCATTTACAACATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGACCTTCA
64 TCAAAGACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCAAAAAAGACCTTCA
* * * * *
61467 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGATCAAGACAAGAAGGGCTATC
129 AGTTCGATTACACTCAGCTCAAAGGCAAATCTTTTG-AGCATAGCTCAAGGCAAGAAGGGTTAT-
* * * *
61532 TT--C--CAAAGACCTTCGAGTTCAATTATACTCAGCTCAAAGGCATGTCATTTGCAGCATAACT
192 TTGCCAACAAAGACCTTCGAGTTCGA-T-TACTCAGCTCAAAGGCACGTCATTTACAGCATAGCT
* * *
61593 CAAGGCAAAAAGGGTTATCTGCCAACAAAAGACTTTCGAGTTCGATTGCACTCAGCTCAAAGGTG
255 CAAGGCAAAAAGGGCTATCTGCC-ACAAAAGACCTTCGAGTTCGATTGCACTCAGCTCAAAGGTA
61658 TATCATTTACA
319 TATCATTTACA
* * * *
61669 GTAT-ACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAACCTTCGAGTTCAATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAACTC
* *
61733 AAAGACACATCA-TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAAGACCTTCGA
66 AAAGACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCAA-AAAAGACCTTCAA
* *
61797 GTTCGATTACACTCAGCTCAAAGGCATATCTTTTGCAACATAGCTCAAGGCAAGAAGGGTTATTT
130 GTTCGATTACACTCAGCTCAAAGGCAAATCTTTTG-AGCATAGCTCAAGGCAAGAAGGGTTATTT
* * * * *
61862 GCCAACAAAGACATTTGATTTCGATTACCTCAGATCAAAGGCACGTCATTT-CTAGCATAGTTCA
194 GCCAACAAAGACCTTCGAGTTCGATTA-CTCAGCTCAAAGGCACGTCATTTAC-AGCATAGCTCA
* * * * *
61926 AGGCAAGAAGGGCTATCTGCCAC-AAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCACAT
257 AGGCAAAAAGGGCTATCTGCCACAAAAGACCTTCGAGTTCGATTGCACTCAGCTCAAAGGTATAT
*
61990 CATTTGCA
322 CATTTACA
* * *
61998 GCATAACTCAAGGCTAGAA-GGATATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAACTC
* * * *
62062 AAAGGCACATCATTTGTAGAATAACTCAAGGCAAGAAGGGCTATCTGCTAATAAAAGACCTTCAA
66 AAAGACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCAA-AAAAGACCTTCAA
* * * ** *
62127 GTTTGATTACACTCAGCTCAAAGGCACAATATTTAT-AGCATAACTCAAGGGGAGAAGGGTTATC
130 GTTCGATTACACTCAGCTCAAAGGCA-AATCTTT-TGAGCATAGCTCAAGGCAAGAAGGGTTATT
* * *
62191 TGCCAACAAAATACCTTCGAGTTCGACTATACTCAGCTCAAAGGAACATCAAATTTACAGCATAG
193 TGCCAAC-AAAGACCTTCGAGTTCGA-T-TACTCAGCTCAAAGGCACGTC--ATTTACAGCATAG
* * * * *
62256 CTCAAGGCGATAAGGGCTATCTGTCAACAAAAGACC-TCTGAGTTCGATTGCATTCAGCTAAAAG
253 CTCAAGGCAAAAAGGGCTATCTG-CCACAAAAGACCTTC-GAGTTCGATTGCACTCAGCTCAAAG
* *
62320 GAATATTTAATTTACA
316 G--TATATCATTTACA
* * * * *
62336 ACATAACTCAAGGCGAGAAGAGTTATCTGTCAAGAAAGACCTTCGAGTTCGATTACACTCAACTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAACTC
* * * * * * * * * *
62401 AAAGGCACATCGAATCTGCAGCATAACTCGAGGCGAGAAAGTCTATCTGTCAACAAATACCTTCG
66 AAAGACACATC--ATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCAAAAAAGACCTTCA
* *
62466 AGTTCGATTTCACTAAGCTCAA
129 AGTTCGATTACACTCAGCTCAA
62488 GAGCATGTCA
Statistics
Matches: 691, Mismatches: 102, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
328 34 0.05
329 201 0.29
330 148 0.21
331 73 0.11
332 33 0.05
333 2 0.00
334 31 0.04
335 6 0.01
336 29 0.04
338 25 0.04
339 50 0.07
340 28 0.04
341 31 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (329 bp):
GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAACTC
AAAGACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCAAAAAAGACCTTCAAG
TTCGATTACACTCAGCTCAAAGGCAAATCTTTTGAGCATAGCTCAAGGCAAGAAGGGTTATTTGC
CAACAAAGACCTTCGAGTTCGATTACTCAGCTCAAAGGCACGTCATTTACAGCATAGCTCAAGGC
AAAAAGGGCTATCTGCCACAAAAGACCTTCGAGTTCGATTGCACTCAGCTCAAAGGTATATCATT
TACA
Found at i:64525 original size:2 final size:2
Alignment explanation
Indices: 64518--64581 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
64508 AATATTTTGT
64518 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
64560 TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
64582 TATTTTAGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64704 original size:15 final size:17
Alignment explanation
Indices: 64686--64722 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
64676 TTTTTTTTAA
64686 CTTTTTTCAA-TTTTT-
1 CTTTTTTCAACTTTTTC
*
64701 CTTTATTCAACTTTTTC
1 CTTTTTTCAACTTTTTC
64718 CTTTT
1 CTTTT
64723 AACTTTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTTTTCAACTTTTTC
Found at i:64722 original size:23 final size:22
Alignment explanation
Indices: 64672--64750 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 22
64662 TTATTCTCCA
64672 CCTTTTT-TTTTT-AACTTTTTT
1 CCTTTTTCTTTTTCAAC-TTTTT
*
64693 CAATTTTTCTTTATTCAACTTTTT
1 C-CTTTTTCTTT-TTCAACTTTTT
* *
64717 CCTTTTAACTTTTTCGACTTTTT
1 CCTTTT-TCTTTTTCAACTTTTT
64740 --TTTTTCTTTTT
1 CCTTTTTCTTTTT
64751 GAATATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.12
21 5 0.10
22 5 0.10
23 17 0.35
24 12 0.25
25 3 0.06
ACGTcount: A:0.13, C:0.16, G:0.01, T:0.70
Consensus pattern (22 bp):
CCTTTTTCTTTTTCAACTTTTT
Found at i:64800 original size:21 final size:21
Alignment explanation
Indices: 64776--64817 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64766 ATTTTTCATA
64776 AACAT-TTTTCCTTTTAAATTT
1 AACATATTTT-CTTTTAAATTT
*
64797 AACATATTTTCTTTTATATTT
1 AACATATTTTCTTTTAAATTT
64818 TGAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (21 bp):
AACATATTTTCTTTTAAATTT
Found at i:68070 original size:26 final size:26
Alignment explanation
Indices: 68034--68092 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
68024 AGTTACAGAT
68034 CTTTGACAAGATAATAAAACAAAGGA
1 CTTTGACAAGATAATAAAACAAAGGA
68060 CTTTGACAAGATAATAAAACAAAGGA
1 CTTTGACAAGATAATAAAACAAAGGA
68086 CTTTGAC
1 CTTTGAC
68093 CTTACCCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (26 bp):
CTTTGACAAGATAATAAAACAAAGGA
Found at i:68669 original size:98 final size:95
Alignment explanation
Indices: 68413--68671 Score: 339
Period size: 94 Copynumber: 2.7 Consensus size: 95
68403 GTATACCCAT
*
68413 ATTATATATACAAT-AAGC-TTGAGATGTCCCTCTAGAGCAA-TGGTTAAACGCCCCCGGCTTTA
1 ATTATATATACAATAAAGCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCCCGGCTTTA
** *
68475 TGGATAAGATTCAGCTAGTCTGATAAAGGTG
65 TGGATAAGATTCAGCTACCCTGATAAAGGCG
* **
68506 ATTATATATACAATAAAGCA-TGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCTTGGCTTTAT
1 ATTATATATACAATAAAGCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
*
68570 GGATAATATTCAGCTACCCTGATAAAGGCG
66 GGATAAGATTCAGCTACCCTGATAAAGGCG
* * *
68600 ATTATA-ATATCTATACAATGATATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCT
1 ATTATATATA-CAATA-AA-G-CATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
68664 TTATGGAT
62 TTATGGAT
68672 CCAGGTGGTT
Statistics
Matches: 144, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
93 17 0.12
94 70 0.49
95 11 0.08
96 1 0.01
97 1 0.01
98 44 0.31
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (95 bp):
ATTATATATACAATAAAGCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAAGATTCAGCTACCCTGATAAAGGCG
Done.