Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 100 of 170
Found at i:31108584 original size:15 final size:15
Alignment explanation
Indices: 31108564--31108614 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
31108554 TTAGCCTCTC
*
31108564 CATTTTTACTTTTTT
1 CATTTTTACATTTTT
*
31108579 CATTTTTTCATTTTT
1 CATTTTTACATTTTT
31108594 CA-TTTT-CATTTTT
1 CATTTTTACATTTTT
31108607 CATCTTTT
1 CAT-TTTT
31108615 TTTTACTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 19 0.59
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTACATTTTT
Found at i:31108601 original size:13 final size:13
Alignment explanation
Indices: 31108583--31108609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31108573 TTTTTTCATT
31108583 TTTTCATTTTTCA
1 TTTTCATTTTTCA
31108596 TTTTCATTTTTCA
1 TTTTCATTTTTCA
31108609 T
1 T
31108610 CTTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:31108601 original size:21 final size:21
Alignment explanation
Indices: 31108575--31108614 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31108565 ATTTTTACTT
31108575 TTTTCATTTTTTCAT-TTTTCA
1 TTTTCA-TTTTTCATCTTTTCA
31108596 TTTTCATTTTTCATCTTTT
1 TTTTCATTTTTCATCTTTT
31108615 TTTTACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCATTTTTCATCTTTTCA
Found at i:31109488 original size:8 final size:8
Alignment explanation
Indices: 31109471--31109514 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
31109461 TTCATCTAGA
*
31109471 TTTTCCTC
1 TTTTCTTC
31109479 TTTTCTTC
1 TTTTCTTC
31109487 TTTTCTTC
1 TTTTCTTC
*
31109495 TTTTCTTT
1 TTTTCTTC
*
31109503 TTTTCTTA
1 TTTTCTTC
31109511 TTTT
1 TTTT
31109515 ATTTTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTC
Found at i:31114529 original size:12 final size:13
Alignment explanation
Indices: 31114511--31114552 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
31114501 AGGAAAGATT
31114511 TAATAATAATATA
1 TAATAATAATATA
31114524 -AATAATAACATATA
1 TAATAAT-A-ATATA
31114538 TACATAATAATATA
1 TA-ATAATAATATA
31114552 T
1 T
31114553 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:31114544 original size:16 final size:16
Alignment explanation
Indices: 31114519--31114556 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31114509 TTTAATAATA
31114519 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
31114535 ATATACATAATAATAT
1 ATATAAATAATAACAT
31114551 AT-TAAA
1 ATATAAA
31114557 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:31114799 original size:16 final size:16
Alignment explanation
Indices: 31114754--31114889 Score: 63
Period size: 15 Copynumber: 8.3 Consensus size: 16
31114744 TTAAAATAAT
31114754 ATTATATAATAAAATA
1 ATTATATAATAAAATA
*
31114770 ATGCATATACATAAAA-A
1 AT-TATATA-ATAAAATA
31114787 ATTATATAGAT-AAATA
1 ATTATATA-ATAAAATA
*
31114803 TATGA-ACTAATATAAATA
1 -ATTATA-TAATA-AAATA
* *
31114821 ATAACACTAATAATAATA
1 ATTATA-TAATAA-AATA
31114839 A-TA-ATAATAATAATA
1 ATTATATAATAA-AATA
31114854 A-TA-ATAATAAAGATAA
1 ATTATATAATAAA-AT-A
* *
31114870 ATTA-ATATTAAAGTA
1 ATTATATAATAAAATA
31114885 ATTAT
1 ATTAT
31114890 TTTTGTAGCA
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
14 1 0.01
15 31 0.31
16 17 0.17
17 27 0.27
18 23 0.23
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTATATAATAAAATA
Found at i:31114834 original size:3 final size:3
Alignment explanation
Indices: 31114817--31114863 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
31114807 AACTAATATA
* *
31114817 AAT AAT AAC ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31114864 AGATAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:31122129 original size:18 final size:20
Alignment explanation
Indices: 31122092--31122133 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
31122082 GTAGGACCTG
31122092 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
31122112 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
31122130 TATA
1 TATA
31122134 ATGGGTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:31125913 original size:28 final size:28
Alignment explanation
Indices: 31125881--31125978 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
31125871 TAATAAGTTT
31125881 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
31125909 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
* * * *
31125937 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTAATAATCAATCTC
31125965 GCACACTTAGTGCT
1 GCACACTTAGTGCT
31125979 AATCTCATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCAATCTC
Found at i:31135298 original size:19 final size:21
Alignment explanation
Indices: 31135274--31135318 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
31135264 CATTTCTCTT
*
31135274 TTTCTATTCATTC-C-ATTCA
1 TTTCTATTCAATCACAATTCA
31135293 TTTCTATTCAATCACAATTCA
1 TTTCTATTCAATCACAATTCA
31135314 TTTCT
1 TTTCT
31135319 GGTTTCAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 10 0.43
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCTATTCAATCACAATTCA
Found at i:31143455 original size:17 final size:17
Alignment explanation
Indices: 31143438--31143470 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31143428 ATAATATTAT
31143438 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
31143454 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
31143471 CTTATCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:31145710 original size:13 final size:13
Alignment explanation
Indices: 31145694--31145759 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
31145684 AGTTCGACAA
*
31145694 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
31145707 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
31145720 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
31145733 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
31145746 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
31145759 T
1 T
31145760 TTGGTTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31150904 original size:18 final size:17
Alignment explanation
Indices: 31150862--31150909 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
31150852 TGTCGTTCGT
31150862 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
31150879 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
31150898 TTTCAAAACATT
1 TTTCAAAACATT
31150910 TTTTTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:31153849 original size:43 final size:43
Alignment explanation
Indices: 31153802--31153995 Score: 141
Period size: 43 Copynumber: 4.6 Consensus size: 43
31153792 CAAAAAATGT
*
31153802 ATACTAGAACACATAATGCATCATCGAACAAACCGAAGCAATC
1 ATACTAGAACACATAATGCATCATCGAATAAACCGAAGCAATC
* * * *
31153845 ATACTA-ACACACGTAGTGCATCATCGGATAAACCGAAACAATC
1 ATACTAGA-ACACATAATGCATCATCGAATAAACCGAAGCAATC
* * * * * ** *
31153888 ATACTGGCACTCAAAATGCATCATCAAATGTACCGAAGAAAAT-
1 ATACTAGAACACATAATGCATCATCGAATAAACCGAAG-CAATC
* * *
31153931 ATACT-G-ACACATAATTGCATCATC-AGATATACCAAAGCAATT
1 ATACTAGAACACATAA-TGCATCATCGA-ATAAACCGAAGCAATC
*
31153973 ATACT-G-GCACATAAATGCATCAT
1 ATACTAGAACACAT-AATGCATCAT
31153996 TGGCTAAATC
Statistics
Matches: 121, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
41 10 0.08
42 39 0.32
43 69 0.57
44 3 0.02
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.21
Consensus pattern (43 bp):
ATACTAGAACACATAATGCATCATCGAATAAACCGAAGCAATC
Found at i:31153976 original size:42 final size:42
Alignment explanation
Indices: 31153777--31153995 Score: 135
Period size: 43 Copynumber: 5.1 Consensus size: 42
31153767 ACGCATAGTT
* * *
31153777 CATCATCAAATGTACCAAA-AAATGTATACTAGAACACAT-AATG
1 CATCATCAGATATACCAAAGCAAT-TATACT-G-ACACATAAATG
* * * * * *
31153820 CATCATC-GAACAAACCGAAGCAATCATACTAACACACGT-AGTG
1 CATCATCAG-ATATACCAAAGCAATTATACTGACACA--TAAATG
* * * *
31153863 CATCATCGGATAAACCGAAA-CAATCATACTGGCAC-TCAAAATG
1 CATCATCAGATATACC-AAAGCAATTATACTGACACAT--AAATG
* * * * * *
31153906 CATCATCAAATGTACCGAAGAAAATATACTGACACATAATTG
1 CATCATCAGATATACCAAAGCAATTATACTGACACATAAATG
*
31153948 CATCATCAGATATACCAAAGCAATTATACTGGCACATAAATG
1 CATCATCAGATATACCAAAGCAATTATACTGACACATAAATG
31153990 CATCAT
1 CATCAT
31153996 TGGCTAAATC
Statistics
Matches: 134, Mismatches: 31, Indels: 23
0.71 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 5 0.04
42 47 0.35
43 74 0.55
44 7 0.05
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (42 bp):
CATCATCAGATATACCAAAGCAATTATACTGACACATAAATG
Found at i:31155997 original size:27 final size:27
Alignment explanation
Indices: 31155967--31156020 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
31155957 AACACCAAAT
* *
31155967 AATATACTCATTATCACCCAAA-CTCAA
1 AATAAACTAATTAT-ACCCAAATCTCAA
*
31155994 AATAAACTAATTATGCCCAAATCTCAA
1 AATAAACTAATTATACCCAAATCTCAA
31156021 GTCCAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (27 bp):
AATAAACTAATTATACCCAAATCTCAA
Found at i:31156690 original size:15 final size:16
Alignment explanation
Indices: 31156662--31156703 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
31156652 TAGTCCTACA
*
31156662 ATATTGTATAATAT-T
1 ATATTATATAATATAT
*
31156677 ATATTATATCATATAGT
1 ATATTATATAATATA-T
31156694 ATATTATATA
1 ATATTATATA
31156704 TTAATAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
17 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATTATATAATATAT
Found at i:31156814 original size:15 final size:16
Alignment explanation
Indices: 31156783--31156816 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31156773 AATCTATAAT
*
31156783 ATAATGATAGTTACAC
1 ATAATAATAGTTACAC
31156799 ATAATAATAG-TACAC
1 ATAATAATAGTTACAC
31156814 ATA
1 ATA
31156817 TTATTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (16 bp):
ATAATAATAGTTACAC
Found at i:31156982 original size:235 final size:236
Alignment explanation
Indices: 31156335--31157497 Score: 1013
Period size: 235 Copynumber: 4.9 Consensus size: 236
31156325 TTATTATCAT
* * * * * * * ** *
31156335 ATATTGTTGTTTATTAATCTATTGATTGAAATATACTTTAAGTCTCTATGTTTTTCCTACATTTG
1 ATATTATTGTTTATTATTATACTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATTTG
* *
31156400 AAAGTTAGTCCTCCTACTATATTATATAATGTTATATCATATCATATAGTATATAACATATTAAT
66 AAAGTTAG-CCTCCTACTATATTATATAATGGTATATCATATCATATAGTATATAAAATATTAAT
* * *
31156465 AGTTTTTATATATACATATGCATTAATGATTAAACGTTATAATATCATGTAATACAATA-CATTT
130 AG----T-T-TATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATC-TTT
* * *
31156529 TACGTTAT--TCTATAATATAAT-AGTAGTT-CATTATATTTATTAATTATTA-TAAT
188 TA--TTATAATCTATAATATAATGA-TAGTTACA-TATA---A-TAAGTAGTACT-AC
* *
31156582 ATATTATTGTTTATTATTATACTGGTTGAAATATG-TTCTATG-CCCTTATACTTTTCATACATT
1 ATATTATTGTTTATTATTATACTGGTTGAAATATGCTT-TAAGTCCC-TATACTTTTCGTACATT
* * ** * * *
31156645 TGAAAGTTAG--TCCTACAATATTGTATAATATTATATTATATCATATAGTATATTATATATTAA
64 TGAAAGTTAGCCTCCTACTATATTATATAATGGTATATCATATCATATAGTATATAAAATATTAA
* * * * * *
31156708 TAGTTTATATATGTGTATCAATTATTAAACATTATAATATCTTGTAATACTATATATTTTATTAT
129 TAGTTTATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTAT
*
31156773 AATCTATAATATAATGATAGTTACACATAATAA-TAGTAC-AC
194 AATCTATAATATAATGATAGTTACATATAATAAGTAGTACTAC
* *
31156814 ATATTATTGTTTATTATTATACTGGTTGAAATATGCCTTAAGTCCCTATATTTTTCGTACATTTG
1 ATATTATTGTTTATTATTATACTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATTTG
*
31156879 AAAGTTATCTCTCCTACTATATTATATAATGGTATATCATAT-AGTATAGTATATAAAATATTAA
66 AAAGTTAGC-CTCCTACTATATTATATAATGGTATATCATATCA-TATAGTATATAAAATATTAA
* * *
31156943 TAGTTTATACATATGCATAAATGATTAAACATTATAATATCAAGTAATATTATATCTTTTATTAT
129 TAGTTTATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTAT
* * *
31157008 AACCTATAATATAATGATAGTTATATATAATAGTAGTACATTTTATACTAC
194 AATCTATAATATAATGATAGTTACATATAATA--AGT--A----GTACTAC
* * * *
31157059 ATATTATTATATATTATTTTTTATTATTATACTAGTTGAAATATGCTCTAGGTCCCTATACTTTT
1 ----------ATATTATTGTTTATTATTATACTGGTTGAAATATGCTTTAAGTCCCTATACTTTT
* * *
31157124 CGTACATTTGAAAATTAGCCCTCTTACTATATTATATAAT-G--T-T-ATATC-------ATATC
56 CGTACATTTGAAAGTTAG-CCTCCTACTATATTATATAATGGTATATCATATCATATAGTATATA
* * * * * *
31157177 AACTATTAATAGTTTATATATATGCATCTATGATTAAACATTATAATATCATATTATATTATATC
120 AAATATTAATAGTTTATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATC
* * * ** *
31157242 TTTTATTATAATCTATATTATAATAATAGTTATATATAAT-AGGGGTACATTAG
185 TTTTATTATAATCTATAATATAATGATAGTTACATATAATAAGTAGTAC--TAC
* * * * *
31157295 ATATTATTGTTTATTATTAAACTAGTTGAAATATGCTTTAAGTCTCTATAATTTTCGTACATTTA
1 ATATTATTGTTTATTATTATACTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATTTG
* * * * * *
31157360 AAAGTTAGCCCTCCTAC-ATATTATATAACGCTATATCATATCATATAATATAT-TAATAGT-GT
66 AAAGTTAG-CCTCCTACTATATTATATAATGGTATATCATATCATATAGTATATAAAATATTAAT
* ** *
31157422 -GTATATACATA--CATTGATGATTAAACATTATAATATCACGTAATACTATATCTTTTATTATA
130 AGTTTATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATA
*
31157484 ATCTATATTATAAT
195 ATCTATAATATAAT
31157498 AGCAGTTATA
Statistics
Matches: 765, Mismatches: 101, Indels: 115
0.78 0.10 0.12
Matches are distributed among these distances:
225 11 0.01
226 73 0.10
228 1 0.00
229 1 0.00
230 5 0.01
232 122 0.16
233 8 0.01
234 16 0.02
235 131 0.17
236 10 0.01
237 5 0.01
238 68 0.09
239 4 0.01
240 4 0.01
243 99 0.13
244 53 0.07
245 2 0.00
246 4 0.01
247 56 0.07
250 4 0.01
251 1 0.00
252 1 0.00
254 1 0.00
255 84 0.11
256 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (236 bp):
ATATTATTGTTTATTATTATACTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATTTG
AAAGTTAGCCTCCTACTATATTATATAATGGTATATCATATCATATAGTATATAAAATATTAATA
GTTTATACATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAA
TCTATAATATAATGATAGTTACATATAATAAGTAGTACTAC
Found at i:31157267 original size:15 final size:15
Alignment explanation
Indices: 31157216--31157268 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
31157206 ATGATTAAAC
31157216 ATTATAAT-ATC-AT
1 ATTATAATAATCTAT
*
31157229 ATTATATTATATCT-T
1 ATTATAATA-ATCTAT
*
31157244 -TTATTATAATCTAT
1 ATTATAATAATCTAT
31157258 ATTATAATAAT
1 ATTATAATAAT
31157269 AGTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 11 0.35
14 7 0.23
15 13 0.42
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATAATAATCTAT
Found at i:31157507 original size:232 final size:226
Alignment explanation
Indices: 31157064--31157508 Score: 617
Period size: 232 Copynumber: 1.9 Consensus size: 226
31157054 ACTACATATT
* * * * *
31157064 ATTATATATTATTTTTTATTATTATACTAGTTGAAATATGCTCTAGGTCCCTATACTTTTCGTAC
1 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAGTCCCTATAATTTTCGTAC
* * * *
31157129 ATTTGAAAATTAGCCCTCTTACTATATTATATAATGTTATATCATATCAACTATTAATAGTTTAT
66 ATTTGAAAATTAGCCCTCCTACTATATTATATAACGCTATATCATATCAAATATTAATAGTTTAT
* * * * *
31157194 ATATATGCATCTATGATTAAACATTATAATATCATATTATATTATATCTTTTATTATAATCTATA
131 ATACATACATCTATGATTAAACATTATAATATCACATAATACTATATCTTTTATTATAATCTATA
*
31157259 TTATAATAATAGTTATATATAATAGGGGTAC
196 TTATAATAACAGTTATATATAATAGGGGTAC
* *
31157290 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTTTAAGTCTCTATAATTTTCGTAC
1 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAGTCCCTATAATTTTCGTAC
31157355 ATTT-AAAAGTTAGCCCTCCTAC-ATATTATATAACGCTATATCATATCATATAATATATTAATA
66 ATTTGAAAA-TTAGCCCTCCTACTATATTATATAACGCTATATCATATC----AA-ATATTAATA
*
31157418 GTGTGTATATACATACAT-TGATGATTAAACATTATAATATCACGTAATACTATATCTTTTATTA
125 GT-T-TATATACATACATCT-ATGATTAAACATTATAATATCACATAATACTATATCTTTTATTA
*
31157482 TAATCTATATTATAATAGCAGTTATAT
187 TAATCTATATTATAATAACAGTTATAT
31157509 GTGTATTAAT
Statistics
Matches: 191, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
225 27 0.14
226 74 0.39
229 2 0.01
230 10 0.05
231 2 0.01
232 76 0.40
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (226 bp):
ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAGTCCCTATAATTTTCGTAC
ATTTGAAAATTAGCCCTCCTACTATATTATATAACGCTATATCATATCAAATATTAATAGTTTAT
ATACATACATCTATGATTAAACATTATAATATCACATAATACTATATCTTTTATTATAATCTATA
TTATAATAACAGTTATATATAATAGGGGTAC
Found at i:31159338 original size:13 final size:14
Alignment explanation
Indices: 31159320--31159350 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
31159310 TAATATAATG
31159320 AATTTTATCATTT-
1 AATTTTATCATTTC
31159333 AATTTTATCATTTC
1 AATTTTATCATTTC
31159347 AATT
1 AATT
31159351 AACCTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTATCATTTC
Found at i:31168770 original size:16 final size:17
Alignment explanation
Indices: 31168733--31168770 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31168723 TCAATTCAGC
*
31168733 ATTTAAAATTCAAAAAT
1 ATTTAAAATTAAAAAAT
*
31168750 ATTTAAATTTAAAAAAT
1 ATTTAAAATTAAAAAAT
31168767 -TTTA
1 ATTTA
31168771 TGTGCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAATTAAAAAAT
Found at i:31172707 original size:85 final size:85
Alignment explanation
Indices: 31172600--31172883 Score: 256
Period size: 85 Copynumber: 3.3 Consensus size: 85
31172590 CTTCAGTCTA
* * *
31172600 CTCCACTGTAACCTT-AGGGAGATAAGACCTGATGCGATCTACTCTATTGTAACCTTAGAGAGAT
1 CTCCACTGTAA-CTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
31172664 AAGATCCTAAATTTTAATTCG
65 AAGATCCTAAATTTTAATTCG
* * * * * * * ** *
31172685 CTCCAGTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA-AGGA
1 CTCCACTGTAACTTCAGAGAGATAAGA--CCT-GATGCGATCTACTCTACTGTAACCTCAGA-GA
*
31172749 GATAAGAT-CTGAATTTT--TTCGG
62 GATAAGATCCTAAATTTTAATTC-G
* * *
31172771 TCTACTCCACTGTAA-TCTCAGGGAGATAAGACTTGATGTGATCTACTCTACTGTAACCTCAGAG
1 ----CTCCACTGTAACT-TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
31172835 AGATAAGATCTTAAATTTTAATCCG
61 AGATAAGATCCTAAATTTTAATTCG
31172860 CTCCACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACTTCAGAGAGATA
31172884 GGATTACTAA
Statistics
Matches: 152, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
84 3 0.02
85 44 0.29
86 2 0.01
87 40 0.26
88 37 0.24
89 2 0.01
90 24 0.16
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATA
AGATCCTAAATTTTAATTCG
Found at i:31172752 original size:175 final size:175
Alignment explanation
Indices: 31172543--31172943 Score: 624
Period size: 175 Copynumber: 2.3 Consensus size: 175
31172533 AAGGTCTCTG
** *
31172543 GCTTCAATCTGCTTCAAC-GTAATCTCGGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACT
1 GCTTCAATCTGC-TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACT
* * *
31172607 GTAACCTTAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAACCTTAGAGAGATAAGATCCT
65 GTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCT
* *
31172672 AAATTTTAATTCGCTCCAGTGTAACTTCAGAGAGATAGGATTACTA
130 AAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
* * * *
31172718 GCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAATTTTTTCGGTCTACTCCACTG
1 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTG
* * * *
31172783 TAATCTCAGGGAGATAAGACTTGATGTGATCTACTCTACTGTAACCTCAGAGAGATAAGATCTTA
66 TAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTA
31172848 AATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
131 AATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
* *
31172893 ACTTCAATCTGCTCCGCTGTAATCTCAGGGAGACAAGATCTGAAATTCTTC
1 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
31172944 GATCTGTTTT
Statistics
Matches: 204, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
174 3 0.01
175 201 0.99
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (175 bp):
GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTG
TAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTA
AATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
Found at i:31172877 original size:44 final size:44
Alignment explanation
Indices: 31172647--31172939 Score: 144
Period size: 44 Copynumber: 6.7 Consensus size: 44
31172637 TCTACTCTAT
* *
31172647 TGTAACCTT-AGAGAGATAAGATCCTAAATTTTAAT-TCGCTCCAG
1 TGTAA-CTTCAGAGAGATAAGATCTTAAATTTTAATCT-GCTCCAC
* ** * *
31172691 TGTAACTTCAGAGAGATAGGA--TTACTAGCTTCAATCTGCTCCGC
1 TGTAACTTCAGAGAGATAAGATCTTA--AATTTTAATCTGCTCCAC
* * ** *
31172735 TGTAA-TCTCA-AGGAGATAAGATCTGAATTTTTTCGGTCTACTCCAC
1 TGTAACT-TCAGA-GAGATAAGATCTTAA-ATTTT-AATCTGCTCCAC
* * * * * *
31172781 TGTAA-TCTCAGGGAGATAAGA-CTT-GA-TGTGATCTACTCTAC
1 TGTAACT-TCAGAGAGATAAGATCTTAAATTTTAATCTGCTCCAC
* *
31172822 TGTAACCTCAGAGAGATAAGATCTTAAATTTTAATCCGCTCCAC
1 TGTAACTTCAGAGAGATAAGATCTTAAATTTTAATCTGCTCCAC
* * * *
31172866 TGTAACTTCAGAGAGATAGGA--TTACTAACTTCAATCTGCTCCGC
1 TGTAACTTCAGAGAGATAAGATCTTA--AATTTTAATCTGCTCCAC
* * *
31172910 TGTAA-TCTCAGGGAGACAAGATCTGAAATT
1 TGTAACT-TCAGAGAGATAAGATCTTAAATT
31172940 CTTCGATCTG
Statistics
Matches: 187, Mismatches: 42, Indels: 40
0.70 0.16 0.15
Matches are distributed among these distances:
41 28 0.15
42 10 0.05
43 7 0.04
44 106 0.57
45 5 0.03
46 31 0.17
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
TGTAACTTCAGAGAGATAAGATCTTAAATTTTAATCTGCTCCAC
Found at i:31172931 original size:88 final size:88
Alignment explanation
Indices: 31172659--31172939 Score: 286
Period size: 88 Copynumber: 3.2 Consensus size: 88
31172649 TAACCTTAGA
* * *
31172659 GAGATAAGATCCT-AAATTTTAATTCGCTCCAGTGTAACTTCAGAGAGATAGGATTACTAGCTTC
1 GAGATAAGAT-CTGAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAACTTC
*
31172723 AATCTGCTCCGCTGTAATCTCAAG
65 AATCTGCTCCGCTGTAATCTCAGG
* ** ** * * * *
31172747 GAGATAAGATCTGAATTTTTTCGGTCTACTCCACTGTAA-TCTCAGGGAGATAAGACT--TGA-T
1 GAGATAAGATCTGAA-ATTTT-AATCCGCTCCACTGTAACT-TCAGAGAGATAGGATTACTAACT
* * ** * *
31172808 GT-GATCTACTCTACTGTAACCTCAGA
63 -TCAATCTGCTCCGCTGTAATCTCAGG
*
31172834 GAGATAAGATCTTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAACTTCA
1 GAGATAAGATCTGAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAACTTCA
31172899 ATCTGCTCCGCTGTAATCTCAGG
66 ATCTGCTCCGCTGTAATCTCAGG
*
31172922 GAGACAAGATCTGAAATT
1 GAGATAAGATCTGAAATT
31172940 CTTCGATCTG
Statistics
Matches: 146, Mismatches: 37, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
85 26 0.18
86 5 0.03
87 37 0.25
88 49 0.34
89 5 0.03
90 24 0.16
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (88 bp):
GAGATAAGATCTGAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAACTTCA
ATCTGCTCCGCTGTAATCTCAGG
Found at i:31206152 original size:94 final size:94
Alignment explanation
Indices: 31205950--31207648 Score: 1903
Period size: 94 Copynumber: 18.1 Consensus size: 94
31205940 TCTTATCTCT
* * * * * *
31205950 CTGAAGTTGCAGTGGGTCCGATTGAAGATACCATAACAAATCTTATCTCCCTGAAGTTACAGTGC
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31206015 A-CAAGATGAAACTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * ** * * * * ** *
31206043 CTAAAGTTGTAGTGGGTTGGATTGACGTTACCATAGCAAATCTTATCTCGCTAAAGTTATAATGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31206108 AGCAAGATGAAGTTACAAAAT-CTATACCC
66 AGCAAGATGAAGCTAC-AAATCCTATACCC
* * ** * *
31206137 CTGAAGTTACAGTGGGTCGGATTGAAGTTACCATAG-GAAATCTTA-CGTCATTGAAATTGTAGT
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCG-AATCTTATC-TCCCTGAAGTTGCAGT
* *
31206200 GGAGCAGGATGAAGCTACAAATCTTATACCC
64 GGAGCAAGATGAAGCTACAAATCCTATACCC
* * * * * *
31206231 CTAAAGTTGTAGTGGATCGGATTGAAGTTACCATAGCGAATCTAATCTCCCTAAAGTTAG-AGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTT-GCAGTG
** *
31206295 GAATAAGATGAAGCTACAAAACCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * *
31206325 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCA-AGCAAATCTTATCTCCATGAA-TTTCTAGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGC-AGTG
*
31206388 GAGCAAGATGAAACTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * *
31206418 CTGAAGATGTAGTGGGTCAGATTTAAGTTACCATAGTGAATCTTATCTCCCTTAAGTTGTA-AGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31206482 AGGAAGATAAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
** * * * * * * *
31206511 CTGAA-TTAAAGTAGGTTAGATTAAAGTTGCCATAGCGAATCTCATCTCACTGAAGTTGTAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31206575 AACAAGATGAAACTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* ** *
31206604 CTGAAGTTGCAGTGGTTCAGATTGAAGTTACCATAGCGAATCTTATCTTACTGAAGTTGTAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31206669 AGTAAGATGAAGCAACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
31206698 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31206763 AGCAAGATAAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * * * * *
31206792 TTGAAGTTGGAGTGGGCCGGATTGAAGCTACAATAGCAAATCTTGTCTCTCTGAAGTTGCAATGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
31206857 AGTAAGATAAAGCTACCAATTCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * *
31206886 TTGAAGTTCCAGTGGGTCAGATTGAAATTA-CAGTAGCGAGTCCTATCTCCATGAAGTTACAGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCA-TAGCGAATCTTATCTCCCTGAAGTTGCAGTG
*
31206950 AAGCAAGATGAAGCTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * ** * * * *
31206980 C-GAAAGTTACAATAGGTTGGATTAAAGTTACCATAGCGAATCTTATCTCCCTAAAGTTGCAATA
1 CTG-AAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
* *
31207044 GAGCAAGATAAAGCTACAAATCCTAAACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * *
31207074 CTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31207139 AGCAAGATAAAGCTACAAATCCTATACTC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * *
31207168 CTTAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGTGAATCTTATCTCCCTAAAGTTGCAGTAG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31207233 AGCAAGATGAAGCTACAAATCCTATACTC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * *
31207262 TTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGCGAATATTATCTCCCTAAAGTTGCAGTAG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
31207327 AGCAAGATGAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * ** * *
31207356 CTGAAGTTGTAGTTGGT-TGAATTGAAATTATAATAGCGAATCTTATCTCACTGAAGTTGTAGTG
1 CTGAAGTTGCAGTGGGTCAG-ATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
* * * *
31207420 GAACAAGATAAAGTTATAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * ** *
31207450 CTGAAGTTGTAGTGGGTCAGATTGAAGCTAAAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
31207515 AGCAAGATGAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * ** * * * *
31207544 CTGAAGTTGCAGTGGGT-TGAAATGAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGTAGTT
1 CTGAAGTTGCAGTGGGTCAG-ATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
*
31207608 GTGCAAGATGAAGCTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
*
31207638 TTGAAGTTGCA
1 CTGAAGTTGCA
31207649 ATGGAGCAAG
Statistics
Matches: 1365, Mismatches: 220, Indels: 41
0.84 0.14 0.03
Matches are distributed among these distances:
92 46 0.03
93 205 0.15
94 1101 0.81
95 13 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (94 bp):
CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAAGATGAAGCTACAAATCCTATACCC
Found at i:31206163 original size:44 final size:44
Alignment explanation
Indices: 31206115--31206355 Score: 118
Period size: 44 Copynumber: 5.2 Consensus size: 44
31206105 TGGAGCAAGA
*
31206115 TGAAGTTACAAAATCTATACCCCTGAAGTTACAGTGGGTCGGAT
1 TGAAGTTACAAAATCTATACCCCTGAAGTTGCAGTGGGTCGGAT
** * *
31206159 TGAAGTTACCATAGGAAATCT-TACGTCATTGAAATTGTAGTGGAG-CAGGA-
1 TGAAGTTA-C--A--AAATCTATAC--CCCTGAAGTTGCAGTGG-GTC-GGAT
* * * *
31206209 TGAAGCTAC-AAATCTTATACCCCTAAAGTTGTAGTGGATCGGAT
1 TGAAGTTACAAAATC-TATACCCCTGAAGTTGCAGTGGGTCGGAT
* * **
31206253 TGAAGTTACCATAGCGAATCTA-ATCTCCCTAAAGTTAG-AGTGGAATAAGA-
1 TGAAGTTA-CA-A---AATCTATA-C-CCCTGAAGTT-GCAGTGG-GTCGGAT
* * *
31206303 TGAAGCTACAAAACCTATACCCCTGAAGTTGCAGTGGGTCAGAT
1 TGAAGTTACAAAATCTATACCCCTGAAGTTGCAGTGGGTCGGAT
31206347 TGAAGTTAC
1 TGAAGTTAC
31206356 CAAGCAAATC
Statistics
Matches: 151, Mismatches: 20, Indels: 52
0.68 0.09 0.23
Matches are distributed among these distances:
43 8 0.05
44 56 0.37
45 9 0.06
46 4 0.03
47 2 0.01
48 5 0.03
49 12 0.08
50 46 0.30
51 9 0.06
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (44 bp):
TGAAGTTACAAAATCTATACCCCTGAAGTTGCAGTGGGTCGGAT
Found at i:31206680 original size:50 final size:50
Alignment explanation
Indices: 31206534--31207620 Score: 225
Period size: 50 Copynumber: 23.1 Consensus size: 50
31206524 GGTTAGATTA
* * * * **
31206534 AAGTTGCCATAGCGAATCTCATCTCACTGAAGTTGTAGTGGAACAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * *
31206584 AA---A-C-TA-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-TTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
** *
31206628 AAGTTACCATAGCGAATCTTATCTTACTGAAGTTGTAGTGGAGTAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * *
31206678 AAG----CA-A-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
*
31206722 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * ***
31206771 AA---AGC-TA-CAAATCCTATAC-CCTTGAAGTTGGAGTGG-GCCGGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * * *
31206816 AAGCTACAATAGCAAATCTTGTCTCTCTGAAGTTGCAATGGAGTAAGATA
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * *
31206866 AAGCTACC--A---ATTC-TATAC-CCTTGAAGTTCCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * * *
31206910 AAATTA-CAGTAGCGAGTCCTATCTCCATGAAGTTACAGTGAAGCAAGATG
1 AAGTTACCA-TAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * ** *
31206960 AAG----C-TA-CAAATCCTATAC-CCC-GAAAGTTACAATAG-GTTGGATTA
1 AAGTTACCATAGCGAATCTTAT-CTCCCTG-AAGTTGCAGTGGAGTAAGA-TG
* * * *
31207004 AAGTTACCATAGCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * *
31207053 AA---AGC-TA-CAAATCCTAAAC-CCCTGAAGTTGCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAAT-CTTATCTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * *
31207098 AAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * *
31207147 AA---AGC-TA-CAAATCCTATACT-CCTTAAGTTGTAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * *
31207192 AAGCTACAATAGTGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * *
31207242 AAG----C-TA-CAAATCCTATACT-CTTGAAGTTGCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * *
31207286 AAGCTACAATAGCGAATATTATCTCCCTAAAGTTGCAGTAGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * *
31207336 AAG----C-TA-CAAATCCTATAC-CCCTGAAGTTGTAGTTGG-TTGAA-TTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAG-TGGAGT-AAGATG
* ** * * ** *
31207380 AAATTATAATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAACAAGATA
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * *
31207430 AAGTT---ATA---AATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* ** * *
31207474 AAGCTAAAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* *
31207524 AAG----C-TA-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTGAA-ATG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-T-AAGATG
** * * * * * *
31207568 AAACTACAATGGCGAATCTTATCTCCCTGAAGTTGTAGTTGTGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
31207618 AAG
1 AAG
31207621 CTACAAATCC
Statistics
Matches: 743, Mismatches: 177, Indels: 234
0.64 0.15 0.20
Matches are distributed among these distances:
43 38 0.05
44 268 0.36
45 48 0.06
46 9 0.01
47 8 0.01
48 8 0.01
49 48 0.06
50 281 0.38
51 35 0.05
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
Found at i:31207569 original size:44 final size:44
Alignment explanation
Indices: 31207028--31207663 Score: 246
Period size: 44 Copynumber: 13.6 Consensus size: 44
31207018 AATCTTATCT
* * * * * *
31207028 CCCTAAAGTTGCAATAGAGCAAGATAAAGCTACAAATCCTAAAC
1 CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
*
31207072 CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCTACAATAGCAAATCT-TATC
1 CCCTGAAGTTGCAGTGGTG-CAAGA-TGAAGCTACAA-ATC----CTATA-C
* * *
31207121 TCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
* * * *
31207166 TCCTTAAGTTGTAGTGG-GTC-AGATTGAAGCTACAATAGTGAATCT-TATC
1 CCCTGAAGTTGCAGTGGTG-CAAGA-TGAAGCTACAA-A-T---CCTATA-C
* * *
31207215 TCCCTAAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
* * * *
31207260 TCTTGAAGTTGCAGTGG-GTC-AGATTGAAGCTACAATAGCGAATATTATC
1 CCCTGAAGTTGCAGTGGTG-CAAGA-TGAAGCTACAA-ATC--CTA-TA-C
* * *
31207309 TCCCTAAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
* * * * *
31207354 CCCTGAAGTTGTAGTTGGTTG-AATTGAAATTATA-ATAGCGAATCTTAT-C
1 CCCTGAAGTTGCAG-TGG-TGCAA--G--ATGA-AGCTA-CAAATCCTATAC
* * ** * * *
31207403 TCACTGAAGTTGTAGTGGAACAAGATAAAGTTATAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
*
31207448 CCCTGAAGTTGTAGTGG-GTC-AGATTGAAGCTA-AAATAGCGAATCT-TATC
1 CCCTGAAGTTGCAGTGGTG-CAAGA-TGAAGCTACAAAT--C----CTATA-C
* *
31207497 TCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
* *
31207542 CCCTGAAGTTGCAGTGGGTTG-AA-ATGAAACTACAATGGCGAATCTTAT-C
1 CCCTGAAGTTGCAGT-GG-TGCAAGATGAAGCTAC-A-----AATCCTATAC
* *
31207591 TCCCTGAAGTTGTAGTTGTGCAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
* * *
31207636 CCTTGAAGTTGCAATGGAGCAAGATGAA
1 CCCTGAAGTTGCAGTGGTGCAAGATGAA
31207664 AATGTGACAC
Statistics
Matches: 454, Mismatches: 66, Indels: 144
0.68 0.10 0.22
Matches are distributed among these distances:
43 19 0.04
44 171 0.38
45 32 0.07
46 11 0.02
47 6 0.01
48 10 0.02
49 32 0.07
50 153 0.34
51 20 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGTGCAAGATGAAGCTACAAATCCTATAC
Found at i:31212068 original size:17 final size:17
Alignment explanation
Indices: 31212046--31212082 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
31212036 TAATTTAAAT
*
31212046 AATTAAATATTTTTCTC
1 AATTAAATAATTTTCTC
31212063 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
31212080 AAT
1 AAT
31212083 CTAATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:31212365 original size:24 final size:23
Alignment explanation
Indices: 31212327--31212373 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
31212317 TTTATGTTCA
31212327 TTTGATTTAACATGCAATTCATT
1 TTTGATTTAACATGCAATTCATT
*
31212350 TTTGGTTTCAACATGCAATTCATT
1 TTTGATTT-AACATGCAATTCATT
31212374 CATTGGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTGATTTAACATGCAATTCATT
Found at i:31219079 original size:30 final size:30
Alignment explanation
Indices: 31219043--31219149 Score: 133
Period size: 30 Copynumber: 3.6 Consensus size: 30
31219033 CATTACTTGA
* *
31219043 TGTCATCTCGGATTGCCCGGCAACGATCAC
1 TGTCATCCCGGGTTGCCCGGCAACGATCAC
* * *
31219073 TGTCATCCTGGGTTGCCCAGCAACAATCAC
1 TGTCATCCCGGGTTGCCCGGCAACGATCAC
* * * *
31219103 TATCATCCCGGGTTGCCTGGTAAAGATCAC
1 TGTCATCCCGGGTTGCCCGGCAACGATCAC
31219133 TGTCATCCCGGGTTGCC
1 TGTCATCCCGGGTTGCC
31219150 TGATAATGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (30 bp):
TGTCATCCCGGGTTGCCCGGCAACGATCAC
Found at i:31244495 original size:29 final size:29
Alignment explanation
Indices: 31244452--31244528 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
31244442 TATCGACGCT
* *
31244452 CATCGAATATAAAAAGGGATGGTTACGAC
1 CATCGAATATGAAAAGGGATGGTTACAAC
*
31244481 CATCGAATATGAAAAGGGATGGTTTCAAC
1 CATCGAATATGAAAAGGGATGGTTACAAC
31244510 CATCGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
31244529 CGAATATGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTACAAC
Found at i:31244534 original size:16 final size:16
Alignment explanation
Indices: 31244513--31244544 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31244503 TTTCAACCAT
31244513 CGAATATGAAAAGGGA
1 CGAATATGAAAAGGGA
31244529 CGAATATGAAAAGGGA
1 CGAATATGAAAAGGGA
31244545 TGGTGACGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.31, T:0.12
Consensus pattern (16 bp):
CGAATATGAAAAGGGA
Found at i:31244548 original size:45 final size:45
Alignment explanation
Indices: 31244484--31244573 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
31244474 TTACGACCAT
** *
31244484 CGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGA
1 CGAATATGAAAAGGGATGGTGACAACCATCGAATATAAAAAGGGA
*
31244529 CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGA
1 CGAATATGAAAAGGGATGGTGACAACCATCGAATATAAAAAGGGA
31244574 TAGTTTTGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.43, C:0.11, G:0.28, T:0.18
Consensus pattern (45 bp):
CGAATATGAAAAGGGATGGTGACAACCATCGAATATAAAAAGGGA
Found at i:31244586 original size:74 final size:74
Alignment explanation
Indices: 31244455--31244602 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 74
31244445 CGACGCTCAT
* * *
31244455 CGAATATAAAAAGGGATGGTTACGACCATCGAATATGAAAAGGGATGGTTTCAACCATCGAATAT
1 CGAATATAAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
31244520 GAAAAGGGA
66 GAAAAGGGA
* **
31244529 CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTTGACCATCGAATAT
1 CGAATATAAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
31244594 GAAAAGGGA
66 GAAAAGGGA
31244603 TGGTGACGAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.20
Consensus pattern (74 bp):
CGAATATAAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
GAAAAGGGA
Found at i:31244619 original size:58 final size:58
Alignment explanation
Indices: 31244529--31244646 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
31244519 TGAAAAGGGA
31244529 CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTTGACCAT
* *
31244587 CGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTTGACCAT
31244645 CG
1 CG
31244647 TTTAGCACAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (58 bp):
CGAATATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGATAGTTTTGACCAT
Found at i:31244646 original size:29 final size:29
Alignment explanation
Indices: 31244529--31244635 Score: 169
Period size: 29 Copynumber: 3.7 Consensus size: 29
31244519 TGAAAAGGGA
31244529 CGAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
* * ***
31244558 CGAATATAAAAAGGGATAGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
31244587 CGAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
31244616 CGAATATGAAAAGGGATGGT
1 CGAATATGAAAAGGGATGGT
31244636 TTTGACCATC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (29 bp):
CGAATATGAAAAGGGATGGTGACGACCAT
Found at i:31252127 original size:154 final size:150
Alignment explanation
Indices: 31251831--31252132 Score: 331
Period size: 154 Copynumber: 2.0 Consensus size: 150
31251821 CACTATCAGA
* * *
31251831 AGCATTACTGAAAATAGCGTTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTGCATCCTGCT
1 AGCATTACTGAAAAGAGCATTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTACATCCTGCT
* * * *** * *
31251896 TGGAGCATTTTTCCTTTAGAAACCTCATCCCGGGAATCCTGGGATATTTTTTTCAAAACTATCTC
66 TGGAGCATTTTTCCTCTACAAACCTCAACCC--G-ATCCTAAAATATTTTCTTCAAAACCATCTC
**
31251961 ATCAAATTTATTTTCTCAGAAGT
128 ATCAAAAATATTTTCTCAGAAGT
* * * *
31251984 AGCATTACTGAAAAGGGCATTCAGTTGGAAGCGTTTTCAGTACTTTTGTTGACAGTACATCCTGC
1 AGCATTACTGAAAAGAGCATTCAGTTGGAAGCATTTT-AGTACTTTTGCTAACAGTACATCCTGC
31252049 TTGGAGCATTTTTCCTCTACAAACCTCAACCC-ATCTCGTTAAAACTA-TTTCTTCAAAACCCAT
65 TTGGAGCATTTTTCCTCTACAAACCTCAACCCGATC-C--TAAAA-TATTTTCTTCAAAA-CCAT
*
31252112 C-CTTCCAAAAATATTTTCTCA
125 CTCAT-CAAAAATATTTTCTCA
31252133 AAATCCATCC
Statistics
Matches: 124, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
150 3 0.02
151 1 0.01
153 47 0.38
154 73 0.59
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (150 bp):
AGCATTACTGAAAAGAGCATTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTACATCCTGCT
TGGAGCATTTTTCCTCTACAAACCTCAACCCGATCCTAAAATATTTTCTTCAAAACCATCTCATC
AAAAATATTTTCTCAGAAGT
Found at i:31253349 original size:19 final size:19
Alignment explanation
Indices: 31253324--31253374 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
31253314 ATAAATAAAA
31253324 ATAAAAAATTATGTATGAT
1 ATAAAAAATTATGTATGAT
* * * *
31253343 TTAAAAAATAAT-TTTTAT
1 ATAAAAAATTATGTATGAT
31253361 ATAAAAAATTATGT
1 ATAAAAAATTATGT
31253375 TATTTTCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (19 bp):
ATAAAAAATTATGTATGAT
Found at i:31268416 original size:20 final size:21
Alignment explanation
Indices: 31268391--31268439 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
31268381 ATTATTTTTT
31268391 TTATTTTAT-ATTTTTAT-AAA
1 TTATTTTATAATTTTT-TGAAA
*
31268411 TTATTTT-TAATTTTTTGTAA
1 TTATTTTATAATTTTTTGAAA
31268431 TTATTTTAT
1 TTATTTTAT
31268440 TTGTTTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTTTATAATTTTTTGAAA
Found at i:31269031 original size:17 final size:18
Alignment explanation
Indices: 31268996--31269048 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
31268986 AAGGGTTAAT
31268996 TTTAATTTTTTAATATTA
1 TTTAATTTTTTAATATTA
*
31269014 TTTAATTTTTTCAT-TTA
1 TTTAATTTTTTAATATTA
* *
31269031 TGTAATTTAATTAATATT
1 TTTAATTT-TTTAATATT
31269049 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 10 0.34
18 17 0.59
19 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAATTTTTTAATATTA
Found at i:31269561 original size:14 final size:14
Alignment explanation
Indices: 31269536--31269575 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31269526 TAACACTAAT
31269536 CCTAAACCAT-AAC
1 CCTAAACCATAAAC
31269549 CCTAAACCCATAAAC
1 CCTAAA-CCATAAAC
*
31269564 CCTAAGCCATAA
1 CCTAAACCATAA
31269576 CATACAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:31272610 original size:9 final size:10
Alignment explanation
Indices: 31272590--31272619 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
31272580 AATTATTTTG
31272590 TATTTGGTTT
1 TATTTGGTTT
31272600 TATTT-GTTT
1 TATTTGGTTT
31272609 TATTTGGTTT
1 TATTTGGTTT
31272619 T
1 T
31272620 GGCATTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (10 bp):
TATTTGGTTT
Found at i:31273075 original size:44 final size:45
Alignment explanation
Indices: 31273027--31273262 Score: 194
Period size: 44 Copynumber: 5.2 Consensus size: 45
31273017 TTTAATCCGT
*
31273027 TCCACTGTAACTTC-AGGAAGA-AAGGA-TTAGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAAGG-AGATAA-GACTTAGTAGCTTCAATCTGC
* * * * * * *
31273071 TCCACTACAACATCAGGGAGATAAGACTCACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAAGGAGATAAGACTTAGTAGCTTCAATCTGC
* * *
31273116 TCCACTGTAACTTCAAGGAGATAAGACTTA-TATCTTCAATTTGC
1 TCCACTGCAACTTCAAGGAGATAAGACTTAGTAGCTTCAATCTGC
* * *
31273160 CCCACTGCAACTTCAAGGGGATAAGA-TTAGTGGCTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGACTTAGTAGCTTCAATCTGC
* * * * * *
31273204 TCTACTACAACTTTAGGGAGATAAGATTCATCATTGTAGCTTCAATCTGT
1 TCCACTGCAACTTCAAGGAGATAAGA--C-T--TAGTAGCTTCAATCTGC
31273254 TCCACTGCA
1 TCCACTGCA
31273263 CTGCCAGGGA
Statistics
Matches: 150, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
43 3 0.02
44 82 0.55
45 43 0.29
48 1 0.01
50 21 0.14
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTAGTAGCTTCAATCTGC
Found at i:31273272 original size:50 final size:50
Alignment explanation
Indices: 31273218--31273701 Score: 256
Period size: 50 Copynumber: 9.7 Consensus size: 50
31273208 CTACAACTTT
* *
31273218 AGGGAGATAAGATTCATCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
** * * * ** * * *
31273268 AGGGAAATAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCATTGTC
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
** * *
31273318 -GAGGAAGGAAGATTCACCGTTGTAGCTTCAATCTG-TCCTACTGCACCGCC
1 AG-GGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCC-ACTGCACTGCC
** * * ** * * * *
31273368 A-GGAAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGTC
1 AGGGAAA-TAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
* * * * *
31273418 GGGGAAACAAAATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACTGCT
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
* * * * ** * * *
31273468 AGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTC
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
* ** * * * * *
31273518 GGGGAAGCAAGATTCACCGTTATAGCTTCAATATGTTCTACTGCACAGCC
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
* * * * * ** * * * *
31273568 AGAGAAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTACAATGTC
1 AGGGAAATAAGATTCACCATTGTAG-CTTCAATCTGTTCCACTGCACTGCC
* ** * * * * *
31273618 GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATTTGTCCCACTGCACCGCC
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
* * * * *
31273668 AGGGAAGTAAGATTCGCCGTTGTGGCTTTAATCT
1 AGGGAAATAAGATTCACCATTGTAGCTTCAATCT
31273702 TTTTAATTGT
Statistics
Matches: 319, Mismatches: 107, Indels: 16
0.72 0.24 0.04
Matches are distributed among these distances:
49 7 0.02
50 305 0.96
51 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
AGGGAAATAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACTGCC
Found at i:31273341 original size:100 final size:100
Alignment explanation
Indices: 31273226--31273710 Score: 684
Period size: 100 Copynumber: 4.8 Consensus size: 100
31273216 TTAGGGAGAT
* * * * *
31273226 AAGATTCATCATTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTCGTCGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
* * *
31273291 GGCTTCAATCTTTTTAATTGCATTGTCGAGGAAGG
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * *
31273326 AAGATTCACCGTTGTAGCTTCAATCTG-TCCTACTGCACCGCCAGGAAAGTAAGATTCACTGTTG
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCC-ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTG
* *
31273390 TGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAAC
65 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * *
31273426 AAAATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCGCCATTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
31273491 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * *
31273526 AAGATTCACCGTTATAGCTTCAATATGTTCTACTGCACAGCCAGAGAAGTAAGATTCGCCGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
* *
31273591 GACTTCAATCTTTTTAATTACAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * *
31273626 AAGATTCGCCGTTGTAGCTTCAATTTGTCCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
*
31273691 GGCTTTAATCTTTTTAATTG
66 GGCTTCAATCTTTTTAATTG
31273711 TAACCTCAGG
Statistics
Matches: 337, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
99 3 0.01
100 331 0.98
101 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (100 bp):
AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
Found at i:31273721 original size:50 final size:50
Alignment explanation
Indices: 31273267--31273721 Score: 287
Period size: 50 Copynumber: 9.1 Consensus size: 50
31273257 ACTGCACTGC
* * * *
31273267 CAGGGAAATAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCATTGT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
* * * ** * * *
31273317 C-GAGGAAGGAAGATTCACCGTTGTAGCTTCAATCTGTCCT-ACTGC-ACCGC
1 CAG-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTTAATTGCAATC-T
* * * * *
31273367 CAGGAAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
* ** * * * * ** * *
31273417 CGGGGAAACAAAATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACTGCT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-CT
* *
31273468 -AGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
* * * * * * * * *
31273517 CGGGGAAGCAAGATTCACCGTTATAGCTTCAATATGTTCT-ACTGCACAGC-
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTTAATTGCA-ATCT
* * * *
31273567 CAGAGAAGTAAGATTCGCCGTTGTGACTTCAATCTTTTTAATTACAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
* * * *** * * *
31273617 CGGGGAAGCAAGATTCGCCGTTGTAGCTTCAAT-TTGTCCCACTGC-ACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTT-TTTAATTGCAATC-T
* * *
31273667 CAGGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAATTGTAACCT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
31273717 CAGGG
1 CAGGG
31273722 GTATGAGTAA
Statistics
Matches: 292, Mismatches: 97, Indels: 32
0.69 0.23 0.08
Matches are distributed among these distances:
49 11 0.04
50 267 0.91
51 14 0.05
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATCT
Found at i:31274520 original size:15 final size:14
Alignment explanation
Indices: 31274488--31274535 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
31274478 GGCCTCTCCT
* *
31274488 TTTTCTTTTTCTTC
1 TTTTCTTTTTTTTA
31274502 TTTTCTTTTTTTGTA
1 TTTTCTTTTTTT-TA
31274517 TTTTTCTTTTTTTTA
1 -TTTTCTTTTTTTTA
31274532 TTTT
1 TTTT
31274536 TTATGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 15 0.50
15 3 0.10
16 12 0.40
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTTTTA
Found at i:31274536 original size:15 final size:15
Alignment explanation
Indices: 31274487--31274536 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
31274477 TGGCCTCTCC
*
31274487 TTTTTCTTTTTCTT-
1 TTTTTCTTTTTTTTA
*
31274501 CTTTTCTTTTTTTGTA
1 TTTTTCTTTTTTT-TA
31274517 TTTTTCTTTTTTTTA
1 TTTTTCTTTTTTTTA
31274532 TTTTT
1 TTTTT
31274537 TATGAAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.35
15 8 0.26
16 12 0.39
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTTTA
Found at i:31277740 original size:20 final size:19
Alignment explanation
Indices: 31277715--31277753 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31277705 ATTAGAACAA
31277715 CTTTACTAGAAAACAAATAT
1 CTTTAC-AGAAAACAAATAT
* *
31277735 CTTTACATAAAACGAATAT
1 CTTTACAGAAAACAAATAT
31277754 ATATACGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (19 bp):
CTTTACAGAAAACAAATAT
Found at i:31282134 original size:11 final size:10
Alignment explanation
Indices: 31282112--31282144 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
31282102 AAATGTATTA
31282112 TTTTTAT-AT
1 TTTTTATAAT
*
31282121 TTTTAATAAT
1 TTTTTATAAT
31282131 TTTTTATAAT
1 TTTTTATAAT
31282141 TTTT
1 TTTT
31282145 CAAATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:31285037 original size:4 final size:4
Alignment explanation
Indices: 31285028--31285066 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
31285018 TTAGAAATCT
31285028 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
31285067 TTTGCATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:31288244 original size:2 final size:2
Alignment explanation
Indices: 31288237--31288294 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
31288227 TTCGATTGAC
31288237 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
31288279 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
31288295 TGTATTAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31292030 original size:7 final size:7
Alignment explanation
Indices: 31292018--31292072 Score: 83
Period size: 7 Copynumber: 7.9 Consensus size: 7
31292008 ATTAAACAAA
31292018 AAAAATC
1 AAAAATC
31292025 AAAAATC
1 AAAAATC
31292032 AAAAATC
1 AAAAATC
*
31292039 AAAAATG
1 AAAAATC
31292046 AAAAATC
1 AAAAATC
*
31292053 AAAAATG
1 AAAAATC
*
31292060 AAAAATG
1 AAAAATC
31292067 AAAAAT
1 AAAAAT
31292073 ATTTTTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:31292035 original size:14 final size:14
Alignment explanation
Indices: 31292018--31292072 Score: 92
Period size: 14 Copynumber: 3.9 Consensus size: 14
31292008 ATTAAACAAA
*
31292018 AAAAATCAAAAATC
1 AAAAATCAAAAATG
31292032 AAAAATCAAAAATG
1 AAAAATCAAAAATG
31292046 AAAAATCAAAAATG
1 AAAAATCAAAAATG
*
31292060 AAAAATGAAAAAT
1 AAAAATCAAAAAT
31292073 ATTTTTGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAATCAAAAATG
Found at i:31292042 original size:21 final size:21
Alignment explanation
Indices: 31292018--31292072 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
31292008 ATTAAACAAA
*
31292018 AAAAATCAAAAATCAAAAATC
1 AAAAATGAAAAATCAAAAATC
*
31292039 AAAAATGAAAAATCAAAAATG
1 AAAAATGAAAAATCAAAAATC
31292060 AAAAATGAAAAAT
1 AAAAATGAAAAAT
31292073 ATTTTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAATCAAAAATC
Found at i:31303332 original size:20 final size:18
Alignment explanation
Indices: 31303285--31303391 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
31303275 TAAGATAAAC
31303285 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
31303302 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
31303322 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
31303341 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* *
31303360 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
31303378 ATTAAAATAATATT
1 ATTAAATTAATATT
31303392 ATATTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 9 0.13
19 27 0.39
20 18 0.26
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:31312233 original size:20 final size:20
Alignment explanation
Indices: 31312216--31312253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31312206 GACGTTCATC
*
31312216 TATCATATATTCATTTCACA
1 TATCACATATTCATTTCACA
*
31312236 TATCACATTTTCATTTCA
1 TATCACATATTCATTTCA
31312254 AATGTCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (20 bp):
TATCACATATTCATTTCACA
Found at i:31312294 original size:14 final size:13
Alignment explanation
Indices: 31312274--31312338 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
31312264 CCAATGTTCC
*
31312274 ATTTCATATATCT
1 ATTTCATATAACT
*
31312287 ATTTTCATATATCT
1 A-TTTCATATAACT
*
31312301 GA-TTCATATAACC
1 -ATTTCATATAACT
31312314 ATTTCATATAACT
1 ATTTCATATAACT
31312327 ATTTCCATATAA
1 ATTT-CATATAA
31312339 AAAATTTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
12 1 0.02
13 24 0.53
14 19 0.42
15 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:31318576 original size:15 final size:16
Alignment explanation
Indices: 31318547--31318588 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
31318537 CATAAGATCC
*
31318547 TTTTTGCATTCATTGT
1 TTTTTGCATTAATTGT
*
31318563 TTTTTGC-TTAATTGA
1 TTTTTGCATTAATTGT
*
31318578 TCTTTGCATTA
1 TTTTTGCATTA
31318589 TACATTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (16 bp):
TTTTTGCATTAATTGT
Found at i:31329626 original size:133 final size:133
Alignment explanation
Indices: 31329424--31330249 Score: 1302
Period size: 133 Copynumber: 6.2 Consensus size: 133
31329414 CATGTTTCAC
* *
31329424 AGATAACAGATCCTGTCTTCATATATTGGTAG-GAAGTGGATCGAAGATGCATATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
31329488 CATACTGGTGGCGAAGTAGATTGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
31329553 CGA
131 CGA
* * * * * *
31329556 AGATAGCAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGTAGTTCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
** *
31329621 CATACTGGTGGCGAAGTAGATCGGAA-AAAATAGATCTTGGCTTCATGTATTGGCGTGAAGTAGA
66 CATACTGGTGGCGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
31329685 TCGA
130 TCGA
*
31329689 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
31329754 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
31329819 CGA
131 CGA
* *
31329822 AGATAACAGATCCTGTCTTCCTATATTTGTAGCGAA---GATCGAATATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
31329884 CATACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
31329949 CGA
131 CGA
* *
31329952 AGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTATTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
31330017 CATACTGGTGGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
31330082 CGA
131 CGA
* * *
31330085 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGAAGATGCAGATCTTTTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
31330150 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
*
31330215 CAA
131 CGA
* * *
31330218 AAATAGCAGATCCTGTCTTCTTATATTGGTAG
1 AGATAACAGATCCTGTCTTCCTATATTGGTAG
31330250 TGAGGCAGAC
Statistics
Matches: 638, Mismatches: 50, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
130 123 0.19
132 32 0.05
133 480 0.75
134 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (133 bp):
AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
CGA
Found at i:31330194 original size:396 final size:396
Alignment explanation
Indices: 31329424--31330249 Score: 1316
Period size: 396 Copynumber: 2.1 Consensus size: 396
31329414 CATGTTTCAC
*
31329424 AGATAACAGATCCTGTCTTCATATATTGGTAGGAAGTGGATCGAAGATGCATATCTTGTCTTCCC
1 AGATAACAGATCCTGTCTTCATATATTGGTAGGAA--GGATCGAAGATGCAGATCTTGTCTTCCC
* *
31329489 ATACTGGTGGCGAAGTAGATTGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATC
64 ATACTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATC
* * * *
31329554 GAAGATAGCAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGTAGTTCTTGTCTT
129 GAAGATAACAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGCAGATCTTGTATT
*
31329619 CCCATACTGGTGGCGAAGTAGATCGGAAAAAATAGATCTTGGCTTCATGTATTGGCGTGAAGTAG
194 CCCATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAG
*
31329684 ATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
259 ATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
31329749 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
324 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
*
31329814 TAGATCGA
389 TAGATCAA
* * *
31329822 AGATAACAGATCCTGTCTTCCTATATTTGTAGCGAA-GATCGAATATGCAGATCTTGTCTTCCCA
1 AGATAACAGATCCTGTCTTCATATATTGGTAG-GAAGGATCGAAGATGCAGATCTTGTCTTCCCA
* * *
31329886 TACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
65 TACTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCG
* *
31329951 AAGATAACAGATCCTGTCTTCCTATATTGGTAG-TGAAGTGGATCGAAGATGCAGATCTTGTATT
130 AAGATAACAGATCCTGTCTTCCTATATCGGTAGCT-AAGTGGATCGAACATGCAGATCTTGTATT
* * * *
31330015 CCCATACTGGTGGTGAAGTGGATC-GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
194 CCCATACTGGTGGCGAAGTAGATCGGAA-AAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTA
* * *
31330079 GATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGAAGATGCAGATCTTT
258 GATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTG
*
31330144 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
323 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAA
*
31330209 GTGGATCAA
388 GTAGATCAA
* * *
31330218 AAATAGCAGATCCTGTCTTCTTATATTGGTAG
1 AGATAACAGATCCTGTCTTCATATATTGGTAG
31330250 TGAGGCAGAC
Statistics
Matches: 394, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
395 4 0.01
396 357 0.91
398 30 0.08
399 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (396 bp):
AGATAACAGATCCTGTCTTCATATATTGGTAGGAAGGATCGAAGATGCAGATCTTGTCTTCCCAT
ACTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGA
AGATAACAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGCAGATCTTGTATTCC
CATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAGAT
CGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
GATCAA
Found at i:31330228 original size:44 final size:45
Alignment explanation
Indices: 31329424--31330252 Score: 713
Period size: 44 Copynumber: 18.8 Consensus size: 45
31329414 CATGTTTCAC
* * * * *
31329424 AGATAACAGATCCTGTCTTCATATATTGGTAG-GAAGTGGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * * *
31329468 AGAT-GCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * *
31329512 AGAAAGCAGATCTTATCTTCATGTATTGG-CATGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31329556 AGATAGCAGATCCTGTCTTCCTATATCGGTAGCT-AAGTGGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCG-TGAAGTAGATCGA
* * * * * * *
31329601 ACAT-GTAGTTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC-GA
* ** * * *
31329646 A-AAAATAGATCTTGGCTTCATGTATTGG-CGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31329689 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * *
31329734 AGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31329778 AGAAAGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * *
31329822 AGATAACAGATCCTGTCTTCCTATATTTGTAGCG-A--AGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * *
31329864 ATAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAATAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * *
31329908 AGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31329952 AGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * *
31329997 AGAT-GCAGATCTTGTATTCCCATACTGGTGGTGAAGTGGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * *
31330041 AGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * * * *
31330085 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31330130 AGAT-GCAGATCTTTTCTTCCCATATTGGTGGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * * *
31330174 AGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCAA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
* * * *
31330218 AAATAGCAGATCCTGTCTTCTTATATTGGTAGTGA
1 AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGA
31330253 GGCAGACTGA
Statistics
Matches: 616, Mismatches: 149, Indels: 39
0.77 0.19 0.05
Matches are distributed among these distances:
41 22 0.04
42 11 0.02
43 23 0.04
44 376 0.61
45 183 0.30
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
AGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGA
Found at i:31339239 original size:21 final size:21
Alignment explanation
Indices: 31339191--31339244 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
31339181 TTAAAAACCC
*
31339191 AATGGTACCGATATTTTTATA
1 AATGGTATCGATATTTTTATA
* * *
31339212 AA-AGTATTGATATTTTTTTA
1 AATGGTATCGATATTTTTATA
31339232 AATGGTATCGATA
1 AATGGTATCGATA
31339245 CCTAATTACA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (21 bp):
AATGGTATCGATATTTTTATA
Found at i:31346588 original size:14 final size:15
Alignment explanation
Indices: 31346571--31346599 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31346561 GAGTATAGTA
31346571 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
31346585 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
31346600 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:31354116 original size:36 final size:36
Alignment explanation
Indices: 31354069--31354146 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
31354059 TTTGTATGAA
* *
31354069 CTTACTAAGCCTTTGATATGCTTACTGTTGTCTTCC
1 CTTACTAAGCCTTTGATATGCTTACCGTTGTCCTCC
31354105 CTTACTAAGCCTTTGATATGCTTACCGTTGTCCTCC
1 CTTACTAAGCCTTTGATATGCTTACCGTTGTCCTCC
31354141 CTTACT
1 CTTACT
31354147 TGTAGATTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.42
Consensus pattern (36 bp):
CTTACTAAGCCTTTGATATGCTTACCGTTGTCCTCC
Found at i:31354535 original size:24 final size:21
Alignment explanation
Indices: 31354508--31354556 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
31354498 TACCTATTGA
*
31354508 TGCAAGAATGAACATGATTTGAAT
1 TGCAA-AATGAA-ATG-GTTGAAT
*
31354532 TGCAAAATGGAATGGTTGAAT
1 TGCAAAATGAAATGGTTGAAT
31354553 TGCA
1 TGCA
31354557 TGTAATTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 3 0.13
23 5 0.22
24 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCAAAATGAAATGGTTGAAT
Found at i:31356008 original size:11 final size:13
Alignment explanation
Indices: 31355992--31356025 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
31355982 AATTTCACAG
31355992 AAAAATTTCG-T-
1 AAAAATTTCGTTC
31356003 AAAAATTTCGTTC
1 AAAAATTTCGTTC
31356016 AAAAATTTCG
1 AAAAATTTCG
31356026 ATGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:31357265 original size:102 final size:102
Alignment explanation
Indices: 31357089--31357319 Score: 381
Period size: 102 Copynumber: 2.3 Consensus size: 102
31357079 ATTGAATATA
*
31357089 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
31357154 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
* * *
31357191 AAGGGGGTTGCTAAGTGTTGATTCCCTCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
31357256 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
66 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
*
31357293 AAAGGGGTTGCTAAGTGCTGATATCCC
1 AAGGGGGTTGCTAAGTGCTGAT-TCCC
31357320 GACTCATTTG
Statistics
Matches: 119, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 115 0.97
103 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
Found at i:31363007 original size:42 final size:42
Alignment explanation
Indices: 31362921--31363040 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
31362911 AGCTCGTACA
* * ** *
31362921 ATGCCATATCCCAGATAAGGTCTTACATGTTATAATATACCG
1 ATGCCATGTCCCAGATAAGGTCTTACACGAAATCATATACCG
*
31362963 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATA-CG
1 ATGCCA-TGTCCCAGATAAGGTCTTACACGAAATCATATACCG
* * *
31363005 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA
1 ATGCC-ATGTCCCAGATAAGGTCTTACACGAAATCA
31363041 CACCTCGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 39 0.58
43 28 0.42
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGATAAGGTCTTACACGAAATCATATACCG
Found at i:31369888 original size:99 final size:99
Alignment explanation
Indices: 31369693--31369901 Score: 391
Period size: 100 Copynumber: 2.1 Consensus size: 99
31369683 ATTGCGTGTT
31369693 TTGGACTTAGGGACTAAATTGCATAGAAGTGAAATATTGGGCTAATTTTGTAAAAAATTATAAAA
1 TTGGACTTAGGGACTAAATTGCATAGAAGTGAAATATTGGGCTAATTTTGTAAAAAATTATAAAA
*
31369758 GGACTTAAATGCATAAAATGAGTTAATTTTTTTG
66 AGACTTAAATGCATAAAATGAGTTAATTTTTTTG
31369792 TTGGACTTAGGGACTAAATTGCATAGAAGTGAAATATTGGGCTAATTTTGTAAAAAAATTATAAA
1 TTGGACTTAGGGACTAAATTGCATAGAAGTGAAATATTGGGCTAATTTTGT-AAAAAATTATAAA
31369857 AAGACTTAAATGCATAAAATGAGTTAATTTTTTTG
65 AAGACTTAAATGCATAAAATGAGTTAATTTTTTTG
*
31369892 TTGGAATTAG
1 TTGGACTTAG
31369902 TTAATTGAAT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
99 51 0.48
100 56 0.52
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (99 bp):
TTGGACTTAGGGACTAAATTGCATAGAAGTGAAATATTGGGCTAATTTTGTAAAAAATTATAAAA
AGACTTAAATGCATAAAATGAGTTAATTTTTTTG
Found at i:31372935 original size:21 final size:21
Alignment explanation
Indices: 31372902--31372963 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
31372892 ATGGTCTACA
* *
31372902 TACATGGGTATGTGAAGTAGT
1 TACACGGGCATGTGAAGTAGT
31372923 TACACGGGCATGTGAAGTAGT
1 TACACGGGCATGTGAAGTAGT
* *
31372944 TACGCGGGCATGTGGAGTAG
1 TACACGGGCATGTGAAGTAG
31372964 CCATACGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (21 bp):
TACACGGGCATGTGAAGTAGT
Found at i:31375052 original size:41 final size:41
Alignment explanation
Indices: 31374997--31375078 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
31374987 TCAGCAGATA
*
31374997 AAAGCTGAACATCAAGTACCATTAGGATTGTTACAACCTAT
1 AAAGCTGAACATCAAGTACCATCAGGATTGTTACAACCTAT
31375038 AAAGCTGAACATCAAGTACCATCAGGATTGTTACAACCTAT
1 AAAGCTGAACATCAAGTACCATCAGGATTGTTACAACCTAT
31375079 CACGATTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (41 bp):
AAAGCTGAACATCAAGTACCATCAGGATTGTTACAACCTAT
Found at i:31376816 original size:6 final size:6
Alignment explanation
Indices: 31376805--31376837 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
31376795 GTATTGCAAT
*
31376805 TTTCCA TTTCCA TTTCCA TTTCCA TTTCTA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
31376838 TTGAAAACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:31378155 original size:25 final size:25
Alignment explanation
Indices: 31378121--31378192 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
31378111 AACCAAGCCA
*
31378121 AGCCTTTGTGACGAATTATCTAAAG
1 AGCCTTTGTGATGAATTATCTAAAG
* *
31378146 AGCCTTTGTGGTGAATTATCTGAAG
1 AGCCTTTGTGATGAATTATCTAAAG
*
31378171 AGCCTTTGTGATGTATTATCTA
1 AGCCTTTGTGATGAATTATCTA
31378193 GAACGTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (25 bp):
AGCCTTTGTGATGAATTATCTAAAG
Found at i:31399295 original size:66 final size:66
Alignment explanation
Indices: 31399189--31399312 Score: 176
Period size: 66 Copynumber: 1.9 Consensus size: 66
31399179 TTTCTGCACG
* *
31399189 AATGTCACTGCATGAATTAATTCTACACTACGTCCAGAATTGTCACCGCAGTTGACAGATATTTG
1 AATGTCACTACATGAATTAATTCCACACTACGTCCAGAATTGTCACCGCAGTTGACAGATATTTG
31399254 C
66 C
* * * * **
31399255 AATGTCGCTACATGAGTTAATTCCAGATTACGTCCAGAATTGTTGCCGCAGTTGACAG
1 AATGTCACTACATGAATTAATTCCACACTACGTCCAGAATTGTCACCGCAGTTGACAG
31399313 CTGTCTGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (66 bp):
AATGTCACTACATGAATTAATTCCACACTACGTCCAGAATTGTCACCGCAGTTGACAGATATTTG
C
Found at i:31401803 original size:50 final size:50
Alignment explanation
Indices: 31401686--31401923 Score: 278
Period size: 50 Copynumber: 4.6 Consensus size: 50
31401676 GATGAAATCT
*
31401686 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
* *
31401742 CATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
*
31401792 CATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * ** *
31401842 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * *
31401892 CATGTAAGACCATATTTGGGATACGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
31401924 TAGTACAAGA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 124 0.77
53 3 0.02
55 1 0.01
56 32 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:31406574 original size:6 final size:6
Alignment explanation
Indices: 31406563--31406595 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
31406553 TTCTTAGAAA
*
31406563 TTTTAT TTTTAT TTTTAT TTTTAT TTTTCT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
31406596 CAAAAGTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:31410055 original size:18 final size:18
Alignment explanation
Indices: 31410004--31410058 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
31409994 ACAGAAAGAA
* *
31410004 ATTTGGGTATCAATAGTG
1 ATTTTGGTATCAATATTG
31410022 ATTTTGGTATCAATATTG
1 ATTTTGGTATCAATATTG
31410040 ATTTTGGTATCAATATTG
1 ATTTTGGTATCAATATTG
31410058 A
1 A
31410059 AGGTCAAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.45
Consensus pattern (18 bp):
ATTTTGGTATCAATATTG
Found at i:31410999 original size:20 final size:19
Alignment explanation
Indices: 31410974--31411025 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
31410964 ACATATAATT
31410974 ATTATATTTTAATAAATATA
1 ATTATA-TTTAATAAATATA
*
31410994 ATTATA-TTAATTAATATA
1 ATTATATTTAATAAATATA
*
31411012 TTTATAATTTAATA
1 ATTAT-ATTTAATA
31411026 CATTTGGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATATTTAATAAATATA
Found at i:31418345 original size:28 final size:26
Alignment explanation
Indices: 31418313--31418379 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
31418303 TATTATCAAG
31418313 AATTATATGAAATTATAAATCATTATTA
1 AATTATAT-AAATTATAAATCATT-TTA
* * *
31418341 AATTATATTTAA-TATTAATTATTTTA
1 AATTATA-TAAATTATAAATCATTTTA
31418367 AATTATATAAATT
1 AATTATATAAATT
31418380 CATATAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.09
26 11 0.33
27 9 0.27
28 9 0.27
29 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
AATTATATAAATTATAAATCATTTTA
Found at i:31418419 original size:101 final size:93
Alignment explanation
Indices: 31418283--31418657 Score: 480
Period size: 91 Copynumber: 4.0 Consensus size: 93
31418273 ATGATTTTAG
* * *
31418283 TAAATTCATATAAGAACATTTATTATCAAGAATTATATGAAAT-TATA-A-ATCATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATATATATATAT-ATTATTAAATT
31418345 ATATTTAATATTAATTATTTTAAATTATA
65 ATATTTAATATTAATTATTTTAAATTATA
*
31418374 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAAT-TATATAT-CATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATATATATATATATTATTAAATTA
31418437 TATTTAATATTAATTATTTTAAATTATA
66 TATTTAATATTAATTATTTTAAATTATA
*
31418465 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAT-TATATAT-TATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATATATATATATATTATTAAATTA
*
31418528 TATTTAATAATAATTATTTTAAATTATA
66 TATTTAATATTAATTATTTTAAATTATA
* * * *
31418556 CAAATTCATATAAGAAAATTTATTAGT-TATAATTATT-TTAAATTTTATTAAATCATATATTTT
1 TAAATTCATATAAGAAAATTTATTA-TCAATAATT-TTATGAAA---TA-T--AT-ATATATATT
* *
31418619 AATTAAAATATATTTAATATTAATTATTTCAAATTATA
57 -ATTAAATTATATTTAATATTAATTATTTTAAATTATA
31418657 T
1 T
31418658 TTTATATTAT
Statistics
Matches: 254, Mismatches: 16, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
91 205 0.81
92 4 0.02
94 1 0.00
96 1 0.00
98 2 0.01
99 4 0.02
100 3 0.01
101 34 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (93 bp):
TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATATATATATATATTATTAAATTA
TATTTAATATTAATTATTTTAAATTATA
Found at i:31418547 original size:47 final size:47
Alignment explanation
Indices: 31418318--31418548 Score: 175
Period size: 47 Copynumber: 5.0 Consensus size: 47
31418308 TCAAGAATTA
* * *
31418318 TATGAAATTATAAATCATTATTAAATTATATTTAATATTAATTA-TT
1 TATGAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * *
31418364 T-T-AAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAATAATTT
1 TATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTT
* *
31418409 TATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-TT
1 TATGAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * **
31418455 T-T-AAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGAATTT
1 TATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTT
*
31418500 TATGAAATTATATATTATTATTAAATTATATTTAATAATAATTATTT
1 TATGAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
31418547 TA
1 TA
31418549 AATTATACAA
Statistics
Matches: 141, Mismatches: 22, Indels: 43
0.68 0.11 0.21
Matches are distributed among these distances:
43 12 0.09
44 40 0.28
45 16 0.11
46 14 0.10
47 46 0.33
48 13 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (47 bp):
TATGAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
Found at i:31418599 original size:91 final size:91
Alignment explanation
Indices: 31418283--31418580 Score: 533
Period size: 91 Copynumber: 3.3 Consensus size: 91
31418273 ATGATTTTAG
* * *
31418283 TAAATTCATATAAGAACATTTATTATCAAGAATTATATGAAATTATAAATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31418348 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
31418374 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31418439 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
31418465 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
31418530 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
31418556 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
31418581 GTTATAATTA
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 199 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:31418751 original size:16 final size:15
Alignment explanation
Indices: 31418721--31418759 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31418711 TTAAGAATTT
*
31418721 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31418735 T-TTTAATTATAATA
1 TATTTAATTATAATA
31418749 TATTTAATTAT
1 TATTTAATTAT
31418760 TATTATGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31418760 original size:24 final size:26
Alignment explanation
Indices: 31418733--31418788 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
31418723 TTAAATTATA
* *
31418733 TATTTTA-ATTATAATAT-ATTTAAT
1 TATTTTATATTAAAATATGATTAAAT
*
31418757 TATTATTATGTTAAAATATGATTAAAT
1 TATT-TTATATTAAAATATGATTAAAT
31418784 TATTT
1 TATTT
31418789 ATTATTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 3 0.12
26 9 0.35
27 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TATTTTATATTAAAATATGATTAAAT
Found at i:31418994 original size:45 final size:44
Alignment explanation
Indices: 31418911--31418998 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
31418901 ATTACACATC
*
31418911 TATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTT
1 TATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTT
* *
31418955 TATTACATTCAACCAAACA-ATTGATTTACTATTACGCCTCTATT
1 TATTACATTCAACCAAACACA-AGA-ATACTATTACGCCTCTATT
31418999 CCAATACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 20 0.51
45 18 0.46
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (44 bp):
TATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTT
Found at i:31423895 original size:97 final size:98
Alignment explanation
Indices: 31423780--31424027 Score: 286
Period size: 107 Copynumber: 2.4 Consensus size: 98
31423770 TTTTATGTTG
*
31423780 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAAATATTTGTTTA-G-TTATTGT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTAGTATTATAAAATATTTGTTTAGGTTTATTGT
*
31423843 AATTTGTTAGGTTATGAATGTAAAT-TTTTATTAA
66 AATTT-TTAGGTTATGAATGT-AATCTTTTAATAA
* * * *
31423877 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGATTAGGTTAATTGTTTGTTTAGG
1 TTTTTAATTTATTTTAAAGTTATTTTG-T--T-AG-TTAGT-ATTA--TAAAATATTTGTTTA-G
**
31423942 GTTTATTGTAATTTTTAGGTTATGAATGTAATCTTTTAATCT
57 GTTTATTGTAATTTTTAGGTTATGAATGTAATCTTTTAATAA
* *
31423984 TTTTTAATTTATTTGAAAGTTATTTTGTTAGTAAGTATTATAAA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTAGTATTATAAA
31424028 TTAATTATTA
Statistics
Matches: 127, Mismatches: 12, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
97 27 0.21
98 1 0.01
99 3 0.02
100 1 0.01
101 6 0.05
102 6 0.05
103 6 0.05
104 1 0.01
105 12 0.09
106 4 0.03
107 48 0.38
108 12 0.09
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (98 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTAGTATTATAAAATATTTGTTTAGGTTTATTGT
AATTTTTAGGTTATGAATGTAATCTTTTAATAA
Found at i:31427298 original size:17 final size:17
Alignment explanation
Indices: 31427276--31427336 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
31427266 ATTGAATCAC
31427276 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
31427293 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
31427313 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
31427330 TACATAA
1 TACATAA
31427337 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:31427308 original size:37 final size:37
Alignment explanation
Indices: 31427267--31427341 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
31427257 ATTAACTGAA
31427267 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
31427304 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
31427341 T
1 T
31427342 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:31427355 original size:37 final size:37
Alignment explanation
Indices: 31427267--31427358 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
31427257 ATTAACTGAA
*
31427267 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
31427304 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
31427340 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
31427359 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:31433115 original size:20 final size:20
Alignment explanation
Indices: 31433073--31433115 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
31433063 CCAACATTTC
* *
31433073 AATAAATCAAAAAAATGTCA
1 AATAAATCAAAAAAATATAA
31433093 AATAAATCAAAAACAA-ATAA
1 AATAAATCAAAAA-AATATAA
31433113 AAT
1 AAT
31433116 TACATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAAATCAAAAAAATATAA
Found at i:31433345 original size:102 final size:103
Alignment explanation
Indices: 31433216--31433505 Score: 449
Period size: 102 Copynumber: 2.8 Consensus size: 103
31433206 TAAAGAACGC
* * *
31433216 AAAAAATTTACATTTATAACAAGTCACAATAAACACTAAACTAAACACAAACAATTTATGACCTA
1 AAAAAATTTACATTTATAAAAAATCACAATAAACATTAAACTAAACACAAACAATTTATGACCTA
*
31433281 ATAATAAATTACTAACAAAATAACTTTAAAATAATT-A
66 ATCATAAATTACTAACAAAATAACTTTAAAATAATTAA
* *
31433318 AAAAAATTTACATTCATAAAAAATCACAATAAACATTAAACTAAACACAAAAAATTTATGACCTA
1 AAAAAATTTACATTTATAAAAAATCACAATAAACATTAAACTAAACACAAACAATTTATGACCTA
* *
31433383 ATCATAAATTACTAGCAAAATAACTTTCAAATAATTAA
66 ATCATAAATTACTAACAAAATAACTTTAAAATAATTAA
** * *
31433421 AAAAAATGCACATTTATAAAAAATCACAATAAACATTAAACTAAACACAAACAATTAATAACCTA
1 AAAAAATTTACATTTATAAAAAATCACAATAAACATTAAACTAAACACAAACAATTTATGACCTA
*
31433486 ACCATAAATTACTAA-AAAAT
66 ATCATAAATTACTAACAAAAT
31433506 TGACTTTACA
Statistics
Matches: 171, Mismatches: 16, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
102 98 0.57
103 73 0.43
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (103 bp):
AAAAAATTTACATTTATAAAAAATCACAATAAACATTAAACTAAACACAAACAATTTATGACCTA
ATCATAAATTACTAACAAAATAACTTTAAAATAATTAA
Found at i:31433518 original size:42 final size:43
Alignment explanation
Indices: 31433471--31433556 Score: 165
Period size: 42 Copynumber: 2.0 Consensus size: 43
31433461 CTAAACACAA
31433471 ACAATTAATAACCTAACCATAAATTACT-AAAAAATTGACTTT
1 ACAATTAATAACCTAACCATAAATTACTAAAAAAATTGACTTT
31433513 ACAATTAATAACCTAACCATAAATTACTAAAAAAATTGACTTT
1 ACAATTAATAACCTAACCATAAATTACTAAAAAAATTGACTTT
31433556 A
1 A
31433557 AAATAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.30
Consensus pattern (43 bp):
ACAATTAATAACCTAACCATAAATTACTAAAAAAATTGACTTT
Found at i:31433722 original size:106 final size:108
Alignment explanation
Indices: 31433513--31433738 Score: 323
Period size: 106 Copynumber: 2.1 Consensus size: 108
31433503 AATTGACTTT
* * * *
31433513 ACAATTAATAACCTAACCATAAATTACTAAAAAAATTGACTTTAAAATAATTTAAAAAATAAAAA
1 ACAATTTATAACCTAACCAGAAATTACTAAAAAAATTAACTATAAAATAATTTAAAAAATAAAAA
*
31433578 ATTTTATATTAATAGAAAATCACAAAACACTAAACTAAACACAA
66 A-TTTATATTAATAAAAAATCACAAAACACTAAACTAAACACAA
** *
31433622 ACAATTTATAACCTAATTAGAAATTACTAACAAAA-TAACTATAAAATAA-TTAAAAAATGAAAA
1 ACAATTTATAACCTAACCAGAAATTACTAAAAAAATTAACTATAAAATAATTTAAAAAAT-AAAA
* *
31433685 AA-TTATATTCATAAAAAATTACAAAACACTAAACTAAACACAA
65 AATTTATATTAATAAAAAATCACAAAACACTAAACTAAACACAA
31433728 ACAATTTATAA
1 ACAATTTATAA
31433739 TAATTAATAA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
106 49 0.46
107 9 0.08
108 18 0.17
109 30 0.28
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (108 bp):
ACAATTTATAACCTAACCAGAAATTACTAAAAAAATTAACTATAAAATAATTTAAAAAATAAAAA
ATTTATATTAATAAAAAATCACAAAACACTAAACTAAACACAA
Found at i:31436059 original size:11 final size:11
Alignment explanation
Indices: 31436021--31436077 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
31436011 TAAATCCTTT
31436021 CTCTCAATTT-
1 CTCTCAATTTC
*
31436031 CTCTGTAATATT-
1 CTCT-CAAT-TTC
31436043 CTCTCAATTTC
1 CTCTCAATTTC
31436054 CTCTCAATTTC
1 CTCTCAATTTC
*
31436065 CTCTCAAATTC
1 CTCTCAATTTC
31436076 CT
1 CT
31436078 ATTTGAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
10 6 0.15
11 29 0.71
12 6 0.15
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:31437914 original size:18 final size:18
Alignment explanation
Indices: 31437891--31437933 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31437881 TGCCAGGTGC
* *
31437891 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
31437909 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
31437927 GTTTCCT
1 GTATCCT
31437934 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:31438412 original size:49 final size:49
Alignment explanation
Indices: 31438357--31438474 Score: 209
Period size: 49 Copynumber: 2.4 Consensus size: 49
31438347 TACATTAATG
*
31438357 TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTGATA
1 TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCATA
*
31438406 TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCATT
1 TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCATA
*
31438455 TAATAAAATAAAAAATAGTT
1 TAATAAAATACAAAATAGTT
31438475 AATATTCTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (49 bp):
TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCATA
Found at i:31441773 original size:125 final size:125
Alignment explanation
Indices: 31441551--31441962 Score: 664
Period size: 125 Copynumber: 3.3 Consensus size: 125
31441541 CCCAAACATG
* * * *
31441551 CTACTGTAGCAAAAGCGCGTCCACGTGAGAGTGATTTCAAAAATTCTTTTGATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
*
31441616 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * *
31441676 CTACTATACCAAAAGCGTGTCCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
*
31441741 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCAAAATTA-TTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* *
31441800 CTACAATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
*
31441865 TTGAAACGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * * * *
31441925 CTAATGTATCAAAAACGCGTCCGCGTGGGAGCGATTTC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
31441963 CTTAATAAAT
Statistics
Matches: 264, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
124 117 0.44
125 147 0.56
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (125 bp):
CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:31442102 original size:7 final size:7
Alignment explanation
Indices: 31442090--31442121 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
31442080 TAATTAAAAA
31442090 CCCTAAT
1 CCCTAAT
31442097 CCCTAAT
1 CCCTAAT
31442104 CCCTAAT
1 CCCTAAT
31442111 CCCTAAT
1 CCCTAAT
31442118 CCCT
1 CCCT
31442122 TATTAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.47, G:0.00, T:0.28
Consensus pattern (7 bp):
CCCTAAT
Found at i:31442174 original size:16 final size:17
Alignment explanation
Indices: 31442143--31442177 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31442133 TGTTTTCTCC
31442143 AAAACCTTAAAAATCCTA
1 AAAACCTT-AAAATCCTA
31442161 AAAACCTT-AAATCCTA
1 AAAACCTTAAAATCCTA
31442177 A
1 A
31442178 CCCTAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAACCTTAAAATCCTA
Found at i:31442184 original size:6 final size:6
Alignment explanation
Indices: 31442173--31442197 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31442163 AACCTTAAAT
31442173 CCTAAC CCTAAC CCTAAC CCTAAC C
1 CCTAAC CCTAAC CCTAAC CCTAAC C
31442198 TTAAAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:31445510 original size:13 final size:13
Alignment explanation
Indices: 31445492--31445522 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31445482 AAACAATGAC
*
31445492 AAATAAAAAAATA
1 AAATAAAAAAACA
31445505 AAATAAAAAAACA
1 AAATAAAAAAACA
31445518 AAATA
1 AAATA
31445523 GGCTAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (13 bp):
AAATAAAAAAACA
Found at i:31445771 original size:33 final size:36
Alignment explanation
Indices: 31445734--31445817 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
31445724 CATATACATA
*
31445734 TATAAACTTA-TAA-TAGCATTATATATAT-TTTTT
1 TATAAACTTACCAACTAGCATTATATATATATTTTT
*
31445767 TAT-AATTTACCAACTTAGCATTATATATATATTTTT
1 TATAAACTTACCAAC-TAGCATTATATATATATTTTT
*
31445803 TAT-AATTTACCAACT
1 TATAAACTTACCAACT
31445818 TACTTACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 5 0.11
33 5 0.11
35 16 0.36
36 19 0.42
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (36 bp):
TATAAACTTACCAACTAGCATTATATATATATTTTT
Found at i:31445786 original size:35 final size:36
Alignment explanation
Indices: 31445747--31445819 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
31445737 AAACTTATAA
31445747 TAGCATTATATATAT-TTTTTTATAATTTACCAACT
1 TAGCATTATATATATATTTTTTATAATTTACCAACT
31445782 TAGCATTATATATATATTTTTTATAATTTACCAACT
1 TAGCATTATATATATATTTTTTATAATTTACCAACT
31445818 TA
1 TA
31445820 CTTACCTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.51
Consensus pattern (36 bp):
TAGCATTATATATATATTTTTTATAATTTACCAACT
Found at i:31446056 original size:41 final size:41
Alignment explanation
Indices: 31445946--31446058 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 41
31445936 CACTAGCACC
*** *
31445946 AAGCCTGCTAGGCATAAAGCCTGATAGGGTACACCGACATG
1 AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
* * * *
31445987 AAGCCTGCTAGGCTTAAAGCCTGATACATTTCACTGGCATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
31446028 AAGCCTGCTAGGCATAAAGCCTGATACATTA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTA
31446059 ATATAAAGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
Found at i:31447186 original size:16 final size:14
Alignment explanation
Indices: 31447155--31447183 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31447145 ATTTCACAAA
31447155 AATTTCACACATAT
1 AATTTCACACATAT
31447169 AATTTCACACATAT
1 AATTTCACACATAT
31447183 A
1 A
31447184 TAACGCAGAA
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:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:31457006 original size:13 final size:13
Alignment explanation
Indices: 31456988--31457015 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31456978 AAGCCATGAT
31456988 AAGGTGGTTAGTA
1 AAGGTGGTTAGTA
31457001 AAGGTGGTTAGTA
1 AAGGTGGTTAGTA
31457014 AA
1 AA
31457016 ACTAATTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (13 bp):
AAGGTGGTTAGTA
Found at i:31460322 original size:18 final size:19
Alignment explanation
Indices: 31460294--31460333 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
31460284 TCATTTATAT
31460294 TTTATTTTATATATAAATA
1 TTTATTTTATATATAAATA
* *
31460313 TTTA-TTTATATTTATATA
1 TTTATTTTATATATAAATA
31460331 TTT
1 TTT
31460334 TGTTCACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTTTATATATAAATA
Found at i:31460329 original size:16 final size:16
Alignment explanation
Indices: 31460280--31460329 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
31460270 AAACATAAAT
31460280 TATTTCATTTATATTT-
1 TATTT-ATTTATATTTA
* **
31460296 TATTT-TATATATAAA
1 TATTTATTTATATTTA
31460311 TATTTATTTATATTTA
1 TATTTATTTATATTTA
31460327 TAT
1 TAT
31460330 ATTTTGTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 15 0.58
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATTTATATTTA
Found at i:31460589 original size:88 final size:87
Alignment explanation
Indices: 31460456--31460757 Score: 371
Period size: 86 Copynumber: 3.5 Consensus size: 87
31460446 AATATATTTT
* * * * *
31460456 TTAAAAGTCAATAAAATCTGTTTCGGGATCTATTCCCGCCATTCAACGGATTTTATTCCAATTTT
1 TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATT-CAATTTT
* *
31460521 GATTTTATTTCCAAAACAAG-TA
65 GATTTTATTTCCAAAACGAGAAA
* * * * *
31460543 TTAAAATTAAAATAAAAACTGTCTCGGGATTTATTCCAGCCGTTCAACAAATTTTATTCATTTTT
1 TTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTTT
*
31460608 TATTTTATTTCC-AAACGAGAAA
65 GATTTTATTTCCAAAACGAGAAA
* *
31460630 TTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAATGAATTTTATT-ACA-TTT
1 TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCA-ATTTT
*
31460693 GATTTTGTTTCCAAAACGAGAAA
65 GATTTTATTTCCAAAACGAGAAA
* * *
31460716 TTAAAATTAAAT-AAATCTATTTCAGGATTTATTCTCGCCGTT
1 TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTT
31460758 TAACAATATT
Statistics
Matches: 185, Mismatches: 26, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
85 41 0.22
86 71 0.38
87 32 0.17
88 41 0.22
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (87 bp):
TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTTTG
ATTTTATTTCCAAAACGAGAAA
Found at i:31460962 original size:35 final size:35
Alignment explanation
Indices: 31460890--31460963 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
31460880 CAAATAATTC
* * *
31460890 TATTTCGGGATTTATTCCCGCTGTTTAACAGACTT
1 TATTTCGGGATTTATTCCCACCGTTCAACAGACTT
* * *
31460925 TATTTTGGGATTTATTCCCACCGTTCAACGGATTT
1 TATTTCGGGATTTATTCCCACCGTTCAACAGACTT
31460960 TATT
1 TATT
31460964 CCTTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (35 bp):
TATTTCGGGATTTATTCCCACCGTTCAACAGACTT
Found at i:31461112 original size:87 final size:87
Alignment explanation
Indices: 31460925--31461161 Score: 282
Period size: 87 Copynumber: 2.7 Consensus size: 87
31460915 TAACAGACTT
* * * * *
31460925 TATTTTGGGATTTATTCCCACCGTTCAACGGATTTTATTCCTTTTTTTTATTTTTTTTCCAAA-C
1 TATTCTGGGATTTATTCCCGCCGTTCAACGGATTTTATT-C-TATTTTGATTTTGTTTCCAAATC
31460989 GAGAAATTAAAATTAAATAAAATC
64 GAGAAATTAAAATTAAATAAAATC
* * *
31461013 TATTTTGAGATTTATTCCCGCCGTTCAACGGATTTTATTAC-ATTTTGATTTTGTTGCCAAATCG
1 TATTCTGGGATTTATTCCCGCCGTTCAACGGATTTTATT-CTATTTTGATTTTGTTTCCAAATCG
31461077 AGAAATTAAAATTAAATAAAATC
65 AGAAATTAAAATTAAATAAAATC
* ** * * * *
31461100 TGTTCTGGGATTTATTCTTGCCGTTTAACTAGATTTTATTCGATATTGA-TTTGTTTCCAAAT
1 TATTCTGGGATTTATTCCCGCCGTTCAAC-GGATTTTATTCTATTTTGATTTTGTTTCCAAAT
31461162 GATGACTTCA
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
86 16 0.12
87 61 0.47
88 53 0.41
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (87 bp):
TATTCTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTGATTTTGTTTCCAAATCGA
GAAATTAAAATTAAATAAAATC
Found at i:31461242 original size:35 final size:35
Alignment explanation
Indices: 31461185--31461256 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
31461175 AATAATTCTG
31461185 TTTCAGGATTTATTCCACCCGTTTAACAAACTTTA
1 TTTCAGGATTTATTCCACCCGTTTAACAAACTTTA
* * *
31461220 TTTCGGGATTTATTCC-CGCCGTTTAACAGATTTTA
1 TTTCAGGATTTATTCCAC-CCGTTTAACAAACTTTA
31461255 TT
1 TT
31461257 CATTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTCAGGATTTATTCCACCCGTTTAACAAACTTTA
Found at i:31461396 original size:88 final size:86
Alignment explanation
Indices: 31461220--31461432 Score: 336
Period size: 88 Copynumber: 2.4 Consensus size: 86
31461210 ACAAACTTTA
* *
31461220 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCATTTTTTATTTTATTTCTAAACGAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCATTTTTTATTTTATTCCAAAACGAGAA
*
31461285 ATTAAAGTTAAATAAAATCTG
66 ATTAAAATTAAATAAAATCTG
* * *
31461306 TTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTACATTTTTTATTTTGTTGCCAAAACGAG
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATT-CATTTTTTATTTTATT-CCAAAACGAG
31461371 AAATTAAAATTAAATAAAATCTG
64 AAATTAAAATTAAATAAAATCTG
*
31461394 TTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTC
1 TTTCGGGATTTATTCCCGCCGTTTAAC-AGATTTTATTC
31461433 GATATTGATT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 35 0.30
87 15 0.13
88 56 0.49
89 9 0.08
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (86 bp):
TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCATTTTTTATTTTATTCCAAAACGAGAA
ATTAAAATTAAATAAAATCTG
Found at i:31461445 original size:292 final size:294
Alignment explanation
Indices: 31460792--31461514 Score: 1098
Period size: 293 Copynumber: 2.5 Consensus size: 294
31460782 TTTTGTTTTC
* * * *
31460792 AAATTAAATAAAATCTGTTTTGGGATCTATTCCCGCTATTTAACAAGATTTTATTCGATATTGGT
1 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGAT
* * * *
31460857 TTGTTTACAAATGAAGACTTAATCAAATAATTCTATTTCGGGATTTATTCC-CGCTGTTTAACAG
66 TTGTTTCCAAATGAAGACTTAATCAAATAATTCTGTTTCGGGATTTATTCCACGCCGTTTAACAA
* * * *
31460921 ACTTTATTTTGGGATTTATTCCCACCGTTCAACGGATTTTATTCCTTTTTTTTATTTTTTTTCCA
131 ACTTTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCTATTTTTTATTTTATTTCCA
*
31460986 AACGAGAAATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCGCCGTTCAACGGATTTTAT
196 AACGAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTTTAT
*
31461051 TACATTTTGATTTTGTTGCCAAATCGAGAAATTA
261 TACATTTTGATTTTGTTGCCAAAACGAGAAATTA
** * *
31461085 AAATTAAATAAAATCTG-TTCTGGGATTTATTCTTGCCGTTTAACTAGATTTTATTCGATATTGA
1 AAATTAAATAAAATCTGTTTC-GGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGA
* * *
31461149 TTTGTTTCCAAATGATGACTTCATCAAATAATTCTGTTTCAGGATTTATTCCAC-CCGTTTAACA
65 TTTGTTTCCAAATGAAGACTTAATCAAATAATTCTGTTTCGGGATTTATTCCACGCCGTTTAACA
* * *
31461213 AACTTTATTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATT-C-ATTTTTTATTTTATTTCT
130 AACTTTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCTATTTTTTATTTTATTTCC
* * *
31461276 AAACGAGAAATTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTA
195 AAACGAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTTTA
*
31461341 TTACATTTTTTATTTTGTTGCCAAAACGAGAAATTA
260 TTACA-TTTTGATTTTGTTGCCAAAACGAGAAATTA
31461377 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGAT
1 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGAT
** * *
31461442 TTGTTTCCAAACAAAGACTTAATCAAATAATTCTGTTTCGGGATTTATT-CACGTCGTTTAATAA
66 TTGTTTCCAAATGAAGACTTAATCAAATAATTCTGTTTCGGGATTTATTCCACGCCGTTTAACAA
31461506 ACTTTATTT
131 ACTTTATTT
31461515 TGATTTAATT
Statistics
Matches: 386, Mismatches: 39, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
291 84 0.22
292 150 0.39
293 151 0.39
294 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (294 bp):
AAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGAT
TTGTTTCCAAATGAAGACTTAATCAAATAATTCTGTTTCGGGATTTATTCCACGCCGTTTAACAA
ACTTTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCTATTTTTTATTTTATTTCCA
AACGAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTTTAT
TACATTTTGATTTTGTTGCCAAAACGAGAAATTA
Done.