Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 19 of 356
Found at i:6615009 original size:25 final size:25
Alignment explanation
Indices: 6614981--6615028 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
6614971 TTTTATTTAA
6614981 ATTATTGTTATAAGAGTACTAATGT
1 ATTATTGTTATAAGAGTACTAATGT
6615006 ATTATTGTTATAAGAGTACTAAT
1 ATTATTGTTATAAGAGTACTAAT
6615029 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (25 bp):
ATTATTGTTATAAGAGTACTAATGT
Found at i:6618117 original size:28 final size:28
Alignment explanation
Indices: 6618081--6618136 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6618071 ACTAATAATG
6618081 AAAACACAATCACATTCTTTAAATGAAA
1 AAAACACAATCACATTCTTTAAATGAAA
6618109 AAAACACAATCACATTCTTTAAATGAAA
1 AAAACACAATCACATTCTTTAAATGAAA
6618137 CTGATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAACACAATCACATTCTTTAAATGAAA
Found at i:6629089 original size:15 final size:15
Alignment explanation
Indices: 6629071--6629100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6629061 GATCATTAGG
6629071 ATGATGATCATGATC
1 ATGATGATCATGATC
*
6629086 ATGATGATGATGATC
1 ATGATGATCATGATC
6629101 TTTCATATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (15 bp):
ATGATGATCATGATC
Found at i:6636494 original size:19 final size:20
Alignment explanation
Indices: 6636446--6636501 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
6636436 TTAGTCTGCT
6636446 TTTATTATTT--AAATAATA
1 TTTATTATTTAAAAATAATA
*
6636464 TTTGTTACATTTAAAAATAA-A
1 TTTATT--ATTTAAAAATAATA
*
6636485 TTTATTATTTAATAATA
1 TTTATTATTTAAAAATA
6636502 TGAGCCATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 4 0.13
21 6 0.19
22 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTATTATTTAAAAATAATA
Found at i:6647008 original size:25 final size:25
Alignment explanation
Indices: 6646980--6647034 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6646970 TCTTTTCTTC
6646980 TTTTATA-AATTTTAATCATTTTGT-T
1 TTTTATATAA-TTTAAT-ATTTTGTAT
* *
6647005 TTTTCTATAATTTAATATTTTTTAT
1 TTTTATATAATTTAATATTTTGTAT
6647030 TTTTA
1 TTTTA
6647035 ATCATTGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATATAATTTAATATTTTGTAT
Found at i:6647097 original size:18 final size:19
Alignment explanation
Indices: 6647062--6647097 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6647052 TCTATTTTTT
*
6647062 TATAATTTTTTATTAAATC
1 TATAATTTTTTATAAAATC
6647081 TATAATTTTTTA-AAAAT
1 TATAATTTTTTATAAAAT
6647098 AAAAAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAATTTTTTATAAAATC
Found at i:6652159 original size:26 final size:27
Alignment explanation
Indices: 6652121--6652175 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
6652111 ATCTATTTTC
* *
6652121 TTTAGAAATATAAATTAATATA-TATT
1 TTTAGAAATATAAAATAAAATATTATT
6652147 TTTATGAAA-ATAAAATAAAATATTATT
1 TTTA-GAAATATAAAATAAAATATTATT
6652174 TT
1 TT
6652176 ATTAATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
TTTAGAAATATAAAATAAAATATTATT
Found at i:6655459 original size:10 final size:10
Alignment explanation
Indices: 6655444--6655468 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6655434 TTCCATATTA
6655444 AATTAATTCT
1 AATTAATTCT
6655454 AATTAATTCT
1 AATTAATTCT
6655464 AATTA
1 AATTA
6655469 TAATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTAATTCT
Found at i:6656006 original size:58 final size:58
Alignment explanation
Indices: 6655936--6656053 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
6655926 TTGTGTTGGG
6655936 TTTTTATAATTAATCAAGTCTTCCCATATTAACCATCGAAGCGCTTCCTCTTGCATCC
1 TTTTTATAATTAATCAAGTCTTCCCATATTAACCATCGAAGCGCTTCCTCTTGCATCC
6655994 TTTTTATAATTAATCAAGTCTTCCCATATTAACCATCGAAGCGCTTCCTCTTGCATCC
1 TTTTTATAATTAATCAAGTCTTCCCATATTAACCATCGAAGCGCTTCCTCTTGCATCC
6656052 TT
1 TT
6656054 CAACCACTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (58 bp):
TTTTTATAATTAATCAAGTCTTCCCATATTAACCATCGAAGCGCTTCCTCTTGCATCC
Found at i:6658713 original size:68 final size:70
Alignment explanation
Indices: 6658587--6658721 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 70
6658577 CCCAGAAAAC
*
6658587 TGAACCAATTAAAACATATATAGGCTTTTTTTTTCCTTTTTCTTGTTTGTTTTTTAGGTTCAATT
1 TGAACCAATTAAAACATATATAGGCTTTTTTTTTCCTTTTTCTTGTTTGATTTTTAGGTTCAATT
6658652 TGGAT
66 TGGAT
6658657 TGAACCAATTAAAACATATATAGGC-TTTTTTTTCC-TTTTCTTGTTTGATTTTTAGGTTCAATT
1 TGAACCAATTAAAACATATATAGGCTTTTTTTTTCCTTTTTCTTGTTTGATTTTTAGGTTCAATT
6658720 TG
66 TG
6658722 TGTAAGTAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 29 0.45
69 10 0.16
70 25 0.39
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.52
Consensus pattern (70 bp):
TGAACCAATTAAAACATATATAGGCTTTTTTTTTCCTTTTTCTTGTTTGATTTTTAGGTTCAATT
TGGAT
Found at i:6659162 original size:19 final size:17
Alignment explanation
Indices: 6659138--6659181 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
6659128 GTTTACCACA
6659138 TTAATAATTAATTATTTTT
1 TTAATAATTAA--ATTTTT
*
6659157 TTAATATTTAAATTTTT
1 TTAATAATTAAATTTTT
6659174 TT-ATAATT
1 TTAATAATT
6659182 TTATACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
19 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAATAATTAAATTTTT
Found at i:6659206 original size:8 final size:8
Alignment explanation
Indices: 6659171--6659213 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
6659161 TATTTAAATT
6659171 TTTTTATA
1 TTTTTATA
*
6659179 ATTTTATA
1 TTTTTATA
*
6659187 CTTTT-TA
1 TTTTTATA
6659194 TTTTTATA
1 TTTTTATA
6659202 TTTTTTATA
1 -TTTTTATA
6659211 TTT
1 TTT
6659214 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 6 0.20
8 16 0.53
9 8 0.27
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTATA
Found at i:6659221 original size:15 final size:15
Alignment explanation
Indices: 6659153--6659221 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
6659143 AATTAATTAT
6659153 TTTTTTAATATTTAAA
1 TTTTTT-ATATTTAAA
*
6659169 TTTTTTTATAATTTTATA
1 -TTTTTTAT-A-TTTAAA
* * *
6659187 CTTTTTATTTTTATA
1 TTTTTTATATTTAAA
6659202 TTTTTTATATTTAAAA
1 TTTTTTATATTT-AAA
6659218 TTTT
1 TTTT
6659222 AATTAATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 16 0.37
16 8 0.19
17 14 0.33
18 5 0.12
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTATATTTAAA
Found at i:6660483 original size:22 final size:21
Alignment explanation
Indices: 6660453--6660494 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6660443 AATTCCTTTT
6660453 ATATGTATTTTTGAATTTTTAC
1 ATATGTATTTTT-AATTTTTAC
* *
6660475 ATATTTATTTTTATTTTTTA
1 ATATGTATTTTTAATTTTTA
6660495 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (21 bp):
ATATGTATTTTTAATTTTTAC
Found at i:6660500 original size:20 final size:21
Alignment explanation
Indices: 6660449--6660500 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
6660439 TTATAATTCC
*
6660449 TTTTAT-ATGTATTTTTGAAT
1 TTTTATAATTTATTTTTGAAT
* *
6660469 TTTTACATATTTATTTTT-ATT
1 TTTTATA-ATTTATTTTTGAAT
6660490 TTTTATAATTT
1 TTTTATAATTT
6660501 TTAAGGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 9 0.35
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATAATTTATTTTTGAAT
Found at i:6660599 original size:22 final size:25
Alignment explanation
Indices: 6660550--6660606 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
6660540 TAAAAGAATC
6660550 TCACATGACATTTTTTTATTTATCA
1 TCACATGACATTTTTTTATTTATCA
6660575 TCACATGACATTTTTTTATTTATCA
1 TCACATGACATTTTTTTATTTATCA
*
6660600 TAACATG
1 TCACATG
6660607 TTATGTGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (25 bp):
TCACATGACATTTTTTTATTTATCA
Found at i:6668087 original size:27 final size:27
Alignment explanation
Indices: 6668032--6668104 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 27
6668022 GAATATCTAA
*
6668032 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CC--AATATAATAAATCCT
* *
6668062 -CCATAATACACCAATATAATATATCCT
1 CCCA-AACACACCAATATAATAAATCCT
6668089 CCCAAACACACCAATA
1 CCCAAACACACCAATA
6668105 AGGCATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 24 0.65
28 3 0.08
29 5 0.14
30 5 0.14
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.21
Consensus pattern (27 bp):
CCCAAACACACCAATATAATAAATCCT
Found at i:6669473 original size:46 final size:47
Alignment explanation
Indices: 6669411--6669638 Score: 286
Period size: 46 Copynumber: 5.0 Consensus size: 47
6669401 TTTGACATGA
* * * * * * *
6669411 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
* ** * * *
6669457 TGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTTAATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
*
6669503 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
*
6669549 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
6669595 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
6669639 AGAGCACACT
Statistics
Matches: 164, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 3 0.02
46 161 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
Found at i:6671800 original size:19 final size:21
Alignment explanation
Indices: 6671776--6671826 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
6671766 TTATACTAAA
6671776 TAATTAATAATAA-A-ATATC
1 TAATTAATAATAATATATATC
6671795 TAATTAA-AATAATATATATC
1 TAATTAATAATAATATATATC
6671815 TAATTAAATAAT
1 TAATT-AATAAT
6671827 CATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.18
19 8 0.29
20 10 0.36
21 2 0.07
22 3 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATTAATAATAATATATATC
Found at i:6671815 original size:20 final size:19
Alignment explanation
Indices: 6671776--6671826 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6671766 TTATACTAAA
6671776 TAATTAATAATAA-AATATC
1 TAATTAA-AATAATAATATC
6671795 TAATTAAAATAATATATATC
1 TAATTAAAATAATA-ATATC
6671815 TAATT-AAATAAT
1 TAATTAAAATAAT
6671827 CATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 15 0.50
20 10 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAAAATAATAATATC
Found at i:6672953 original size:23 final size:23
Alignment explanation
Indices: 6672927--6672983 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
6672917 TATCCATTAA
6672927 ATAATCATAATAATTATA-AAACC
1 ATAATCATAAT-ATTATATAAACC
*
6672950 ATAATCATAATTTTATATAAACC
1 ATAATCATAATATTATATAAACC
* *
6672973 ATGATAATAAT
1 ATAATCATAAT
6672984 TAAATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAATCATAATATTATATAAACC
Found at i:6674871 original size:34 final size:34
Alignment explanation
Indices: 6674828--6674907 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
6674818 GTGATGTTCA
*
6674828 TATTCAAGAATATAGAACAAAACAATGAATTCTT
1 TATTCAAGAATATAGAACAAAACAATGAATTCTC
6674862 TATTCAAGAATATAGAACAAAACAATGAATTCTC
1 TATTCAAGAATATAGAACAAAACAATGAATTCTC
*
6674896 T-TTCATGAATAT
1 TATTCAAGAATAT
6674908 TTTCTTTGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 10 0.23
34 34 0.77
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (34 bp):
TATTCAAGAATATAGAACAAAACAATGAATTCTC
Found at i:6676683 original size:46 final size:47
Alignment explanation
Indices: 6676630--6676805 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
6676620 TGGTTGAGCA
6676630 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
** * * *
6676676 TTTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G
*
6676721 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* *
6676769 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6676806 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
Found at i:6676786 original size:93 final size:93
Alignment explanation
Indices: 6676627--6676797 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
6676617 GGATGGTTGA
***
6676627 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
6676692 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
6676720 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
6676784 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
6676798 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6680400 original size:37 final size:37
Alignment explanation
Indices: 6680356--6680461 Score: 169
Period size: 37 Copynumber: 2.8 Consensus size: 37
6680346 CACTTGTCCC
6680356 TGATCAGATAAGTGTAGCCAACTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCAACTATCACTTTGTTTCT
6680393 TGATCAGATAAGTGTAGCC-ACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCAAC-TATCACTTTGTTTCT
*
6680430 TGATCAGATAAGTGTAGCTAAAGCTATCACTT
1 TGATCAGATAAGTGTAGC-CAA-CTATCACTT
6680462 ATCACTTTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
36 2 0.03
37 52 0.81
39 9 0.14
40 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCAACTATCACTTTGTTTCT
Found at i:6680490 original size:52 final size:52
Alignment explanation
Indices: 6680428--6680725 Score: 404
Period size: 52 Copynumber: 5.9 Consensus size: 52
6680418 CACTTTGTTT
**
6680428 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
*
6680480 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
*
6680532 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
*
6680578 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TTT-A----TCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
* * *
6680624 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
** *
6680676 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTG
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-TCACTTG
6680726 ATCAGAAGTA
Statistics
Matches: 221, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.38
47 2 0.01
48 2 0.01
52 127 0.57
53 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCA
Found at i:6680584 original size:46 final size:46
Alignment explanation
Indices: 6680513--6680731 Score: 280
Period size: 46 Copynumber: 4.7 Consensus size: 46
6680503 AGCTATCACT
*
6680513 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
6680558 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
6680604 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
6680650 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
6680702 TACCACTTATCACTTTATCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
6680732 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
45 11 0.07
46 103 0.66
48 1 0.01
50 1 0.01
52 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:6680720 original size:98 final size:97
Alignment explanation
Indices: 6680410--6680731 Score: 429
Period size: 98 Copynumber: 3.3 Consensus size: 97
6680400 ATAAGTGTAG
* ** *
6680410 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TTTCACT
6680475 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
6680508 TCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTT
*
6680571 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* * * *
6680606 TCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT-CACT
**
6680671 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
6680704 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
6680732 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.20
94 1 0.01
96 1 0.01
98 118 0.59
101 1 0.01
104 39 0.20
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:6689191 original size:13 final size:13
Alignment explanation
Indices: 6689173--6689229 Score: 66
Period size: 13 Copynumber: 4.6 Consensus size: 13
6689163 AATATATTTA
*
6689173 AACCCAACTACCC
1 AACCCAATTACCC
6689186 AACCC-A--ACCC
1 AACCCAATTACCC
6689196 AACCCAATTACCC
1 AACCCAATTACCC
* *
6689209 AACCTAATTTCCC
1 AACCCAATTACCC
6689222 AACCCAAT
1 AACCCAAT
6689230 AATTTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 1 0.03
13 27 0.71
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.14
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:6690217 original size:71 final size:71
Alignment explanation
Indices: 6690134--6690347 Score: 401
Period size: 71 Copynumber: 3.0 Consensus size: 71
6690124 ATTTACAATC
*
6690134 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTGTAATTTTTACTTATTTTTAT
1 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTGTAATTTTTGCTTATTTTTAT
6690199 TTGTTG
66 TTGTTG
*
6690205 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTGTTGTTGTAATTTTTGCTTATTTTTAT
1 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTGTAATTTTTGCTTATTTTTAT
6690270 TTGTTG
66 TTGTTG
*
6690276 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTTTAATTTTTGCTTATTTTTAT
1 TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTGTAATTTTTGCTTATTTTTAT
6690341 TTGTTG
66 TTGTTG
6690347 T
1 T
6690348 CGAAGGGTAA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 139 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (71 bp):
TTCTAATTAAATTTATTTAGTTTAAGATTCATTGATTTATTGTTGTAATTTTTGCTTATTTTTAT
TTGTTG
Found at i:6690255 original size:37 final size:37
Alignment explanation
Indices: 6690143--6690255 Score: 89
Period size: 42 Copynumber: 3.1 Consensus size: 37
6690133 CTTCTAATTA
*
6690143 AATTTATTTAGTTTAAGATTCATTGATTTATTGTTGT
1 AATTTATTTAGTTTAAGATTCATTGATTTGTTGTTGT
* * *
6690180 AA-TT-TTTA-CTT---ATT--TTTATTTGTTGTTCTAATT
1 AATTTATTTAGTTTAAGATTCATTGATTTGTTG-T-T--GT
6690213 AAATTTATTTAGTTTAAGATTCATTGATTTGTTGTTGT
1 -AATTTATTTAGTTTAAGATTCATTGATTTGTTGTTGT
6690251 AATTT
1 AATTT
6690256 TTGCTTATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 26
0.63 0.08 0.29
Matches are distributed among these distances:
29 9 0.16
30 1 0.02
31 4 0.07
33 1 0.02
34 4 0.07
35 6 0.11
36 6 0.11
37 9 0.16
38 1 0.02
40 4 0.07
41 1 0.02
42 10 0.18
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.59
Consensus pattern (37 bp):
AATTTATTTAGTTTAAGATTCATTGATTTGTTGTTGT
Found at i:6692968 original size:20 final size:20
Alignment explanation
Indices: 6692943--6693006 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
6692933 ATGTTTTTAA
6692943 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ****
6692963 TTATGTAAT-ATT-TTTTA-
1 TTATGTAGTGATTCAAAGAC
6692980 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
6693000 TTATGTA
1 TTATGTA
6693007 ATGTTTTTAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 8 0.26
18 4 0.13
19 4 0.13
20 15 0.48
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:6693029 original size:37 final size:37
Alignment explanation
Indices: 6692921--6693021 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
6692911 TGTTAATTTC
6692921 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
6692958 AAGACTTATGTAATATTTTTTATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
6692995 AAGACTTATGTAATGTTTTTAATTATG
1 AAGACTTATGTAATGTTTTTAATTATG
6693022 CAATGATTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:6693043 original size:9 final size:9
Alignment explanation
Indices: 6693029--6693079 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
6693019 ATGCAATGAT
6693029 TTAATTCGG
1 TTAATTCGG
*
6693038 TTAATTTGG
1 TTAATTCGG
**
6693047 TTAATTAAG
1 TTAATTCGG
6693056 TTAATTCGG
1 TTAATTCGG
6693065 TTAATTCGG
1 TTAATTCGG
6693074 TTAATT
1 TTAATT
6693080 TTTTACCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (9 bp):
TTAATTCGG
Found at i:6699476 original size:15 final size:15
Alignment explanation
Indices: 6699456--6699507 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
6699446 ACTACAAAAC
6699456 ATTTATTATTAATAT
1 ATTTATTATTAATAT
* *
6699471 ATTTATAATTGTAGTAAAT
1 ATTTATTA-T-TA--ATAT
6699490 ATTTATTATTAATAT
1 ATTTATTATTAATAT
6699505 ATT
1 ATT
6699508 AATATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 13 0.45
16 1 0.03
17 4 0.14
18 1 0.03
19 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:6699993 original size:10 final size:10
Alignment explanation
Indices: 6699980--6700005 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6699970 AGTCTTTACT
6699980 TGAAATCGCA
1 TGAAATCGCA
6699990 TGAAATCGCA
1 TGAAATCGCA
6700000 TGAAAT
1 TGAAAT
6700006 ATTTACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (10 bp):
TGAAATCGCA
Found at i:6700246 original size:21 final size:21
Alignment explanation
Indices: 6700220--6700269 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
6700210 CACTAGTGAG
6700220 TGATAACAAACACTAACCACT
1 TGATAACAAACACTAACCACT
*
6700241 TGATAACAAATACTAACCACT
1 TGATAACAAACACTAACCACT
6700262 TGACTAAC
1 TGA-TAAC
6700270 CATATACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.22
Consensus pattern (21 bp):
TGATAACAAACACTAACCACT
Found at i:6700335 original size:3 final size:3
Alignment explanation
Indices: 6700327--6700373 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
6700317 CGGAGATTAC
*
6700327 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6700374 TTCCACACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6700755 original size:3 final size:3
Alignment explanation
Indices: 6700747--6700779 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6700737 CAGAGATTAC
6700747 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6700780 GTAACAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6712494 original size:3 final size:3
Alignment explanation
Indices: 6712479--6712594 Score: 89
Period size: 3 Copynumber: 39.7 Consensus size: 3
6712469 CATGTGTTTC
* * * *
6712479 ATT ATT ATA ATT ATT ATT ATA ATT ATT ACT ATT ATT ATT ATT -TT CATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* *
6712527 ACT ATT ATT ATT -TCT ATT -TT -TT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
6712570 -GT ATT ACT ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6712595 ATTGTCTTCT
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
2 8 0.09
3 81 0.89
4 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:6715813 original size:31 final size:31
Alignment explanation
Indices: 6715758--6715817 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6715748 AAATGATCAC
6715758 TGAACTATTTAAAAGTTTTCATTTAAGTCGT
1 TGAACTATTTAAAAGTTTTCATTTAAGTCGT
* *
6715789 TGAATTATTCTAAAA-TTTTTATTTAAGTC
1 TGAACTATT-TAAAAGTTTTCATTTAAGTC
6715818 ATTGGGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (31 bp):
TGAACTATTTAAAAGTTTTCATTTAAGTCGT
Found at i:6716914 original size:5 final size:5
Alignment explanation
Indices: 6716888--6716945 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
6716878 ATGTGTTAAA
* *
6716888 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
6716937 ATATT ATAT
1 ATATT ATAT
6716946 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:6716924 original size:10 final size:9
Alignment explanation
Indices: 6716889--6716946 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
6716879 TGTGTTAAAA
6716889 TATATATAT
1 TATATATAT
*
6716898 TAAAT-TAT
1 TATATATAT
6716906 TAT-TATAT
1 TATATATAT
6716914 TATAGTATAT
1 TATA-TATAT
6716924 TATAT-TA-
1 TATATATAT
6716931 TATATTATAT
1 TATA-TATAT
6716941 TATATA
1 TATATA
6716947 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:6716936 original size:12 final size:12
Alignment explanation
Indices: 6716891--6716946 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
6716881 TGTTAAAATA
*
6716891 TATATATTAAAT
1 TATATATTATAT
6716903 TAT-TATTATATT
1 TATATATTATA-T
6716915 ATAGTATATTATAT
1 -TA-TATATTATAT
6716929 TATATATTATAT
1 TATATATTATAT
6716941 TATATA
1 TATATA
6716947 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:6718286 original size:18 final size:19
Alignment explanation
Indices: 6718263--6718301 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
6718253 ATATATAAAT
6718263 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
6718281 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
6718300 AT
1 AT
6718302 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:6718651 original size:39 final size:39
Alignment explanation
Indices: 6718541--6718675 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
6718531 GACCTCGAGT
* * * *
6718541 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
6718582 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
6718620 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
6718659 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
6718676 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:6720505 original size:52 final size:51
Alignment explanation
Indices: 6720445--6720543 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 51
6720435 AATACTAGTA
* *
6720445 TTTTAAAAAAAATTTGGTGTTAACCTGTCAATGACCGGCACCAGAGTATGAG
1 TTTTAAAAAAAAATTGGTGCTAACCTGTCAATGACCGGCACCA-AGTATGAG
* *
6720497 TTTTAAAAAAAAATTGGTGCTGACCTGTCAATGGCCGGCACCAAGTA
1 TTTTAAAAAAAAATTGGTGCTAACCTGTCAATGACCGGCACCAAGTA
6720544 CAAAAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 4 0.09
52 39 0.91
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (51 bp):
TTTTAAAAAAAAATTGGTGCTAACCTGTCAATGACCGGCACCAAGTATGAG
Found at i:6720644 original size:24 final size:22
Alignment explanation
Indices: 6720599--6720733 Score: 80
Period size: 23 Copynumber: 5.8 Consensus size: 22
6720589 TTTAATTTAA
6720599 TTTCAATTATTTCAT-TTCATTTT
1 TTTC-ATTATTTCATATT-ATTTT
6720622 TTTCGATTCATTTCATATTATTTT
1 TTTC-ATT-ATTTCATATTATTTT
*
6720646 TTTCATT-TTTTATATTATTTT
1 TTTCATTATTTCATATTATTTT
* *
6720667 TCATATTATTTTTTTCA-ATTCATTTT
1 T--T-TCA-TTATTTCATATT-ATTTT
*
6720693 ATATT-ATTTTTTCATATTATTTT
1 -T-TTCATTATTTCATATTATTTT
* *
6720716 TTTAACTCATTTCATATT
1 TTTCA-TTATTTCATATT
6720734 TTATCAAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
21 16 0.17
22 2 0.02
23 34 0.36
24 22 0.23
25 8 0.09
26 11 0.12
27 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.01, T:0.66
Consensus pattern (22 bp):
TTTCATTATTTCATATTATTTT
Found at i:6720660 original size:21 final size:23
Alignment explanation
Indices: 6720599--6720667 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
6720589 TTTAATTTAA
*
6720599 TTTCAATTATTTCAT-TTCATTTT
1 TTTCGATTATTTCATATT-ATTTT
6720622 TTTCGATTCATTTCATATTATTTT
1 TTTCGATT-ATTTCATATTATTTT
*
6720646 TTTC-ATT-TTTTATATTATTTT
1 TTTCGATTATTTCATATTATTTT
6720667 T
1 T
6720668 CATATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.33
23 10 0.24
24 16 0.38
25 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.68
Consensus pattern (23 bp):
TTTCGATTATTTCATATTATTTT
Found at i:6720669 original size:33 final size:36
Alignment explanation
Indices: 6720632--6720718 Score: 144
Period size: 37 Copynumber: 2.5 Consensus size: 36
6720622 TTTCGATTCA
6720632 TTTCATATTATTTTTTTC-ATT-TTTTATATTA-TT
1 TTTCATATTATTTTTTTCAATTATTTTATATTATTT
6720665 TTTCATATTATTTTTTTCAATTCATTTTATATTATTT
1 TTTCATATTATTTTTTTCAATT-ATTTTATATTATTT
6720702 TTTCATATTATTTTTTT
1 TTTCATATTATTTTTTT
6720719 AACTCATTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
33 18 0.36
34 3 0.06
36 10 0.20
37 19 0.38
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (36 bp):
TTTCATATTATTTTTTTCAATTATTTTATATTATTT
Found at i:6720700 original size:36 final size:37
Alignment explanation
Indices: 6720632--6720733 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 37
6720622 TTTCGATTCA
6720632 TTTCATATTATTTTTTTC-ATT--TTTTATATTA-TT
1 TTTCATATTATTTTTTTCAATTCATTTTATATTATTT
6720665 TTTCATATTATTTTTTTCAATTCATTTTATATTATTT
1 TTTCATATTATTTTTTTCAATTCATTTTATATTATTT
* *
6720702 TTTCATATTATTTTTTT-AACTCATTTCATATT
1 TTTCATATTATTTTTTTCAATTCATTTTATATT
6720734 TTATCAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
33 18 0.29
34 3 0.05
36 23 0.37
37 19 0.30
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTCATATTATTTTTTTCAATTCATTTTATATTATTT
Found at i:6720944 original size:11 final size:11
Alignment explanation
Indices: 6720926--6721035 Score: 75
Period size: 11 Copynumber: 10.2 Consensus size: 11
6720916 TTTTTTTTTC
*
6720926 TTCA-TTTCTT
1 TTCATTTTCAT
6720936 TTCATTTTCAT
1 TTCATTTTCAT
* *
6720947 TTCATCTTAAT
1 TTCATTTTCAT
*
6720958 TTTA-TTTCAT
1 TTCATTTTCAT
* *
6720968 TCCAATTTCAT
1 TTCATTTTCAT
* * *
6720979 TTCATTCTAAA
1 TTCATTTTCAT
*
6720990 TTCATTTCCAT
1 TTCATTTTCAT
*
6721001 TTCCATTTCCAT
1 TT-CATTTTCAT
6721013 TTCCA-TTTCAT
1 TT-CATTTTCAT
6721024 TTCA-TTTCAT
1 TTCATTTTCAT
6721034 TT
1 TT
6721036 ATATTATTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
10 20 0.25
11 45 0.57
12 14 0.18
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.57
Consensus pattern (11 bp):
TTCATTTTCAT
Found at i:6720950 original size:5 final size:5
Alignment explanation
Indices: 6720926--6721035 Score: 94
Period size: 5 Copynumber: 20.4 Consensus size: 5
6720916 TTTTTTTTTC
* * * *
6720926 TTCAT TTCTT TTCATT TTCAT TTCAT CTTAAT TTTAT TTCAT TCCAAT
1 TTCAT TTCAT TTCA-T TTCAT TTCAT -TTCAT TTCAT TTCAT TTC-AT
* *
6720974 TTCAT TTCAT TCTAAA TTCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCAT
1 TTCAT TTCAT T-TCAT TTCAT TT-CAT TT-CAT TT-CAT TT-CAT TTCAT
6721024 TTCAT TTCAT TT
1 TTCAT TTCAT TT
6721036 ATATTATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
5 50 0.56
6 39 0.44
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.57
Consensus pattern (5 bp):
TTCAT
Found at i:6720982 original size:16 final size:16
Alignment explanation
Indices: 6720926--6721034 Score: 80
Period size: 16 Copynumber: 6.7 Consensus size: 16
6720916 TTTTTTTTTC
* * *
6720926 TTCATTTCTTTTCATT
1 TTCATTTCATTCCAAT
*
6720942 TTCATTTCA-TCTTAAT
1 TTCATTTCATTC-CAAT
*
6720958 TTTATTTCATTCCAAT
1 TTCATTTCATTCCAAT
* *
6720974 TTCATTTCATTCTAAA
1 TTCATTTCATTCCAAT
6720990 TTCATTTCCATTTCC-AT
1 TTCATTT-CA-TTCCAAT
*
6721007 TTCCATTTCCATTTC-AT
1 TT-CATTT-CATTCCAAT
6721024 TTCATTTCATT
1 TTCATTTCATT
6721035 TATATTATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
15 5 0.07
16 46 0.61
17 14 0.18
18 11 0.14
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCATTTCATTCCAAT
Found at i:6721057 original size:22 final size:21
Alignment explanation
Indices: 6721032--6721088 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
6721022 ATTTCATTTC
6721032 ATTTATATTATTTTTAATTTAA
1 ATTTATATT-TTTTTAATTTAA
*
6721054 ATTTATATTTTTATCAATTTAA
1 ATTTATATTTTT-TTAATTTAA
6721076 ATTTA-ATTTTTTT
1 ATTTATATTTTTTT
6721089 CTCATTTCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 9 0.28
22 22 0.69
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATATTTTTTTAATTTAA
Found at i:6721127 original size:43 final size:44
Alignment explanation
Indices: 6721080--6721197 Score: 103
Period size: 48 Copynumber: 2.6 Consensus size: 44
6721070 ATTTAAATTT
* * *
6721080 AATTTTTTTCTCATTTCGTTTAAATTTTCTATTTTTCAATGCAA
1 AATTTTTTTCTCATTTCATTTAAATTATCTATCTTTCAATGCAA
* * * **
6721124 ATTTATTTATTTTGTCATTTCTTTTAAATTATCTATCTTTCCAT-TTA
1 A---ATTT-TTTTCTCATTTCATTTAAATTATCTATCTTTCAATGCAA
* *
6721171 ATTTTTTTTCTCATTTTATTTAAATTA
1 AATTTTTTTCTCATTTCATTTAAATTA
6721198 AAAGTTTCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
43 19 0.32
44 4 0.07
47 6 0.10
48 30 0.51
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.61
Consensus pattern (44 bp):
AATTTTTTTCTCATTTCATTTAAATTATCTATCTTTCAATGCAA
Found at i:6721198 original size:27 final size:27
Alignment explanation
Indices: 6721168--6721403 Score: 147
Period size: 27 Copynumber: 9.1 Consensus size: 27
6721158 ATCTTTCCAT
*
6721168 TTAATTTTTTTTCTCATTTTATTTAAA
1 TTAATTTTTTTTCTCATTTCATTTAAA
*** *
6721195 TTAAAAGTTTCTCTCATTTCATTTAAA
1 TTAATTTTTTTTCTCATTTCATTTAAA
* * * * *
6721222 TTTATCTTTCTT-TCA---AATTTAAT
1 TTAATTTTTTTTCTCATTTCATTTAAA
6721245 TTAA-TTTTTTTCTCATTTCATTTCAAA
1 TTAATTTTTTTTCTCATTTCATTT-AAA
** *
6721272 GAAATTTTTTTCCTCATTTCATTTAAA
1 TTAATTTTTTTTCTCATTTCATTTAAA
* * * * *
6721299 TTTATCTTTCTT-TCA---AATTTAAT
1 TTAATTTTTTTTCTCATTTCATTTAAA
*
6721322 TTAA--TTTTTTCTCATTTCATTTCAA
1 TTAATTTTTTTTCTCATTTCATTTAAA
*
6721347 TGAATTTTTTTTCCTCATTTCATTTAAA
1 TTAATTTTTTTT-CTCATTTCATTTAAA
* *
6721375 TT-ATCTTTCTTT-TAATTTTCATTTAAA
1 TTAAT-TTTTTTTCTCA-TTTCATTTAAA
6721402 TT
1 TT
6721404 TTGTACCATT
Statistics
Matches: 155, Mismatches: 39, Indels: 30
0.69 0.17 0.13
Matches are distributed among these distances:
21 5 0.03
22 8 0.05
23 21 0.14
25 8 0.05
26 12 0.08
27 62 0.40
28 39 0.25
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.59
Consensus pattern (27 bp):
TTAATTTTTTTTCTCATTTCATTTAAA
Found at i:6721263 original size:28 final size:27
Alignment explanation
Indices: 6721232--6721373 Score: 83
Period size: 28 Copynumber: 5.4 Consensus size: 27
6721222 TTTATCTTTC
6721232 TTTCAAATTTAATTTAATTTTTTTCTCA
1 TTTC-AATTTAATTTAATTTTTTTCTCA
***
6721260 TTTC-ATTTCAAAGAAATTTTTTTCCTCA
1 TTTCAATTT-AATTTAATTTTTTT-CTCA
*
6721288 TTTC-ATTT-A---AATTTATCTT-TC-
1 TTTCAATTTAATTTAATTT-TTTTCTCA
6721309 TTTCAAATTTAATTTAA-TTTTTTCTCA
1 TTTC-AATTTAATTTAATTTTTTTCTCA
*
6721336 TTTC-ATTTCAA-TGAATTTTTTTTCCTCA
1 TTTCAATTT-AATTTAA-TTTTTTT-CTCA
6721364 TTTC-ATTTAA
1 TTTCAATTTAA
6721374 ATTATCTTTC
Statistics
Matches: 93, Mismatches: 6, Indels: 31
0.72 0.05 0.24
Matches are distributed among these distances:
21 4 0.04
22 2 0.02
23 9 0.10
24 4 0.04
25 10 0.11
26 11 0.12
27 25 0.27
28 28 0.30
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (27 bp):
TTTCAATTTAATTTAATTTTTTTCTCA
Found at i:6721376 original size:76 final size:75
Alignment explanation
Indices: 6721128--6721452 Score: 376
Period size: 76 Copynumber: 4.3 Consensus size: 75
6721118 ATGCAAATTT
* * * * *
6721128 ATTTATTTTGTCATTTCTTTTAAA-TTATCTATCTTTC-CATTTAA-TT--TTTTTTCTCATTTT
1 ATTT-TTTTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTCTCATTTC
* *
6721188 ATTTAAATTAA
65 ATTTCAATGAA
** *
6721199 AAGTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTTCTCATTTC
1 ATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAA-TTTTTTCTCATTTC
*
6721264 ATTTCAAAGAA
65 ATTTCAATGAA
6721275 ATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTCTCATTTC
1 ATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTCTCATTTC
6721340 ATTTCAATGAA
65 ATTTCAATGAA
* * * * *
6721351 TTTTTTTTCCTCATTTCATTTAAA-TTATCTTTCTTTTAATTTTCATTTAAATTTTGTAC-CATT
1 ATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTT-TTCTCATT
**
6721414 TCATTTCAAACAA
63 TCATTTCAATGAA
6721427 ATTTTTTTTCTCATTTCATTTAAATT
1 A-TTTTTTTCTCATTTCATTTAAATT
6721453 ATCAACCTTT
Statistics
Matches: 220, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
70 16 0.07
71 14 0.06
72 6 0.03
73 2 0.01
75 21 0.10
76 109 0.50
77 52 0.24
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.58
Consensus pattern (75 bp):
ATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTCTCATTTCA
TTTCAATGAA
Found at i:6721480 original size:152 final size:153
Alignment explanation
Indices: 6721202--6721487 Score: 393
Period size: 152 Copynumber: 1.9 Consensus size: 153
6721192 AAATTAAAAG
* *
6721202 TTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTTCTCATTTCATT
1 TTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATT
* *** *
6721267 TCAAAGAAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTT
66 TCAAACAAATTTTTTTCCTCATTTCATTTAAATTTATCAACCTTTCAAATGTAATTTAA-TTTTT
6721332 CTCATTTCATTTCAATGAATTTTT
130 CTCATTTCATTTCAATGAATTTTT
* * *
6721356 TTTC-CTCATTTCATTTAAA-TTATCTTTCTTTTAATTTTCATTTAAATTTTGTAC-CATTTCAT
1 TTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTTGTACTCATTTCAT
* *
6721418 TTCAAACAAATTTTTTTTCTCATTTCATTTAAA-TTATCAACCTTTC-CATGTAATTTTCAATTT
65 TTCAAACAAATTTTTTTCCTCATTTCATTTAAATTTATCAACCTTTCAAATGTAA-TTT-AATTT
6721481 TTCTCAT
128 TTCTCAT
6721488 ACAATTTATC
Statistics
Matches: 117, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
150 5 0.04
151 23 0.20
152 62 0.53
153 23 0.20
154 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.01, T:0.57
Consensus pattern (153 bp):
TTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATT
TCAAACAAATTTTTTTCCTCATTTCATTTAAATTTATCAACCTTTCAAATGTAATTTAATTTTTC
TCATTTCATTTCAATGAATTTTT
Found at i:6721741 original size:19 final size:18
Alignment explanation
Indices: 6721707--6721761 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
6721697 AAATGAATTG
6721707 AAAAAAAATAATATGAGA
1 AAAAAAAATAATATGAGA
*
6721725 AAAATAAAATGAA-ATGAGTTG
1 AAAA-AAAAT-AATATGAG--A
6721746 AAAAAAAATAATATGA
1 AAAAAAAATAATATGA
6721762 AATGAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.13
19 12 0.39
20 11 0.35
21 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (18 bp):
AAAAAAAATAATATGAGA
Found at i:6721781 original size:14 final size:15
Alignment explanation
Indices: 6721751--6721783 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6721741 AGTTGAAAAA
6721751 AAATAATATGAAATG
1 AAATAATATGAAATG
*
6721766 AAATAAT-TGAACTG
1 AAATAATATGAAATG
6721780 AAAT
1 AAAT
6721784 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (15 bp):
AAATAATATGAAATG
Found at i:6722121 original size:41 final size:41
Alignment explanation
Indices: 6722075--6722154 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
6722065 ACATATAAAA
* * *
6722075 TAAAATAGGCCTATTGAAGATATTAAATTACCAATAAATGT
1 TAAAATAGGCCTATTCAAAAGATTAAATTACCAATAAATGT
* *
6722116 TAAAATAGGCCTATTCAAAAGATTTAATTATCAATAAAT
1 TAAAATAGGCCTATTCAAAAGATTAAATTACCAATAAAT
6722155 ATCGAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (41 bp):
TAAAATAGGCCTATTCAAAAGATTAAATTACCAATAAATGT
Found at i:6723458 original size:18 final size:20
Alignment explanation
Indices: 6723429--6723468 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6723419 AAATTTTGAG
6723429 AAATTATTATTTAT-TTTTA
1 AAATTATTATTTATCTTTTA
*
6723448 AAATT-TTATTTCTCTTTTA
1 AAATTATTATTTATCTTTTA
6723467 AA
1 AA
6723469 GTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTATTATTTATCTTTTA
Found at i:6723931 original size:48 final size:48
Alignment explanation
Indices: 6723874--6723969 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
6723864 AATTTAATCT
*
6723874 TAATTCTAAAAAAAACTAACCCTTAAAATTTACATATTGTGTAATTTG
1 TAATTCTAAAAAAAACTAACCCTTAAAATTTACACATTGTGTAATTTG
*
6723922 TAATTCTAAAAAAGACTAACCCTTAAAATTTACACATTGTGTAATTTG
1 TAATTCTAAAAAAAACTAACCCTTAAAATTTACACATTGTGTAATTTG
6723970 AACTCTCCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (48 bp):
TAATTCTAAAAAAAACTAACCCTTAAAATTTACACATTGTGTAATTTG
Found at i:6724862 original size:20 final size:21
Alignment explanation
Indices: 6724820--6724862 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6724810 ATAATTGTAT
6724820 TTTTGAGTTTTTTTTCATTAAC
1 TTTTGAGTTTTTTTTCA-TAAC
*
6724842 TTTTGATTTTTTTTTCA-AAC
1 TTTTGAGTTTTTTTTCATAAC
6724862 T
1 T
6724863 ACATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
22 16 0.80
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTGAGTTTTTTTTCATAAC
Found at i:6728418 original size:27 final size:30
Alignment explanation
Indices: 6728362--6728421 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 30
6728352 ACATAAATAC
*
6728362 ATACACATATATATATATAAACAATAGTAT
1 ATACACATATATATATATAAAAAATAGTAT
6728392 ATACA-ATATA-ATAT-TAGAAAAAT-GTAT
1 ATACACATATATATATATA-AAAAATAGTAT
6728419 ATA
1 ATA
6728422 ATAGTGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 9 0.32
28 9 0.32
29 5 0.18
30 5 0.18
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (30 bp):
ATACACATATATATATATAAAAAATAGTAT
Found at i:6728732 original size:3 final size:3
Alignment explanation
Indices: 6728724--6728770 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
6728714 AAGCATAAAC
*
6728724 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6728771 GTAAAATCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6729685 original size:27 final size:26
Alignment explanation
Indices: 6729651--6729718 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
6729641 CCAAAAAAAA
*
6729651 TTTCCTTTTTTTATTCCATTACCAAC
1 TTTCCCTTTTTTATTCCATTACCAAC
6729677 TTTCCCTTTTTTATTCCATTACCAAC
1 TTTCCCTTTTTTATTCCATTACCAAC
6729703 TTTCCCCTTTTTTATT
1 TTT-CCCTTTTTTATT
6729719 TTTTATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 28 0.70
27 12 0.30
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTCCCTTTTTTATTCCATTACCAAC
Found at i:6730404 original size:35 final size:35
Alignment explanation
Indices: 6730353--6730448 Score: 140
Period size: 34 Copynumber: 2.8 Consensus size: 35
6730343 GGAGAGGTGA
* * *
6730353 GGTGGTAGACAGCATGGGAGAGTGGGAGTGGCGCT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCACT
* *
6730388 GGTGGCAGACAACATGGGAGAAT-GGAGTGGTACT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCACT
6730422 GGTGGCAGACAGCATGGGAGAATGGGA
1 GGTGGCAGACAGCATGGGAGAATGGGA
6730449 AGAGGCAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 31 0.57
35 23 0.43
ACGTcount: A:0.26, C:0.11, G:0.47, T:0.16
Consensus pattern (35 bp):
GGTGGCAGACAGCATGGGAGAATGGGAGTGGCACT
Found at i:6731175 original size:44 final size:43
Alignment explanation
Indices: 6731103--6731424 Score: 182
Period size: 44 Copynumber: 7.8 Consensus size: 43
6731093 ATCTGATGTG
* * * * *
6731103 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTT-CTTCA
* * ** * *
6731147 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTCTTCA
* **
6731190 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATC-CTTTCTTCA
* **
6731234 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-----TCTGAA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTCTTCA
* *
6731272 ATCTGGTTCTCACTGTAA-TTCAGAGAGATAAGA-CCTATT-TT-A
1 ATCT-GCTC-CACTGTAACTTCAGGGAGATAAGATCCT-TTCTTCA
* *
6731314 A--T-CTCCACTGTAACTTCAGAGAGAT-AGATAC--T-TT-A
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTCTTCA
* * * * *
6731349 ATCTACTCCGCTGTAA-TCTCA-GGAGATAGGATACTATCTTCA
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCCTTTCTTCA
*
6731391 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATC
6731425 TGAAATTCTT
Statistics
Matches: 221, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
35 5 0.02
37 18 0.08
38 39 0.18
39 16 0.07
40 10 0.05
41 2 0.01
42 24 0.11
43 41 0.19
44 66 0.30
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTCTTCA
Found at i:6731363 original size:38 final size:37
Alignment explanation
Indices: 6731284--6731419 Score: 111
Period size: 38 Copynumber: 3.5 Consensus size: 37
6731274 CTGGTTCTCA
* *
6731284 CTGTAAT-TCAGAGAGATAAGACCTATTTTAA--TCTCCA
1 CTGTAATCTCAGAGAGAT-AGA--TACTTTAATCTCTCCG
6731321 CTGTAA-CTTCAGAGAGATAGATACTTTAATCTACTCCG
1 CTGTAATC-TCAGAGAGATAGATACTTTAATCT-CTCCG
6731359 CTGTAATCTCAG-GAGATAGGATACTATCTTCAATCTGCTCCG
1 CTGTAATCTCAGAGAGATA-GATAC--T-TT-AATCT-CTCCG
*
6731401 CTGTAATCTCAGGGAGATA
1 CTGTAATCTCAGAGAGATA
6731420 AGATCTGAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
35 7 0.08
37 16 0.19
38 29 0.35
39 1 0.01
40 1 0.01
41 2 0.02
42 22 0.26
43 6 0.07
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (37 bp):
CTGTAATCTCAGAGAGATAGATACTTTAATCTCTCCG
Found at i:6745158 original size:22 final size:22
Alignment explanation
Indices: 6745132--6745180 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6745122 ATATCCAAAC
6745132 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * *
6745154 CATAATAATAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
6745176 AATAA
1 AATAA
6745181 AGAGAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:6745188 original size:22 final size:22
Alignment explanation
Indices: 6745132--6745190 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
6745122 ATATCCAAAC
* *
6745132 AATAACAATAAAATAGTAGCAA
1 AATAATAAGAAAATAGTAGCAA
* * *
6745154 CATAATAATAAAATGGTAGCAA
1 AATAATAAGAAAATAGTAGCAA
6745176 AATAA-AGAGAAAATA
1 AATAATA-AGAAAATA
6745191 AGAAAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.19
Consensus pattern (22 bp):
AATAATAAGAAAATAGTAGCAA
Found at i:6751634 original size:22 final size:22
Alignment explanation
Indices: 6751609--6751655 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6751599 GTAAGAAGTG
* *
6751609 AAACGGTAGAAATGTAGGGACA
1 AAACGGTAAAAATATAGGGACA
*
6751631 AAACGGTAAAAATATAGGGGCA
1 AAACGGTAAAAATATAGGGACA
6751653 AAA
1 AAA
6751656 ATGATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.28, T:0.13
Consensus pattern (22 bp):
AAACGGTAAAAATATAGGGACA
Found at i:6754807 original size:59 final size:59
Alignment explanation
Indices: 6754715--6754835 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
6754705 CAAAAAGTGC
6754715 ATTAACATTTCAATTTCTCACTCTACTTTTTCACGACAATGTCGATACTTTAAACACAA
1 ATTAACATTTCAATTTCTCACTCTACTTTTTCACGACAATGTCGATACTTTAAACACAA
6754774 ATTAACATTTCAATTTCTCACTCTACTTTTTCACGACAATGTCGATACTTTAAACACAA
1 ATTAACATTTCAATTTCTCACTCTACTTTTTCACGACAATGTCGATACTTTAAACACAA
6754833 ATT
1 ATT
6754836 TTCACTGCAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (59 bp):
ATTAACATTTCAATTTCTCACTCTACTTTTTCACGACAATGTCGATACTTTAAACACAA
Found at i:6761932 original size:118 final size:119
Alignment explanation
Indices: 6761707--6761924 Score: 253
Period size: 118 Copynumber: 1.8 Consensus size: 119
6761697 AAGAAAATGT
* *
6761707 GGAAATTTGGGTTTAAGAATAGAAATTAAGGAGAAAAGAAAAAAGAAACTCGATAACTTTGTCGA
1 GGAAATTAGGGTTTAAGAATAGAAATTAACGAGAAAAGAAAAAAGAAACTCGATAACTTTGTCGA
* * * *
6761772 GGCTGTGAATCACTGTTGGTTACAGCGCGGTCATCCAAAGAAATTAAGTGATGG
66 GGCTGTGAAGCACTATTGCTTACAGCGCGATCATCCAAAGAAATTAAGTGATGG
* * * * * * * * *
6761826 GGAAATTAGGGTTTAAGGATTGAAATTTACGATAAAA-CAAAAAGAAATTCGGTACCTTTGTCTA
1 GGAAATTAGGGTTTAAGAATAGAAATTAACGAGAAAAGAAAAAAGAAACTCGATAACTTTGTCGA
*
6761890 GTCTGTGAAGCA-TCATTGCTTACAGTCG-GATCATC
66 GGCTGTGAAGCACT-ATTGCTTACAG-CGCGATCATC
6761925 GGAAGAAACC
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
117 1 0.01
118 47 0.58
119 33 0.41
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (119 bp):
GGAAATTAGGGTTTAAGAATAGAAATTAACGAGAAAAGAAAAAAGAAACTCGATAACTTTGTCGA
GGCTGTGAAGCACTATTGCTTACAGCGCGATCATCCAAAGAAATTAAGTGATGG
Found at i:6766646 original size:29 final size:30
Alignment explanation
Indices: 6766584--6766647 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
6766574 AATTTACAAG
*
6766584 AATTAAATCAAATCAAAATTTCATGTATAA
1 AATTAAATAAAATCAAAATTTCATGTATAA
* *
6766614 AATTATATAAAATCAAAA-TTCATGTATAT
1 AATTAAATAAAATCAAAATTTCATGTATAA
6766643 AATTA
1 AATTA
6766648 CATATTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (30 bp):
AATTAAATAAAATCAAAATTTCATGTATAA
Found at i:6772853 original size:25 final size:25
Alignment explanation
Indices: 6772819--6772869 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
6772809 TTCCTTATAA
**
6772819 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
6772844 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
6772869 A
1 A
6772870 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:6772868 original size:12 final size:12
Alignment explanation
Indices: 6772822--6772869 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
6772812 CTTATAAACT
6772822 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
6772834 TTCTATTAGGACT
1 TTAAATTAGGA-A
6772847 TTAAATTAGGAA
1 TTAAATTAGGAA
*
6772859 TTAGATTAGGA
1 TTAAATTAGGA
6772870 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:6774020 original size:28 final size:28
Alignment explanation
Indices: 6773980--6774035 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6773970 AGAAAGGCTA
6773980 AGGGATTGTGTTATAATTGTGACGAGTC
1 AGGGATTGTGTTATAATTGTGACGAGTC
6774008 AGGGATTGTGTTATAATTGTGACGAGTC
1 AGGGATTGTGTTATAATTGTGACGAGTC
6774036 TTACTCCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (28 bp):
AGGGATTGTGTTATAATTGTGACGAGTC
Found at i:6777552 original size:25 final size:25
Alignment explanation
Indices: 6777518--6777568 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
6777508 TTCCTTATAA
**
6777518 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
6777543 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
6777568 A
1 A
6777569 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:6777567 original size:12 final size:12
Alignment explanation
Indices: 6777521--6777568 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
6777511 CTTATAAACT
6777521 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
6777533 TTCTATTAGGACT
1 TTAAATTAGGA-A
6777546 TTAAATTAGGAA
1 TTAAATTAGGAA
*
6777558 TTAGATTAGGA
1 TTAAATTAGGA
6777569 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:6783784 original size:14 final size:16
Alignment explanation
Indices: 6783767--6783806 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
6783757 TTTTTTAGAA
6783767 ATATTAAA-TTA-TTT
1 ATATTAAATTTATTTT
6783781 ATA-TAAATTTATTTT
1 ATATTAAATTTATTTT
*
6783796 ATATTATATTT
1 ATATTAAATTT
6783807 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.18
14 6 0.27
15 6 0.27
16 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTAAATTTATTTT
Found at i:6784669 original size:15 final size:16
Alignment explanation
Indices: 6784647--6784687 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
6784637 TTTTGAGCAA
*
6784647 TTTA-GTTTTTTT-AT
1 TTTATGTTTTTTTAAC
6784661 TTTATGTTTTTTTAAC
1 TTTATGTTTTTTTAAC
6784677 TTTAT-TTTTTT
1 TTTATGTTTTTT
6784688 CTTTATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTATGTTTTTTTAAC
Found at i:6784671 original size:16 final size:16
Alignment explanation
Indices: 6784652--6784696 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6784642 AGCAATTTAG
6784652 TTTTTTTATTTTATGT
1 TTTTTTTATTTTATGT
* * *
6784668 TTTTTTAACTTTATTT
1 TTTTTTTATTTTATGT
6784684 TTTTCTTTATTTT
1 TTTT-TTTATTTT
6784697 CCATTCTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTTATTTTATGT
Found at i:6794104 original size:23 final size:22
Alignment explanation
Indices: 6794056--6794107 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
6794046 AGACTGAAAA
*
6794056 TTTAAAATTTTTTTATTTTTCAT
1 TTTAAAATTTTATTATTTTT-AT
6794079 TTTAAAATTTTAATTATTTGTT-T
1 TTTAAAATTTT-ATTATTT-TTAT
6794102 TTTAAA
1 TTTAAA
6794108 TAAAATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 18 0.69
24 6 0.23
25 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTAAAATTTTATTATTTTTAT
Found at i:6799224 original size:17 final size:17
Alignment explanation
Indices: 6799204--6799278 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 17
6799194 TTTTTACAAT
*
6799204 TTTTTTAAAAAATATAA
1 TTTTTTAAAAAATTTAA
*
6799221 -TTTTTAATAAATTTAA
1 TTTTTTAAAAAATTTAA
*
6799237 ATTTTTAATAAAATTTAA
1 TTTTTTAA-AAAATTTAA
**
6799255 TAATTTTTCTAAAATTT-A
1 T--TTTTTAAAAAATTTAA
6799273 TTTTTT
1 TTTTTT
6799279 TTCTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
16 19 0.40
17 7 0.15
18 10 0.21
19 7 0.15
20 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAAAATTTAA
Found at i:6799242 original size:18 final size:17
Alignment explanation
Indices: 6799205--6799254 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
6799195 TTTTACAATT
* *
6799205 TTTTTAAAAAATAT-AA
1 TTTTTAATAAATTTAAA
6799221 TTTTTAATAAATTTAAA
1 TTTTTAATAAATTTAAA
6799238 TTTTTAATAAAATTTAA
1 TTTTTAAT-AAATTTAA
6799255 TAATTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 12 0.40
17 10 0.33
18 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTAATAAATTTAAA
Found at i:6799953 original size:8 final size:9
Alignment explanation
Indices: 6799910--6799955 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
6799900 AATTTATTAA
6799910 AAATATTTT
1 AAATATTTT
6799919 AAATCATTTT
1 AAAT-ATTTT
6799929 AAAT-TTTT
1 AAATATTTT
* *
6799937 TAATTTTTT
1 AAATATTTT
6799946 AAA-ATTTT
1 AAATATTTT
6799954 AA
1 AA
6799956 TAACAAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
8 13 0.41
9 10 0.31
10 9 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
AAATATTTT
Found at i:6800783 original size:21 final size:22
Alignment explanation
Indices: 6800743--6800786 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6800733 ATAAACAATA
*
6800743 TAATGATTTTGACTTTTTAACT
1 TAATGATTTTAACTTTTTAACT
*
6800765 TAATGGTTTTAAC-TTTTAACT
1 TAATGATTTTAACTTTTTAACT
6800786 T
1 T
6800787 TAGAAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TAATGATTTTAACTTTTTAACT
Found at i:6801367 original size:19 final size:19
Alignment explanation
Indices: 6801345--6801385 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6801335 TAAACTATGA
*
6801345 TTTATATTTTAAATTA-ATT
1 TTTAAATTTT-AATTAGATT
6801364 TTTAAATTTTAATTAGATT
1 TTTAAATTTTAATTAGATT
6801383 TTT
1 TTT
6801386 TCGTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTTAATTAGATT
Found at i:6802689 original size:14 final size:14
Alignment explanation
Indices: 6802670--6802696 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6802660 TGTGAAGCTA
6802670 GAAAATATTATGTC
1 GAAAATATTATGTC
6802684 GAAAATATTATGT
1 GAAAATATTATGT
6802697 GTAGTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
GAAAATATTATGTC
Found at i:6802822 original size:12 final size:12
Alignment explanation
Indices: 6802795--6802833 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6802785 TATTTTTTAG
6802795 AATATATAAA-A
1 AATATATAAATA
* *
6802806 AATATTTTAATA
1 AATATATAAATA
6802818 AATATATAAATA
1 AATATATAAATA
6802830 AATA
1 AATA
6802834 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATATATAAATA
Found at i:6804624 original size:18 final size:17
Alignment explanation
Indices: 6804597--6804632 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6804587 GAGGAAGAAG
*
6804597 AAAGAAAAATAATATAT
1 AAAGAAAAATAAAATAT
6804614 AAAGTAAAAATAAAATAT
1 AAAG-AAAAATAAAATAT
6804632 A
1 A
6804633 TAGAGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAGAAAAATAAAATAT
Found at i:6806939 original size:24 final size:24
Alignment explanation
Indices: 6806915--6806995 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
6806905 TTTTTATATT
*
6806915 ATTATTTATATAAATATATAAATTA
1 ATTATATATATAAATAT-TAAATTA
* *
6806940 ATTATAAAGTAT-ATTATTAAATTA
1 ATTATATA-TATAAATATTAAATTA
*
6806964 ATTATAT-TATAAATATTATATT-
1 ATTATATATATAAATATTAAATTA
6806986 ATTATATATA
1 ATTATATATA
6806996 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 10 0.21
26 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATATATAAATATTAAATTA
Found at i:6806947 original size:11 final size:11
Alignment explanation
Indices: 6806931--6806969 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
6806921 TATATAAATA
6806931 TATAAATTAAT
1 TATAAATTAAT
*
6806942 TATAAAGTATAT
1 TATAAATTA-AT
6806954 TATTAAATTAAT
1 TA-TAAATTAAT
6806966 TATA
1 TATA
6806970 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:6806971 original size:17 final size:15
Alignment explanation
Indices: 6806914--6806994 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
6806904 ATTTTTATAT
6806914 TATTAT-TTATATAAA
1 TATTATATTAT-TAAA
*
6806929 TATATAAATTAATTATAA
1 TAT-TATATT-ATTA-AA
*
6806947 -AGTATATTATTAAA
1 TATTATATTATTAAA
6806961 TTAATTATATTA-TAAA
1 -T-ATTATATTATTAAA
*
6806977 TATTATATTATTATA
1 TATTATATTATTAAA
6806992 TAT
1 TAT
6806995 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
14 11 0.21
15 14 0.26
16 11 0.21
17 13 0.25
18 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTATATTATTAAA
Found at i:6806981 original size:14 final size:16
Alignment explanation
Indices: 6806949--6806987 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
6806939 AATTATAAAG
6806949 TATATTATTAAATTAAT
1 TATATTA-TAAATTAAT
6806966 TATATTATAAA-T-AT
1 TATATTATAAATTAAT
6806980 TATATTAT
1 TATATTAT
6806988 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 4 0.18
17 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAAATTAAT
Found at i:6808322 original size:3 final size:3
Alignment explanation
Indices: 6808314--6808352 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6808304 GTGAGGTAAG
6808314 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6808353 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6808536 original size:24 final size:27
Alignment explanation
Indices: 6808504--6808562 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
6808494 CGGATTAATT
6808504 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
6808527 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
6808554 ATTGAATTG
1 ATTGAATTG
6808563 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:6808766 original size:37 final size:39
Alignment explanation
Indices: 6808707--6808802 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
6808697 CGGATAGATT
* * * *
6808707 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
6808744 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
6808783 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
6808803 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:6814264 original size:24 final size:24
Alignment explanation
Indices: 6814240--6814320 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
6814230 ATTTTATATT
*
6814240 ATTATTTATATAAATATATAAATTA
1 ATTATATATATAAATAT-TAAATTA
* *
6814265 ATTATAAAGTAT-ATTATTAAATTA
1 ATTATATA-TATAAATATTAAATTA
*
6814289 ATTATAT-TATAAATATTATATT-
1 ATTATATATATAAATATTAAATTA
6814311 ATTATATATA
1 ATTATATATA
6814321 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 10 0.21
26 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATATATAAATATTAAATTA
Found at i:6814272 original size:11 final size:11
Alignment explanation
Indices: 6814256--6814294 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
6814246 TATATAAATA
6814256 TATAAATTAAT
1 TATAAATTAAT
*
6814267 TATAAAGTATAT
1 TATAAATTA-AT
6814279 TATTAAATTAAT
1 TA-TAAATTAAT
6814291 TATA
1 TATA
6814295 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:6814296 original size:17 final size:15
Alignment explanation
Indices: 6814239--6814319 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
6814229 GATTTTATAT
6814239 TATTAT-TTATATAAA
1 TATTATATTAT-TAAA
*
6814254 TATATAAATTAATTATAA
1 TAT-TATATT-ATTA-AA
*
6814272 -AGTATATTATTAAA
1 TATTATATTATTAAA
6814286 TTAATTATATTA-TAAA
1 -T-ATTATATTATTAAA
*
6814302 TATTATATTATTATA
1 TATTATATTATTAAA
6814317 TAT
1 TAT
6814320 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
14 11 0.21
15 14 0.26
16 11 0.21
17 13 0.25
18 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTATATTATTAAA
Found at i:6814306 original size:14 final size:16
Alignment explanation
Indices: 6814274--6814312 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
6814264 AATTATAAAG
6814274 TATATTATTAAATTAAT
1 TATATTA-TAAATTAAT
6814291 TATATTATAAA-T-AT
1 TATATTATAAATTAAT
6814305 TATATTAT
1 TATATTAT
6814313 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 4 0.18
17 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAAATTAAT
Found at i:6815647 original size:3 final size:3
Alignment explanation
Indices: 6815639--6815677 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6815629 GTGAGGTAAG
6815639 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6815678 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6815861 original size:24 final size:27
Alignment explanation
Indices: 6815829--6815887 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
6815819 CGGATTAATT
6815829 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
6815852 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
6815879 ATTGAATTG
1 ATTGAATTG
6815888 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:6816091 original size:37 final size:39
Alignment explanation
Indices: 6816032--6816127 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
6816022 CGGATAGATT
* * * *
6816032 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
6816069 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
6816108 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
6816128 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:6821159 original size:18 final size:18
Alignment explanation
Indices: 6821136--6821228 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
6821126 CCCAACTACT
* *
6821136 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
*
6821154 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
6821172 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
6821190 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
6821208 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6821226 GTA
1 GTA
6821229 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6821194 original size:36 final size:37
Alignment explanation
Indices: 6821136--6821228 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 37
6821126 CCCAACTACT
*
6821136 GTATACGTGAACAGTA-TCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
6821172 GTATACGTGAATAGTACT-GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
*
6821208 ATATACGTGAATAGTAC-CGTA
1 GTATACGTGAATAGTACTCGTA
6821229 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 52 0.98
37 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (37 bp):
GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
Found at i:6829110 original size:30 final size:30
Alignment explanation
Indices: 6829048--6829106 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
6829038 TTAAATTCAT
* *
6829048 TTTATATCTTTTATATATTTTCATAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
*
6829078 TTTACATCTTATAT-TATTTTCGTAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
6829107 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTACATCTTATATATATTTTCATAATTAA
Found at i:6829115 original size:26 final size:25
Alignment explanation
Indices: 6829056--6829128 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
6829046 ATTTTATATC
6829056 TTTTATA-TATTTTCATAATTAATT
1 TTTTATATTATTTTCATAATTAATT
*
6829080 TACATCTTATATTATTTTCGTAATTAAATT
1 T---T-TTATATTATTTTCATAATT-AATT
*
6829110 TTTTATATTATTTTAATAA
1 TTTTATATTATTTTCATAA
6829129 AAAATTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 1 0.03
26 15 0.38
27 2 0.05
28 5 0.12
29 12 0.30
30 5 0.12
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (25 bp):
TTTTATATTATTTTCATAATTAATT
Found at i:6829139 original size:26 final size:26
Alignment explanation
Indices: 6829086--6829139 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6829076 AATTTACATC
** *
6829086 TTATATTATTTTCGTAATTAAATTTT
1 TTATATTATTTTAATAATAAAATTTT
6829112 TTATATTATTTTAATAA-AAAATTCTT
1 TTATATTATTTTAATAATAAAATT-TT
6829138 TT
1 TT
6829140 TTCTGTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
TTATATTATTTTAATAATAAAATTTT
Found at i:6831024 original size:20 final size:21
Alignment explanation
Indices: 6830988--6831026 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6830978 TTCAATACAA
6830988 TAATTGAACCAAGTTAAAAAT
1 TAATTGAACCAAGTTAAAAAT
6831009 TAATTGAACC-AGTTAAAA
1 TAATTGAACCAAGTTAAAA
6831027 CGATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
TAATTGAACCAAGTTAAAAAT
Found at i:6831111 original size:14 final size:15
Alignment explanation
Indices: 6831074--6831121 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
6831064 TACACATAAA
6831074 AATAATAATTATATTT
1 AATAATAATT-TATTT
6831090 GAAATAATAATTT-TTT
1 --AATAATAATTTATTT
*
6831106 AATAATTATTTATTT
1 AATAATAATTTATTT
6831121 A
1 A
6831122 TTATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 3 0.11
17 1 0.04
18 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATAATAATTTATTT
Found at i:6831151 original size:21 final size:19
Alignment explanation
Indices: 6831126--6831165 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
6831116 TATTTATTAT
*
6831126 TTTATTTATATAAATAAAATA
1 TTTATTAAT-TAAA-AAAATA
6831147 TTTATTAATTAAAAAAATA
1 TTTATTAATTAAAAAAATA
6831166 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTATTAATTAAAAAAATA
Found at i:6831161 original size:17 final size:17
Alignment explanation
Indices: 6831128--6831160 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6831118 TTTATTATTT
6831128 TATTTATATAAATAAAA
1 TATTTATATAAATAAAA
*
6831145 TATTTAT-TAATTAAAA
1 TATTTATATAAATAAAA
6831161 AAATAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTATATAAATAAAA
Found at i:6834388 original size:130 final size:128
Alignment explanation
Indices: 6834083--6834414 Score: 404
Period size: 130 Copynumber: 2.6 Consensus size: 128
6834073 AAAAAACTGA
* * * *
6834083 AACCCAGCACAATAGGGCACGATTCCTCGAATTTCTAGACGTTGAACATTACCTT-GTTTT--AG
1 AACCCAGCACGATAGGGCACGATTCC-CGAA-TTCTAAACATTGAACATTACCTTCATTTTAAAG
** * *
6834145 AATTTAGAAGACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
64 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
* * ** *
6834210 AACCCAGCACGATAGGGCACGATTCCCCGAATTTTCAAATATCAAACATTATCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATT-CCCGAATTCT-AAACATTGAACATTACCTTCATTTTAAAG
* *
6834275 AATTTTTAAAACATGAGTGAGATTCCAAAGGAATATTTGATTATTTTGAACAAAC-GAGAAATTG
64 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAG-GAAATTG
6834339 C
128 C
* *
6834340 AACCCAGCACGATAGGGCACGATTAACCGAATTCCTAAACATTGAACATTGCCTTCGA-TTTAAA
1 AACCCAGCACGATAGGGCACGATT-CCCGAATT-CTAAACATTGAACATTACCTTC-ATTTTAAA
6834404 GAATTTTTAAA
63 GAATTTTTAAA
6834415 CGAATAATTA
Statistics
Matches: 174, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
126 3 0.02
127 40 0.23
128 6 0.03
129 1 0.01
130 122 0.70
131 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (128 bp):
AACCCAGCACGATAGGGCACGATTCCCGAATTCTAAACATTGAACATTACCTTCATTTTAAAGAA
TTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
Found at i:6837585 original size:75 final size:75
Alignment explanation
Indices: 6837499--6837700 Score: 343
Period size: 75 Copynumber: 2.7 Consensus size: 75
6837489 GTAGAAGTAA
6837499 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATACTT-TTGGTTTATCCAACTA
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATA-TTGTTGGTTTATCCAACTA
6837563 GAGCTGGGCTC
65 GAGCTGGGCTC
*
6837574 ACAATTATTATCGTCAGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
*
6837639 AGTTGGGCTC
66 AGCTGGGCTC
* * *
6837649 ACAATTATTATCGTCGGTATATCCAACTAGTACTGGATGCAAATATTGTTGG
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGG
6837701 GTTTGAGAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
74 2 0.02
75 118 0.98
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
AGCTGGGCTC
Done.